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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
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Sanford Burnham Prebys Medical Discovery Institute Resource Report Resource Website 1+ mentions |
Sanford Burnham Prebys Medical Discovery Institute (RRID:SCR_011516) | SBP, SBP Medical Discovery Institute | institution | Conducts world class collaborative research dedicated to finding cures for human disease, improving quality of life, and thus creating a legacy for its employees, partners, donors, and community. SBP is dedicated to discovering the fundamental molecular causes of disease and devising the innovative therapies of tomorrow. Has established major research programs in cancer, neurodegeneration, diabetes, and infectious, inflammatory, and childhood diseases. SBP is a U.S.-based, non-profit public benefit corporation, with operations in San Diego (La Jolla) and Orlando (Lake Nona) in Florida. | Discovering disease, disease molecular causes, innovative therapies |
is parent organization of: PMAP is parent organization of: Sanford-Burnham Medical Research Institute Labs and Facilities is parent organization of: Sanford-Burnham Neuroscience and Aging Research Center is parent organization of: TOPSAN is parent organization of: Sanford-Burnham Stem Cell Core Facility is parent organization of: Sanford-Burnham Applied Bioinformatics Core Facility is parent organization of: Sanford-Burnham Protein Production and Analysis Core is parent organization of: Sanford-Burnham Histology Core Facility at Lake Nona is parent organization of: La Jolla Interdisciplinary Neurosciences Center is parent organization of: RESP ESP charged Database is parent organization of: Joint Center for Structural Genomics is parent organization of: Sanford Burnham Prebys Medical Discovery Institute Cancer Metabolism Core Facility is parent organization of: Sanford Burnham Prebys Medical Discovery Institute Proteomics Core Facility is parent organization of: Sanford Burnham Prebys Medical Discovery Institute Flow Cytometry Core Facility |
NCI | Wikidata: Q7417591, grid.479509.6, ISNI: 0000 0001 0163 8573, nlx_144485, SCR_014876 | https://ror.org/03m1g2s55 | http://www.sanfordburnham.org/Pages/Splash.aspx | SCR_011516 | SBP Medical Discovery Institute, Sanford Burnham Prebys | 2026-08-01 12:04:10 | 1 | |||||
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Microfluidic device to attain high spatial and temporal control of oxygen Resource Report Resource Website |
Microfluidic device to attain high spatial and temporal control of oxygen (RRID:SCR_017131) | instrument resource | Device to control spatial and temporal variations in oxygen tensions to better replicate in vivo biology. Consists of three parallel connected tissue chambers and oxygen scavenger channel placed adjacent to these tissue chambers. Provides consistent control of spatial and temporal oxygen gradients in tissue microenvironment and can be used to investigate important oxygen dependent biological processes present in cancer, ischemic heart disease, and wound healing. | device, instrument, control, spatial, temporal, variation, oxygen, tension, tissue, microenvironment | NCATS UH3 TR00048; NCI R01 CA170879; NIDDK UC4 DK104202; NSF DGE-1143954 |
PMID:30571786 | SCR_017131 | 2026-08-01 12:05:53 | 0 | ||||||||||
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Moffitt Cancer Center Resource Report Resource Website 1+ mentions |
Moffitt Cancer Center (RRID:SCR_008730) | Moffitt | institutional portal | H. Lee Moffitt Cancer Center & Research Institute has made a lasting commitment to the prevention and cure of cancer, working tirelessly in the areas of patient care, research and education to advance one step further in fighting this disease. As part of an elite group of National Cancer Institute (NCI) Comprehensive Cancer Centers, Moffitt focuses on the development of early stage translational research aimed at the rapid translation of scientific discoveries to benefit patient care. Since the first patient admission in October 1986, Moffitt physicians, scientists and staff members have worked together to establish a tradition of excellence offered in an atmosphere characterized by kindness, caring and hope. The Cancer Center''s future growth in clinical care and research rests firmly on this tradition and makes possible the changes ahead. The mission of Moffitt Cancer Center is to contribute to the prevention and cure of cancer. Moffitt''s vision is to be the leader in scientific discovery and translation into compassionate care, cures, and prevention of cancer for our community and the world. As it grows to fulfill its mission, the Cancer Center will continue to be distinguished by its compassionate and effective patient care. Moffitt Cancer Center is a not-for-profit institution. It includes private patient rooms, the Southeast''s largest Blood and Marrow Transplant Program, outpatient treatment programs that record more than 320,500 visits a year, the Moffitt Research Center, Moffitt Cancer Center at International Plaza and the Lifetime Cancer Screening & Prevention Center. | cancer, human |
has parent organization: University of South Florida; Florida; USA is parent organization of: Moffitt Cancer Center Tissue Core is parent organization of: Moffitt Cancer Center Proteomics and Metabolomics Core Facility is parent organization of: Moffitt Cancer Center Tissue Core Facility is parent organization of: Moffitt Cancer Center Small Animal Imaging Laboratory Core Facility is parent organization of: Moffitt Cancer Center Molecular Genomics Core Facility is parent organization of: Moffitt Cancer Center Molecular Genomics Core Facility |
NCI | nlx_143722 | SCR_008730 | H. Lee Moffitt Cancer Center and Research Institute, H. Lee Moffitt Cancer Center & Research Institute | 2026-08-01 12:03:51 | 3 | |||||||
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Dana-Farber Cancer Institute Resource Report Resource Website 1+ mentions |
Dana-Farber Cancer Institute (RRID:SCR_003040) | DFCI | institution |
Cancer institute that provides expert, compassionate care to children and adults with cancer while advancing the understanding, diagnosis, treatment, cure, and prevention of cancer and related diseases. As an affiliate of Harvard Medical School and a Comprehensive Cancer Center designated by the National Cancer Institute, the Institute also provides training for new generations of physicians and scientists, designs programs that promote public health particularly among high-risk and underserved populations, and disseminates innovative patient therapies and scientific discoveries to their target community across the United States and throughout the world. |
child, adult human, pediatric, young human |
has parent organization: Harvard Medical School; Massachusetts; USA is parent organization of: Spotfinder is parent organization of: TM4 Microarray Software Suite - TIGR MultiExperiment Viewer is parent organization of: Gene Index Project is parent organization of: CistromeMap is parent organization of: BINOCh is parent organization of: Dana Farber Tissue Bank is parent organization of: CistromeFinder is parent organization of: TM4 is parent organization of: WorfDB is parent organization of: Predictive Networks is parent organization of: RamiGO is parent organization of: DFCI Animal Resources Facility is parent organization of: DFCI Biohazard Containment Core Facility is parent organization of: DFCI Biospecimen Repository Core Facility is parent organization of: DFCI Blais Proteomics Center is parent organization of: DFCI Clinical Research Laboratory is parent organization of: DFCI Survey and Data Management Core is parent organization of: DFCI Flow Cytometry Core Facility is parent organization of: DFCI Medical Arts Core Facility is parent organization of: DFCI Microarray Core Facility is parent organization of: Dana-Farber Cancer Institute Molecular Biology Core Facility is parent organization of: DFCI RNA Interference Screening Facility is parent organization of: DFCI Shannon McCormack Advanced Molecular Diagnostics Laboratory is parent organization of: MAnorm is parent organization of: NPS is parent organization of: DFCI Confocal and Light Microscopy Core Facility is parent organization of: DFCI Monoclonal Antibody Core Facility is parent organization of: Dana-Farber Cancer Institute Labs and Facilities is parent organization of: DFCI Center for Cancer Computational Biology is parent organization of: GeneSigDB is parent organization of: MACS is parent organization of: DGAP |
Cancer | NCI ; Jimmy Fund |
Free, Freely available | Crossref funder ID: 100007886, grid.65499.37, Wikidata: Q1159198, ISNI: 0000 0001 2106 9910, nif-0000-30432 | https://ror.org/02jzgtq86 | SCR_003040 | Dana Farber Cancer Institute, Dana-Farber | 2026-08-01 12:02:16 | 6 | ||||
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Proteome Commons Tranche repository Resource Report Resource Website 1+ mentions |
Proteome Commons Tranche repository (RRID:SCR_003441) | Tranche | software resource | A distributed file storage system that you can upload files to and download files from. All files uploaded to the repository are replicated several times to protect against their accidental loss. Files uploaded to the repository can be of any size, can be of any file type, and can be encrypted with a passphrase of your choosing. The Proteome Commons Tranche repository is the first instance of a Tranche repository. Tranche, was created so that anybody can take it and make their own Tranche repository. This is the first implementation of the Tranche software, and is useful as a test bed for the software. This repository relies on educational institutions to provide the hardware and facilities for Tranche servers. While we maintain a set of servers, the continued growth of this public resource will rely on the generosity of the institutions that use the repository most. | proteome, storage, proteomics, distributed, server, mass spectrometry, protein, peptide, file sharing, security |
is listed by: Biositemaps has parent organization: University of Michigan; Ann Arbor; USA has parent organization: Proteome Commons |
NCI ; Clinical Proteomics Technologies for Cancer ; NCRR P41-RR018627 |
PMID:21063945 PMID:20356086 |
Open unspecified license (Apache v2); registration required . See Terms of Use, Https://proteomecommons.org/terms.jsp | nif-0000-33195 | http://tranche.proteomecommons.org | SCR_003441 | Tranche Project | 2026-08-01 12:02:30 | 8 | ||||
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Central Brain Tumor Registry of the United States Resource Report Resource Website 10+ mentions |
Central Brain Tumor Registry of the United States (RRID:SCR_008748) | CBTRUS | nonprofit organization | Voluntary, non-profit organization dedicated to collecting and disseminating statistical data. Resource for gathering and disseminating epidemiologic data on all primary benign and malignant brain and other CNS tumors. | human, brain, tumor, cancer, central nervous system, epidemiology, incidence, survival, diagnosis, treatment, benign, malignant, registry, epidemiological data, aggregator, clinical, statistics, population, histology, age, gender, race, hispanic, mortality | Brain tumor, Aging | American Brain Tumor Association ; National Brain Tumor Society ; Pediatric Brain Tumor Foundation ; NCI contract HHSN261201000576P |
PMID:23095881 | Application required., The community can contribute to this resource | grid.492337.8, ISNI: 0000 0004 0484 2205, nlx_143889 | https://ror.org/03849s113 | SCR_008748 | 2026-08-01 12:03:52 | 26 | |||||
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JaBba Resource Report Resource Website 1+ mentions |
JaBba (RRID:SCR_027134) | software resource, software application | Software tool to infer junction-balanced genome graphs with high fidelity. Builds genome graph based on junctions and read depth from whole genome sequencing, inferring optimal copy numbers for both vertices (DNA segments) and edges (bonds between segments). | Builds genome graph, junctions and read depth, infer junction-balanced genome graphs, whole genome sequencing, inferring optimal copy numbers, vertices and edges, DNA segments, bonds between segments, | NCI P01 CA91955; NCI P30 CA015704 |
PMID:33007263 | Free, Available for download, Freely available, | SCR_027134 | Junction Balance Analysis | 2026-08-01 12:14:08 | 1 | ||||||||
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bam readcount Resource Report Resource Website 10+ mentions |
bam readcount (RRID:SCR_023653) | software resource, software application | Software tool that runs on BAM or CRAM file and generates low level information about sequencing data at specific nucleotide positions. Its outputs include observed bases, readcounts, summarized mapping and base qualities, strandedness information, mismatch counts, and position within the reads. | BAM file, CRAM file, sequencing data, nucleotide positions, | NCI R50CA211782; NCI P01CA101937; NCI K22CA188163; NCI 1U01CA209936; NCI U24CA237719; Edward P. Evans Foundation ; NHGRI R00 HG007940 |
PMID:34341766 | Free, Available for download, Freely available | SCR_023653 | bam-readcount | 2026-08-01 12:11:14 | 22 | ||||||||
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Adenoma Polyp Tissue Bank Resource Report Resource Website |
Adenoma Polyp Tissue Bank (RRID:SCR_005366) | APTB | biomaterial supply resource, material resource | THIS RESOURCE IS NO LONGER IN SERVICE, documented August 29, 2016. The Adenoma Polyp Tissue Bank (APTB) receives whole blood from patients enrolled in the Prevention of Sporadic Colorectal Adenomas with Celecoxib clinical trial. We have reached our accrual on blood submissions, so we will no longer be receiving blood specimens The objectives of this trial are as follows: A. To determine the efficacy and safety of celecoxib versus placebo in preventing the occurrence of newly detected colorectal adenomas in subjects at increased risk for colorectal carcinoma. In addition to incidence, other established risk factors will be evaluated for their association with occurrence of new colorectal adenomas, including cancer family history and adenoma size, histopathologic grade, multiplicity and location. Primary assessment of treatment efficacy will be the reduction in the number of subjects with adenomas at colonoscopy after Year 1 and Year 3 of study drug use. Secondary assessments of treatment efficacy will be 1) the number of adenomas 2) the histopathologic grade of adenomas and 3) the size of adenomas, also measured after one year and three years of study drug use. These factors will be incorporated into a risk model for predicting adenoma occurrence and response to celecoxib. B. To determine the efficacy of celecoxib versus placebo in modulating one or more of a panel of biomarkers for colorectal cancer at the cellular and molecular level sampled in a subset of subjects at selective sites at baseline and after Year 1 and Year 3 of study drug use. These biomarkers will include measurements of aberrant crypt foci (ACF), proliferation (index and crypt distribution), apoptosis (index and crypt distribution), COX expression and activity. If modulation of one or more mucosal biomarkers occur, we will explore whether it correlates with the development of incident colorectal neoplasia (adenomas/carcinomas), thereby attempting to validate the surrogacy of that biomarker. C. To develop a specimen bank. Serum and white blood cells are isolated from whole blood and adenoma tissue blocks and slides are banked. Banked specimens will become available for use in correlative science studies at a later point. This project began in 1999 and will be extended through 2006. The lead principal investigator is Monica M. Bertagnolli, MD, Brigham and Women''s Hospital, Boston, MA, and the APTB Director is Scott Jewell, Ph.D., Department of Pathology, The Ohio State University. The APTB is supported by the NIH, NCI Division of Cancer Prevention, in connection with the Strang Cancer Prevention Center, Cornell University, New York., THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025. | blood, serum, white blood cell, adenoma tissue, tissue, whole blood, block, slide, colorectal adenoma, celecoxib, adenoma, cancer, colorectal cancer, clinical trial, polyp, risk factor |
is listed by: One Mind Biospecimen Bank Listing has parent organization: Human Tissue Resource Network has parent organization: Human Tissue Resource Network |
Increased risk for colorectal carcinoma | NCI | THIS RESOURCE IS NO LONGER IN SERVICE | nlx_144435 | SCR_005366 | APTB Specimen Bank | 2026-08-01 12:10:48 | 0 | |||||
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somalier Resource Report Resource Website |
somalier (RRID:SCR_028167) | software resource, software application | Software application for rapid relatedness estimation for cancer and germline studies using efficient genome sketches extract informative sites, evaluate relatedness, and perform quality-control on BAM/CRAM/BCF/VCF/GVCF. Used for rapid relatedness estimation for cancer and germline studies using efficient genome sketches. | rapid relatedness estimation, cancer and germline studies, efficient genome sketches, quality control, | NHGRI R41HG010126; NHGRI R01HG009141; NCI U24CA209999; NCI R37CA246183; NCI P30CA04014 |
PMID:32664994 | Free, Available for download, Freely available | SCR_028167 | Somalier | 2026-08-01 12:14:23 | 0 | ||||||||
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Spectroscopic Imaging, VIsualization, and Computing (SIVIC) Resource Report Resource Website |
Spectroscopic Imaging, VIsualization, and Computing (SIVIC) (RRID:SCR_027875) | SIVIC | software resource, software application | Software framework and application suite for processing and visualization of DICOM MR Spectroscopy data. Through the use of DICOM, SIVIC aims to facilitate the application of MRS in medical imaging studies. | DICOM MR Spectroscopy Workflows, data processing, data visualization, DICOM MR spectroscopy data, | NCI RO1 CA127612; NCI P01 CA11816; NIBIB P41EB013598 |
PMID:23970895 | Free, Available for download, Freely available | SCR_027875 | 2026-08-01 12:14:39 | 0 | ||||||||
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Karmanos Cancer Institute Resource Report Resource Website |
Karmanos Cancer Institute (RRID:SCR_000508) | Karmanos | data or information resource, portal | Center for patient care, education and research on cancer. The institute focuses its research on prevention methods, early detection, treatment and finding cures. | cancer, research, education, prevention, early detection, treatment, patient, care |
has parent organization: Wayne State University; Michigan; USA is parent organization of: JP McCarthy Cord Stem Cell Bank |
Cancer | NCI | Public | nlx_143656 | SCR_000508 | Karmanos Cancer Center, Barbara Ann Karmanos Cancer Institute, Barbara Ann Karmanos Cancer Center | 2026-08-02 09:02:54 | 0 | |||||
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DCTD Resource Report Resource Website 10+ mentions |
DCTD (RRID:SCR_004196) | DCTD | funding resource, data or information resource, portal | Division of NCI that takes prospective cancer detection and treatment leads, facilitates their paths to clinical application, and expedites the initial and subsequent large-scale testing of new agents, biomarkers, imaging tests, and other therapeutic interventions (radiation, surgery, immunotherapy) in patients. DCTD, like all of NCI, supports many programs that could not be done without government funding - investigators supported by the division engage in scientifically sound, high-risk research that may yield great benefits for patients with cancer, but are too difficult or risky for industry or academia to pursue. This includes a particular emphasis on the development of distinct molecular signatures for cancer, refined molecular assays, and state-of-the-art imaging techniques that will guide oncologic therapy in the future. The division has eight major programs that work together to bring unique molecules, diagnostic tests, and therapeutic interventions from the laboratory bench to the patient bedside: * Cancer Diagnosis Program * Cancer Imaging Program * Cancer Therapy Evaluation Program * Developmental Therapeutics Program * Radiation Research Program * Translational Research Program * Biometrics Research Branch * Office of Cancer Complementary and Alternative Medicine | treatment, diagnosis, molecule, diagnostic test, therapeutic intervention |
is listed by: OMICtools has parent organization: National Cancer Institute is parent organization of: CDP |
Cancer | NCI | OMICS_01537 | SCR_004196 | Division of Cancer Treatment and Diagnosis | 2026-08-02 09:04:04 | 18 | ||||||
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CytoTRACE Resource Report Resource Website 100+ mentions |
CytoTRACE (RRID:SCR_022828) | simulation software, software resource, software application | Software tool that predicts differentiation state of cells from single cell RNA sequencing data. Used for predicting differentiation states from scRNA-seq data. | differentiation state of cells, single cell RNA sequencing data, predicting differentiation states, scRNA-seq data | NCI R00CA187192; NCI R01CA100225; Stinehart Reed foundation ; Stanford Bio-X Interdisciplinary Initiatives Seed Grants Program ; Virginia and D.K. Ludwig Fund for Cancer Research ; U.S. Department of Defense ; National Science Foundation Graduate Research Fellowship ; Stanford Bio-X Bowes Graduate Student Fellowship ; Stanford Medical Science Training Program |
PMID:31974247 | Free, Freely available | SCR_022828 | Cellular (Cyto) Trajectory Reconstruction Analysis using gene Counts and Expression | 2026-08-02 09:08:32 | 132 | ||||||||
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Harvard Medical School Center for Cancer Systems Pharmacology Resource Report Resource Website |
Harvard Medical School Center for Cancer Systems Pharmacology (RRID:SCR_022831) | CCSP | organization portal, data or information resource, portal | Center includes studies for responsiveness and resistance to anti cancer drugs. Committed to training students and postdocs, promoting junior faculty and ensuring that data and software are reproducible, reliable and publicly accessible. Member of National Cancer Institute’s Cancer Systems Biology Consortium. | anti cancer drugs, responsiveness and resistance, National Cancer Institute, Systems Biology Consortium. | has parent organization: Harvard University; Cambridge; United States | Cancer, Melanoma, Triple negative breast cancer (TNBC), Glioblastoma multiforme (GBM) | NCI U54 CA225088 | Free, Freely available | SCR_022831 | Center for Cancer Systems Pharmacology | 2026-08-02 09:08:32 | 0 | ||||||
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Robot Reviewer Resource Report Resource Website 1+ mentions |
Robot Reviewer (RRID:SCR_018961) | text extraction software, software resource, software application | Software tool as machine learning system that automatically assesses bias in clinical trials. From PDF formatted trial report determines risks of bias for domains defined by Cochrane Risk of Bias (RoB) tool, and extracts supporting text for these judgments. | Automated review, data mining, manuscript screening, artificial intelligence, automatic evidence synthesis, evidence synthesis, trial conduct information, data trial, bias, bias assessement | NLM R01 LM012086; NCI UH2 CA203711; UK Medical Research Council |
PMID:26104742 | Free, Freely available | SCR_018961 | 2026-08-02 09:07:54 | 5 | |||||||||
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DeepNeuro Resource Report Resource Website 1+ mentions |
DeepNeuro (RRID:SCR_016911) | software toolkit, software resource | Software Python package for neuroimaging data. Framework to design and train neural network architectures. Used in medical imaging community to ensure consistent performance of networks across variable users, institutions, and scanners. | Design and train neural network architectures, medical imaging, neuroimaging data, neuroimaging |
uses: Python Programming Language is related to: Massachusetts General Hospital has parent organization: Harvard University; Cambridge; United States |
NIDA T90 DA022759; NIDA R90 DA023427; NIH Blueprint for Neuroscience Research ; NIBI ; NIBIB T32 EB1680; NCI U01 CA154601; NCI U24 CA180927; NCI U24 CA180918; NIBIB P41 EB015896 |
PMID:32578020 | Free, Available for download, Freely available | SCR_016911 | 2026-08-02 09:07:34 | 2 | ||||||||
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SYGNAL Resource Report Resource Website 1+ mentions |
SYGNAL (RRID:SCR_023080) | software toolkit, software resource | Software pipeline to integrate correlative, causal and mechanistic inference approaches into unified framework that systematically infers causal flow of information from mutations to TFs and miRNAs to perturbed gene expression patterns across patients. Used to decipher transcriptional regulatory networks from multi-omic and clinical patient data. Applicable for integrating genomic and transcriptomic measurements from human cohorts. | Integrating genomic and transcriptomic measurements, human cohorts, transcriptional regulatory networks, integrate correlative, causal and mechanistic inference, unified framework, infers causal flow of information, mutations to TFs, miRNAs to perturbed gene expression patterns across patients, | NIGMS P50GM076547; NIGMS R01GM077398; NSF ABI NSF-1262637; NSF DBI-0640950; NCI U24CA143835; American Cancer Society Research Scholar Grant |
PMID:27426982 | Free, Available for download, Freely available | SCR_023080 | SYstems Genetic Network AnaLysis | 2026-08-02 09:08:50 | 1 | ||||||||
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mtradeR Resource Report Resource Website |
mtradeR (RRID:SCR_022977) | software toolkit, software resource | Software R package implements Joint model with Matching and Regularization and simulation pipeline. Used to test association between taxa and disease risk, and adjusted for correlated taxa screened by pre-selection procedure in abundance and prevalence, individually. | test association between taxa and disease risk, correlated taxa screening, taxa and disease risk | NIDDK U24DK097771; NCI CA21765; American Lebanese Syrian Associated Charities |
PMID:36123651 | Free, Available for download, Freely available | SCR_022977 | Metagenomic TRajectory Analysis with Disease Endpoint and Risk factors | 2026-08-02 09:08:34 | 0 | ||||||||
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SCRuB Resource Report Resource Website 1+ mentions |
SCRuB (RRID:SCR_023518) | software toolkit, software resource | Software R package to help researchers address common issue of contamination in microbial studies. Well aware MiSeq decontamination program. | Source tracking, contamination removal, microBiomes, MiSeq decontamination, contamination in microbial studies, | Rockefeller University ; Columbia University ; CIFAR Azrieli Global Scholarship ; NICHD R01HD106017; NCI R01CA245894 |
PMID:36928429 | Free, Available for download, Freely available | SCR_023518 | Source-tracking for Contamination Removal in microBiomes, Source tracking for Contamination Removal in microBiomes | 2026-08-02 09:08:47 | 1 |
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