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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
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Skyline Resource Report Resource Website 1000+ mentions |
Skyline (RRID:SCR_014080) | data analysis software, data processing software, software application, software resource | Software tool as Windows client application for targeted proteomics method creation and quantitative data analysis. Open source document editor for creating and analyzing targeted proteomics experiments. Used for large scale quantitative mass spectrometry studies in life sciences. | Proteomics, SRM, MRM, DDA, DIA, shotgun, mass, spectrometry, data, analysis, quantitative |
uses: MSstats is related to: ProteoWizard has parent organization: University of Washington; Seattle; USA works with: PanoramaWeb |
NCI U24 CA126479; NCRR P41 RR011823; NHLBI R01 HL082747; NIA P30 AG013280; NIDDK R01 DK069386 |
PMID:20147306 | Free, Available for download, Freely available | SCR_014080 | 2026-09-12 12:58:12 | 3040 | ||||||||
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Tscratch Resource Report Resource Website 10+ mentions |
Tscratch (RRID:SCR_014282) | data analysis software, data processing software, image analysis software, software application, software resource, standalone software | Software tool for automated analysis of monolayer wound healing assays. Available as a stand alone application for Macintosh and Windows and as a source code. Offers a graphical user interface for inspection of analysis results and manual modification of analysis parameters., THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025. | analyze, wound, scratch, healing, assay, cell, migration, monolayer |
uses: MATLAB has parent organization: ETH Zurich; Zurich; Switzerland |
Austrian Science Foundation ; Cancer League Zurich ; Commission of the European Communities ; NCCR CO-ME ; NCI CA69184; Swiss National Fund |
PMID:19450233 | THIS RESOURCE IS NO LONGER IN SERVICE | https://github.com/cselab/TScratch | SCR_014282 | 2026-09-12 12:58:15 | 48 | |||||||
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MUSC DNA Microarray Database Resource Report Resource Website 1+ mentions |
MUSC DNA Microarray Database (RRID:SCR_010977) | microArrayDB, ��ArrayDB | data or information resource, data repository, database, service resource, storage service resource | Database that is a repository for DNA microarray data generated by MUSC investigators as well as researchers in the global research community. | gene expression, dna microarray |
is listed by: OMICtools is related to: ArrayQuest has parent organization: Medical University of South Carolina; South Carolina; USA |
University Research Resource Foundation ; NCI R24CA095841; NCRR P20RR016434 |
PMID:14668234 | Public, The community can contribute to this resource | OMICS_00868 | SCR_010977 | MUSC DNA Microarray Database and Project Management System, Medical University of South Carolina DNA Microarray Project Management System and the MUSC DNA Microarray Database, MUSC DNA Microarray Project Management System and MUSC DNA Microarray Database, ��ArrayDB, Medical University of South Carolina DNA Microarray Database | 2026-09-12 12:57:27 | 1 | |||||
|
GeneTests Resource Report Resource Website 10+ mentions |
GeneTests (RRID:SCR_010725) | GeneTests | analysis service resource, biomaterial analysis service, data or information resource, database, material analysis service, narrative resource, portal, production service resource, service resource, topical portal, training material | The GeneTests Web site, a publicly funded medical genetics information resource developed for physicians, other healthcare providers, and researchers, is available at no cost to all interested persons. By providing current, authoritative information on genetic testing and its use in diagnosis, management, and genetic counseling, GeneTests promotes the appropriate use of genetic services in patient care and personal decision making. At This Site: * GeneReviews: Expert-authored peer-reviewed disease descriptions * Laboratory Directory: International directory of genetic testing laboratories * Clinic Directory: International directory of genetics and prenatal diagnosis clinics * Educational Materials: Illustrated glossary, information on genetic services, PowerPoint presentations, annotated Internet resources We comply with the HONcode standard for trustworthy health information. |
has parent organization: University of Washington; Seattle; USA has parent organization: NCBI |
NCI ; NHGRI 1 P41 LM/HG 06029; NLM 1 P41 LM/HG 06029; NLM contract N01-LM-4-3505; NLM 5 P41 LM07242; NLM 2 P41 LM 06001; DOE DE-FG03-02ER63301/A00 |
nlx_94696 | SCR_010725 | GeneTests: Clinical Genetic Information Resource | 2026-09-12 12:57:22 | 12 | ||||||||
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Stitchr Resource Report Resource Website 1+ mentions |
Stitchr (RRID:SCR_022139) | data analysis software, data processing software, sequence analysis software, software application, software resource | Software Python tool for stitching coding T cell receptors nucleotide sequences from V,J,CDR3 information. Produces complete coding sequences representing fully spliced TCR cDNA given minimal V,J,CDR3 information. | Stitch together coding TCR nucleotide sequences, Python, T cell receptors nucleotide, V and J gene symbols, hypervariable CDR3 amino acid sequence, fully spliced TCR cDNA | Emily Venanzi Fund ; NCI R01 CA164273; NCI R43 CA232942; NIAID R43 AI120313 |
PMID:35325179 | Free, Available for download, Freely available | SCR_022139 | 2026-09-12 01:00:05 | 3 | |||||||||
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Physician Data Query Resource Report Resource Website 1+ mentions |
Physician Data Query (RRID:SCR_006833) | PDQ | clinical trial, controlled vocabulary, data or information resource, database, ontology, people resource, registry | NCI''s comprehensive cancer database that contains summaries on a wide range of cancer topics; a registry of 8,000+ open and 19,000+ closed cancer clinical trials from around the world; a directory of professionals who provide genetics services; the NCI Dictionary of Cancer Terms, with definitions for 6,800+ cancer and medical terms; and the NCI Drug Dictionary, which has information on 2,300+ agents used in the treatment of cancer or cancer-related conditions. The PDQ cancer information summaries are peer reviewed and updated monthly by six editorial boards comprised of specialists in adult treatment, pediatric treatment, supportive care, screening and prevention, genetics, and complementary and alternative medicine. The Boards review current literature from more than 70 biomedical journals, evaluate its relevance, and synthesize it into clear summaries. Many of the summaries are also available in Spanish. | adult, pediatric, child, alternative, breast, clinical trial, colorectal, hypercalcemia, legal, lung, medicine, medullary, nausea, ovarian, pain, pathophysiology, pediatric, pharmaceutical, physician, prevention, prognosis, prostate, psychosocial, query, risk factor, screening, social, syndrome, thyroid, treatment, umls, genetics, medical, drug, peer review |
is listed by: BioPortal has parent organization: National Cancer Institute |
Cancer, Cancer-related condition | NCI | nif-0000-21318 | SCR_006833 | PDQ - NCI''s Comprehensive Cancer Database | 2026-09-12 01:00:12 | 2 | ||||||
|
Synapse Resource Report Resource Website 1000+ mentions |
Synapse (RRID:SCR_006307) | Synapse | data or information resource, data repository, database, service resource, storage service resource | A cloud-based collaborative platform which co-locates data, code, and computing resources for analyzing genome-scale data and seamlessly integrates these services allowing scientists to share and analyze data together. Synapse consists of a web portal integrated with the R/Bioconductor statistical package and will be integrated with additional tools. The web portal is organized around the concept of a Project which is an environment where you can interact, share data, and analysis methods with a specific group of users or broadly across open collaborations. Projects provide an organizational structure to interact with data, code and analyses, and to track data provenance. A project can be created by anyone with a Synapse account and can be shared among all Synapse users or restricted to a specific team. Public data projects include the Synapse Commons Repository (SCR) (syn150935) and the metaGenomics project (syn275039). The SCR provides access to raw data and phenotypic information for publicly available genomic data sets, such as GEO and TCGA. The metaGenomics project provides standardized preprocessed data and precomputed analysis of the public SCR data. | data sharing, collaboration, data management, analysis, genome, phenotype, crowd sourcing, open data, provenance, resource management, annotation, authoring, markup, r, python, java, command-line, cloud, FASEB list |
is used by: NF Data Portal is listed by: FORCE11 is listed by: DataCite is listed by: re3data.org is related to: clearScience is related to: Exemplar Microscopy Images of Tissues has parent organization: Sage Bionetworks |
Cancer, Normal, Cardiovascular disease, Floppy hat syndrome | Life Sciences Discovery Fund ; NCI ; NHLBI ; Alfred P. Sloan Foundation |
The community can contribute to this resource | nlx_151983, DOI:10.17616/R3B934, r3d100011894, DOI:10.7303 | https://doi.org/10.17616/R3B934, https://doi.org/10.48550/arxiv.1506.00272, https://doi.org/10.7303/, https://dx.doi.org/10.7303, https://doi.org/10.17616/R3B934 | SCR_006307 | 2026-09-12 01:00:12 | 1104 | |||||
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DESeq2 Resource Report Resource Website 10000+ mentions |
DESeq2 (RRID:SCR_015687) | data analysis software, data processing software, software application, software resource, software tool | Software package for differential gene expression analysis based on the negative binomial distribution. Used for analyzing RNA-seq data for differential analysis of count data, using shrinkage estimation for dispersions and fold changes to improve stability and interpretability of estimates. | differential, gene, expression, analysis, binominal, distribution, RNA-seq data, Bioconductor, bio.tools |
is used by: Glimma is used by: TEtranscripts is listed by: Bioconductor is listed by: bio.tools is listed by: Debian is listed by: SoftCite is related to: SARTools works with: tximport |
European Union’s 7th Framework Programme ; International Max Planck Research School for Computational Biology and Scientific Computing ; NCI T32 CA009337 |
Free, Available for download, Freely available | biotools:deseq2 | https://github.com/mikelove/DESeq2, https://bio.tools/deseq2 | SCR_015687 | 2026-09-12 01:00:17 | 50789 | |||||||
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StringTie Resource Report Resource Website 1000+ mentions |
StringTie (RRID:SCR_016323) | data analysis software, data processing software, sequence analysis software, software application, software resource | Software application for assembling of RNA-Seq alignments into potential transcripts. It enables improved reconstruction of a transcriptome from RNA-seq reads. This transcript assembling and quantification program is implemented in C++ . | assembling, RNA, sequence, transcript, gene, alignment, reconstruction, read, analysis, process, bio.tools |
is listed by: bio.tools is listed by: Debian is listed by: OMICtools |
NCI R01 CA120185; NCI R01 CA134292; NHGRI R01 HG006102; NHGRI R01 HG006677; NIGMS R01 GM105705; the Cancer Prevention and Research Institute of Texas |
PMID:25690850 DOI:10.1038/nbt.3122 |
Open source, Free, Freely available, Available for download | biotools:stringtie, OMICS_07226 | https://github.com/gpertea/stringtie, https://bio.tools/stringtie, https://sources.debian.org/src/stringtie/ | SCR_016323 | 2026-09-12 01:00:18 | 4976 | ||||||
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Mouse Tumor Biology Database Resource Report Resource Website 1+ mentions |
Mouse Tumor Biology Database (RRID:SCR_006517) | MTB | data or information resource, database | Database supports use of mouse model system for human cancer by providing comprehensive resource for data and information on various tumor models. | endogenous, knock out mouse, hybrid, inbred mouse strain, induced, mouse, mutant, pathology, tumor, gene, organ, strain, genetics, pathology, image, gene expression |
is related to: Mouse Genome Informatics (MGI) has parent organization: Jackson Laboratory |
Cancer, Tumor, Hereditary cancer | NCI CA089713 | PMID:18432250 PMID:21282667 |
The community can contribute to this resource, Acknowledgement requested, For research and educational purposes, Non-commercial, Without the prior express written permission | nif-0000-03163, SCR_017516 | http://tumor.informatics.jax.org/mtbwi/index.do | SCR_006517 | MGI: MTB Database, Mouse Tumor Biology (MTB) Database, MTB Database, MTB: Mouse Tumor Biology Database | 2026-09-12 01:01:43 | 9 | |||
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NCI Breast and Colon Cancer Family Registries Resource Report Resource Website 1+ mentions |
NCI Breast and Colon Cancer Family Registries (RRID:SCR_006664) | Breast and Colon CFR | biomaterial supply resource, material resource, tissue bank | The Breast Cancer Family Registry (Breast CFR) and the Colon Cancer Family Registry (Colon CFR) were established by the National Cancer Institute (NCI) as a unique resource for investigators to use in conducting studies on the genetics and molecular epidemiology of breast and colon cancer. Known collectively as the CFRs, they share a central goal: the translation of research to the clinical and prevention settings for the benefit of Registry participants and the general public. The CFRs are particularly interested in: * Identifying and characterizing cancer susceptibility genes; * Defining gene-gene and gene-environment interactions in cancer etiology; and * Exploring the translational, preventive, and behavioral implications of research findings. The CFRs do not provide funding for studies; however, researchers can apply to access CFR data and biospecimens contributed by thousands of families from across the spectrum of risk for these cancers and from population-based or relative controls. Special features of the CFRs include: * Population-based and clinic-based ascertainment; * Systematic collection of validated family history; * Epidemiologic risk factor , clinical, and followup data; * Biospecimens (including tumor blocks and Epstein-Barr virus (EBV)-transformed cell lines); * Ongoing molecular characterization of the participating families; and * A combined informatics center. | breast, colon, breast cancer, colon cancer, biospecimen, tumor block, epstein-barr virus-transformed cell line, cell line, cancer, tumor |
is listed by: One Mind Biospecimen Bank Listing has parent organization: National Cancer Institute |
Breast cancer, Colon cancer, Cancer, Tumor | NCI | Public: Researchers can apply to access CFR data and biospecimens contributed by thousands of families from across the spectrum of risk for these cancers and from population-based or relative controls. | nlx_143711 | SCR_006664 | 2026-09-12 01:01:43 | 3 | ||||||
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ESEfinder 3.0 Resource Report Resource Website 100+ mentions |
ESEfinder 3.0 (RRID:SCR_007088) | ESEfinder | analysis service resource, data analysis service, production service resource, service resource | A web-based resource that facilitates rapid analysis of exon sequences to identify putative exonic splicing enhancers (ESEs) responsive to the human SR proteins SF2/ASF, SC35, SRp40 and SRp55, and to predict whether exonic mutations disrupt such elements. | exonic splicing enhancer, sr protein, bio.tools |
is listed by: Debian is listed by: bio.tools has parent organization: Cold Spring Harbor Laboratory |
NIGMS GM42699; NCI CA88351; NHGRI HG01696 |
PMID:12824367 | Free for non-profit use, Non-commercial, Acknowledgement requested, Commercial use with license | biotools:esefinder, nif-0000-30496 | http://rulai.cshl.edu/tools/ESE2/, https://bio.tools/esefinder | http://exon.cshl.edu/ESE/ | SCR_007088 | 2026-09-12 01:01:45 | 213 | ||||
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Add Health (National Longitudinal Study of Adolescent Health) Resource Report Resource Website 10+ mentions |
Add Health (National Longitudinal Study of Adolescent Health) (RRID:SCR_007434) | Add Health | data or information resource, database | Longitudinal study of a nationally representative sample of adolescents in grades 7-12 in the United States during the 1994-95 school year. Public data on about 21,000 people first surveyed in 1994 are available on the first phases of the study, as well as study design specifications. It also includes some parent and biomarker data. The Add Health cohort has been followed into young adulthood with four in-home interviews, the most recent in 2008, when the sample was aged 24-32. Add Health combines longitudinal survey data on respondents social, economic, psychological and physical well-being with contextual data on the family, neighborhood, community, school, friendships, peer groups, and romantic relationships, providing unique opportunities to study how social environments and behaviors in adolescence are linked to health and achievement outcomes in young adulthood. The fourth wave of interviews expanded the collection of biological data in Add Health to understand the social, behavioral, and biological linkages in health trajectories as the Add Health cohort ages through adulthood. The restricted-use contract includes four hours of free consultation with appropriate staff; after that, there''s a fee for help. Researchers can also share information through a listserv devoted to the database. | adolescent, longitudinal, adult human, interview, social, behavior, health, early adult human, FASEB list | has parent organization: University of North Carolina at Chapel Hill; North Carolina; USA | Aging | NICHD ; NCI ; CDC ; NIAID ; NIMHD ; NIDCD ; NIGMS ; NIMH ; NINR ; NIA ; NIAAA ; NIDA ; NSF ; NIH ; Department of Health and Human Services ; MacArthur Foundation ; Robert Wood Johnson Foundation |
Restricted use | nif-0000-00621 | SCR_007434 | National Longitudinal Study of Adolescent Health | 2026-09-12 01:01:47 | 37 | |||||
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Open Regulatory Annotation Database Resource Report Resource Website 50+ mentions |
Open Regulatory Annotation Database (RRID:SCR_007835) | ORegAnno | data or information resource, database | Open source, open access database and literature curation system for community based annotation of experimentally identified DNA regulatory regions, transcription factor binding sites and regulatory variants. Automatically cross referenced against PubMED, Entrez Gene, EnsEMBL, dbSNP, eVOC: Cell type ontology, and Taxonomy database. Community driven resource for curated regulatory annotation. | Collection, annotation, curated, experimentally, identified, DNA, regulatory, region, element, transcript, factor, binding, site, regulatory, variant, data, FASEB list |
has parent organization: University of Manchester; Manchester; United Kingdom works with: PubMed works with: Entrez Gene works with: Ensembl works with: dbSNP |
American Cancer Society ; BioSapiens Network of Excellence ; British Columbia Cancer Foundation ; Canadian Institutes of Health Research ; Edward Mallinckrodt ; Jr. Foundation ; European Molecular Biology Laboratory ; European Network of Excellence ; Genome British Columbia ; Genome Canada ; Marie Curie Early Stage Research Training Fellowship ; Michael Smith Foundation for Health Research ; Natural Sciences and Engineering Research Council ; NCI K22 CA188163; NHGRI K99 HG007940; NHGRI R01 HG008150; NIMH R01 MH101814; Pleiades Promoter Project ; Research Foundation – Flanders ; Swedish Research Council |
PMID:18006570 PMID:26578589 |
Free, Freely available | nif-0000-03223, r3d100010656 | http://www.oreganno.org/, https://doi.org/10.17616/R3DG70 | SCR_007835 | Open REGulatory ANNOtation, ORegAnno 3.0 | 2026-09-12 01:01:53 | 88 | ||||
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ArrayQuest Resource Report Resource Website 1+ mentions |
ArrayQuest (RRID:SCR_010935) | ArrayQuest | analysis service resource, data analysis service, production service resource, service resource | A web-accessible program for the analysis of DNA microarray data. ArrayQuest is designed to apply any type of DNA microarray analysis program executable on a Linux system (i.e., Bioconductor statistical and graphical methods written in R as well as BioPerl and C++ based scripts) to DNA microarray data stored in the MUSC DNA Microarray Database, the Gene Expression Omnibus (GEO) or in a password protected private database uploaded to the center point server. ArrayQuest analyses are performed on a computer cluster. |
is listed by: OMICtools is related to: MUSC DNA Microarray Database is related to: Gene Expression Omnibus has parent organization: Medical University of South Carolina; South Carolina; USA |
University Research Resource Foundation ; NCI R24CA095841; NCRR P20RR016434 |
PMID:16321157 | Free, Public | OMICS_00746 | SCR_010935 | ArrayQuest - An On-line DNA Microarray Analysis System | 2026-09-12 01:02:06 | 1 | ||||||
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Cancer Biomedical Informatics Grid Resource Report Resource Website 10+ mentions |
Cancer Biomedical Informatics Grid (RRID:SCR_003328) | data or information resource, knowledge environment, organization portal, portal | THIS RESOURCE IS NO LONGER IN SERVICE, documented July 19, 2016. It has been integrated into the National Cancer Informatics Program (NCIP). The National Cancer Institute launched the cancer Biomedical Informatics Grid (caBIG) to create a virtual network of interconnected data, individuals, and organizations that worked together to redefine how cancer research is conducted. caBIG capabilities allowed researchers and clinicians to collaborate more effectively so that complex research questions might be asked and answered faster and more effectively. The mission of caBIG was to develop a truly collaborative information network that accelerated the discovery of new approaches for the detection, diagnosis, treatment, and prevention of cancer, ultimately improving patient outcomes. | data sharing |
is related to: caTIES - Cancer Text Information Extraction System is related to: caArray has parent organization: National Cancer Institute is parent organization of: caTRIP |
NCI | THIS RESOURCE IS NO LONGER IN SERVICE | nif-0000-31949 | SCR_003328 | caBIG | 2026-09-12 01:00:54 | 33 | |||||||
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UCSF Brain Tumor Tissue Bank Resource Report Resource Website |
UCSF Brain Tumor Tissue Bank (RRID:SCR_000647) | biomaterial supply resource, material resource, tissue bank | THIS RESOURCE IS NO LONGER IN SERVICE. Documented on May 4th,2023. Brain Tumor Research Center Tissue Bank began collecting tissue in 1978 and has established an organized repository of characterized tissues--frozen, paraffin-embedded, blood and cultures--that are maintained in a manner useful for a wide range of studies. Samples are collected only from patients who have agreed to have their tissues banked and used for future research. Consent documents are maintained in a secure area and associated clinical data are held in a double-password protected computer database. Each sample received into the Tissue Bank is non-identifying number. No protected health information (PHI) is released. To obtain samples, investigators submit a request form to the Manager. The request form requires an explanation of the tissue requested (type, number of samples, justification), description of the study, CHR approval (see new policy regarding human vs. non-human research) and Project Leader authorization. The Manager reviews each request for feasibility before presentation to the Scientific Core Committee. The UCSF Neurosurgery Tissue Bank makes its inventory of stock cell lines available to all investigators. Requested cells are grown in T-25 flasks and shipped FedEx Priority Overnight at the receipient's expense. However, if you prefer, we can ship the frozen cells, packed in dry ice. (Note: some countries restrict dry ice shipments.) | tissue, frozen, paraffin-embedded, blood, culture, frozen tissuefrozen serum, serum, paraffin embedded tissue, research, cell, cell line |
is listed by: One Mind Biospecimen Bank Listing has parent organization: University of California at San Francisco; California; USA |
Tumor | NINDS P01 NS94297; NCI P-50-CA97257 |
THIS RESOURCE IS NO LONGER IN SERVICE | nlx_33528, SCR_006439, nlx_143683 | https://gnome.ucsf.edu/tbank/ | SCR_000647 | UCSF Brain Tumor Research Center Tissue Bank, UCSF Brain Tumor Research Center Tissue Core, UCSF Neurosurgery Tissue Bank, UCSF Neurological Surgery Tissue Bank, UCSF BTRC Tissue Core | 2026-09-12 01:01:20 | 0 | |||||
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Biospecimen Research Database Resource Report Resource Website 1+ mentions |
Biospecimen Research Database (RRID:SCR_001944) | data or information resource, database | Database to find literature, established protocols, and best practices for collecting, storing, and handling biological samples. Its main purpose is to help researchers improve the quality and reproducibility of biospecimen-based medical and genetic research. Provides a library of validated protocols that laboratories use to properly process human biospecimens (like blood or tissue) without degrading their molecular integrity. Offers procedural guidelines (BEBPs) backed by scientific literature to protect samples from pre-analytical variables (e.g., storage temperature, time-to-freezing). Catalogs thousands of peer-reviewed articles focused on biospecimen science. | NCI, biospecimen, biomarker, gene, standard operating procedure, sop, database |
is related to: Biorepositories and Biospecimens Research Branch has parent organization: National Cancer Institute has parent organization: National Institutes of Health |
NCI | PMID:25757745 | Free, Freely available | SciRes_000169 | https://dctd.cancer.gov/programs/cdp/organization/bbrb | https://brd.nci.nih.gov/brd/ | SCR_001944 | NCI Biospecimen Research Database, Biospecimen Research Database (BRD) | 2026-09-12 01:01:23 | 5 | ||||
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Midas Platform Resource Report Resource Website 10+ mentions |
Midas Platform (RRID:SCR_002186) | Midas | data management software, software application, software resource, software toolkit | Open-source toolkit that enables the rapid creation of tailored, web-enabled data storage and provides a cohesive system for data management, visualization, and processing. At its core, Midas Platform is implemented as a PHP modular framework with a backend database (PostGreSQL, MySQL and non-relational databases). While the Midas Platform system can be installed and deployed without any customization, the framework has been designed with customization in mind. As building one system to fit all is not optimal, the framework has been extended to support plugins and layouts. Through integration with a range of other open-source toolkits, applications, or internal proprietary workflows, Midas Platform offers a solid foundation to meet the needs of data-centric computing. Midas Platform provides a variety of data access methods, including web, file system and DICOM server interfaces, and facilitates extending the methods in which data is stored to other relational and non-relational databases. | data storage, data analysis, visualization, multimedia, digital archiving, processing | has parent organization: Kitware | NLM ; NIH ; NCI |
PMID:18560078 | Apache License, v2, Simplified BSD License, BSD License | nlx_154696 | SCR_002186 | Midas Platform - The Multimedia Digital Archiving System | 2026-09-12 01:02:27 | 45 | |||||
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The Cancer Genome Atlas Resource Report Resource Website 5000+ mentions |
The Cancer Genome Atlas (RRID:SCR_003193) | TCGA | biomaterial supply resource, material resource | Project exploring the spectrum of genomic changes involved in more than 20 types of human cancer that provides a platform for researchers to search, download, and analyze data sets generated. As a pilot project it confirmed that an atlas of changes could be created for specific cancer types. It also showed that a national network of research and technology teams working on distinct but related projects could pool the results of their efforts, create an economy of scale and develop an infrastructure for making the data publicly accessible. Its success committed resources to collect and characterize more than 20 additional tumor types. Components of the TCGA Research Network: * Biospecimen Core Resource (BCR); Tissue samples are carefully cataloged, processed, checked for quality and stored, complete with important medical information about the patient. * Genome Characterization Centers (GCCs); Several technologies will be used to analyze genomic changes involved in cancer. The genomic changes that are identified will be further studied by the Genome Sequencing Centers. * Genome Sequencing Centers (GSCs); High-throughput Genome Sequencing Centers will identify the changes in DNA sequences that are associated with specific types of cancer. * Proteome Characterization Centers (PCCs); The centers, a component of NCI's Clinical Proteomic Tumor Analysis Consortium, will ascertain and analyze the total proteomic content of a subset of TCGA samples. * Data Coordinating Center (DCC); The information that is generated by TCGA will be centrally managed at the DCC and entered into the TCGA Data Portal and Cancer Genomics Hub as it becomes available. Centralization of data facilitates data transfer between the network and the research community, and makes data analysis more efficient. The DCC manages the TCGA Data Portal. * Cancer Genomics Hub (CGHub); Lower level sequence data will be deposited into a secure repository. This database stores cancer genome sequences and alignments. * Genome Data Analysis Centers (GDACs) - Immense amounts of data from array and second-generation sequencing technologies must be integrated across thousands of samples. These centers will provide novel informatics tools to the entire research community to facilitate broader use of TCGA data. TCGA is actively developing a network of collaborators who are able to provide samples that are collected retrospectively (tissues that had already been collected and stored) or prospectively (tissues that will be collected in the future). | genome, genome sequencing, breast, central nervous system, endocrine, gastrointestinal, gynecologic, head, neck, hematologic, skin, soft tissue, thoracic, urologic, clinical, genomic characterization, analysis, tumor genome, demographic, gene expression, copy number alteration, epigenetic, dna sequence, exome, snp, methylation, mrna, mirna, FASEB list |
is used by: Mutation Annotation and Genomic Interpretation is used by: BioXpress is used by: cancerRxTissue is listed by: One Mind Biospecimen Bank Listing is related to: Cancer3D is related to: Cancer Research Data Commons is related to: CancerMIRNome is related to: Broad Institute Genomics Platform has parent organization: National Cancer Institute works with: FireBrowse |
Cancer, Tumor, Normal, Breast cancer, Central Nervous System cancer, Endocrine cancer, Gastrointestinal cancer, Gynecologic cancer, Head cancer, Neck cancer, Hematologic cancer, Skin cancer, Soft tissue cancer, Thoracic cancer, Urologic cancer | NCI 261200800001E-12-0-1 | nlx_156913 | SCR_003193 | Cancer Genome Atlas | 2026-09-12 01:02:29 | 7443 |
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The NIDDK Information Network (dkNET) serves the needs of basic and clinical investigators by providing seamless access to large pools of data and research resources relevant to the mission of The National Institute of Diabetes Digestive and Kidney Diseases (NIDDK). dkNET is hosted at University of California San Diego, and is supported by NIH NIDDK grant U24DK097771.
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