| Functions | Function |
|---|---|
| bodymapr_df() | Creates a data frame of clinical tumor characteristics from a structured electronic data collection instrument (e.g. the Lesion Information instrument) and maps them to lookup tables that contain a coordinate system for the Body Map |
| bodymapr_plot() | Creates an interactive data visualization of clinical tumor characteristics from a structured EDC lesion instrument that has been processed by `bodymapr_df()`. |
| genomics.df.unite() | Wrangles and processes genomics data from a REDCap project that has incorporated the Genomics Instrument. Genetic alterations are listed in wide format with a concatenation of genomic alterations in one cell. This function is called within BodyMapR's `bodymapr_df()` function. |
| genomics.df.long() | Wrangles and processes genomics data from a REDCap project that has incorporated the Genomics Instrument. This allows for expedited analysis of patient-level data from REDCap. Genetic alterations are listed in long format. This function is called within BodyMapR's `genomics.df.unite()` function. |
| shiny_server() | Contains the server side of the shiny application. It incorporates both `bodymapr_df()` and `bodymapr_plot()`. Therefore, the data is wrangled, processed and graphed with this function. |
| shiny_ui() | Creates the user interface of `BodyMapR`. |
| launch_BodyMapR() | Launches the `BodyMapR` shiny application. |
BodyMapR - An R Package and Shiny Application Designed to Generate Anatomical Visualizations of Cancer Lesions
2021
Merkel Cell Carcinoma
Clinical Informatics
R
Abstract
R package for enhanced visualizations of cancer lesions
Publication Metrics
Article and Authorship Details
Article type: Application Note. The version is a pre-print. Please see the journal’s peer-reviewed version at https://academic.oup.com/jamiaopen/article/5/1/ooac013/6542419.
Authors: David M. Miller1* MD PhD, Sophia Z. Shalhout1 PhD
1Department of Medicine, Division of Hematology/Oncology and the Department of Dermatology, Massachusetts General Hospital, Boston, MA
*Corresponding author: David M. Miller MD PhD
Massachusetts General Hospital
Boston MA 02114
Email: dmiller4@mgh.harvard.edu
Funding sources: The Harvard Cancer Center Merkel Cell Carcinoma patient registry is supported by grants from Project Data Sphere, the American Skin Association and ECOG-ACRIN.
Conflicts of interest: None
Manuscript word count: 1910 [max 2000 excluding abstract/tabs/figs/res/suppl]
Abstract word count: 149 [max 150]
References: 22 [unlimited]
Figures: 8 [max 3]
Tables: 5 [max 2]
Keywords: data visualization, cancer, shiny app, REDCap
Acknowledgments:
Abbreviations: CSV: comma-separated values, CTC: clinical tumor characteristics, GLP: geographical lesion profile, ICD-O-3: International Classification of Diseases for Oncology, 3rd edition, IDE: integrated development environment, MCC: merkel cell carcinoma, RWD: real-world data, REDCap: Research Electronic Data Capture, SNOMED: Systematized Nomenclature of Medicine, UI: user interface.
ABSTRACT
Objectives: Structured real-world data, such as those found in cancer registries, provide a rich source of information regarding the natural history of cancer. Interactive data visualizations of cancer lesions can provide insights into certain clinical tumor characteristics. Software that can be integrated into an oncological data collection effort and generate anatomical data visualizations of clinical tumor characteristics are limited.
Materials and Methods: We created BodyMapR: an R package and Shiny application that generates anatomical visualizations of cancer lesions from structured data.
Results: BodyMapR is a shiny application that transposes structured data from REDCap® onto an anatomical map to yield an interactive data visualization.
Conclusions: BodyMapR is freely available under the MIT license and can be obtained from GitHub. BodyMapR is executed in R and deployed as a Shiny application. It can be integrated into an existing cancer research platform and produces an interactive data visualization of clinical tumor characteristics.
OBJECTIVES
Large-scale data collection efforts in rare cancers, such as Merkel Cell Carcinoma (MCC), are challenging and uncommon1. The dearth of structured data have limited our understanding of the natural history of rare cancers, such as MCC2,3. Consequently, we lack a comprehensive understanding of clinical tumor characteristics (CTC), such as patterns of metastatic spread and biomarkers predictive of treatment response, for most rare tumors. Data collection efforts that incorporate structured data captured during real-world practice (a.k.a Real-World Data or RWD) can improve our understanding of CTC.
Depicting RWD, e.g. from a cancer registry, onto graphical representations of anatomical structures can provide a user-friendly technique to process information regarding CTC. However, displaying large amounts of RWD onto anatomical data visualizations is labor-intensive and time consuming. While informatic packages that generate modular visualizations of anatograms and tissues are available4, software that fully integrates data collection instruments for real-time anatomical data visualizations of cancer registry data are lacking.
We previously published an overview of a methodology and design of a Research Electronic Data Capture (REDCap®)5-based system to facilitate capture of RWD6,1. That platform incorporates a form entitled the Lesion Information instrument, which provides a structured format for the collection of CTC7. This instrument is freely available and can be incorporated into any existing REDCap project. It is currently being used by the Project Data Sphere led Merkel Cell Carcinoma Patient Registry1.
Here we present BodyMapR, an R package with a Shiny application front-end, which generates an interactive data visualization of CTC. Its software wrangles and transforms structured data from a REDCap® project and provides graphing functions (Figure 1). BodyMapR is executed in R but is deployed as a Shiny application to enhance the user interface for users with limited programming capabilities. In this manuscript we provide (1) instructions on how to obtain and execute BodyMapR, (2) the R code for the server side functions to allow for project-specific adaptations, (3) a Biorender-generated png file in which data is overlaid and displayed, and (4) a sample dataset for demonstration purposes.
Figure 1. Schema of BodyMapR
Figure 1. Schema of BodyMapR. BodyMapR takes data from a REDCap® project that incorporates the Lesion Information and Genonimcs instruments. This csv file is loaded into the Shiny application and end users engage BodyMapR via a browser-based interface. Server side R code executes the functions of BodyMapR to generate an interactive Plotly visualization of clinical tumor characteristic data displayed onto an anatomical body map. Anatomical images created with BioRender.com.
METHODS
Software Dependencies
BodyMapR is written in R (version 4.0.0), organized using roxygen28, and utilizes the following packages dplyr9, tidyr10, readr11, stringr12, purrr13, magrittr14, plotly15, shinydashboard16 and Shiny17. For full details, instructions and examples refer to the video demonstration, or README file, both of which can be viewed on the package GitHub page.
Clinical Informatics Dependencies
BodyMapR facilitates data visualizations from structured data contained in the Lesion Information instrument stored within REDCap® project. The data dictionary for this form has been previously published18. BodyMapR also integrates clinico-genomic data from the Genomics data capture instrument, which has been previously described6,19 and is freely available on GitHub(https://github.com/TheMillerLab/genetex/blob/main/data-raw/genomics_data_dictionary.csv).
RESULTS
BodyMapR Inputs
As depicted in Figure 1, BodyMapR takes data from a REDCap® project that has incorporated the Lesion Information and Genomics instruments as the input. The BodyMapR Shiny application is launched via the function launch_BodyMapR(). This function takes one argument, “Data”, a raw csv file exported from REDCap®. launch_BodyMapR() is the only function an end user needs to call to execute and utilize BodyMapR. Once launched, clinical researchers interface with BodyMapR in a web browser. The application’s browser-based user interface (UI) facilitates its use by investigators with limited programming skills. launch_BodyMapR() has a built-in default data set “BodyMapR_mock_dataset”. If the argument “Data” is not specified by an end user, the default data set will be incorporated into the application for demonstration purposes. “BodyMapR_mock_dataset” is a synthetic data set and contains no protected health information.
BodyMapR UI
The centerpiece of the BodyMapR UI is an anatomical landscape, henceforth referred to as the “Body Map” (Figure 2).Figure 2: Browser-Based User Interface
Figure 2: Browser-Based User Interface. Users control what input is displayed onto the BodyMapR anatomical graphic using the sidebar selectors. Anatomical images created with BioRender.com.
The Body Map includes a skeleton, the anterior and posterior likeness of an androgynous adult, and representations of visceral and lymphatic structures. We designed the Body Map using images from BioRender.com20. Users control what information is displayed onto the Body Map via the application’s UI sidebar. Given that an improved understanding of the geographical lesion profile (GLP) of a cancer type may provide insight into patterns of spread, the default settings of BodyMapR display the GLP of the entire cohort, color-coded by tumor morphology (e.g. primary vs. metastasis vs. recurrence). In contrast, a personalized Body Map at the single-subject level can be obtained by selecting a Record ID from the selectizeInput() selector “Filter on Record ID” in the application’s sidebar (Figure 3).
Figure 3: Data visualization of clinical tumor characteristics
Figure 3: Data visualization of clinlical tumor characteristics. Depicted is the output of BodyMapR following selection of a specific subject, “Record ID 1”. Anatomical images created with BioRender.com.
Although cancer types have been historically grouped based on the tissue of origin (e.g. “lung cancer” or “pancreatic cancer”), neoplasms originating from the same tissue can have clinically-relevant distinctions in pathogenesis. For example, in Merkel cell carcinoma, at least two distinct transforming mechanisms (e.g. the Merkel cell polyoma virus and ultraviolet radiation), with distinct underlying mutational landscapes, have been described2. Data demonstrating geographical differences in virus-positive vs. virus-negative MCC has emerged21. Thus, further definition of the relationship between topography and mutational landscape may lead to insights in pathogenesis across cancer types. Therefore, BodyMapR incorporates the Genomics Instruments in order to display over 900 genes found in common clinico-genomics platforms6. Users can select which genes to be visualized on the Body Map using “Filter on Gene Mutations” selector (Figure 2).
BodyMapR Server Side Functions
The server side of the Shiny application contains the executable code of BodyMapR. The package contains, in addition tolaunch_BodyMapR(), a set of functions that wrangles, transforms and graphs CTC data from a REDCap® project (Figure 1). Table 1 summarizes the package’s functions and their respective action.Table 1 - BodyMapR Functions
BodyMapR Outputs
Topographical Mapping
Table 2: Anatomical Structures
| Anatomic Structure |
|---|
| Anterior Medial Left Abdomen Skin |
| Anterior Midline Left Abdomen Skin |
| Anterior Lateral Left Abdomen Skin |
| Left Adrenal |
| Anterior Medial Left Ankle Skin |
| Anterior Midline Left Ankle Skin |
| Anterior Lateral Left Ankle Skin |
| Posterior Lateral Left Ankle Skin |
| Posterior Midline Left Ankle Skin |
| Posterior Medial Left Ankle Skin |
| Posterior Lateral Left Back Skin |
| Midline Left Back Skin |
| Posterior Medial Left Back Skin |
| Medial Left Back Skin |
| Left Bladder |
| Posterior Lateral Left Buttocks Skin |
| Midline Left Buttocks Skin |
| Posterior Medial Left Buttocks Skin |
| Left Buttocks Skin |
| Medial Left Buttocks Skin |
| Anterior Medial Left Cheek Skin |
| Anterior Midline Left Cheek Skin |
| Anterior Lateral Left Cheek Skin |
| Anterior Medial Left Chest Skin |
| Anterior Midline Left Chest Skin |
| Anterior Lateral Left Chest Skin |
| Anterior Medial Left Chin Skin |
| Anterior Midline Left Chin Skin |
| Anterior Lateral Left Chin Skin |
| Anterior Medial Left Ear Skin |
| Anterior Lateral Left Ear Skin |
| Posterior Medial Left Ear Skin |
| Posterior Lateral Left Ear Skin |
| Posterior Midline Left Ear Skin |
| Anterior Medial Left Elbow Skin |
| Anterior Midline Left Elbow Skin |
| Anterior Lateral Left Elbow Skin |
| Posterior Lateral Left Elbow Skin |
| Posterior Midline Left Elbow Skin |
| Posterior Medial Left Elbow Skin |
| Anterior Medial Left Eyebrow Skin |
| Anterior Midline Left Eyebrow Skin |
| Anterior Lateral Left Eyebrow Skin |
| Anterior Medial Left Eyelid Skin |
| Anterior Midline Left Eyelid Skin |
| Anterior Lateral Left Eyelid Skin |
| Anterior Medial Left Foot And Toes Skin |
| Anterior Midline Left Foot And Toes Skin |
| Anterior Lateral Left Foot And Toes Skin |
| Posterior Lateral Left Foot And Toes Skin |
| Posterior Midline Left Foot And Toes Skin |
| Anterior Medial Left Forearm Skin |
| Anterior Midline Left Forearm Skin |
| Anterior Lateral Left Forearm Skin |
| Posterior Lateral Left Forearm Skin |
| Posterior Midline Left Forearm Skin |
| Posterior Medial Left Forearm Skin |
| Anterior Medial Left Forehead Skin |
| Anterior Midline Left Forehead Skin |
| Lateral Left Forehead Skin |
| Anterior Lateral Left Forehead Skin |
| Left Gallbladder |
| Anterior Medial Left Genitalia Skin |
| Anterior Midline Left Genitalia Skin |
| Midline Left Genitalia Skin |
| Posterior Lateral Left Genitalia Skin |
| Posterior Midline Left Genitalia Skin |
| Posterior Medial Left Genitalia Skin |
| Anterior Medial Left Hand And Fingers Skin |
| Anterior Midline Left Hand And Fingers Skin |
| Anterior Lateral Left Hand And Fingers Skin |
| Posterior Lateral Left Hand And Fingers Skin |
| Posterior Midline Left Hand And Fingers Skin |
| Posterior Medial Left Hand And Fingers Skin |
| Left Heart |
| Left Kidney |
| Anterior Medial Left Knee Skin |
| Anterior Midline Left Knee Skin |
| Anterior Lateral Left Knee Skin |
| Posterior Lateral Left Knee Skin |
| Posterior Midline Left Knee Skin |
| Posterior Medial Left Knee Skin |
| Left Large Intestine |
| Anterior Medial Left Lip Skin |
| Anterior Lateral Left Lip Skin |
| Anterior Midline Left Lip Skin |
| Left Liver |
| Anterior Medial Left Lower Leg (Shin And Calf) Skin |
| Anterior Midline Left Lower Leg (Shin And Calf) Skin |
| Anterior Lateral Left Lower Leg (Shin And Calf) Skin |
| Posterior Lateral Left Lower Leg (Shin And Calf) Skin |
| Posterior Midline Left Lower Leg (Shin And Calf) Skin |
| Posterior Medial Left Lower Leg (Shin And Calf) Skin |
| Left Lungs |
| Anterior Medial Left Neck Skin |
| Anterior Midline Left Neck Skin |
| Anterior Lateral Left Neck Skin |
| Posterior Lateral Left Neck Skin |
| Posterior Midline Left Neck Skin |
| Posterior Medial Left Neck Skin |
| Anterior Medial Left Nose Skin |
| Anterior Midline Left Nose Skin |
| Anterior Lateral Left Nose Skin |
| Left Ovary |
| Left Pancreas |
| Anterior Medial Left Scalp Skin |
| Anterior Midline Left Scalp Skin |
| Anterior Lateral Left Scalp Skin |
| Posterior Lateral Left Scalp Skin |
| Posterior Medial Left Scalp Skin |
| Posterior Midline Left Scalp Skin |
| Anterior Medial Left Shoulder Skin |
| Anterior Midline Left Shoulder Skin |
| Anterior Lateral Left Shoulder Skin |
| Posterior Lateral Left Shoulder Skin |
| Posterior Midline Left Shoulder Skin |
| Posterior Medial Left Shoulder Skin |
| Left Small Intestine |
| Left Spleen |
| Left Stomach |
| Left Testis |
| Anterior Medial Left Upper Arm Skin |
| Anterior Midline Left Upper Arm Skin |
| Anterior Lateral Left Upper Arm Skin |
| Posterior Lateral Left Upper Arm Skin |
| Posterior Midline Left Upper Arm Skin |
| Posterior Medial Left Upper Arm Skin |
| Anterior Medial Left Upper Leg (Anterior And Posterior Thigh) Skin |
| Anterior Midline Left Upper Leg (Anterior And Posterior Thigh) Skin |
| Anterior Lateral Left Upper Leg (Anterior And Posterior Thigh) Skin |
| Posterior Lateral Left Upper Leg (Anterior And Posterior Thigh) Skin |
| Posterior Midline Left Upper Leg (Anterior And Posterior Thigh) Skin |
| Posterior Medial Left Upper Leg (Anterior And Posterior Thigh) Skin |
| Anterior Medial Left Wrist Skin |
| Anterior Left Wrist Skin |
| Anterior Midline Left Wrist Skin |
| Anterior Lateral Left Wrist Skin |
| Posterior Lateral Left Wrist Skin |
| Posterior Midline Left Wrist Skin |
| Posterior Medial Left Wrist Skin |
| Left Abdominal Lymphoid Tissue |
| Left Adenoid Lymphoid Tissue |
| Left Axillary Lymphoid Tissue |
| Left Brachial Lymphoid Tissue |
| Left Calcaneus Bone |
| Left Capitate Bone |
| Left Celiac Lymphoid Tissue |
| Left Clavicle Or Collarbone Bone |
| Left Cuboid Bone |
| Left Epitrochlear Lymphoid Tissue |
| Left Ethmoid Bone |
| Left Femoral Lymphoid Tissue |
| Left Femur Bone |
| Left Fibula Bone |
| Left Foot Distal Phalange 1 Bone |
| Left Foot Distal Phalange 2 Bone |
| Left Foot Distal Phalange 3 Bone |
| Left Foot Distal Phalange 4 Bone |
| Left Foot Distal Phalange 5 Bone |
| Left Foot Middle Phalange 2 Bone |
| Left Foot Middle Phalange 3 Bone |
| Left Foot Middle Phalange 4 Bone |
| Left Foot Middle Phalange 5 Bone |
| Left Foot Proximal Phalange 1 Bone |
| Left Foot Proximal Phalange 2 Bone |
| Left Foot Proximal Phalange 3 Bone |
| Left Foot Proximal Phalange 4 Bone |
| Left Foot Proximal Phalange 5 Bone |
| Left Frontal Bone |
| Left Hamate Bone |
| Left Hand Distal Phalange 1 Bone |
| Left Hand Distal Phalange 2 Bone |
| Left Hand Distal Phalange 3 Bone |
| Left Hand Distal Phalange 4 Bone |
| Left Hand Distal Phalange 5 Bone |
| Left Hand Middle Phalange 2 Bone |
| Left Hand Middle Phalange 3 Bone |
| Left Hand Middle Phalange 4 Bone |
| Left Hand Middle Phalange 5 Bone |
| Left Hand Proximal Phalange 1 Bone |
| Left Hand Proximal Phalange 2 Bone |
| Left Hand Proximal Phalange 3 Bone |
| Left Hand Proximal Phalange 4 Bone |
| Left Hand Proximal Phalange 5 Bone |
| Left Hilar Lymphoid Tissue |
| Left Humerus Bone |
| Left Iliac Lymphoid Tissue |
| Left Ilium Bone |
| Left Incus Bone |
| Left Inferior Nasal Conchae Bone |
| Left Infraclavicular Lymphoid Tissue |
| Left Inguinal Lymphoid Tissue |
| Left Intermediate Cuneiform Bone |
| Left Ischium Bone |
| Left Lacrimal Bone |
| Left Lateral Cuneiform Bone |
| Left Level Iii Cervical Lymphoid Tissue |
| Left Level Ii Cervical Lymphoid Tissue |
| Left Level Iv Cervical Lymphoid Tissue |
| Left Level Vii Cervical Lymphoid Tissue |
| Left Level Vi Cervical Lymphoid Tissue |
| Left Level V Cervical Lymphoid Tissue |
| Left Lingual Tonsils Lymphoid Tissue |
| Left Lunate Bone |
| Left Malleus Bone |
| Left Mandible Bone |
| Left Maxilla Bone |
| Left Medial Cuneiform Bone |
| Left Mesenteric Lymphoid Tissue |
| Left Metacarpal 1 Bone |
| Left Metacarpal 2 Bone |
| Left Metacarpal 3 Bone |
| Left Metacarpal 4 Bone |
| Left Metacarpal 5 Bone |
| Left Metatarsal 1 Bone |
| Left Metatarsal 2 Bone |
| Left Metatarsal 3 Bone |
| Left Metatarsal 4 Bone |
| Left Metatarsal 5 Bone |
| Left Nasal Bone |
| Left Nasopharynx Lymphoid Tissue |
| Left Navicular Bone |
| Left Occipital Lymphoid Tissue |
| Left Occipital Bone |
| Left Ossa Coxae Bone |
| Left Palatine Bone |
| Left Paraaortic Lymphoid Tissue |
| Left Parietal Bone |
| Left Parotid Lymphoid Tissue |
| Left Patella Bone |
| Left Pectoral Lymphoid Tissue |
| Left Peritracheal Lymphoid Tissue |
| Left Pisiform Bone |
| Left Popliteal Lymphoid Tissue |
| Left Porta Hepatis Lymphoid Tissue |
| Left Preauricular Lymphoid Tissue |
| Left Pubis Bone |
| Left Radius Bone |
| Left Retroperitoneal Lymphoid Tissue |
| Left Rib 1 Bone |
| Left Rib 10 Bone |
| Left Rib 11 Bone |
| Left Rib 12 Bone |
| Left Rib 2 Bone |
| Left Rib 3 Bone |
| Left Rib 4 Bone |
| Left Rib 5 Bone |
| Left Rib 6 Bone |
| Left Rib 7 Bone |
| Left Rib 8 Bone |
| Left Rib 9 Bone |
| Left Scaphoid Bone |
| Left Scapula Or Shoulder Blade Bone |
| Left Sphenoid Bone |
| Left Spleen Lymphoid Tissue |
| Left Splenic Hilar Lymphoid Tissue |
| Left Stapes Bone |
| Left Submandibular Lymphoid Tissue |
| Left Submental Lymphoid Tissue |
| Left Supraclavicular Lymphoid Tissue |
| Left Talus Bone |
| Left Temporal Bone |
| Left Thymic Lymphoid Tissue |
| Left Tibia Bone |
| Left Tonsils Lymphoid Tissue |
| Left Trapezium Bone |
| Left Trapezoid Bone |
| Left Triquetral Bone |
| Left Ulna Bone |
| Left Vomer Bone |
| Left Waldeyer Ring Lymphoid Tissue |
| Left Zygomatic Bone |
| Anterior Midline Abdomen Skin |
| Posterior Midline Back Skin |
| Midline Bladder |
| Posterior Midline Buttocks Skin |
| Anterior Midline Chest Skin |
| Anterior Midline Chin Skin |
| Anterior Midline Forehead Skin |
| Midline Gallbladder |
| Anterior Midline Genitalia Skin |
| Posterior Midline Genitalia Skin |
| Midline Heart |
| Midline Large Intestine |
| Anterior Midline Lip Skin |
| Midline Liver |
| Anterior Midline Neck Skin |
| Posterior Midline Neck Skin |
| Anterior Midline Nose Skin |
| Midline Pancreas |
| Anterior Midline Scalp Skin |
| Posterior Midline Scalp Skin |
| Midline Small Intestine |
| Midline Stomach |
| Midline Abdominal Lymphoid Tissue |
| Midline Celiac Lymphoid Tissue |
| Midline Coccyx Bone |
| Midline Ethmoid Bone |
| Midline Frontal Bone |
| Midline Hilar Lymphoid Tissue |
| Midline Hyoid Bone |
| Midline Mandible Bone |
| Midline Maxilla Bone |
| Midline Mesenteric Lymphoid Tissue |
| Midline Occipital Bone |
| Midline Ossa Coxae Bone |
| Midline Paraaortic Lymphoid Tissue |
| Midline Porta Hepatis Lymphoid Tissue |
| Midline Retroperitoneal Lymphoid Tissue |
| Midline Sacrum Bone |
| Midline Sternum Bone |
| Anterior Lateral Right Abdomen Skin |
| Anterior Midline Right Abdomen Skin |
| Right Abdomen Skin |
| Anterior Medial Right Abdomen Skin |
| Right Adrenal |
| Anterior Lateral Right Ankle Skin |
| Anterior Midline Right Ankle Skin |
| Anterior Medial Right Ankle Skin |
| Posterior Medial Right Ankle Skin |
| Posterior Midline Right Ankle Skin |
| Posterior Lateral Right Ankle Skin |
| Medial Right Back Skin |
| Midline Right Back Skin |
| Lateral Right Back Skin |
| Right Bladder |
| Medial Right Buttocks Skin |
| Midline Right Buttocks Skin |
| Posterior Lateral Right Buttocks Skin |
| Anterior Lateral Right Cheek Skin |
| Anterior Midline Right Cheek Skin |
| Anterior Medial Right Cheek Skin |
| Anterior Lateral Right Chest Skin |
| Anterior Midline Right Chest Skin |
| Anterior Medial Right Chest Skin |
| Anterior Lateral Right Chin Skin |
| Anterior Midline Right Chin Skin |
| Anterior Medial Right Chin Skin |
| Anterior Right Chin Skin |
| Anterior Lateral Right Ear Skin |
| Anterior Midline Right Ear Skin |
| Anterior Medial Right Ear Skin |
| Posterior Medial Right Ear Skin |
| Posterior Lateral Right Ear Skin |
| Anterior Lateral Right Elbow Skin |
| Anterior Right Elbow Skin |
| Anterior Midline Right Elbow Skin |
| Anterior Medial Right Elbow Skin |
| Posterior Medial Right Elbow Skin |
| Posterior Midline Right Elbow Skin |
| Posterior Lateral Right Elbow Skin |
| Anterior Lateral Right Eyebrow Skin |
| Anterior Midline Right Eyebrow Skin |
| Anterior Medial Right Eyebrow Skin |
| Anterior Lateral Right Eyelid Skin |
| Anterior Midline Right Eyelid Skin |
| Anterior Medial Right Eyelid Skin |
| Anterior Lateral Right Foot And Toes Skin |
| Anterior Midline Right Foot And Toes Skin |
| Anterior Medial Right Foot And Toes Skin |
| Posterior Midline Right Foot And Toes Skin |
| Posterior Lateral Right Foot And Toes Skin |
| Anterior Lateral Right Forearm Skin |
| Anterior Midline Right Forearm Skin |
| Anterior Medial Right Forearm Skin |
| Posterior Medial Right Forearm Skin |
| Posterior Midline Right Forearm Skin |
| Posterior Lateral Right Forearm Skin |
| Lateral Right Forehead Skin |
| Anterior Lateral Right Forehead Skin |
| Anterior Midline Right Forehead Skin |
| Anterior Medial Right Forehead Skin |
| Right Gallbladder |
| Anterior Lateral Right Genitalia Skin |
| Midline Right Genitalia Skin |
| Anterior Midline Right Genitalia Skin |
| Posterior Midline Right Genitalia Skin |
| Posterior Medial Right Genitalia Skin |
| Posterior Lateral Right Genitalia Skin |
| Anterior Lateral Right Hand And Fingers Skin |
| Anterior Midline Right Hand And Fingers Skin |
| Anterior Medial Right Hand And Fingers Skin |
| Posterior Medial Right Hand And Fingers Skin |
| Posterior Midline Right Hand And Fingers Skin |
| Posterior Lateral Right Hand And Fingers Skin |
| Right Heart |
| Right Kidney |
| Anterior Lateral Right Knee Skin |
| Anterior Midline Right Knee Skin |
| Anterior Medial Right Knee Skin |
| Posterior Medial Right Knee Skin |
| Posterior Midline Right Knee Skin |
| Posterior Lateral Right Knee Skin |
| Right Large Intestine |
| Anterior Lateral Right Lip Skin |
| Anterior Midline Right Lip Skin |
| Anterior Medial Right Lip Skin |
| Right Liver |
| Anterior Lateral Right Lower Leg (Shin And Calf) Skin |
| Anterior Midline Right Lower Leg (Shin And Calf) Skin |
| Anterior Medial Right Lower Leg (Shin And Calf) Skin |
| Posterior Medial Right Lower Leg (Shin And Calf) Skin |
| Posterior Midline Right Lower Leg (Shin And Calf) Skin |
| Posterior Lateral Right Lower Leg (Shin And Calf) Skin |
| Right Lungs |
| Anterior Lateral Right Neck Skin |
| Anterior Right Neck Skin |
| Anterior Midline Right Neck Skin |
| Anterior Medial Right Neck Skin |
| Posterior Medial Right Neck Skin |
| Posterior Midline Right Neck Skin |
| Posterior Lateral Right Neck Skin |
| Anterior Lateral Right Nose Skin |
| Anterior Medial Right Nose Skin |
| Anterior Midline Right Nose Skin |
| Right Ovary |
| Right Pancreas |
| Anterior Lateral Right Scalp Skin |
| Anterior Midline Right Scalp Skin |
| Anterior Medial Right Scalp Skin |
| Posterior Medial Right Scalp Skin |
| Posterior Midline Right Scalp Skin |
| Posterior Lateral Right Scalp Skin |
| Anterior Lateral Right Shoulder Skin |
| Anterior Midline Right Shoulder Skin |
| Anterior Medial Right Shoulder Skin |
| Posterior Medial Right Shoulder Skin |
| Posterior Midline Right Shoulder Skin |
| Posterior Lateral Right Shoulder Skin |
| Right Small Intestine |
| Right Spleen |
| Right Stomach |
| Right Testis |
| Anterior Lateral Right Upper Arm Skin |
| Anterior Midline Right Upper Arm Skin |
| Anterior Medial Right Upper Arm Skin |
| Posterior Medial Right Upper Arm Skin |
| Posterior Midline Right Upper Arm Skin |
| Posterior Lateral Right Upper Arm Skin |
| Anterior Lateral Right Upper Leg (Anterior And Posterior Thigh) Skin |
| Anterior Midline Right Upper Leg (Anterior And Posterior Thigh) Skin |
| Anterior Medial Right Upper Leg (Anterior And Posterior Thigh) Skin |
| Posterior Medial Right Upper Leg (Anterior And Posterior Thigh) Skin |
| Posterior Midline Right Upper Leg (Anterior And Posterior Thigh) Skin |
| Posterior Lateral Right Upper Leg (Anterior And Posterior Thigh) Skin |
| Anterior Lateral Right Wrist Skin |
| Anterior Midline Right Wrist Skin |
| Anterior Medial Right Wrist Skin |
| Posterior Medial Right Wrist Skin |
| Posterior Midline Right Wrist Skin |
| Posterior Lateral Right Wrist Skin |
| Right Abdominal Lymphoid Tissue |
| Right Adenoid Lymphoid Tissue |
| Right Axillary Lymphoid Tissue |
| Right Brachial Lymphoid Tissue |
| Right Calcaneus Bone |
| Right Capitate Bone |
| Right Celiac Lymphoid Tissue |
| Right Clavicle Or Collarbone Bone |
| Right Cuboid Bone |
| Right Epitrochlear Lymphoid Tissue |
| Right Ethmoid Bone |
| Right Femoral Lymphoid Tissue |
| Right Femur Bone |
| Right Fibula Bone |
| Right Foot Distal Phalange 1 Bone |
| Right Foot Distal Phalange 2 Bone |
| Right Foot Distal Phalange 3 Bone |
| Right Foot Distal Phalange 4 Bone |
| Right Foot Distal Phalange 5 Bone |
| Right Foot Middle Phalange 2 Bone |
| Right Foot Middle Phalange 3 Bone |
| Right Foot Middle Phalange 4 Bone |
| Right Foot Middle Phalange 5 Bone |
| Right Foot Proximal Phalange 1 Bone |
| Right Foot Proximal Phalange 2 Bone |
| Right Foot Proximal Phalange 3 Bone |
| Right Foot Proximal Phalange 4 Bone |
| Right Foot Proximal Phalange 5 Bone |
| Right Frontal Bone |
| Right Hamate Bone |
| Right Hand Distal Phalange 1 Bone |
| Right Hand Distal Phalange 2 Bone |
| Right Hand Distal Phalange 3 Bone |
| Right Hand Distal Phalange 4 Bone |
| Right Hand Distal Phalange 5 Bone |
| Right Hand Middle Phalange 2 Bone |
| Right Hand Middle Phalange 3 Bone |
| Right Hand Middle Phalange 4 Bone |
| Right Hand Middle Phalange 5 Bone |
| Right Hand Proximal Phalange 1 Bone |
| Right Hand Proximal Phalange 2 Bone |
| Right Hand Proximal Phalange 3 Bone |
| Right Hand Proximal Phalange 4 Bone |
| Right Hand Proximal Phalange 5 Bone |
| Right Hilar Lymphoid Tissue |
| Right Humerus Bone |
| Right Iliac Lymphoid Tissue |
| Right Ilium Bone |
| Right Incus Bone |
| Right Inferior Nasal Conchae Bone |
| Right Infraclavicular Lymphoid Tissue |
| Right Inguinal Lymphoid Tissue |
| Right Intermediate Cuneiform Bone |
| Right Ischium Bone |
| Right Lacrimal Bone |
| Right Lateral Cuneiform Bone |
| Right Level Iii Cervical Lymphoid Tissue |
| Right Level Ii Cervical Lymphoid Tissue |
| Right Level Iv Cervical Lymphoid Tissue |
| Right Level Vii Cervical Lymphoid Tissue |
| Right Level Vi Cervical Lymphoid Tissue |
| Right Level V Cervical Lymphoid Tissue |
| Right Lingual Tonsils Lymphoid Tissue |
| Right Lunate Bone |
| Right Malleus Bone |
| Right Mandible Bone |
| Right Maxilla Bone |
| Right Medial Cuneiform Bone |
| Right Mesenteric Lymphoid Tissue |
| Right Metacarpal 1 Bone |
| Right Metacarpal 2 Bone |
| Right Metacarpal 3 Bone |
| Right Metacarpal 4 Bone |
| Right Metacarpal 5 Bone |
| Right Metatarsal 1 Bone |
| Right Metatarsal 2 Bone |
| Right Metatarsal 3 Bone |
| Right Metatarsal 4 Bone |
| Right Metatarsal 5 Bone |
| Right Nasal Bone |
| Right Nasopharynx Lymphoid Tissue |
| Right Navicular Bone |
| Right Occipital Lymphoid Tissue |
| Right Occipital Bone |
| Right Ossa Coxae Bone |
| Right Palatine Bone |
| Right Paraaortic Lymphoid Tissue |
| Right Parietal Bone |
| Right Parotid Lymphoid Tissue |
| Right Patella Bone |
| Right Pectoral Lymphoid Tissue |
| Right Peritracheal Lymphoid Tissue |
| Right Pisiform Bone |
| Right Popliteal Lymphoid Tissue |
| Right Porta Hepatis Lymphoid Tissue |
| Right Preauricular Lymphoid Tissue |
| Right Pubis Bone |
| Right Radius Bone |
| Right Retroperitoneal Lymphoid Tissue |
| Right Rib 1 Bone |
| Right Rib 10 Bone |
| Right Rib 11 Bone |
| Right Rib 12 Bone |
| Right Rib 2 Bone |
| Right Rib 3 Bone |
| Right Rib 4 Bone |
| Right Rib 5 Bone |
| Right Rib 6 Bone |
| Right Rib 7 Bone |
| Right Rib 8 Bone |
| Right Rib 9 Bone |
| Right Scaphoid Bone |
| Right Scapula Or Shoulder Blade Bone |
| Right Sphenoid Bone |
| Right Spleen Lymphoid Tissue |
| Right Splenic Hilar Lymphoid Tissue |
| Right Stapes Bone |
| Right Submandibular Lymphoid Tissue |
| Right Submental Lymphoid Tissue |
| Right Supraclavicular Lymphoid Tissue |
| Right Talus Bone |
| Right Temporal Bone |
| Right Thymic Lymphoid Tissue |
| Right Tibia Bone |
| Right Tonsils Lymphoid Tissue |
| Right Trapezium Bone |
| Right Trapezoid Bone |
| Right Triquetral Bone |
| Right Ulna Bone |
| Right Vomer Bone |
| Right Waldeyer Ring Lymphoid Tissue |
| Right Zygomatic Bone |
| Abdomen Skin |
| Anus |
| Back Skin |
| Bladder |
| Brain |
| Buttocks Skin |
| Cerebrospinal Fluid |
| Cervix |
| Chest Skin |
| Chin Skin |
| Esophagus |
| Forehead Skin |
| Gallbladder |
| Genitalia Skin |
| Heart |
| Large Intestine |
| Leptomeningeal |
| Lip Skin |
| Liver |
| Nasal Mucosa |
| Neck Skin |
| Posterior Neck Skin |
| Nose Skin |
| Oral Mucosa |
| Pancreas |
| Scalp Skin |
| Posterior Scalp Skin |
| Small Intestine |
| Spinal Cord |
| Stomach |
| Vagina |
| Abdominal Lymphoid Tissue |
| Adenoid Lymphoid Tissue |
| Celiac Lymphoid Tissue |
| Cervical Vertebrae 1 Bone |
| Cervical Vertebrae 2 Bone |
| Cervical Vertebrae 3 Bone |
| Cervical Vertebrae 4 Bone |
| Cervical Vertebrae 5 Bone |
| Cervical Vertebrae 6 Bone |
| Cervical Vertebrae 7 Bone |
| Hilar Lymphoid Tissue |
| Lingual Tonsils Lymphoid Tissue |
| Lumbar Vertebrae 1 Bone |
| Lumbar Vertebrae 2 Bone |
| Lumbar Vertebrae 3 Bone |
| Lumbar Vertebrae 4 Bone |
| Lumbar Vertebrae 5 Bone |
| Mesenteric Lymphoid Tissue |
| Nasopharynx Lymphoid Tissue |
| Paraaortic Lymphoid Tissue |
| Porta Hepatis Lymphoid Tissue |
| Retroperitoneal Lymphoid Tissue |
| Spleen Lymphoid Tissue |
| Thoracic Vertebrae 1 Bone |
| Thoracic Vertebrae 10 Bone |
| Thoracic Vertebrae 11 Bone |
| Thoracic Vertebrae 12 Bone |
| Thoracic Vertebrae 2 Bone |
| Thoracic Vertebrae 3 Bone |
| Thoracic Vertebrae 4 Bone |
| Thoracic Vertebrae 5 Bone |
| Thoracic Vertebrae 6 Bone |
| Thoracic Vertebrae 7 Bone |
| Thoracic Vertebrae 8 Bone |
| Thoracic Vertebrae 9 Bone |
| Tonsils Lymphoid Tissue |
| Waldeyer Ring Lymphoid Tissue |
Figure 4: Code for the interactive plotly X-Y coordinate system for the Body Map topographical image
body_map.png <- BodyMapR::BodyMapR_biorender.png
grid.2 <- data.frame(x = rep((seq(from = 1, to = 100, by = 1)),
each = 100),
y = rep((seq(from = 1, to = 100, by = 1)),
len = 100))
df.grid <- data.frame()
grid.plotly <- ggplot(df.grid) +
xlim(0, 100) +
ylim(0, 100) +
theme_bw() +
theme(panel.border = element_blank(),
panel.grid.major = element_blank(),
panel.grid.minor = element_blank(),
axis.line = element_blank()) +
theme(axis.text.x = element_blank(),
axis.text.y = element_blank(),
axis.ticks = element_blank(),
axis.title = element_blank()) +
annotation_raster(body_map.png,
ymin = 0,
xmin = 0,
xmax = 100,
ymax = 100) +
geom_point(data = grid.2,
aes(x = x,
y = y))
ggplotly(grid.plotly)Figure 5: Interactive plotly X-Y coordinate system for the Body Map topographical image.
Figure 5: Interactive plotly X-Y coordinate system for the Body Map topographical image. Mappable elements of the Body Map can be visualized by selecting a portion of the plotly image to “zoom in”. Hover text functionality will display the X-Y coordinate of the map.
Figure 6: X-Y coordinate system for mapping topographical elements
Figure 6: X-Y coordinate system for mapping topographical elements. Using plotly, individual X-Y coordinates are easily visualized and mapped to X-Y coordinates on the Body Map topographical image. Anatomical images created with BioRender.com.
Table 3: Lookup table for osseous structures
| Laterality | Bone | x | y |
|---|---|---|---|
| Right | frontal bone | 10.00 | 96.00 |
| Right | parietal bone | 9.50 | 96.00 |
| Right | temporal bone | 9.50 | 95.50 |
| Right | occipital bone | 10.50 | 92.00 |
| Right | sphenoid bone | 10.50 | 95.00 |
| Right | ethmoid bone | 10.80 | 95.00 |
| Right | mandible | 10.00 | 88.50 |
| Right | maxilla | 10.50 | 91.00 |
| Right | palatine bone | 10.50 | 91.00 |
| Right | zygomatic bone | 10.00 | 92.00 |
| Right | nasal bone | 11.00 | 94.00 |
| Right | lacrimal bone | 10.80 | 94.00 |
| Right | vomer bone | 10.50 | 91.00 |
| Right | inferior nasal conchae | 10.80 | 91.80 |
| Right | malleus | 9.00 | 93.80 |
| Right | incus | 9.00 | 93.80 |
| Right | stapes | 9.00 | 93.80 |
| Right | scapula or shoulder blade | 6.00 | 80.00 |
| Right | clavicle or collarbone | 8.00 | 81.70 |
| Right | rib 1 | 10.00 | 80.20 |
| Right | rib 2 | 9.00 | 79.30 |
| Right | rib 3 | 9.00 | 77.50 |
| Right | rib 4 | 9.00 | 75.30 |
| Right | rib 5 | 9.00 | 73.10 |
| Right | rib 6 | 9.00 | 71.20 |
| Right | rib 7 | 9.00 | 69.60 |
| Right | rib 8 | 9.00 | 68.00 |
| Right | rib 9 | 8.00 | 66.50 |
| Right | rib 10 | 8.00 | 65.80 |
| Right | rib 11 | 9.00 | 70.00 |
| Right | rib 12 | 7.50 | 68.00 |
| Right | humerus | 5.30 | 75.00 |
| Right | radius | 2.80 | 59.00 |
| Right | ulna | 3.50 | 59.00 |
| Right | scaphoid bone | 2.20 | 53.00 |
| Right | lunate bone | 2.80 | 52.20 |
| Right | triquetral bone | 3.00 | 52.20 |
| Right | pisiform bone | 3.00 | 52.20 |
| Right | trapezium | 2.00 | 52.20 |
| Right | trapezoid bone | 2.30 | 52.20 |
| Right | capitate bone | 2.50 | 52.20 |
| Right | hamate bone | 2.70 | 52.20 |
| Right | metacarpal bone 1 | 1.50 | 51.50 |
| Right | metacarpal bone 2 | 1.90 | 50.00 |
| Right | metacarpal bone 3 | 2.40 | 50.00 |
| Right | metacarpal bone 4 | 2.90 | 50.00 |
| Right | metacarpal bone 5 | 3.40 | 50.20 |
| Right | hand proximal phalange 1 | 0.80 | 49.10 |
| Right | hand proximal phalange 2 | 1.70 | 46.80 |
| Right | hand proximal phalange 3 | 2.30 | 47.00 |
| Right | hand proximal phalange 4 | 3.00 | 47.10 |
| Right | hand proximal phalange 5 | 3.60 | 47.50 |
| Right | hand middle phalange 2 | 1.50 | 45.00 |
| Right | hand middle phalange 3 | 2.29 | 44.90 |
| Right | hand middle phalange 4 | 3.00 | 45.50 |
| Right | hand middle phalange 5 | 3.70 | 46.20 |
| Right | hand distal phalange 1 | 0.70 | 47.80 |
| Right | hand distal phalange 2 | 1.35 | 44.00 |
| Right | hand distal phalange 3 | 2.28 | 43.50 |
| Right | hand distal phalange 4 | 3.00 | 44.00 |
| Right | hand distal phalange 5 | 3.75 | 45.20 |
| Right | ilium | 8.00 | 61.00 |
| Right | ischium | 9.50 | 53.50 |
| Right | pubis | 10.80 | 55.00 |
| Right | ossa coxae | 10.80 | 55.00 |
| Right | femur | 7.60 | 44.00 |
| Right | patella | 8.60 | 32.50 |
| Right | tibia | 8.60 | 22.00 |
| Right | fibula | 7.85 | 22.00 |
| Right | calcaneus | 8.60 | 11.50 |
| Right | talus | 8.80 | 12.00 |
| Right | navicular bone | 9.00 | 11.20 |
| Right | medial cuneiform bone | 9.20 | 10.00 |
| Right | intermediate cuneiform bone | 8.60 | 10.60 |
| Right | lateral cuneiform bone | 8.20 | 10.20 |
| Right | cuboid bone | 7.80 | 10.50 |
| Right | metatarsal bone 1 | 9.20 | 8.00 |
| Right | metatarsal bone 2 | 8.80 | 8.00 |
| Right | metatarsal bone 3 | 8.25 | 8.00 |
| Right | metatarsal bone 4 | 7.90 | 8.00 |
| Right | metatarsal bone 5 | 7.70 | 8.00 |
| Right | foot proximal phalange 1 | 9.30 | 5.50 |
| Right | foot proximal phalange 2 | 8.80 | 5.50 |
| Right | foot proximal phalange 3 | 8.20 | 5.70 |
| Right | foot proximal phalange 4 | 7.80 | 5.90 |
| Right | foot proximal phalange 5 | 7.35 | 6.10 |
| Right | foot middle phalange 2 | 8.80 | 4.70 |
| Right | foot middle phalange 3 | 8.15 | 4.80 |
| Right | foot middle phalange 4 | 7.80 | 5.00 |
| Right | foot middle phalange 5 | 7.35 | 5.40 |
| Right | foot distal phalange 1 | 9.20 | 4.30 |
| Right | foot distal phalange 2 | 8.80 | 4.00 |
| Right | foot distal phalange 3 | 8.15 | 4.20 |
| Right | foot distal phalange 4 | 7.80 | 4.50 |
| Right | foot distal phalange 5 | 7.40 | 5.15 |
| Left | frontal bone | 12.00 | 96.00 |
| Left | parietal bone | 13.10 | 96.00 |
| Left | temporal bone | 13.00 | 95.50 |
| Left | occipital bone | 12.00 | 92.00 |
| Left | sphenoid bone | 11.60 | 95.00 |
| Left | ethmoid bone | 11.40 | 95.00 |
| Left | mandible | 12.00 | 88.50 |
| Left | maxilla | 12.00 | 91.00 |
| Left | palatine bone | 11.40 | 91.00 |
| Left | zygomatic bone | 12.00 | 92.00 |
| Left | nasal bone | 11.30 | 94.00 |
| Left | lacrimal bone | 11.40 | 94.00 |
| Left | vomer bone | 11.40 | 91.00 |
| Left | inferior nasal conchae | 11.30 | 91.80 |
| Left | malleus | 12.90 | 93.80 |
| Left | incus | 12.90 | 93.80 |
| Left | stapes | 12.90 | 93.80 |
| Left | scapula or shoulder blade | 15.00 | 80.00 |
| Left | clavicle or collarbone | 14.00 | 81.70 |
| Left | rib 1 | 12.00 | 80.20 |
| Left | rib 2 | 13.00 | 79.30 |
| Left | rib 3 | 13.00 | 77.50 |
| Left | rib 4 | 13.00 | 75.30 |
| Left | rib 5 | 13.00 | 73.10 |
| Left | rib 6 | 13.00 | 71.20 |
| Left | rib 7 | 13.00 | 69.60 |
| Left | rib 8 | 13.90 | 67.80 |
| Left | rib 9 | 14.00 | 66.50 |
| Left | rib 10 | 14.00 | 65.80 |
| Left | rib 11 | 13.00 | 70.00 |
| Left | rib 12 | 12.00 | 68.40 |
| Left | humerus | 16.70 | 75.00 |
| Left | radius | 19.00 | 59.00 |
| Left | ulna | 18.15 | 59.00 |
| Left | scaphoid bone | 19.60 | 52.80 |
| Left | lunate bone | 19.00 | 52.60 |
| Left | triquetral bone | 18.75 | 52.20 |
| Left | pisiform bone | 18.75 | 52.20 |
| Left | trapezium | 19.75 | 52.20 |
| Left | trapezoid bone | 19.75 | 52.20 |
| Left | capitate bone | 19.75 | 52.20 |
| Left | hamate bone | 19.00 | 52.20 |
| Left | metacarpal bone 1 | 20.50 | 51.50 |
| Left | metacarpal bone 2 | 20.00 | 50.00 |
| Left | metacarpal bone 3 | 19.50 | 50.00 |
| Left | metacarpal bone 4 | 19.00 | 50.00 |
| Left | metacarpal bone 5 | 18.50 | 50.20 |
| Left | hand proximal phalange 1 | 21.10 | 49.10 |
| Left | hand proximal phalange 2 | 20.35 | 46.80 |
| Left | hand proximal phalange 3 | 19.60 | 47.00 |
| Left | hand proximal phalange 4 | 19.00 | 47.10 |
| Left | hand proximal phalange 5 | 18.35 | 47.50 |
| Left | hand middle phalange 2 | 20.50 | 45.00 |
| Left | hand middle phalange 3 | 19.75 | 44.90 |
| Left | hand middle phalange 4 | 19.00 | 45.20 |
| Left | hand middle phalange 5 | 18.25 | 46.00 |
| Left | hand distal phalange 1 | 21.25 | 47.80 |
| Left | hand distal phalange 2 | 20.60 | 44.00 |
| Left | hand distal phalange 3 | 19.75 | 43.50 |
| Left | hand distal phalange 4 | 19.05 | 44.00 |
| Left | hand distal phalange 5 | 18.20 | 45.20 |
| Left | ilium | 14.00 | 61.00 |
| Left | ischium | 12.50 | 53.50 |
| Left | pubis | 11.50 | 55.00 |
| Left | ossa coxae | 11.50 | 55.00 |
| Left | femur | 14.50 | 44.00 |
| Left | patella | 13.50 | 32.50 |
| Left | tibia | 13.25 | 22.00 |
| Left | fibula | 14.20 | 22.00 |
| Left | calcaneus | 13.25 | 11.50 |
| Left | talus | 13.25 | 12.00 |
| Left | navicular bone | 13.10 | 11.20 |
| Left | medial cuneiform bone | 12.90 | 10.00 |
| Left | intermediate cuneiform bone | 13.25 | 10.60 |
| Left | lateral cuneiform bone | 13.75 | 10.20 |
| Left | cuboid bone | 14.20 | 10.50 |
| Left | metatarsal bone 1 | 12.75 | 8.00 |
| Left | metatarsal bone 2 | 13.25 | 8.00 |
| Left | metatarsal bone 3 | 13.65 | 8.00 |
| Left | metatarsal bone 4 | 14.15 | 8.00 |
| Left | metatarsal bone 5 | 14.50 | 8.00 |
| Left | foot proximal phalange 1 | 12.65 | 5.50 |
| Left | foot proximal phalange 2 | 13.25 | 5.50 |
| Left | foot proximal phalange 3 | 13.75 | 5.70 |
| Left | foot proximal phalange 4 | 14.25 | 5.90 |
| Left | foot proximal phalange 5 | 14.65 | 6.10 |
| Left | foot middle phalange 2 | 13.25 | 4.70 |
| Left | foot middle phalange 3 | 13.75 | 4.80 |
| Left | foot middle phalange 4 | 14.25 | 5.00 |
| Left | foot middle phalange 5 | 14.62 | 5.40 |
| Left | foot distal phalange 1 | 12.70 | 4.30 |
| Left | foot distal phalange 2 | 13.25 | 4.00 |
| Left | foot distal phalange 3 | 13.76 | 4.20 |
| Left | foot distal phalange 4 | 14.35 | 4.50 |
| Left | foot distal phalange 5 | 14.60 | 5.15 |
| Midline | frontal bone | 11.00 | 96.00 |
| Midline | occipital bone | 11.00 | 92.00 |
| Midline | ethmoid bone | 11.00 | 95.00 |
| Midline | mandible | 11.00 | 87.50 |
| Midline | maxilla | 11.00 | 90.50 |
| Midline | hyoid bone | 11.00 | 87.00 |
| Midline | sternum | 11.00 | 79.00 |
| Midline | rib 1 | 11.00 | 80.20 |
| Midline | rib 2 | 11.00 | 79.30 |
| Midline | rib 3 | 11.00 | 77.50 |
| Midline | rib 4 | 11.00 | 75.30 |
| Midline | rib 5 | 11.00 | 73.10 |
| Midline | rib 6 | 11.00 | 71.20 |
| Midline | rib 7 | 11.00 | 69.60 |
| Midline | rib 8 | 11.00 | 68.00 |
| Midline | rib 9 | 11.00 | 66.50 |
| Midline | rib 10 | 11.00 | 65.80 |
| Midline | rib 11 | 11.00 | 70.00 |
| Midline | rib 12 | 11.00 | 68.40 |
| NA | cervical vertebrae 1 | 11.00 | 90.00 |
| NA | cervical vertebrae 2 | 11.00 | 89.00 |
| NA | cervical vertebrae 3 | 11.00 | 88.00 |
| NA | cervical vertebrae 4 | 11.00 | 87.00 |
| NA | cervical vertebrae 5 | 11.00 | 86.00 |
| NA | cervical vertebrae 6 | 11.00 | 85.00 |
| NA | cervical vertebrae 7 | 11.00 | 84.00 |
| NA | thoracic vertebrae 1 | 11.00 | 83.00 |
| NA | thoracic vertebrae 2 | 11.00 | 82.00 |
| NA | thoracic vertebrae 3 | 11.00 | 81.00 |
| NA | thoracic vertebrae 4 | 11.00 | 80.00 |
| NA | thoracic vertebrae 5 | 11.00 | 79.00 |
| NA | thoracic vertebrae 6 | 11.00 | 78.00 |
| NA | thoracic vertebrae 7 | 11.00 | 77.00 |
| NA | thoracic vertebrae 8 | 11.00 | 76.00 |
| NA | thoracic vertebrae 9 | 11.00 | 75.00 |
| NA | thoracic vertebrae 10 | 11.00 | 74.00 |
| NA | thoracic vertebrae 11 | 11.00 | 73.00 |
| NA | thoracic vertebrae 12 | 11.00 | 68.80 |
| NA | lumbar vertebrae 1 | 11.00 | 67.20 |
| NA | lumbar vertebrae 2 | 11.00 | 65.50 |
| NA | lumbar vertebrae 3 | 11.00 | 63.80 |
| NA | lumbar vertebrae 4 | 11.00 | 62.00 |
| NA | lumbar vertebrae 5 | 11.00 | 60.50 |
| Midline | coccyx | 11.00 | 55.00 |
| Midline | sacrum | 11.00 | 58.00 |
| Midline | ossa coxae | 11.00 | 55.00 |
| Midline | frontal bone | 11.00 | 96.00 |
| Midline | occipital bone | 11.00 | 92.00 |
| Midline | ethmoid bone | 11.00 | 95.00 |
| Midline | mandible | 11.00 | 87.50 |
| Midline | maxilla | 11.00 | 90.50 |
| Midline | hyoid bone | 11.00 | 87.00 |
| Midline | sternum | 11.00 | 79.00 |
| Midline | rib 1 | 11.00 | 80.20 |
| Midline | rib 2 | 11.00 | 79.30 |
| Midline | rib 3 | 11.00 | 77.50 |
| Midline | rib 4 | 11.00 | 75.30 |
| Midline | rib 5 | 11.00 | 73.10 |
| Midline | rib 6 | 11.00 | 71.20 |
| Midline | rib 7 | 11.00 | 69.60 |
| Midline | rib 8 | 11.00 | 68.00 |
| Midline | rib 9 | 11.00 | 66.50 |
| Midline | rib 10 | 11.00 | 65.80 |
| Midline | rib 11 | 11.00 | 70.00 |
| Midline | rib 12 | 11.00 | 68.40 |
| NA | cervical vertebrae 1 | 11.00 | 90.00 |
| NA | cervical vertebrae 2 | 11.00 | 89.00 |
| NA | cervical vertebrae 3 | 11.00 | 88.00 |
| NA | cervical vertebrae 4 | 11.00 | 87.00 |
| NA | cervical vertebrae 5 | 11.00 | 86.00 |
| NA | cervical vertebrae 6 | 11.00 | 85.00 |
| NA | cervical vertebrae 7 | 11.00 | 84.00 |
| NA | thoracic vertebrae 1 | 11.00 | 83.00 |
| NA | thoracic vertebrae 2 | 11.00 | 82.00 |
| NA | thoracic vertebrae 3 | 11.00 | 81.00 |
| NA | thoracic vertebrae 4 | 11.00 | 80.00 |
| NA | thoracic vertebrae 5 | 11.00 | 79.00 |
| NA | thoracic vertebrae 6 | 11.00 | 78.00 |
| NA | thoracic vertebrae 7 | 11.00 | 77.00 |
| NA | thoracic vertebrae 8 | 11.00 | 76.00 |
| NA | thoracic vertebrae 9 | 11.00 | 75.00 |
| NA | thoracic vertebrae 10 | 11.00 | 74.00 |
| NA | thoracic vertebrae 11 | 11.00 | 73.00 |
| NA | thoracic vertebrae 12 | 11.00 | 68.80 |
| NA | lumbar vertebrae 1 | 11.00 | 67.20 |
| NA | lumbar vertebrae 2 | 11.00 | 65.50 |
| NA | lumbar vertebrae 3 | 11.00 | 63.80 |
| NA | lumbar vertebrae 4 | 11.00 | 62.00 |
| NA | lumbar vertebrae 5 | 11.00 | 60.50 |
| Midline | coccyx | 11.00 | 55.00 |
| Midline | sacrum | 11.00 | 58.00 |
| Midline | ossa coxae | 11.00 | 55.00 |
Lookup tables for each portion of the topographical map are embedded in the BodyMapR function body_map.df(). The data-processing function body_map.df() takes one argument (“data”). It returns a data frame that is then used for the BodyMapR graphing functions embedded in the server side of the Shiny application. The “data” argument taken by bodymapr_df() is a raw csv file exported from a REDCap® project for which the Lesion Information and Genomics instruments have been incorporated. bodymapr_df() wrangles the raw csv file and uses the dplyr function left_join() to combine the various anatomical lookup tables to the REDCap® project data to map each lesion to its corresponding topographical location (Figure 7).
Figure 7: bodymapr_df() source code.
bodymapr_df <- function(data){
########################################################################################
# Load Data
########################################################################################
dt <- data
dt <- dt %>% dplyr::mutate(dplyr::across(dplyr::everything(), as.character))
########################################################################################
# Load Look Up Tables
########################################################################################
# Head and Neck Look Up
look_up_table_head_neck <- BodyMapR::look_up_table_head_neck
## Turn all columns to characters
look_up_table_head_neck <- look_up_table_head_neck %>%
dplyr::mutate(dplyr::across(dplyr::everything(), as.character))
# Trunk Look Up
look_up_table_trunk <- BodyMapR::look_up_table_trunk
## Turn all columns to characters
look_up_table_trunk <- look_up_table_trunk %>%
dplyr::mutate(dplyr::across(dplyr::everything(), as.character))
# Upper Extremity Look Up
look_up_table_UE <- BodyMapR::look_up_table_upper_extremity
## Turn all columns to characters
look_up_table_UE <- look_up_table_UE %>%
dplyr::mutate(dplyr::across(dplyr::everything(), as.character))
# Lower Extremity Look Up
look_up_table_LE <- BodyMapR::look_up_table_lower_extremity
## Turn all columns to characters
look_up_table_LE <- look_up_table_LE %>%
dplyr::mutate(dplyr::across(dplyr::everything(), as.character))
# Lymphatics Look Up
look_up_table_lymphatics <- BodyMapR::look_up_table_lymphatics
## Turn all columns to characters
look_up_table_lymphatics <- look_up_table_lymphatics %>%
dplyr::mutate(dplyr::across(dplyr::everything(), as.character))
# cns Look Up
look_up_table_cns <- BodyMapR::look_up_table_cns
## Turn all columns to characters
look_up_table_cns <- look_up_table_cns %>%
dplyr::mutate(dplyr::across(dplyr::everything(), as.character))
# bones Look Up
look_up_table_bones <- BodyMapR::look_up_table_bones
## Turn all columns to characters
look_up_table_bones <- look_up_table_bones %>%
dplyr::mutate(dplyr::across(dplyr::everything(), as.character))
# Viscera
look_up_table_viscera <- BodyMapR::look_up_table_viscera
## Turn all columns to characters
look_up_table_viscera <- look_up_table_viscera %>%
dplyr::mutate(dplyr::across(dplyr::everything(), as.character))
# Mucosa
look_up_table_mucosa <- BodyMapR::look_up_table_mucosa
## Turn all columns to characters
look_up_table_mucosa <- look_up_table_mucosa %>%
dplyr::mutate(dplyr::across(dplyr::everything(), as.character))
########################################################################################
#Process Data
########################################################################################
lesion_loc_pre_process.1 <- dt %>%
select(record_id,
lesion_tag,
tum_type,
tum_dtctn_dt,
contains("tum_loc")) %>%
drop_na(lesion_tag)
# Drop those columns with cns, lymph or mucosa
lesion_loc_pre_process <- lesion_loc_pre_process.1 %>%
select(-tum_loc_cns,
-contains("tum_loc_lymph"),
-tum_loc_muc,
-tum_loc_lid,
-tum_loc_lip,
-contains("bone"))
# drop those rows that have all NA but the record_id
ind <- apply(lesion_loc_pre_process[2:length(lesion_loc_pre_process)],
1,
function(x) all(is.na(x)))
lesion_loc_pre_process <- lesion_loc_pre_process[!ind,]
# Eliminate any duplicates
lesion_loc_pre_process <- lesion_loc_pre_process %>%
group_by(record_id, lesion_tag) %>%
arrange(tum_dtctn_dt) %>%
slice_head() %>%
ungroup()
########################################################################################
# Select those columns that are skin upper extremity
########################################################################################
## Filter for those that are cutaneous
cutaneous_lesion_loc_pre_process <- lesion_loc_pre_process %>%
filter((!is.na(tum_loc_skin) &
!is.na(tum_dtctn_dt) |
tum_type == 1 &
!is.na(tum_dtctn_dt)
))
skin_lesion_ue <- cutaneous_lesion_loc_pre_process %>%
select(record_id,
lesion_tag,
tum_loc_laterality,
tum_loc_ant_post,
tum_loc_med_lat,
tum_loc_ue) %>%
drop_na(tum_loc_ue)
# Now let’s link up skin_lesion_ue with the lookup table to give the
## lesion x and y coordinates
skin_lesion_ue_with_lookup <- left_join(skin_lesion_ue, look_up_table_UE,
by = c("tum_loc_laterality",
"tum_loc_ant_post",
"tum_loc_med_lat",
"tum_loc_ue"))
########################################################################################
# Select those columns that are skin Lower Extremity
########################################################################################
skin_lesion_le <- cutaneous_lesion_loc_pre_process %>%
select(record_id,
lesion_tag,
tum_loc_laterality,
tum_loc_ant_post,
tum_loc_med_lat,
tum_loc_le) %>%
drop_na(tum_loc_le)
# Now let's link up skin_lesion_le with the lookup table to give the
## lesion x and y coordinates
skin_lesion_le_with_lookup <- left_join(skin_lesion_le,
look_up_table_LE,
by = c("tum_loc_laterality",
"tum_loc_ant_post",
"tum_loc_med_lat",
"tum_loc_le"))
########################################################################################
# Select those columns that are skin Head and neck
########################################################################################
skin_lesion_head <- cutaneous_lesion_loc_pre_process %>%
select(record_id,
lesion_tag,
tum_loc_laterality,
tum_loc_ant_post,
tum_loc_med_lat,
tum_loc_head) %>%
drop_na(tum_loc_head)
# Now let's link up skin_lesion_head with the lookup table to give the
## lesion x and y coordinates
skin_lesion_head_with_lookup <- left_join(skin_lesion_head,
look_up_table_head_neck,
by = c("tum_loc_laterality",
"tum_loc_ant_post",
"tum_loc_med_lat",
"tum_loc_head"))
########################################################################################
# Select those columns that are skin Trunk
########################################################################################
skin_lesion_trunk_preprocess <- cutaneous_lesion_loc_pre_process %>%
select(record_id,
lesion_tag,
tum_loc_laterality,
tum_loc_ant_post,
tum_loc_med_lat,
tum_loc_skin) %>%
drop_na(tum_loc_skin)
# Now let's filter those rows that are relevant to trunk
skin_lesion_trunk <- skin_lesion_trunk_preprocess %>%
filter(tum_loc_skin == 2 |
tum_loc_skin == 3 |
tum_loc_skin == 4 |
tum_loc_skin == 6 |
tum_loc_skin == 7)
# Now let's link up skin_lesion_trunk with the lookup table to give the
## lesion x and y coordinates
skin_lesion_trunk_with_lookup <- left_join(skin_lesion_trunk,
look_up_table_trunk,
by = c("tum_loc_laterality",
"tum_loc_ant_post",
"tum_loc_med_lat",
"tum_loc_skin"))
########################################################################################
# Now let’s process the visceral lesions
########################################################################################
viscera.1 <- dt %>%
select(record_id,
lesion_tag,
tum_type,
tum_dtctn_dt,
tum_loc_laterality,
tum_loc_viscera) %>%
drop_na(lesion_tag, tum_loc_viscera)
viscera.2 <- left_join(viscera.1,
look_up_table_viscera,
by = c("tum_loc_laterality",
"tum_loc_viscera"))
viscera.3 <- viscera.2 %>% drop_na(x)
########################################################################################
# Now let’s process the lymphatic lesions
########################################################################################
lymph.1 <- dt %>%
select(record_id,
lesion_tag,
tum_type,
tum_dtctn_dt,
tum_lymph_laterality_1,
tum_lymph_1) %>%
drop_na(lesion_tag, tum_lymph_1)
lymph.2 <- left_join(lymph.1,
look_up_table_lymphatics,
by = c("tum_lymph_laterality_1",
"tum_lymph_1"))
lymph.3 <- lymph.2 %>% drop_na(x)
########################################################################################
# Now let’s process the Bone lesions
########################################################################################
bones.1 <- dt %>%
select(record_id,
lesion_tag,
tum_type,
tum_dtctn_dt,
tum_bone_laterality_1,
tum_location_bone_1) %>%
drop_na(lesion_tag, tum_location_bone_1)
bones.2 <- left_join(bones.1,
look_up_table_bones,
by = c("tum_bone_laterality_1",
"tum_location_bone_1"))
bones.3 <- bones.2 %>% drop_na(x)
########################################################################################
# Now let’s process the CNS lesions
########################################################################################
cns.1 <- dt %>%
select(record_id,
lesion_tag,
tum_type,
tum_dtctn_dt,
tum_loc_cns) %>%
drop_na(lesion_tag, tum_loc_cns)
cns.2 <- left_join(cns.1,
look_up_table_cns,
by = "tum_loc_cns")
cns.3 <- cns.2 %>% drop_na(x)
########################################################################################
# Now let’s process the Mucosal lesions
########################################################################################
mucosa.1 <- dt %>%
select(record_id,
lesion_tag,
tum_type,
tum_dtctn_dt,
tum_loc_muc) %>%
drop_na(lesion_tag, tum_loc_muc)
mucosa.2 <- left_join(mucosa.1,
look_up_table_mucosa,
by = "tum_loc_muc")
mucosa.3 <- mucosa.2 %>% drop_na(x)
########################################################################################
# Now let’s bring all of these DFs together
########################################################################################
## First thing to do is remove tum_loc_* because otherwise all of the
## columns are exactly the same
skin_lesion_head_with_coordinates <- skin_lesion_head_with_lookup %>%
select(record_id, lesion_tag, x, y)
skin_lesion_trunk_with_coordinates <- skin_lesion_trunk_with_lookup %>%
select(record_id, lesion_tag, x, y)
skin_lesion_ue_with_coordinates <- skin_lesion_ue_with_lookup %>%
select(record_id, lesion_tag, x, y)
skin_lesion_le_with_coordinates <- skin_lesion_le_with_lookup %>%
select(record_id, lesion_tag, x, y)
viscera_with_coordinates <- viscera.3 %>%
select(record_id, lesion_tag, x, y)
lymph_with_coordinates <- lymph.3 %>%
select(record_id, lesion_tag, x, y)
bones_with_coordinates <- bones.3 %>%
select(record_id, lesion_tag, x, y)
cns_with_coordinates <- cns.3 %>%
select(record_id, lesion_tag, x, y)
mucosa_with_coordinates <- mucosa.3 %>%
select(record_id, lesion_tag, x, y)
body_map.pre <- bind_rows(skin_lesion_head_with_coordinates,
skin_lesion_trunk_with_coordinates,
skin_lesion_ue_with_coordinates,
skin_lesion_le_with_coordinates,
viscera_with_coordinates,
lymph_with_coordinates,
bones_with_coordinates,
cns_with_coordinates,
mucosa_with_coordinates)
########################################################################################
# Combine with lesion tag and tum_dtctn_dtc
########################################################################################
body_map.1 <- left_join(body_map.pre,
lesion_loc_pre_process)
##########################################################################################################################
# Add isolate tmb
##########################################################################################################################
dt.tmb <- dt %>% select(record_id, contains("lesion_tag"), tmb) %>% drop_na(tmb)
dt.tmb.1 <- if(is.na(dt.tmb[1,1])) {
data.frame(record_id = "test_123", lesion_tag = "test", lesion_tag_genomics = NA, tmb = "1000000")
} else {
dt.tmb
}
# drop those columns with all NA to get rid of all those lesion_tag..... columns that are not desired
dt.tmb.2 <- dt.tmb.1[colSums(!is.na(dt.tmb.1)) > 0]
# rename lesion_tag_genomics with lesion_tag so we can combine this later
names(dt.tmb.2)[2] <- "lesion_tag"
dt.tmb.2$tmb <- as.double(dt.tmb.2$tmb)
dt.tmb.2$tmb <- round(dt.tmb.2$tmb, digits = 1)
body_map.2 <- left_join(body_map.1,
dt.tmb.2,
by = c("record_id", "lesion_tag"))
##########################################################################################################################
# Add isolate tmb_abs
##########################################################################################################################
dt.tmb.abs <- dt %>% select(record_id, contains("lesion_tag"), tmb_abs) %>% drop_na(tmb_abs)
dt.tmb.abs.1 <- if(is.na(dt.tmb.abs[1,1])) {
data.frame(record_id = "test_123", lesion_tag = "test", lesion_tag_genomics = NA, tmb_abs = "1000000")
} else {
dt.tmb.abs
}
# drop those columns with all NA to get rid of all those lesion_tag..... columns that are not desired
dt.tmb.abs.2 <- dt.tmb.abs.1[colSums(!is.na(dt.tmb.abs.1)) > 0]
# rename lesion_tag_genomics with lesion_tag so we can combine this later
names(dt.tmb.abs.2)[2] <- "lesion_tag"
dt.tmb.abs.2$tmb_abs <- as.double(dt.tmb.abs.2$tmb_abs)
dt.tmb.abs.2$tmb_abs <- round(dt.tmb.abs.2$tmb_abs, digits = 1)
body_map.3 <- full_join(body_map.2,
dt.tmb.abs.2,
by = c("record_id", "lesion_tag"))
body_map.3$tmb.test <- ifelse(
test = !is.na(body_map.3$tmb),
yes = body_map.3$tmb,
no = ifelse(
test = !is.na(body_map.3$tmb_abs),
yes = body_map.3$tmb_abs,
no = NA
)
)
# Create a new column that brings the two different tmb together
body_map.4 <- body_map.3 %>% select(-tmb, -tmb_abs)
body_map.4 <- body_map.4 %>% rename(tmb = tmb.test)
body_map.5 <- body_map.4
body_map.5$tmb <- as.numeric(body_map.5$tmb)
########################################################################################
# Add Genomic Data
########################################################################################
genes.unite <- BodyMapR::genomics.df.unite(data = dt)
#rename "lesion_tag_genomics" "lesion_tag" so we can left_join
names(genes.unite)[2] <- "lesion_tag"
body_map.6 <- left_join(body_map.5,
genes.unite,
by = c("record_id",
"lesion_tag")
)
# Replace "NA" with "Not Assessed" for genomic alterations
body_map.6$genomic_alterations[is.na(body_map.6$genomic_alterations)] <- "Not Assessed"
# Remove the test observation we used to prevent the code from resulting in an error
body_map.6 <- body_map.6 %>% filter(record_id != "test_123")
########################################################################################
# Prep for Hover Text
########################################################################################
# Create Age at Date of detection
body_map.6$tum_dtctn_dt <- lubridate::as_date(body_map.6$tum_dtctn_dt, )
body_map.6$tum_dtctn_dt <- lubridate::ymd(body_map.6$tum_dtctn_dt)
# Convert Tumor Type to Strings
body_map.6$tum_type[body_map.6$tum_type == 1] <- "Primary Cutaneous Lesion"
body_map.6$tum_type[body_map.6$tum_type == 2] <- "Metastasis"
body_map.6$tum_type[body_map.6$tum_type == 3] <- "Unknown Primary"
body_map.6$tum_type[body_map.6$tum_type == 4] <- "Local Recurrence"
body_map.6$tum_type[body_map.6$tum_type == 5] <- "Histologically not consistent with MCC"
body_map.6$tum_type[body_map.6$tum_type == 6] <- "Unclear Etiology/Not Confirmed as MCC"
body_map.6$tum_type[body_map.6$tum_type == 98] <- "Unknown"
########################################################################################
# Clean Data
########################################################################################
body_map.6 <- body_map.6 %>% drop_na(lesion_tag)
########################################################################################
# Convert Data to appropriate types
########################################################################################
body_map.6$x <- as.double(body_map.6$x)
body_map.6$y <- as.double(body_map.6$y)
body_map.6$tum_dtctn_dt <- lubridate::as_date(body_map.6$tum_dtctn_dt)
########################################################################################
# Drop Missing values and arrange in specific order
########################################################################################
body_map.7 <- body_map.6 %>% drop_na(tum_type)
body_map.7 <- body_map.7 %>%
arrange(factor(tum_type,
levels = c("Primary Cutaneous Lesion",
"Metastasis",
"Unknown Primary",
"Local Recurrence",
"Histologically not consistent with MCC",
"Unclear Etiology/Not Confirmed as MCC",
"Unknown")))
########################################################################################
# Isolate the number of lesions in that instance
########################################################################################
df1 <- dt %>%
select(record_id, lesion_tag, tum_type, tum_num, tum_num_cat, tum_num_detail) %>%
drop_na(lesion_tag)
df1$tum_type <- as.double(df1$tum_type)
df1$tum_num <- as.double(df1$tum_num)
df1$tum_num_cat <- as.double(df1$tum_num_cat)
df1$tum_num_detail <- as.double(df1$tum_num_detail)
df2 <- df1 %>%
mutate(tum_number = ifelse(
test = !is.na(tum_num_detail),
yes = tum_num_detail,
no = ifelse(
test = tum_type == 1,
yes = 1,
no = ifelse(
test = tum_type == 4,
yes = 1,
no = ifelse(
test = tum_type == 3,
yes = 1,
no = ifelse(
test = tum_num_cat == 1,
yes = 5,
no = ifelse(
test = tum_num_cat == 2,
yes = 15,
no = ifelse(
test = tum_num_cat == 3,
yes = 25,
no = ifelse(
test = tum_num == 1,
yes = 1,
no = NA)
))))))))
df3 <- df2
df3$tum_num[is.na(df3$tum_num)] <- 0
df3$tum_number <- ifelse(
test = !is.na(df3$tum_number),
yes = df3$tum_number,
no = ifelse(test = df3$tum_num == 1,
yes = 1,
no = NA))
df4 <- df3
df4$tum_number <- ifelse(
test = !is.na(df4$tum_number),
yes = df4$tum_number,
no = ifelse(
test = stringr::str_detect(df4$lesion_tag, stringr::regex("lesion", ignore_case = TRUE)),
yes = 1,
no = ifelse(
test = stringr::str_detect(df4$lesion_tag, stringr::regex("metastasis", ignore_case = TRUE)),
yes = 1,
no = ifelse(
test = stringr::str_detect(df4$lesion_tag, stringr::regex("nodule", ignore_case = TRUE)),
yes = 1,
no = ifelse(
test = stringr::str_detect(df4$lesion_tag, stringr::regex("nass", ignore_case = TRUE)),
yes = 1,
no = NA)))
)
)
df5 <- df4 %>% select(record_id, lesion_tag, tum_number) %>% drop_na()
########################################################################################
# Repeat each row based on the number of lesions in that instance
########################################################################################
body_map.8 <- left_join(
body_map.7,
df5,
by = c("record_id","lesion_tag")
)
body_map.8$tum_number <- as.double(body_map.8$tum_number)
# replace NA in tum_number with 1, this will bias to the null for missing values
body_map.9 <- body_map.8
body_map.9$tum_number[is.na(body_map.9$tum_number)] <- 1
body_map.10 <- as_tibble(lapply(body_map.9, rep, body_map.9$tum_number))
########################################################################################
# Expand Map for liver lesions >= 25 lesions
########################################################################################
look_up_table_liver_lesions <- BodyMapR::look_up_table_liver_lesions
d <- body_map.10 %>%
mutate(liver_ind =
ifelse(
test = stringr::str_detect(string = body_map.10$lesion_tag,
pattern = stringr::regex("liver", ignore_case = TRUE)),
yes = 1,
no = 0),
num_ind =
ifelse(
test = tum_number >= 25,
yes = 1,
no = 0),
liver_num = liver_ind + num_ind
) %>%
group_by(record_id, lesion_tag) %>%
mutate(id = row_number())
d1 <- left_join(
d,
look_up_table_liver_lesions,
by = "id"
)
d1 <- d1 %>% rename(x_old = x,
y_old = y)
d2 <- d1 %>% mutate(
x = ifelse(test = liver_num == 2,
yes = x1,
no = x_old),
y = ifelse(test = liver_num == 2,
yes = y1,
no = y_old)
)
########################################################################################
# Format Size of Lesions
########################################################################################
size <- data %>%
select(record_id, lesion_tag,
contains("clin_dim_1"),
contains("tum_dim_clin_unit")) %>%
drop_na(lesion_tag) %>%
select(-contains("date"), - contains("fu"))
size$tum_dim_clin_unit <- as.numeric(size$tum_dim_clin_unit)
size$clin_dim_1_1 <- as.numeric(size$clin_dim_1_1)
size$clin_dim_1_2 <- as.numeric(size$clin_dim_1_2)
size$clin_dim_1_3 <- as.numeric(size$clin_dim_1_3)
size <- size %>%
mutate(
units = ifelse(
test = tum_dim_clin_unit == 0,
yes = 1,
no = 10
))
size$max_dim <- pmax(size$clin_dim_1_1,
size$clin_dim_1_2,
size$clin_dim_1_3, na.rm = TRUE)
size$tum_size_mm <- size$units * size$max_dim
size$record_id <- as.character(size$record_id)
body_map.11 <- left_join(
d2,
size,
by = c("record_id","lesion_tag")
)
########################################################################################
# Select appropriate fields
########################################################################################
a <- paste("<b>Record ID:</b>",
body_map.11$record_id)
b <- paste("<b>Lesion Tag:</b>",
body_map.11$lesion_tag)
c <- paste("<b>Genomic Alterations:</b>",
body_map.11$genomic_alterations)
d <- paste("<b>Tumor Max Dimension (mm):</b>",
body_map.11$tum_size_mm)
e <- paste("<b>Tumor Mutation Burden:</b>",
body_map.11$tmb)
body_map.11$hover <- paste(a, b, c, d, e, sep = "<br>")
# We need a size so if tum_size_mm is missing, we need to fill it in with something,
## we will use 10
body_map.11$tum_size_mm[is.na(body_map.11$tum_size_mm)] <- 10
########################################################################################
# Select appropriate fields
########################################################################################
body_map <- body_map.11 %>%
select(record_id,
lesion_tag,
tum_type,
tum_size_mm,
genomic_alterations,
tmb,
hover,
x,
y) %>%
dplyr::ungroup()
########################################################################################
# Return final data frame
########################################################################################
return(body_map)
}bodymapr_df()
bodymapr_df() is seen in Table 4 .
Table 4: Sample output of the function body_map.df().
| record_id | lesion_tag | tum_type | tum_size_mm | genomic_alterations | tmb | hover | x | y |
|---|---|---|---|---|---|---|---|---|
| 300 | Left Medial Eyelid Primary Cutaneous Lesion | Primary Cutaneous Lesion | 28 | APC, ARID1A, ATM, ATM, BRAF, CBLB, CDK8, CDKN2A, CDKN2B, CTNNB1, DDB1, EGLN1, EXT2, FANCG, FANCI, FGFR1, FGFR3, FGFR3, GATA4, GBA, H19, H3-3A, IDH2, JAK3, KAT6A, KMT2A, MDM4, MITF, NBN, NF1, NSD2, PAX5, PDGFRA, PIM1, PTPN11, PTPN14, RB1, RET, RUNX1T1, SDHAF2, TAZ, TMPRSS2, XRCC2, XRCC4, XRCC5, XRCC5, ZNRF3 | 9.8 | <b>Record ID:</b> 300<br><b>Lesion Tag:</b> Left Medial Eyelid Primary Cutaneous Lesion<br><b>Genomic Alterations:</b> APC, ARID1A, ATM, ATM, BRAF, CBLB, CDK8, CDKN2A, CDKN2B, CTNNB1, DDB1, EGLN1, EXT2, FANCG, FANCI, FGFR1, FGFR3, FGFR3, GATA4, GBA, H19, H3-3A, IDH2, JAK3, KAT6A, KMT2A, MDM4, MITF, NBN, NF1, NSD2, PAX5, PDGFRA, PIM1, PTPN11, PTPN14, RB1, RET, RUNX1T1, SDHAF2, TAZ, TMPRSS2, XRCC2, XRCC4, XRCC5, XRCC5, ZNRF3<br><b>Tumor Max Dimension (mm):</b> 28<br><b>Tumor Mutation Burden:</b> 9.8 | 36.0 | 92.5 |
| 81 | Right Anterior Medial Cheek Primary Cutaneous Lesion | Primary Cutaneous Lesion | 19 | BCL6, BLM, CRLF2, ESR1, EXO1, EXO1, FAN1, FGFR1, FH, FLT1, HELQ, HRAS, IL7R, ITK, JAK2, KIT, KLF2, KLLN, MCL1, MECOM, MTOR, MYBL1, NOTCH1, NOTCH2, PIM1, PIM1, PMS1, PRKDC, PRKN, QKI, RAD52, RAF1, RHOH, RIT1, RPTOR, SMARCA4, SOX9, STAG2, UROD | 8.2 | <b>Record ID:</b> 81<br><b>Lesion Tag:</b> Right Anterior Medial Cheek Primary Cutaneous Lesion<br><b>Genomic Alterations:</b> BCL6, BLM, CRLF2, ESR1, EXO1, EXO1, FAN1, FGFR1, FH, FLT1, HELQ, HRAS, IL7R, ITK, JAK2, KIT, KLF2, KLLN, MCL1, MECOM, MTOR, MYBL1, NOTCH1, NOTCH2, PIM1, PIM1, PMS1, PRKDC, PRKN, QKI, RAD52, RAF1, RHOH, RIT1, RPTOR, SMARCA4, SOX9, STAG2, UROD<br><b>Tumor Max Dimension (mm):</b> 19<br><b>Tumor Mutation Burden:</b> 8.2 | 34.8 | 90.5 |
| 1 | Right Arm Primary Lesion | Primary Cutaneous Lesion | 19 | RB1 | 2.0 | <b>Record ID:</b> 1<br><b>Lesion Tag:</b> Right Arm Primary Lesion<br><b>Genomic Alterations:</b> RB1<br><b>Tumor Max Dimension (mm):</b> 19<br><b>Tumor Mutation Burden:</b> 2 | 28.5 | 71.5 |
| 1192 | Left Posterior Lateral Forearm Primary Cutaneous Lesion | Primary Cutaneous Lesion | 10 | None Detected | NA | <b>Record ID:</b> 1192<br><b>Lesion Tag:</b> Left Posterior Lateral Forearm Primary Cutaneous Lesion<br><b>Genomic Alterations:</b> None Detected<br><b>Tumor Max Dimension (mm):</b> 10<br><b>Tumor Mutation Burden:</b> NA | 54.3 | 60.0 |
| 1200 | Left Anterior Medial Forearm Primary Cutaneous Lesion | Primary Cutaneous Lesion | 19 | APC, CDKN2C, DDR2, ENG, ERCC2, FANCA, FAT1, GALNT12, GBA, GNAS, ITK, KAT6A, LMO2, MAF, MAP3K1, MPL, MRE11, MYD88, NEIL1, NEIL2, NT5C2, NT5C2, NTRK3, POLB, PTCH1, RELA, RINT1, SDHC, SOS1, TDG, TRAF3, VHL, VHL, WRN | 7.2 | <b>Record ID:</b> 1200<br><b>Lesion Tag:</b> Left Anterior Medial Forearm Primary Cutaneous Lesion<br><b>Genomic Alterations:</b> APC, CDKN2C, DDR2, ENG, ERCC2, FANCA, FAT1, GALNT12, GBA, GNAS, ITK, KAT6A, LMO2, MAF, MAP3K1, MPL, MRE11, MYD88, NEIL1, NEIL2, NT5C2, NT5C2, NTRK3, POLB, PTCH1, RELA, RINT1, SDHC, SOS1, TDG, TRAF3, VHL, VHL, WRN<br><b>Tumor Max Dimension (mm):</b> 19<br><b>Tumor Mutation Burden:</b> 7.2 | 43.0 | 60.0 |
| 1501 | Left Posterior Lateral Ankle Primary Cutaneous Lesion | Primary Cutaneous Lesion | 15 | CARD11, CDK4, CDKN2A, FOXA1, H19, NF1, NOTCH2, NOTCH3, SDHC, SETD2 | 2.5 | <b>Record ID:</b> 1501<br><b>Lesion Tag:</b> Left Posterior Lateral Ankle Primary Cutaneous Lesion<br><b>Genomic Alterations:</b> CARD11, CDK4, CDKN2A, FOXA1, H19, NF1, NOTCH2, NOTCH3, SDHC, SETD2<br><b>Tumor Max Dimension (mm):</b> 15<br><b>Tumor Mutation Burden:</b> 2.5 | 59.5 | 10.0 |
| 1690 | Right Posterior Lateral Ankle Primary Cutaneous Lesion | Primary Cutaneous Lesion | 29 | AKT3, ASXL1, ASXL1, ATM, ATM, BAP1, BCL11B, BCL6, BRAF, BRCA2, BRD3, CBL, CCND1, CCND1, CCND2, CCND3, CD274, CDC73, CDKN1A, CDKN1C, CDKN2A, CHEK1, CIITA, COL7A1, CRLF2, CTNNB1, CTNNB1, CUX1, DDR2, DIS3, DIS3L2, ELANE, ENG, ERCC5, ERCC6, ESR1, EXO1, FAAP20, FANCE, FANCF, FLT3, FLT4, FOXA1, FOXL2, GALNT12, GATA2, GATA4, GEN1, GLI2, GPC3, GREM1, H3-3B, HABP2, HFE, HRAS, ID4, IGF2, IGF2, KAT6B, LIG4, LMO2, MAP2K2, MBD4, MBD4, MCL1, MET, MET, MET, MSH2, MTA1, MUS81, MUTYH, NECTIN4, NECTIN4, NEIL2, NFKBIA, NFKBIE, NFKBIZ, NKX3-1, NKX3-1, NSD2, NT5C2, NTRK2, OGG1, PBRM1, PIK3R1, PIM1, PMS1, PMS2, PNKP, POLD1, POLQ, PPARG, PRF1, PRKN, PTPN11, RAC1, RELA, RET, RHBDF2, RHEB, RHOA, RICTOR, RICTOR, RIT1, RNF43, ROS1, SLC34A2, SMO, SOX9, SS18, SUZ12, TDG, TERC, TERT, TLX3, TP53, TP53, TP53BP1, TRIM37, USP28, WRN, WT1, XPC, XRCC1, XRCC6, ZNF217, ZNRF3 | 27.4 | <b>Record ID:</b> 1690<br><b>Lesion Tag:</b> Right Posterior Lateral Ankle Primary Cutaneous Lesion<br><b>Genomic Alterations:</b> AKT3, ASXL1, ASXL1, ATM, ATM, BAP1, BCL11B, BCL6, BRAF, BRCA2, BRD3, CBL, CCND1, CCND1, CCND2, CCND3, CD274, CDC73, CDKN1A, CDKN1C, CDKN2A, CHEK1, CIITA, COL7A1, CRLF2, CTNNB1, CTNNB1, CUX1, DDR2, DIS3, DIS3L2, ELANE, ENG, ERCC5, ERCC6, ESR1, EXO1, FAAP20, FANCE, FANCF, FLT3, FLT4, FOXA1, FOXL2, GALNT12, GATA2, GATA4, GEN1, GLI2, GPC3, GREM1, H3-3B, HABP2, HFE, HRAS, ID4, IGF2, IGF2, KAT6B, LIG4, LMO2, MAP2K2, MBD4, MBD4, MCL1, MET, MET, MET, MSH2, MTA1, MUS81, MUTYH, NECTIN4, NECTIN4, NEIL2, NFKBIA, NFKBIE, NFKBIZ, NKX3-1, NKX3-1, NSD2, NT5C2, NTRK2, OGG1, PBRM1, PIK3R1, PIM1, PMS1, PMS2, PNKP, POLD1, POLQ, PPARG, PRF1, PRKN, PTPN11, RAC1, RELA, RET, RHBDF2, RHEB, RHOA, RICTOR, RICTOR, RIT1, RNF43, ROS1, SLC34A2, SMO, SOX9, SS18, SUZ12, TDG, TERC, TERT, TLX3, TP53, TP53, TP53BP1, TRIM37, USP28, WRN, WT1, XPC, XRCC1, XRCC6, ZNF217, ZNRF3<br><b>Tumor Max Dimension (mm):</b> 29<br><b>Tumor Mutation Burden:</b> 27.4 | 67.5 | 10.0 |
body_map.df(). A sample of the synthetic dataset provided in the BodyMapR package is passed into the bodymapr_df() function which wrangles a raw csv file from a REDCap project and processes the data in order for it to be mapped onto the Body Map provided by BodyMapR.
Interactive Topography
The output ofbodymapr_df() is then used as the argument for the BodyMapR graphing function bodymapr_plot() (Figure 8).
Figure 8: bodymapr_plot() source code.
bodymapr_plot <- function(data){
##########################################################################################
# Load Data
##########################################################################################
##########################################################################################
# Import Body Map
##########################################################################################
body_map.png <- BodyMap::body_map_biorender.png
##########################################################################################
# Now let’s look at this body map….
##########################################################################################
bodymapr.plot <- ggplot(data = NULL) +
xlim(0, 100) +
ylim(0, 100) +
theme_bw() +
theme(panel.border = element_blank(),
panel.grid.major = element_blank(),
panel.grid.minor = element_blank(),
axis.line = element_blank()) +
theme(axis.text.x = element_blank(),
axis.text.y = element_blank(),
axis.ticks = element_blank(),
axis.title = element_blank()) +
annotation_raster(body_map.png,
ymin = 0,
xmin = 0,
xmax = 100,
ymax = 100) +
geom_point(data = data,
aes(x = x,
y = y,
size = tum_size_mm,
text = gsub('(.{1,90})(\\s|$)', '\\1\n', hover),
color = tum_type),
position=position_jitter(width = 0.35,
height = 1),
shape = 19)
plotly::ggplotly(bodymapr.plot,
tooltip = c("text")) %>%
layout(legend = list(orientation = "h",
x = 0,
y = 0)) %>%
layout(showlegend = TRUE,
legend = list(font = list(size = 18))) %>%
layout(hoverlabel = list(font=list(size=22))) %>%
add_annotations(
text = "Osseous Lesions",
x = 0.09,
xref = "paper",
y = 0.01,
yref = "paper",
showarrow = F,
font = list(size = 20)
) %>%
add_annotations(
text = "Cutaneous Lesions",
x = 0.5,
xref = "paper",
y = 0.01,
yref = "paper",
showarrow = F,
font = list(size = 20)
) %>%
add_annotations(
text = "Visceral and Lymphatic Lesions",
x = 0.938,
xref = "paper",
y = 0.01,
yref = "paper",
showarrow = F,
font = list(size = 20)
) %>%
add_annotations(
text = "<b>Cancer Lesion Body Map</b>",
x = 0.5,
xref = "paper",
y = 1,
yref = "paper",
showarrow = F,
font = list(size = 24)
)
}In addition to providing a static GLP of the cohort, BodyMapR was designed to display an interactive graphic to increase the amount of information presented by the package without compromising the user experience with data overload. Utilizing hover text functionality via plotly, bodymapr_df() provides detailed CTC information such as the individual genomic alterations, tumor mutational burden and tumor size (Figure 9). Given that tumor size is an important CTC, often with staging implications, individual lesions are sized proportional to the longest axis of their clinical measurement.
Figure 9: Interactive Body Map of Cancer Lesions.
bodymapr_plot() uses plotly to generate an interactive data visualization of cancer lesion topography. Hover text functionality allows for storage of important metadata of clinical tumor characterteristics.BodyMapR Customizations
The BodyMapR source code has been made freely available to provide end users with the ability to customize the user interface and server-side functions to best suit their clinical research needs. For example, BodyMapR is currently being used by the Project Data Sphere supported Merkel Cell carcinoma patient registry3. Therefore, modifications have been made to incorporate specific clinical tumor characteristics salient to Merkel Cell carcinoma. For example, the MCC BodyMapR application has incorporated sidebar selectors with disease-specific information such as Merkel Cell polyoma virus-related data (Figure 10). Analogous adaptations can be made on a project-specific basis by end users to meet their clinical research needs.
Figure 10: BodyMapR UI Customized for MCC Registry
Supplemental Figure 10: BodyMapR UI Customized for MCC Registry.* Depicted is an example of a customized BodyMapR user interface, with disease-specific information such as Merkel Cell polyoma virus-related data. BodyMapR’s open source code permits project-specific adaptations to meet varying clinical research needs
Furthermore, because BodyMapR can function as a stand-alone R package (i.e. outside of a shiny application), users are able to customize which data are mapped onto the Body Map inside an integrated development environment (IDE), such as such as RStudio®22. For example, if an investigator intends to visualize a subset of the cohort that contained liver lesions, the following code could be used:
# Create a data frame containing only those observations with liver or hepatic metastases
liver_lesions<- BodyMapR::BodyMapR_mock_dataset %>%
filter(str_detect(string = BodyMapR::BodyMapR_mock_dataset$lesion_tag,
pattern = regex("liver|hepatic", ignore_case = TRUE)))
# Filter the mock dataset to map only those subjects that have liver lesions
BodyMapR::BodyMapR_mock_dataset %>%
filter(record_id %in% liver_lesions$record_id) %>%
BodyMapR::bodymapr_df() %>%
BodyMapR::bodymapr_plot()Figure 11: Data Vizualization Generated in IDE
Supplemental Figure 11: Data Vizualization Generated in IDE. Depicted is a data visualization of a subset of the BodyMapR mock data set after filtering for only those subjects that have liver lesions. This interative plot was generated outside of the shiny application, with the Rstudio® IDE .
LIMITATIONS AND SOLUTIONS
BodyMapR is to be used in conjunction with the Lesion Information and Genomics Information instrument; therefore, it functions optimally when those forms are installed into a REDCap® project. Thus, we have made the data dictionaries freely available so that others may incorporate them into their individual projects. However, if an investigator has incorporated a lesion field that uses other common anatomical coding systems, such as the International Classification of Diseases for Oncology, 3rd edition (ICD-O-3) or the Systematized Nomenclature of Medicine (SNOMED), we have incorporated a lookup table that converts these fields into coordinates on the BodyMapR Body Map (Supplemental Table 4).
Supplemental Table 4: ICD-O-3 and SNOMED CT conversion table
| Anatomic Structure | ICD-O-3 Code | SNOMED | x | y |
|---|---|---|---|---|
| Anterior Medial Left Abdomen Skin | C44.5 | 181491009 | 37.000 | 60.00 |
| Anterior Midline Left Abdomen Skin | C44.5 | 181491009 | 38.000 | 60.00 |
| Anterior Lateral Left Abdomen Skin | C44.5 | 699906008 | 39.000 | 60.00 |
| Left Adrenal | C74.9 | 12003004 | 89.000 | 66.00 |
| Anterior Medial Left Ankle Skin | C44.7 | 771124004 | 37.800 | 10.00 |
| Anterior Midline Left Ankle Skin | C44.7 | 771124004 | 38.500 | 10.00 |
| Anterior Lateral Left Ankle Skin | C44.7 | 771124004 | 39.300 | 10.00 |
| Posterior Lateral Left Ankle Skin | C44.7 | 771124004 | 59.500 | 10.00 |
| Posterior Midline Left Ankle Skin | C44.7 | 771124004 | 60.600 | 10.00 |
| Posterior Medial Left Ankle Skin | C44.7 | 771124004 | 61.500 | 10.00 |
| Posterior Lateral Left Back Skin | C44.5 | 66643007 | 60.000 | 75.00 |
| Midline Left Back Skin | C44.5 | 66643007 | 61.500 | 75.00 |
| Posterior Medial Left Back Skin | C44.5 | 66643007 | 62.500 | 75.00 |
| Medial Left Back Skin | C44.5 | 66643007 | 64.750 | 75.00 |
| Left Bladder | C67.9 | 89837001 | 89.000 | 53.00 |
| Posterior Lateral Left Buttocks Skin | C44.5 | 723979003 | 59.500 | 53.00 |
| Midline Left Buttocks Skin | C44.5 | 723979003 | 61.500 | 53.00 |
| Posterior Medial Left Buttocks Skin | C44.5 | 723979003 | 62.500 | 53.00 |
| Left Buttocks Skin | C44.5 | 723979003 | 63.000 | 53.00 |
| Medial Left Buttocks Skin | C44.5 | 723979003 | 64.750 | 53.00 |
| Anterior Medial Left Cheek Skin | C44.3 | 36141000 | 36.000 | 90.50 |
| Anterior Midline Left Cheek Skin | C44.3 | 36141000 | 36.500 | 90.50 |
| Anterior Lateral Left Cheek Skin | C44.3 | 36141000 | 37.200 | 90.50 |
| Anterior Medial Left Chest Skin | C44.5 | 789221006 | 37.000 | 75.00 |
| Anterior Midline Left Chest Skin | C44.5 | 789221006 | 38.000 | 75.00 |
| Anterior Lateral Left Chest Skin | C44.5 | 789221006 | 39.000 | 75.00 |
| Anterior Medial Left Chin Skin | C44.3 | 281718000 | 35.700 | 87.00 |
| Anterior Midline Left Chin Skin | C44.3 | 281718000 | 35.800 | 87.00 |
| Anterior Lateral Left Chin Skin | C44.3 | 281718000 | 36.500 | 87.30 |
| Anterior Medial Left Ear Skin | C44.2 | 761965001 | 37.700 | 91.00 |
| Anterior Lateral Left Ear Skin | C44.2 | 761965001 | 37.900 | 91.00 |
| Posterior Medial Left Ear Skin | C44.2 | 761965001 | 60.800 | 91.00 |
| Posterior Lateral Left Ear Skin | C44.2 | 761965001 | 60.900 | 90.40 |
| Posterior Midline Left Ear Skin | C44.2 | 761965001 | 61.600 | 90.50 |
| Anterior Medial Left Elbow Skin | C44.6 | 770847008 | 41.750 | 65.00 |
| Anterior Midline Left Elbow Skin | C44.6 | 770847008 | 42.500 | 66.50 |
| Anterior Lateral Left Elbow Skin | C44.6 | 770847008 | 43.000 | 68.00 |
| Posterior Lateral Left Elbow Skin | C44.6 | 770847008 | 55.100 | 64.00 |
| Posterior Midline Left Elbow Skin | C44.6 | 770847008 | 56.000 | 64.00 |
| Posterior Medial Left Elbow Skin | C44.6 | 770847008 | 57.000 | 64.00 |
| Anterior Medial Left Eyebrow Skin | C44.3 | 367577003 | 36.000 | 93.20 |
| Anterior Midline Left Eyebrow Skin | C44.3 | 367577003 | 36.500 | 93.20 |
| Anterior Lateral Left Eyebrow Skin | C44.3 | 367577003 | 36.900 | 93.20 |
| Anterior Medial Left Eyelid Skin | C44.3 | 719882004 | 36.000 | 92.50 |
| Anterior Midline Left Eyelid Skin | C44.3 | 719882004 | 36.500 | 92.50 |
| Anterior Lateral Left Eyelid Skin | C44.3 | 719882004 | 36.800 | 92.50 |
| Anterior Medial Left Foot And Toes Skin | C44.7 | 761968004 | 38.500 | 5.00 |
| Anterior Midline Left Foot And Toes Skin | C44.7 | 761968004 | 39.200 | 5.00 |
| Anterior Lateral Left Foot And Toes Skin | C44.7 | 761968004 | 40.000 | 5.00 |
| Posterior Lateral Left Foot And Toes Skin | C44.7 | 761974004 | 58.800 | 9.00 |
| Posterior Midline Left Foot And Toes Skin | C44.7 | 761974004 | 59.300 | 10.30 |
| Anterior Medial Left Forearm Skin | C44.6 | 764707001 | 43.000 | 60.00 |
| Anterior Midline Left Forearm Skin | C44.6 | 764707001 | 43.900 | 60.00 |
| Anterior Lateral Left Forearm Skin | C44.6 | 764707001 | 44.800 | 60.00 |
| Posterior Lateral Left Forearm Skin | C44.6 | 764707001 | 54.300 | 60.00 |
| Posterior Midline Left Forearm Skin | C44.6 | 764707001 | 55.100 | 60.00 |
| Posterior Medial Left Forearm Skin | C44.6 | 764707001 | 56.000 | 60.00 |
| Anterior Medial Left Forehead Skin | C44.3 | 68698007 | 36.000 | 95.00 |
| Anterior Midline Left Forehead Skin | C44.3 | 68698007 | 36.500 | 93.00 |
| Lateral Left Forehead Skin | C44.3 | 68698007 | 37.000 | 93.00 |
| Anterior Lateral Left Forehead Skin | C44.3 | 68698007 | 37.000 | 95.00 |
| Left Gallbladder | C23.9 | 28231008 | 86.500 | 62.50 |
| Anterior Medial Left Genitalia Skin | C51.0, skin of vulva C51.9, skin of penis C60.9 and skin of scrotum C63.2 | 281679005 | 35.700 | 49.00 |
| Anterior Midline Left Genitalia Skin | C51.0, skin of vulva C51.9, skin of penis C60.9 and skin of scrotum C63.2 | 281679005 | 35.800 | 49.00 |
| Midline Left Genitalia Skin | C51.0, skin of vulva C51.9, skin of penis C60.9 and skin of scrotum C63.2 | 281679005 | 35.900 | 49.00 |
| Posterior Lateral Left Genitalia Skin | C51.0, skin of vulva C51.9, skin of penis C60.9 and skin of scrotum C63.2 | 281679005 | 63.300 | 49.00 |
| Posterior Midline Left Genitalia Skin | C51.0, skin of vulva C51.9, skin of penis C60.9 and skin of scrotum C63.2 | 281679005 | 63.400 | 49.00 |
| Posterior Medial Left Genitalia Skin | C51.0, skin of vulva C51.9, skin of penis C60.9 and skin of scrotum C63.2 | 281679005 | 63.500 | 49.00 |
| Anterior Medial Left Hand And Fingers Skin | C44.6 | 782451002 | 46.100 | 50.00 |
| Anterior Midline Left Hand And Fingers Skin | C44.6 | 782451002 | 47.200 | 50.00 |
| Anterior Lateral Left Hand And Fingers Skin | C44.6 | 782451002 | 48.000 | 50.00 |
| Posterior Lateral Left Hand And Fingers Skin | C44.6 | 789136004 | 51.000 | 50.00 |
| Posterior Midline Left Hand And Fingers Skin | C44.6 | 789136004 | 52.000 | 50.00 |
| Posterior Medial Left Hand And Fingers Skin | C44.6 | 789136004 | 53.000 | 50.00 |
| Left Heart | C38.0 | 17398003 | 89.000 | 74.00 |
| Left Kidney | C64.9 | 18639004 | 90.000 | 62.00 |
| Anterior Medial Left Knee Skin | C44.7 | 726002000 | 37.300 | 28.00 |
| Anterior Midline Left Knee Skin | C44.7 | 726002000 | 38.500 | 28.00 |
| Anterior Lateral Left Knee Skin | C44.7 | 726002000 | 39.500 | 28.00 |
| Posterior Lateral Left Knee Skin | C44.7 | 726002000 | 59.500 | 30.00 |
| Posterior Midline Left Knee Skin | C44.7 | 726002000 | 60.600 | 30.00 |
| Posterior Medial Left Knee Skin | C44.7 | 726002000 | 61.600 | 30.00 |
| Left Large Intestine | C18.9 | 14742008 | 91.000 | 57.00 |
| Anterior Medial Left Lip Skin | C44.0 | 88089004 | 35.700 | 88.00 |
| Anterior Lateral Left Lip Skin | C44.0 | 88089004 | 35.900 | 88.50 |
| Anterior Midline Left Lip Skin | C44.0 | 88089004 | 36.000 | 88.50 |
| Left Liver | C22.0 | 69842003 | 89.000 | 64.00 |
| Anterior Medial Left Lower Leg (Shin And Calf) Skin | C44.7 | 723972007 | 37.800 | 19.00 |
| Anterior Midline Left Lower Leg (Shin And Calf) Skin | C44.7 | 723972007 | 38.500 | 19.00 |
| Anterior Lateral Left Lower Leg (Shin And Calf) Skin | C44.7 | 723972007 | 39.400 | 19.00 |
| Posterior Lateral Left Lower Leg (Shin And Calf) Skin | C44.7 | 723972007 | 59.500 | 21.00 |
| Posterior Midline Left Lower Leg (Shin And Calf) Skin | C44.7 | 723972007 | 60.500 | 21.00 |
| Posterior Medial Left Lower Leg (Shin And Calf) Skin | C44.7 | 723972007 | 61.500 | 21.00 |
| Left Lungs | C34.9 | 44029006 | 90.700 | 74.00 |
| Anterior Medial Left Neck Skin | C44.4 | 699912003 | 35.800 | 85.00 |
| Anterior Midline Left Neck Skin | C44.4 | 699912003 | 36.500 | 85.00 |
| Anterior Lateral Left Neck Skin | C44.4 | 244104000 | 36.800 | 85.00 |
| Posterior Lateral Left Neck Skin | C44.4 | 244105004 | 62.100 | 85.80 |
| Posterior Midline Left Neck Skin | C44.4 | 699912003 | 62.800 | 85.00 |
| Posterior Medial Left Neck Skin | C44.4 | 699912003 | 63.000 | 85.00 |
| Anterior Medial Left Nose Skin | C44.3 | 244089006 | 35.600 | 90.50 |
| Anterior Midline Left Nose Skin | C44.3 | 314394005 | 35.800 | 90.50 |
| Anterior Lateral Left Nose Skin | C44.3 | 244089006 | 36.000 | 90.50 |
| Left Ovary | C56.9 | 43981004 | 89.500 | 57.00 |
| Left Pancreas | C25.9 | 73239005 | 90.000 | 63.00 |
| Anterior Medial Left Scalp Skin | C44.4 | 699900002 | 36.000 | 97.00 |
| Anterior Midline Left Scalp Skin | C44.4 | 699900002 | 36.500 | 96.00 |
| Anterior Lateral Left Scalp Skin | C44.4 | 699900002 | 37.500 | 95.00 |
| Posterior Lateral Left Scalp Skin | C44.4 | 61719002 | 61.500 | 94.00 |
| Posterior Medial Left Scalp Skin | C44.4 | 61719002 | 63.000 | 94.00 |
| Posterior Midline Left Scalp Skin | C44.4 | 61719002 | 63.600 | 94.00 |
| Anterior Medial Left Shoulder Skin | C44.6 | 771101006 | 40.200 | 79.00 |
| Anterior Midline Left Shoulder Skin | C44.6 | 771101006 | 40.800 | 79.00 |
| Anterior Lateral Left Shoulder Skin | C44.6 | 771101006 | 41.400 | 79.00 |
| Posterior Lateral Left Shoulder Skin | C44.6 | 771101006 | 57.400 | 79.00 |
| Posterior Midline Left Shoulder Skin | C44.6 | 771101006 | 58.200 | 79.00 |
| Posterior Medial Left Shoulder Skin | C44.6 | 771101006 | 59.000 | 79.00 |
| Left Small Intestine | C17.9 | 30315005 | 90.000 | 59.00 |
| Left Spleen | C42.2 | 78961009 | 91.000 | 64.00 |
| Left Stomach | C16.9 | 69695003 | 90.500 | 65.00 |
| Left Testis | C62.9 | 63239009 | 89.000 | 46.00 |
| Anterior Medial Left Upper Arm Skin | C44.6 | 788805003 | 40.750 | 71.50 |
| Anterior Midline Left Upper Arm Skin | C44.6 | 788805003 | 41.500 | 71.50 |
| Anterior Lateral Left Upper Arm Skin | C44.6 | 788805003 | 42.200 | 71.50 |
| Posterior Lateral Left Upper Arm Skin | C44.6 | 788805003 | 56.800 | 71.50 |
| Posterior Midline Left Upper Arm Skin | C44.6 | 788805003 | 57.800 | 71.50 |
| Posterior Medial Left Upper Arm Skin | C44.6 | 788805003 | 58.800 | 71.50 |
| Anterior Medial Left Upper Leg (Anterior And Posterior Thigh) Skin | C44.7 | 774103008 | 36.500 | 44.00 |
| Anterior Midline Left Upper Leg (Anterior And Posterior Thigh) Skin | C44.7 | 774103008 | 38.300 | 44.00 |
| Anterior Lateral Left Upper Leg (Anterior And Posterior Thigh) Skin | C44.7 | 774103008 | 40.000 | 44.00 |
| Posterior Lateral Left Upper Leg (Anterior And Posterior Thigh) Skin | C44.7 | 774103008 | 59.000 | 43.00 |
| Posterior Midline Left Upper Leg (Anterior And Posterior Thigh) Skin | C44.7 | 774103008 | 60.600 | 43.00 |
| Posterior Medial Left Upper Leg (Anterior And Posterior Thigh) Skin | C44.7 | 774103008 | 62.500 | 43.00 |
| Anterior Medial Left Wrist Skin | C44.6 | 24527008 | 45.000 | 54.00 |
| Anterior Left Wrist Skin | C44.6 | 24527008 | 45.500 | 54.80 |
| Anterior Midline Left Wrist Skin | C44.6 | 24527008 | 45.500 | 55.00 |
| Anterior Lateral Left Wrist Skin | C44.6 | 244157004 | 46.000 | 56.00 |
| Posterior Lateral Left Wrist Skin | C44.6 | 244157004 | 52.500 | 54.00 |
| Posterior Midline Left Wrist Skin | C44.6 | 52876008 | 53.000 | 53.50 |
| Posterior Medial Left Wrist Skin | C44.6 | 52876008 | 53.800 | 53.00 |
| Left Abdominal Lymphoid Tissue | C77.2 | 818991007 | 90.000 | 55.00 |
| Left Adenoid Lymphoid Tissue | C11.1 | 781383005 | 88.200 | 88.00 |
| Left Axillary Lymphoid Tissue | C77.3 | 746225004 | 92.500 | 78.00 |
| Left Brachial Lymphoid Tissue | C77.3 | 33770006 | 93.000 | 70.00 |
| Left Calcaneus Bone | C40.3 | 722735002 | 13.250 | 11.50 |
| Left Capitate Bone | C40.1 | 764658006 | 19.750 | 52.20 |
| Left Celiac Lymphoid Tissue | C77.2 | 47985009 | 87.000 | 62.00 |
| Left Clavicle Or Collarbone Bone | C41.3 | 720617006 | 14.000 | 81.70 |
| Left Cuboid Bone | C40.3 | 764464007 | 14.200 | 10.50 |
| Left Epitrochlear Lymphoid Tissue | C77.3 | 28870006 | 94.500 | 66.00 |
| Left Ethmoid Bone | C41.0 | 119526004 | 11.400 | 95.00 |
| Left Femoral Lymphoid Tissue | C77.4 | 279802007 | 89.200 | 46.00 |
| Left Femur Bone | C40.2 | 722738000 | 14.500 | 44.00 |
| Left Fibula Bone | C40.2 | 724231006 | 14.200 | 22.00 |
| Left Foot Distal Phalange 1 Bone | C40.3 | 720662005 | 12.700 | 4.30 |
| Left Foot Distal Phalange 2 Bone | C40.3 | 720656000 | 13.250 | 4.00 |
| Left Foot Distal Phalange 3 Bone | C40.3 | 720656000 | 13.760 | 4.20 |
| Left Foot Distal Phalange 4 Bone | C40.3 | 720656000 | 14.350 | 4.50 |
| Left Foot Distal Phalange 5 Bone | C40.3 | 720656000 | 14.600 | 5.15 |
| Left Foot Middle Phalange 2 Bone | C40.3 | 720654002 | 13.250 | 4.70 |
| Left Foot Middle Phalange 3 Bone | C40.3 | 720654002 | 13.750 | 4.80 |
| Left Foot Middle Phalange 4 Bone | C40.3 | 720654002 | 14.250 | 5.00 |
| Left Foot Middle Phalange 5 Bone | C40.3 | 720654002 | 14.620 | 5.40 |
| Left Foot Proximal Phalange 1 Bone | C40.3 | 720661003 | 12.650 | 5.50 |
| Left Foot Proximal Phalange 2 Bone | C40.3 | 720652003 | 13.250 | 5.50 |
| Left Foot Proximal Phalange 3 Bone | C40.3 | 720652003 | 13.750 | 5.70 |
| Left Foot Proximal Phalange 4 Bone | C40.3 | 720652003 | 14.250 | 5.90 |
| Left Foot Proximal Phalange 5 Bone | C40.3 | 720652003 | 14.650 | 6.10 |
| Left Frontal Bone | C41.0 | 74872008 | 12.000 | 96.00 |
| Left Hamate Bone | C40.1 | 764746004 | 19.000 | 52.20 |
| Left Hand Distal Phalange 1 Bone | C40.1 | 762866004 | 21.250 | 47.80 |
| Left Hand Distal Phalange 2 Bone | C40.1 | 762858008 | 20.600 | 44.00 |
| Left Hand Distal Phalange 3 Bone | C40.1 | 762858008 | 19.750 | 43.50 |
| Left Hand Distal Phalange 4 Bone | C40.1 | 762846008 | 19.050 | 44.00 |
| Left Hand Distal Phalange 5 Bone | C40.1 | 762836006 | 18.200 | 45.20 |
| Left Hand Middle Phalange 2 Bone | C40.1 | 762862002 | 20.500 | 45.00 |
| Left Hand Middle Phalange 3 Bone | C40.1 | 762850001 | 19.750 | 44.90 |
| Left Hand Middle Phalange 4 Bone | C40.1 | 762844006 | 19.000 | 45.20 |
| Left Hand Middle Phalange 5 Bone | C40.1 | 762838007 | 18.250 | 46.00 |
| Left Hand Proximal Phalange 1 Bone | C40.1 | 762868003 | 21.100 | 49.10 |
| Left Hand Proximal Phalange 2 Bone | C40.1 | 762860005 | 20.350 | 46.80 |
| Left Hand Proximal Phalange 3 Bone | C40.1 | 762854005 | 19.600 | 47.00 |
| Left Hand Proximal Phalange 4 Bone | C40.1 | 762842005 | 19.000 | 47.10 |
| Left Hand Proximal Phalange 5 Bone | C40.1 | 762840002 | 18.350 | 47.50 |
| Left Hilar Lymphoid Tissue | C77.1 | 53074004 | 89.000 | 77.00 |
| Left Humerus Bone | C40.0 | 719460003 | 16.700 | 75.00 |
| Left Iliac Lymphoid Tissue | C77.5 | 84219008 | 88.500 | 53.00 |
| Left Ilium Bone | C41.4 | 773840006 | 14.000 | 61.00 |
| Left Incus Bone | C30.1 | 35395007 | 12.900 | 93.80 |
| Left Inferior Nasal Conchae Bone | C41.0 | 118648008 | 11.300 | 91.80 |
| Left Infraclavicular Lymphoid Tissue | C77.3 | 9659009 | 89.000 | 83.80 |
| Left Inguinal Lymphoid Tissue | C77.4 | 8928004 | 89.000 | 47.00 |
| Left Intermediate Cuneiform Bone | C40.3 | 764556003 | 13.250 | 10.60 |
| Left Ischium Bone | NA | NA | 12.500 | 53.50 |
| Left Lacrimal Bone | C41.0 | 6229007 | 11.400 | 94.00 |
| Left Lateral Cuneiform Bone | C40.3 | 764748003 | 13.750 | 10.20 |
| Left Level Iii Cervical Lymphoid Tissue | C77.0 | 245322001 | 89.000 | 85.70 |
| Left Level Ii Cervical Lymphoid Tissue | C77.0 | 245321008 | 89.000 | 87.50 |
| Left Level Iv Cervical Lymphoid Tissue | C77.0 | 245323006 | 89.000 | 85.00 |
| Left Level Vii Cervical Lymphoid Tissue | C77.0 | 127925003 | 89.000 | 84.80 |
| Left Level Vi Cervical Lymphoid Tissue | C77.0 | 168460001 | 89.000 | 85.00 |
| Left Level V Cervical Lymphoid Tissue | C77.0 | 245324000 | 89.000 | 87.40 |
| Left Lingual Tonsils Lymphoid Tissue | C02.4 | 2048000 | 88.200 | 88.00 |
| Left Lunate Bone | C40.1 | 737403003 | 19.000 | 52.60 |
| Left Malleus Bone | C30.1 | 420329002 | 12.900 | 93.80 |
| Left Mandible Bone | C41.1 | 782962006 | 12.000 | 88.50 |
| Left Maxilla Bone | C41.0 | 773937007 | 12.000 | 91.00 |
| Left Medial Cuneiform Bone | C40.3 | 764752003 | 12.900 | 10.00 |
| Left Mesenteric Lymphoid Tissue | C77.2 | 279795009 | 90.000 | 59.00 |
| Left Metacarpal 1 Bone | C40.1 | 762016006 | 20.500 | 51.50 |
| Left Metacarpal 2 Bone | C40.1 | 762033004 | 20.000 | 50.00 |
| Left Metacarpal 3 Bone | C40.1 | 762041004 | 19.500 | 50.00 |
| Left Metacarpal 4 Bone | C40.1 | 762027008 | 19.000 | 50.00 |
| Left Metacarpal 5 Bone | C40.1 | 762010000 | 18.500 | 50.20 |
| Left Metatarsal 1 Bone | C40.3 | 761978001 | 12.750 | 8.00 |
| Left Metatarsal 2 Bone | C40.3 | 737448004 | 13.250 | 8.00 |
| Left Metatarsal 3 Bone | C40.3 | 773720006 | 13.650 | 8.00 |
| Left Metatarsal 4 Bone | C40.3 | 773808007 | 14.150 | 8.00 |
| Left Metatarsal 5 Bone | C40.3 | 773811008 | 14.500 | 8.00 |
| Left Nasal Bone | C41.0 | 74386004 | 11.300 | 94.00 |
| Left Nasopharynx Lymphoid Tissue | C11.1 | 781383005 | 88.200 | 88.00 |
| Left Navicular Bone | C40.3 | 723633005 | 13.100 | 11.20 |
| Left Occipital Lymphoid Tissue | C77.0 | 3916005 | 88.700 | 89.00 |
| Left Occipital Bone | C41.0 | 787063005 | 12.000 | 92.00 |
| Left Ossa Coxae Bone | C41.4 | 28254004 | 11.500 | 55.00 |
| Left Palatine Bone | C41.0 | 51283005 | 11.400 | 91.00 |
| Left Paraaortic Lymphoid Tissue | C77.2 | 245285004 | 88.500 | 59.00 |
| Left Parietal Bone | C41.0 | 24924006 | 13.100 | 96.00 |
| Left Parotid Lymphoid Tissue | C77.0 | 44178003 | 88.850 | 88.00 |
| Left Patella Bone | C40.3 | 734208001 | 13.500 | 32.50 |
| Left Pectoral Lymphoid Tissue | C77.3 | 69691007 | 90.000 | 78.50 |
| Left Peritracheal Lymphoid Tissue | C77.1 | 127936005 | 88.200 | 82.00 |
| Left Pisiform Bone | C40.1 | 764702007 | 18.750 | 52.20 |
| Left Popliteal Lymphoid Tissue | C77.4 | 47471008 | 90.500 | 24.00 |
| Left Porta Hepatis Lymphoid Tissue | C77.2 | 61492009 | 86.000 | 64.00 |
| Left Preauricular Lymphoid Tissue | C77.0 | 25247006 | 89.000 | 89.00 |
| Left Pubis Bone | C41.4 | 734356009 | 11.500 | 55.00 |
| Left Radius Bone | C40.0 | 719464007 | 19.000 | 59.00 |
| Left Retroperitoneal Lymphoid Tissue | C77.2 | 91394001 | 90.000 | 61.00 |
| Left Rib 1 Bone | C41.3 | 48535007 | 12.000 | 80.20 |
| Left Rib 10 Bone | C41.3 | 77644006 | 14.000 | 65.80 |
| Left Rib 11 Bone | C41.3 | 58830002 | 13.000 | 70.00 |
| Left Rib 12 Bone | C41.3 | 43993008 | 12.000 | 68.40 |
| Left Rib 2 Bone | C41.3 | 78247007 | 13.000 | 79.30 |
| Left Rib 3 Bone | C41.3 | 25888004 | 13.000 | 77.50 |
| Left Rib 4 Bone | C41.3 | 25523003 | 13.000 | 75.30 |
| Left Rib 5 Bone | C41.3 | 15339008 | 13.000 | 73.10 |
| Left Rib 6 Bone | C41.3 | 59558009 | 13.000 | 71.20 |
| Left Rib 7 Bone | C41.3 | 24915002 | 13.000 | 69.60 |
| Left Rib 8 Bone | C41.3 | 5953002 | 13.900 | 67.80 |
| Left Rib 9 Bone | C41.3 | 22565002 | 14.000 | 66.50 |
| Left Scaphoid Bone | C40.1 | 724196009 | 19.600 | 52.80 |
| Left Scapula Or Shoulder Blade Bone | C40.0 | 719627005 | 15.000 | 80.00 |
| Left Sphenoid Bone | C41.0 | 73117003 | 11.600 | 95.00 |
| Left Spleen Lymphoid Tissue | C42.2 | 78961009 | 91.000 | 64.00 |
| Left Splenic Hilar Lymphoid Tissue | C77.2 | 280824006 | 90.500 | 64.00 |
| Left Stapes Bone | C30.1 | 22718006 | 12.900 | 93.80 |
| Left Submandibular Lymphoid Tissue | C77.0 | 59503006 | 88.200 | 86.60 |
| Left Submental Lymphoid Tissue | C77.0 | 46055009 | 88.100 | 85.80 |
| Left Supraclavicular Lymphoid Tissue | C77.0 | 76838003 | 89.200 | 84.00 |
| Left Talus Bone | C40.3 | 737405005 | 13.250 | 12.00 |
| Left Temporal Bone | C41.0 | 763817008 | 13.000 | 95.50 |
| Left Thymic Lymphoid Tissue | C37.9 | 9875009 | 89.000 | 76.00 |
| Left Tibia Bone | C40.2 | 719492002 | 13.250 | 22.00 |
| Left Tonsils Lymphoid Tissue | C09.9 | 15058008 | 88.200 | 88.00 |
| Left Trapezium Bone | C40.1 | 764661007 | 19.750 | 52.20 |
| Left Trapezoid Bone | C40.1 | 787049004 | 19.750 | 52.20 |
| Left Triquetral Bone | C40.1 | 764825000 | 18.750 | 52.20 |
| Left Ulna Bone | C40.0 | 719615007 | 18.150 | 59.00 |
| Left Vomer Bone | C41.0 | 87166008 | 11.400 | 91.00 |
| Left Waldeyer Ring Lymphoid Tissue | C14.2 | 17861009 | 88.200 | 88.00 |
| Left Zygomatic Bone | C41.0 | 787058006 | 12.000 | 92.00 |
| Anterior Midline Abdomen Skin | C44.5 | 181491009 | 35.400 | 60.00 |
| Posterior Midline Back Skin | C44.5 | 66643007 | 63.600 | 75.00 |
| Midline Bladder | C67.9 | 89837001 | 87.800 | 53.00 |
| Posterior Midline Buttocks Skin | C44.5 | 22180002 | 63.600 | 53.00 |
| Anterior Midline Chest Skin | C44.5 | 74160004 | 35.400 | 75.00 |
| Anterior Midline Chin Skin | C44.3 | 281718000 | 35.400 | 87.00 |
| Anterior Midline Forehead Skin | C44.3 | 68698007 | 35.400 | 95.00 |
| Midline Gallbladder | C23.9 | 28231008 | 86.000 | 61.00 |
| Anterior Midline Genitalia Skin | C51.0, skin of vulva C51.9, skin of penis C60.9 and skin of scrotum C63.2 | 281679005 | 35.400 | 49.00 |
| Posterior Midline Genitalia Skin | C51.0, skin of vulva C51.9, skin of penis C60.9 and skin of scrotum C63.2 | 281679005 | 63.600 | 49.00 |
| Midline Heart | C38.0 | 80891009 | 87.800 | 74.00 |
| Midline Large Intestine | C18.9 | 14742008 | 87.800 | 64.00 |
| Anterior Midline Lip Skin | C44.0 | 88089004 | 35.400 | 88.50 |
| Midline Liver | C22.0 | 71133005 | 87.000 | 64.00 |
| Anterior Midline Neck Skin | C44.4 | 281720002 | 35.400 | 84.00 |
| Posterior Midline Neck Skin | C44.4 | 4658004 | 63.600 | 85.00 |
| Anterior Midline Nose Skin | C44.3 | 314394005 | 35.400 | 90.50 |
| Midline Pancreas | C25.9 | 40133006 | 87.800 | 63.00 |
| Anterior Midline Scalp Skin | C44.4 | 699900002 | 35.400 | 97.00 |
| Posterior Midline Scalp Skin | C44.4 | 61719002 | 63.600 | 94.00 |
| Midline Small Intestine | C17.9 | 30315005 | 87.800 | 59.00 |
| Midline Stomach | C16.9 | 69695003 | 89.500 | 65.00 |
| Midline Abdominal Lymphoid Tissue | C77.2 | 818991007 | 87.800 | 55.00 |
| Midline Celiac Lymphoid Tissue | C77.2 | 47985009 | 87.800 | 62.00 |
| Midline Coccyx Bone | C41.4 | 64688005 | 11.000 | 55.00 |
| Midline Ethmoid Bone | C41.0 | 119526004 | 11.000 | 95.00 |
| Midline Frontal Bone | C41.0 | 74872008 | 11.000 | 96.00 |
| Midline Hilar Lymphoid Tissue | C77.1 | 53074004 | 87.800 | 77.00 |
| Midline Hyoid Bone | C41.0 | 21387005 | 11.000 | 87.00 |
| Midline Mandible Bone | C41.1 | 91609006 | 11.000 | 87.50 |
| Midline Maxilla Bone | C41.0 | 70925003 | 11.000 | 90.50 |
| Midline Mesenteric Lymphoid Tissue | C77.2 | 279795009 | 87.800 | 59.00 |
| Midline Occipital Bone | C41.0 | 31640002 | 11.000 | 92.00 |
| Midline Ossa Coxae Bone | C41.4 | 28254004 | 11.000 | 55.00 |
| Midline Paraaortic Lymphoid Tissue | C77.2 | 245285004 | 87.800 | 59.00 |
| Midline Porta Hepatis Lymphoid Tissue | C77.2 | 61492009 | 87.800 | 64.00 |
| Midline Retroperitoneal Lymphoid Tissue | C77.2 | 91394001 | 87.800 | 61.00 |
| Midline Sacrum Bone | C41.4 | 699698002 | 11.000 | 58.00 |
| Midline Sternum Bone | C41.3 | 56873002 | 11.000 | 79.00 |
| Anterior Lateral Right Abdomen Skin | C44.5 | 699906008 | 32.000 | 60.00 |
| Anterior Midline Right Abdomen Skin | C44.5 | 181491009 | 33.000 | 60.00 |
| Right Abdomen Skin | C44.5 | 86381001 | 33.500 | 60.00 |
| Anterior Medial Right Abdomen Skin | C44.5 | 181491009 | 34.000 | 60.00 |
| Right Adrenal | C74.9 | 29392005 | 85.500 | 66.00 |
| Anterior Lateral Right Ankle Skin | C44.7 | 771125003 | 31.600 | 10.00 |
| Anterior Midline Right Ankle Skin | C44.7 | 771125003 | 32.300 | 10.00 |
| Anterior Medial Right Ankle Skin | C44.7 | 771125003 | 33.000 | 10.00 |
| Posterior Medial Right Ankle Skin | C44.7 | 771125003 | 66.000 | 10.00 |
| Posterior Midline Right Ankle Skin | C44.7 | 771125003 | 66.600 | 10.00 |
| Posterior Lateral Right Ankle Skin | C44.7 | 771125003 | 67.500 | 10.00 |
| Medial Right Back Skin | C44.5 | 66643007 | 64.750 | 75.00 |
| Midline Right Back Skin | C44.5 | 66643007 | 66.000 | 75.00 |
| Lateral Right Back Skin | C44.5 | 66643007 | 67.000 | 75.00 |
| Right Bladder | C67.9 | 119221008 | 87.000 | 53.00 |
| Medial Right Buttocks Skin | C44.5 | 723980000 | 64.750 | 53.00 |
| Midline Right Buttocks Skin | C44.5 | 723980000 | 66.000 | 53.00 |
| Posterior Lateral Right Buttocks Skin | C44.5 | 723980000 | 67.500 | 53.00 |
| Anterior Lateral Right Cheek Skin | C44.3 | 36141000 | 33.800 | 90.50 |
| Anterior Midline Right Cheek Skin | C44.3 | 36141000 | 34.000 | 90.50 |
| Anterior Medial Right Cheek Skin | C44.3 | 36141000 | 34.800 | 90.50 |
| Anterior Lateral Right Chest Skin | C44.5 | 789222004 | 31.500 | 75.00 |
| Anterior Midline Right Chest Skin | C44.5 | 789222004 | 33.000 | 75.00 |
| Anterior Medial Right Chest Skin | C44.5 | 789222004 | 34.000 | 75.00 |
| Anterior Lateral Right Chin Skin | C44.3 | 281718000 | 34.700 | 87.30 |
| Anterior Midline Right Chin Skin | C44.3 | 281718000 | 35.000 | 87.00 |
| Anterior Medial Right Chin Skin | C44.3 | 281718000 | 35.100 | 87.00 |
| Anterior Right Chin Skin | C44.3 | 281718000 | 35.500 | 87.00 |
| Anterior Lateral Right Ear Skin | C44.2 | 720985009 | 32.800 | 91.00 |
| Anterior Midline Right Ear Skin | C44.2 | 720985009 | 32.900 | 91.00 |
| Anterior Medial Right Ear Skin | C44.2 | 720985009 | 33.000 | 91.00 |
| Posterior Medial Right Ear Skin | C44.2 | 720985009 | 66.000 | 91.00 |
| Posterior Lateral Right Ear Skin | C44.2 | 720985009 | 66.100 | 91.00 |
| Anterior Lateral Right Elbow Skin | C44.6 | 770848003 | 28.000 | 68.00 |
| Anterior Right Elbow Skin | C44.6 | 770848003 | 28.750 | 66.50 |
| Anterior Midline Right Elbow Skin | C44.6 | 770848003 | 29.000 | 66.50 |
| Anterior Medial Right Elbow Skin | C44.6 | 770848003 | 29.500 | 65.00 |
| Posterior Medial Right Elbow Skin | C44.6 | 770848003 | 70.000 | 64.00 |
| Posterior Midline Right Elbow Skin | C44.6 | 770848003 | 71.000 | 64.00 |
| Posterior Lateral Right Elbow Skin | C44.6 | 770848003 | 72.000 | 64.00 |
| Anterior Lateral Right Eyebrow Skin | C44.3 | 367577003 | 34.000 | 93.20 |
| Anterior Midline Right Eyebrow Skin | C44.3 | 367577003 | 34.200 | 93.20 |
| Anterior Medial Right Eyebrow Skin | C44.3 | 367577003 | 34.800 | 93.20 |
| Anterior Lateral Right Eyelid Skin | C44.3 | 719881006 | 34.000 | 92.50 |
| Anterior Midline Right Eyelid Skin | C44.3 | 719881006 | 34.200 | 92.50 |
| Anterior Medial Right Eyelid Skin | C44.3 | 719881006 | 34.600 | 92.50 |
| Anterior Lateral Right Foot And Toes Skin | C44.7 | 761969007 | 31.000 | 5.00 |
| Anterior Midline Right Foot And Toes Skin | C44.7 | 761969007 | 31.800 | 5.00 |
| Anterior Medial Right Foot And Toes Skin | C44.7 | 761969007 | 32.500 | 5.00 |
| Posterior Midline Right Foot And Toes Skin | C44.7 | 761975003 | 68.000 | 10.00 |
| Posterior Lateral Right Foot And Toes Skin | C44.7 | 761975003 | 68.500 | 9.50 |
| Anterior Lateral Right Forearm Skin | C44.6 | 764708006 | 26.000 | 60.00 |
| Anterior Midline Right Forearm Skin | C44.6 | 764708006 | 27.000 | 60.00 |
| Anterior Medial Right Forearm Skin | C44.6 | 764708006 | 28.000 | 60.00 |
| Posterior Medial Right Forearm Skin | C44.6 | 764708006 | 70.800 | 60.00 |
| Posterior Midline Right Forearm Skin | C44.6 | 764708006 | 71.850 | 60.00 |
| Posterior Lateral Right Forearm Skin | C44.6 | 764708006 | 72.800 | 60.00 |
| Lateral Right Forehead Skin | C44.3 | 68698007 | 33.500 | 93.00 |
| Anterior Lateral Right Forehead Skin | C44.3 | 68698007 | 33.500 | 95.00 |
| Anterior Midline Right Forehead Skin | C44.3 | 68698007 | 34.200 | 95.00 |
| Anterior Medial Right Forehead Skin | C44.3 | 68698007 | 35.000 | 95.00 |
| Right Gallbladder | C23.9 | 28231008 | 85.500 | 61.00 |
| Anterior Lateral Right Genitalia Skin | C51.0, skin of vulva C51.9, skin of penis C60.9 and skin of scrotum C63.2 | 281679005 | 35.000 | 49.00 |
| Midline Right Genitalia Skin | C51.0, skin of vulva C51.9, skin of penis C60.9 and skin of scrotum C63.2 | 281679005 | 35.100 | 49.00 |
| Anterior Midline Right Genitalia Skin | C51.0, skin of vulva C51.9, skin of penis C60.9 and skin of scrotum C63.2 | 281679005 | 35.200 | 49.00 |
| Posterior Midline Right Genitalia Skin | C51.0, skin of vulva C51.9, skin of penis C60.9 and skin of scrotum C63.2 | 281679005 | 63.600 | 49.00 |
| Posterior Medial Right Genitalia Skin | C51.0, skin of vulva C51.9, skin of penis C60.9 and skin of scrotum C63.2 | 281679005 | 63.800 | 49.00 |
| Posterior Lateral Right Genitalia Skin | C51.0, skin of vulva C51.9, skin of penis C60.9 and skin of scrotum C63.2 | 281679005 | 63.900 | 49.00 |
| Anterior Lateral Right Hand And Fingers Skin | C44.6 | 782450001 | 23.000 | 50.00 |
| Anterior Midline Right Hand And Fingers Skin | C44.6 | 782450001 | 23.900 | 50.00 |
| Anterior Medial Right Hand And Fingers Skin | C44.6 | 782450001 | 24.800 | 50.00 |
| Posterior Medial Right Hand And Fingers Skin | C44.6 | 789137008 | 74.200 | 50.00 |
| Posterior Midline Right Hand And Fingers Skin | C44.6 | 789137008 | 75.100 | 50.00 |
| Posterior Lateral Right Hand And Fingers Skin | C44.6 | 789137008 | 76.000 | 50.00 |
| Right Heart | C38.0 | 79561009 | 87.000 | 74.00 |
| Right Kidney | C64.9 | 9846003 | 85.200 | 62.00 |
| Anterior Lateral Right Knee Skin | C44.7 | 726003005 | 31.300 | 28.00 |
| Anterior Midline Right Knee Skin | C44.7 | 726003005 | 32.500 | 28.00 |
| Anterior Medial Right Knee Skin | C44.7 | 726003005 | 33.500 | 28.00 |
| Posterior Medial Right Knee Skin | C44.7 | 726003005 | 65.500 | 30.00 |
| Posterior Midline Right Knee Skin | C44.7 | 726003005 | 66.500 | 30.00 |
| Posterior Lateral Right Knee Skin | C44.7 | 726003005 | 67.500 | 30.00 |
| Right Large Intestine | C18.9 | 14742008 | 84.000 | 57.00 |
| Anterior Lateral Right Lip Skin | C44.0 | 88089004 | 34.600 | 88.50 |
| Anterior Midline Right Lip Skin | C44.0 | 88089004 | 34.700 | 88.50 |
| Anterior Medial Right Lip Skin | C44.0 | 88089004 | 35.100 | 88.00 |
| Right Liver | C22.0 | 48521005 | 84.000 | 64.00 |
| Anterior Lateral Right Lower Leg (Shin And Calf) Skin | C44.7 | 723971000 | 31.500 | 19.00 |
| Anterior Midline Right Lower Leg (Shin And Calf) Skin | C44.7 | 723971000 | 32.500 | 19.00 |
| Anterior Medial Right Lower Leg (Shin And Calf) Skin | C44.7 | 723971000 | 33.100 | 19.00 |
| Posterior Medial Right Lower Leg (Shin And Calf) Skin | C44.7 | 723971000 | 65.800 | 21.00 |
| Posterior Midline Right Lower Leg (Shin And Calf) Skin | C44.7 | 723971000 | 66.600 | 21.00 |
| Posterior Lateral Right Lower Leg (Shin And Calf) Skin | C44.7 | 723971000 | 67.500 | 21.00 |
| Right Lungs | C34.9 | 3341006 | 85.000 | 74.00 |
| Anterior Lateral Right Neck Skin | C44.4 | 244104000 | 34.000 | 85.00 |
| Anterior Right Neck Skin | C44.4 | 699929000 | 34.200 | 85.00 |
| Anterior Midline Right Neck Skin | C44.4 | 699929000 | 34.500 | 85.00 |
| Anterior Medial Right Neck Skin | C44.4 | 699929000 | 35.000 | 85.00 |
| Posterior Medial Right Neck Skin | C44.4 | 699929000 | 64.000 | 85.00 |
| Posterior Midline Right Neck Skin | C44.4 | 699929000 | 64.500 | 85.00 |
| Posterior Lateral Right Neck Skin | C44.4 | 244105004 | 65.000 | 85.80 |
| Anterior Lateral Right Nose Skin | C44.3 | 244089006 | 35.000 | 90.50 |
| Anterior Medial Right Nose Skin | C44.3 | 244089006 | 35.200 | 90.50 |
| Anterior Midline Right Nose Skin | C44.3 | 314394005 | 35.500 | 90.50 |
| Right Ovary | C56.9 | 20837000 | 86.000 | 57.00 |
| Right Pancreas | C25.9 | 64163001 | 87.000 | 63.00 |
| Anterior Lateral Right Scalp Skin | C44.4 | 699900002 | 33.300 | 95.00 |
| Anterior Midline Right Scalp Skin | C44.4 | 699900002 | 34.200 | 96.00 |
| Anterior Medial Right Scalp Skin | C44.4 | 699900002 | 35.000 | 97.00 |
| Posterior Medial Right Scalp Skin | C44.4 | 61719002 | 64.000 | 94.00 |
| Posterior Midline Right Scalp Skin | C44.4 | 61719002 | 65.000 | 94.00 |
| Posterior Lateral Right Scalp Skin | C44.4 | 61719002 | 65.800 | 94.00 |
| Anterior Lateral Right Shoulder Skin | C44.6 | 771102004 | 29.500 | 79.00 |
| Anterior Midline Right Shoulder Skin | C44.6 | 771102004 | 30.125 | 79.00 |
| Anterior Medial Right Shoulder Skin | C44.6 | 771102004 | 30.750 | 79.00 |
| Posterior Medial Right Shoulder Skin | C44.6 | 771102004 | 68.000 | 79.00 |
| Posterior Midline Right Shoulder Skin | C44.6 | 771102004 | 68.700 | 79.00 |
| Posterior Lateral Right Shoulder Skin | C44.6 | 771102004 | 69.500 | 79.00 |
| Right Small Intestine | C17.9 | 30315005 | 86.000 | 59.00 |
| Right Spleen | C42.2 | 78961009 | 91.000 | 64.00 |
| Right Stomach | C16.9 | 69695003 | 88.500 | 65.00 |
| Right Testis | C62.9 | 15598003 | 87.000 | 46.00 |
| Anterior Lateral Right Upper Arm Skin | C44.6 | 788804004 | 28.500 | 71.50 |
| Anterior Midline Right Upper Arm Skin | C44.6 | 788804004 | 29.500 | 71.50 |
| Anterior Medial Right Upper Arm Skin | C44.6 | 788804004 | 30.250 | 71.50 |
| Posterior Medial Right Upper Arm Skin | C44.6 | 788804004 | 68.500 | 71.50 |
| Posterior Midline Right Upper Arm Skin | C44.6 | 788804004 | 69.500 | 71.50 |
| Posterior Lateral Right Upper Arm Skin | C44.6 | 788804004 | 70.500 | 71.50 |
| Anterior Lateral Right Upper Leg (Anterior And Posterior Thigh) Skin | C44.7 | 774101005 | 30.700 | 44.00 |
| Anterior Midline Right Upper Leg (Anterior And Posterior Thigh) Skin | C44.7 | 774101005 | 32.500 | 44.00 |
| Anterior Medial Right Upper Leg (Anterior And Posterior Thigh) Skin | C44.7 | 774101005 | 34.300 | 44.00 |
| Posterior Medial Right Upper Leg (Anterior And Posterior Thigh) Skin | C44.7 | 774101005 | 64.500 | 43.00 |
| Posterior Midline Right Upper Leg (Anterior And Posterior Thigh) Skin | C44.7 | 774101005 | 66.500 | 43.00 |
| Posterior Lateral Right Upper Leg (Anterior And Posterior Thigh) Skin | C44.7 | 774101005 | 68.000 | 43.00 |
| Anterior Lateral Right Wrist Skin | C44.6 | 244157004 | 24.800 | 55.00 |
| Anterior Midline Right Wrist Skin | C44.6 | 24527008 | 25.400 | 54.50 |
| Anterior Medial Right Wrist Skin | C44.6 | 24527008 | 25.900 | 54.00 |
| Posterior Medial Right Wrist Skin | C44.6 | 52876008 | 73.500 | 53.00 |
| Posterior Midline Right Wrist Skin | C44.6 | 52876008 | 74.100 | 53.50 |
| Posterior Lateral Right Wrist Skin | C44.6 | 244157004 | 74.500 | 54.00 |
| Right Abdominal Lymphoid Tissue | C77.2 | 818991007 | 86.500 | 55.00 |
| Right Adenoid Lymphoid Tissue | C11.1 | 781384004 | 87.300 | 88.00 |
| Right Axillary Lymphoid Tissue | C77.3 | 746224000 | 83.500 | 78.00 |
| Right Brachial Lymphoid Tissue | C77.3 | 33770006 | 82.000 | 68.00 |
| Right Calcaneus Bone | C40.3 | 722736001 | 8.600 | 11.50 |
| Right Capitate Bone | C40.1 | 764659003 | 2.500 | 52.20 |
| Right Celiac Lymphoid Tissue | C77.2 | 47985009 | 87.000 | 62.00 |
| Right Clavicle Or Collarbone Bone | C41.3 | 720616002 | 8.000 | 81.70 |
| Right Cuboid Bone | C40.3 | 764465008 | 7.800 | 10.50 |
| Right Epitrochlear Lymphoid Tissue | C77.3 | 770848003 | 81.000 | 66.00 |
| Right Ethmoid Bone | C41.0 | 119526004 | 10.800 | 95.00 |
| Right Femoral Lymphoid Tissue | C77.4 | 279802007 | 85.500 | 46.00 |
| Right Femur Bone | C40.2 | 722739008 | 7.600 | 44.00 |
| Right Fibula Bone | C40.2 | 724230007 | 7.850 | 22.00 |
| Right Foot Distal Phalange 1 Bone | C40.3 | 720660002 | 9.200 | 4.30 |
| Right Foot Distal Phalange 2 Bone | C40.3 | 720655001 | 8.800 | 4.00 |
| Right Foot Distal Phalange 3 Bone | C40.3 | 720655001 | 8.150 | 4.20 |
| Right Foot Distal Phalange 4 Bone | C40.3 | 720655001 | 7.800 | 4.50 |
| Right Foot Distal Phalange 5 Bone | C40.3 | 720655001 | 7.400 | 5.15 |
| Right Foot Middle Phalange 2 Bone | C40.3 | 720653008 | 8.800 | 4.70 |
| Right Foot Middle Phalange 3 Bone | C40.3 | 720653008 | 8.150 | 4.80 |
| Right Foot Middle Phalange 4 Bone | C40.3 | 720653008 | 7.800 | 5.00 |
| Right Foot Middle Phalange 5 Bone | C40.3 | 720653008 | 7.350 | 5.40 |
| Right Foot Proximal Phalange 1 Bone | C40.3 | 720659007 | 9.300 | 5.50 |
| Right Foot Proximal Phalange 2 Bone | C40.3 | 720651005 | 8.800 | 5.50 |
| Right Foot Proximal Phalange 3 Bone | C40.3 | 720651005 | 8.200 | 5.70 |
| Right Foot Proximal Phalange 4 Bone | C40.3 | 720651005 | 7.800 | 5.90 |
| Right Foot Proximal Phalange 5 Bone | C40.3 | 720651005 | 7.350 | 6.10 |
| Right Frontal Bone | C41.0 | 74872008 | 10.000 | 96.00 |
| Right Hamate Bone | C40.1 | 764747008 | 2.700 | 52.20 |
| Right Hand Distal Phalange 1 Bone | C40.1 | 762867008 | 0.700 | 47.80 |
| Right Hand Distal Phalange 2 Bone | C40.1 | 762865000 | 1.350 | 44.00 |
| Right Hand Distal Phalange 3 Bone | C40.1 | 762859000 | 2.280 | 43.50 |
| Right Hand Distal Phalange 4 Bone | C40.1 | 762847004 | 3.000 | 44.00 |
| Right Hand Distal Phalange 5 Bone | C40.1 | 762837002 | 3.750 | 45.20 |
| Right Hand Middle Phalange 2 Bone | C40.1 | 762863007 | 1.500 | 45.00 |
| Right Hand Middle Phalange 3 Bone | C40.1 | 762857003 | 2.290 | 44.90 |
| Right Hand Middle Phalange 4 Bone | C40.1 | 762845007 | 3.000 | 45.50 |
| Right Hand Middle Phalange 5 Bone | C40.1 | 762839004 | 3.700 | 46.20 |
| Right Hand Proximal Phalange 1 Bone | C40.1 | 762869006 | 0.800 | 49.10 |
| Right Hand Proximal Phalange 2 Bone | C40.1 | 762861009 | 1.700 | 46.80 |
| Right Hand Proximal Phalange 3 Bone | C40.1 | 762855006 | 2.300 | 47.00 |
| Right Hand Proximal Phalange 4 Bone | C40.1 | 762843000 | 3.000 | 47.10 |
| Right Hand Proximal Phalange 5 Bone | C40.1 | 762841003 | 3.600 | 47.50 |
| Right Hilar Lymphoid Tissue | C77.1 | 53074004 | 87.000 | 77.00 |
| Right Humerus Bone | C40.0 | 719461004 | 5.300 | 75.00 |
| Right Iliac Lymphoid Tissue | C77.5 | 84219008 | 87.000 | 53.00 |
| Right Ilium Bone | C41.4 | 773841005 | 8.000 | 61.00 |
| Right Incus Bone | C30.1 | 35395007 | 9.000 | 93.80 |
| Right Inferior Nasal Conchae Bone | C41.0 | 118648008 | 10.800 | 91.80 |
| Right Infraclavicular Lymphoid Tissue | C77.3 | 9659009 | 86.200 | 83.80 |
| Right Inguinal Lymphoid Tissue | C77.4 | 8928004 | 86.000 | 47.00 |
| Right Intermediate Cuneiform Bone | C40.3 | 764557007 | 8.600 | 10.60 |
| Right Ischium Bone | NA | NA | 9.500 | 53.50 |
| Right Lacrimal Bone | C41.0 | 6229007 | 10.800 | 94.00 |
| Right Lateral Cuneiform Bone | C40.3 | 764749006 | 8.200 | 10.20 |
| Right Level Iii Cervical Lymphoid Tissue | C77.0 | 245322001 | 86.300 | 85.70 |
| Right Level Ii Cervical Lymphoid Tissue | C77.0 | 245321008 | 86.200 | 87.50 |
| Right Level Iv Cervical Lymphoid Tissue | C77.0 | 245323006 | 86.200 | 85.00 |
| Right Level Vii Cervical Lymphoid Tissue | C77.0 | 127925003 | 86.200 | 84.80 |
| Right Level Vi Cervical Lymphoid Tissue | C77.0 | 168460001 | 86.200 | 85.00 |
| Right Level V Cervical Lymphoid Tissue | C77.0 | 245324000 | 86.100 | 87.40 |
| Right Lingual Tonsils Lymphoid Tissue | C02.4 | 2048000 | 87.300 | 88.00 |
| Right Lunate Bone | C40.1 | 737404009 | 2.800 | 52.20 |
| Right Malleus Bone | C30.1 | 420329002 | 9.000 | 93.80 |
| Right Mandible Bone | C41.1 | 782963001 | 10.000 | 88.50 |
| Right Maxilla Bone | C41.0 | 773936003 | 10.500 | 91.00 |
| Right Medial Cuneiform Bone | C40.3 | 764753008 | 9.200 | 10.00 |
| Right Mesenteric Lymphoid Tissue | C77.2 | 279795009 | 85.000 | 59.00 |
| Right Metacarpal 1 Bone | C40.1 | 762017002 | 1.500 | 51.50 |
| Right Metacarpal 2 Bone | C40.1 | 762035006 | 1.900 | 50.00 |
| Right Metacarpal 3 Bone | C40.1 | 762042006 | 2.400 | 50.00 |
| Right Metacarpal 4 Bone | C40.1 | 762028003 | 2.900 | 50.00 |
| Right Metacarpal 5 Bone | C40.1 | 762011001 | 3.400 | 50.20 |
| Right Metatarsal 1 Bone | C40.3 | 761979009 | 9.200 | 8.00 |
| Right Metatarsal 2 Bone | C40.3 | 737447009 | 8.800 | 8.00 |
| Right Metatarsal 3 Bone | C40.3 | 773721005 | 8.250 | 8.00 |
| Right Metatarsal 4 Bone | C40.3 | 773809004 | 7.900 | 8.00 |
| Right Metatarsal 5 Bone | C40.3 | 773810009 | 7.700 | 8.00 |
| Right Nasal Bone | C41.0 | 74386004 | 11.000 | 94.00 |
| Right Nasopharynx Lymphoid Tissue | C11.1 | 781384004 | 87.300 | 88.00 |
| Right Navicular Bone | C40.3 | 723550002 | 9.000 | 11.20 |
| Right Occipital Lymphoid Tissue | C77.0 | 3916005 | 87.000 | 89.00 |
| Right Occipital Bone | C41.0 | 787062000 | 10.500 | 92.00 |
| Right Ossa Coxae Bone | C41.4 | 28254004 | 10.800 | 55.00 |
| Right Palatine Bone | C41.0 | 51283005 | 10.500 | 91.00 |
| Right Paraaortic Lymphoid Tissue | C77.2 | 245285004 | 87.000 | 59.00 |
| Right Parietal Bone | C41.0 | 24924006 | 9.500 | 96.00 |
| Right Parotid Lymphoid Tissue | C77.0 | 85706002 | 86.600 | 88.00 |
| Right Patella Bone | C40.3 | 734210004 | 8.600 | 32.50 |
| Right Pectoral Lymphoid Tissue | C77.3 | 69691007 | 85.500 | 78.50 |
| Right Peritracheal Lymphoid Tissue | C77.1 | 127935009 | 87.400 | 82.00 |
| Right Pisiform Bone | C40.1 | 764706005 | 3.000 | 52.20 |
| Right Popliteal Lymphoid Tissue | C77.4 | 47471008 | 85.000 | 24.00 |
| Right Porta Hepatis Lymphoid Tissue | C77.2 | 61492009 | 86.000 | 64.00 |
| Right Preauricular Lymphoid Tissue | C77.0 | 25247006 | 86.400 | 89.00 |
| Right Pubis Bone | C41.4 | 734357000 | 10.800 | 55.00 |
| Right Radius Bone | C40.0 | 719465008 | 2.800 | 59.00 |
| Right Retroperitoneal Lymphoid Tissue | C77.2 | 91394001 | 86.000 | 61.00 |
| Right Rib 1 Bone | C41.3 | 48535007 | 10.000 | 80.20 |
| Right Rib 10 Bone | C41.3 | 77644006 | 8.000 | 65.80 |
| Right Rib 11 Bone | C41.3 | 58830002 | 9.000 | 70.00 |
| Right Rib 12 Bone | C41.3 | 43993008 | 7.500 | 68.00 |
| Right Rib 2 Bone | C41.3 | 78247007 | 9.000 | 79.30 |
| Right Rib 3 Bone | C41.3 | 25888004 | 9.000 | 77.50 |
| Right Rib 4 Bone | C41.3 | 25523003 | 9.000 | 75.30 |
| Right Rib 5 Bone | C41.3 | 15339008 | 9.000 | 73.10 |
| Right Rib 6 Bone | C41.3 | 59558009 | 9.000 | 71.20 |
| Right Rib 7 Bone | C41.3 | 24915002 | 9.000 | 69.60 |
| Right Rib 8 Bone | C41.3 | 5953002 | 9.000 | 68.00 |
| Right Rib 9 Bone | C41.3 | 22565002 | 8.000 | 66.50 |
| Right Scaphoid Bone | C40.1 | 724197000 | 2.200 | 53.00 |
| Right Scapula Or Shoulder Blade Bone | C40.0 | 719628000 | 6.000 | 80.00 |
| Right Sphenoid Bone | C41.0 | 73117003 | 10.500 | 95.00 |
| Right Spleen Lymphoid Tissue | C42.2 | 78961009 | 91.000 | 64.00 |
| Right Splenic Hilar Lymphoid Tissue | C77.2 | 280824006 | 90.500 | 64.00 |
| Right Stapes Bone | C30.1 | 22718006 | 9.000 | 93.80 |
| Right Submandibular Lymphoid Tissue | C77.0 | 59503006 | 87.000 | 86.60 |
| Right Submental Lymphoid Tissue | C77.0 | 46055009 | 87.300 | 85.80 |
| Right Supraclavicular Lymphoid Tissue | C77.0 | 76838003 | 86.000 | 84.00 |
| Right Talus Bone | C40.3 | 737406006 | 8.800 | 12.00 |
| Right Temporal Bone | C41.0 | 763816004 | 9.500 | 95.50 |
| Right Thymic Lymphoid Tissue | C37.9 | 9875009 | 87.400 | 76.00 |
| Right Tibia Bone | C40.2 | 719491009 | 8.600 | 22.00 |
| Right Tonsils Lymphoid Tissue | C09.9 | 1721005 | 87.300 | 88.00 |
| Right Trapezium Bone | C40.1 | 764662000 | 2.000 | 52.20 |
| Right Trapezoid Bone | C40.1 | 787048007 | 2.300 | 52.20 |
| Right Triquetral Bone | C40.1 | 764824001 | 3.000 | 52.20 |
| Right Ulna Bone | C40.0 | 719463001 | 3.500 | 59.00 |
| Right Vomer Bone | C41.0 | 87166008 | 10.500 | 91.00 |
| Right Waldeyer Ring Lymphoid Tissue | C14.2 | 17861009 | 87.300 | 88.00 |
| Right Zygomatic Bone | C41.0 | 787059003 | 10.000 | 92.00 |
| Abdomen Skin | C44.5 | 86381001 | 35.400 | 60.00 |
| Anus | C44.5 | 53505006 | 87.800 | 47.00 |
| Back Skin | C44.5 | 66643007 | 63.600 | 75.00 |
| Bladder | C67.9 | 89837001 | 87.800 | 53.00 |
| Brain | C71.9 | 12738006 | 87.800 | 95.00 |
| Buttocks Skin | C44.5 | 46862004 | 63.600 | 53.00 |
| Cerebrospinal Fluid | C72.9 | 65216001 | 87.800 | 78.00 |
| Cervix | C53.9 | 71252005 | 87.800 | 48.00 |
| Chest Skin | C44.5 | 74160004 | 35.400 | 75.00 |
| Chin Skin | C44.3 | 23747009 | 35.400 | 87.00 |
| Esophagus | C15.9 | 32849002 | 87.800 | 84.00 |
| Forehead Skin | C44.3 | 68698007 | 35.400 | 95.00 |
| Gallbladder | C23.9 | 28231008 | 86.000 | 61.00 |
| Genitalia Skin | C51.0, skin of vulva C51.9, skin of penis C60.9 and skin of scrotum C63.2 | 281679005 | 35.400 | 49.00 |
| Heart | C38.0 | 80891009 | 87.800 | 74.00 |
| Large Intestine | C18.9 | 14742008 | 87.800 | 64.00 |
| Leptomeningeal | C70.9 | 66697007 | 87.800 | 82.00 |
| Lip Skin | C44.0 | 88089004 | 35.400 | 88.50 |
| Liver | C22.0 | 10200004 | 87.000 | 64.00 |
| Nasal Mucosa | C30.0 | 34508005 | 87.800 | 91.00 |
| Neck Skin | C44.4 | 43081002 | 35.400 | 84.00 |
| Posterior Neck Skin | C44.4 | 4658004 | 63.600 | 85.00 |
| Nose Skin | C44.3 | 281714003 | 35.400 | 90.50 |
| Oral Mucosa | C06.9 | 113277000 | 87.800 | 88.00 |
| Pancreas | C25.9 | 15776009 | 87.800 | 63.00 |
| Scalp Skin | C44.4 | 43067004 | 35.400 | 97.00 |
| Posterior Scalp Skin | C44.4 | 61719002 | 63.600 | 94.00 |
| Small Intestine | C17.9 | 30315005 | 87.800 | 59.00 |
| Spinal Cord | C72.0 | 2748008 | 87.800 | 75.00 |
| Stomach | C16.9 | 69695003 | 86.500 | 65.00 |
| Vagina | C52.9 | 76784001 | 87.800 | 47.00 |
| Abdominal Lymphoid Tissue | C77.2 | 818991007 | 87.800 | 55.00 |
| Adenoid Lymphoid Tissue | C11.1 | 55940004 | 87.800 | 88.00 |
| Celiac Lymphoid Tissue | C77.2 | 47985009 | 87.800 | 62.00 |
| Cervical Vertebrae 1 Bone | C41.2 | 14806007 | 11.000 | 90.00 |
| Cervical Vertebrae 2 Bone | C41.2 | 39976000 | 11.000 | 89.00 |
| Cervical Vertebrae 3 Bone | C41.2 | 113205007 | 11.000 | 88.00 |
| Cervical Vertebrae 4 Bone | C41.2 | 5329002 | 11.000 | 87.00 |
| Cervical Vertebrae 5 Bone | C41.2 | 36978003 | 11.000 | 86.00 |
| Cervical Vertebrae 6 Bone | C41.2 | 36054005 | 11.000 | 85.00 |
| Cervical Vertebrae 7 Bone | C41.2 | 87391001 | 11.000 | 84.00 |
| Hilar Lymphoid Tissue | C77.1 | 53074004 | 87.800 | 77.00 |
| Lingual Tonsils Lymphoid Tissue | C02.4 | 2048000 | 87.800 | 88.00 |
| Lumbar Vertebrae 1 Bone | C41.2 | 66794005 | 11.000 | 67.20 |
| Lumbar Vertebrae 2 Bone | C41.2 | 14293000 | 11.000 | 65.50 |
| Lumbar Vertebrae 3 Bone | C41.2 | 36470004 | 11.000 | 63.80 |
| Lumbar Vertebrae 4 Bone | C41.2 | 11994002 | 11.000 | 62.00 |
| Lumbar Vertebrae 5 Bone | C41.2 | 49668003 | 11.000 | 60.50 |
| Mesenteric Lymphoid Tissue | C77.2 | 279795009 | 87.800 | 59.00 |
| Nasopharynx Lymphoid Tissue | C11.1 | 55940004 | 87.800 | 88.00 |
| Paraaortic Lymphoid Tissue | C77.2 | 245285004 | 87.800 | 59.00 |
| Porta Hepatis Lymphoid Tissue | C77.2 | 61492009 | 87.800 | 64.00 |
| Retroperitoneal Lymphoid Tissue | C77.2 | 91394001 | 87.800 | 61.00 |
| Spleen Lymphoid Tissue | C42.2 | 78961009 | 91.000 | 64.00 |
| Thoracic Vertebrae 1 Bone | C41.2 | 64864005 | 11.000 | 83.00 |
| Thoracic Vertebrae 10 Bone | C41.2 | 7610001 | 11.000 | 74.00 |
| Thoracic Vertebrae 11 Bone | C41.2 | 12989004 | 11.000 | 73.00 |
| Thoracic Vertebrae 12 Bone | C41.2 | 23215003 | 11.000 | 68.80 |
| Thoracic Vertebrae 2 Bone | C41.2 | 53733008 | 11.000 | 82.00 |
| Thoracic Vertebrae 3 Bone | C41.2 | 1626008 | 11.000 | 81.00 |
| Thoracic Vertebrae 4 Bone | C41.2 | 73071006 | 11.000 | 80.00 |
| Thoracic Vertebrae 5 Bone | C41.2 | 56401006 | 11.000 | 79.00 |
| Thoracic Vertebrae 6 Bone | C41.2 | 45296009 | 11.000 | 78.00 |
| Thoracic Vertebrae 7 Bone | C41.2 | 62487009 | 11.000 | 77.00 |
| Thoracic Vertebrae 8 Bone | C41.2 | 11068009 | 11.000 | 76.00 |
| Thoracic Vertebrae 9 Bone | C41.2 | 82687006 | 11.000 | 75.00 |
| Tonsils Lymphoid Tissue | C09.9 | 91636008 | 87.800 | 88.00 |
| Waldeyer Ring Lymphoid Tissue | C14.2 | 17861009 | 87.800 | 88.00 |
In addition, although BodyMapR is designed to be used with a specific anatomical image, which is incorporated into the package, the bespoke X-Y coordinate system we described above can be used to create lookup tables for any graphic. Therefore, an end user can utilize alternate images when appropriate.
CONCULSIONS
Data visualizations of clinical tumor characteristics can improve our understanding of the natural history of malignancies. Tools that streamline topographical profiling of cancer lesions from structured data collection systems are time consuming to design and require knowledge of software engineering and application development. These resources may be limited on clinical research teams and thus, customizable and freely available, web-based tools are an unmet need. BodyMapR is an open-sourced R package that is deployed as a Shiny application that can be integrated into an existing cancer research platform and produces an interactive data visualization of clinical tumor characteristics.
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