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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
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SomaticSniper Resource Report Resource Website 100+ mentions |
SomaticSniper (RRID:SCR_005108) | SomaticSniper | software resource | Software program to identify single nucleotide positions that are different between tumor and normal (or, in theory, any two bam files). It takes a tumor bam and a normal bam and compares the two to determine the differences. It outputs a file in a format very similar to Samtools consensus format. It uses the genotype likelihood model of MAQ (as implemented in Samtools) and then calculates the probability that the tumor and normal genotypes are different. This probability is reported as a somatic score. The somatic score is the Phred-scaled probability (between 0 to 255) that the Tumor and Normal genotypes are not different where 0 means there is no probability that the genotypes are different and 255 means there is a probability of 1 ? 10(255/-10) that the genotypes are different between tumor and normal. This is consistent with how the SAM format reports such probabilities. It is currently available as source code via github or as a Debian APT package. |
is listed by: OMICtools has parent organization: Washington University in St. Louis; Missouri; USA |
Cancer, Tumor, Normal | PMID:22155872 | Acknowledgement requested | OMICS_00092 | SCR_005108 | 2026-02-07 02:06:35 | 139 | |||||||
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SomaticIndelDetector Resource Report Resource Website 50+ mentions |
SomaticIndelDetector (RRID:SCR_005107) | SomaticIndelDetector | software resource | Tool for calling indels in Tumor-Normal paired sample mode. | cancer-specific variant discovery tool, variant, tumor, normal, bam, indel |
is listed by: OMICtools has parent organization: Broad Institute |
Cancer, Tumor, Normal | OMICS_00091 | SCR_005107 | 2026-02-07 02:06:39 | 79 | ||||||||
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Oklahoma Medical Research Foundation Resource Report Resource Website 50+ mentions |
Oklahoma Medical Research Foundation (RRID:SCR_005287) | OMRF | institution | A biomedical research institute that aims to understand and develop more effective treatments for human disease, focusing on critical research areas such as heart disease, cancer, lupus and Alzheimer's disease. | human disease, cardiovascular disease, cancer, lupus, alzheimer’s disease, treatment, biomedical research institute |
is parent organization of: C. elegans Gene Knockout Consortium is parent organization of: Oklahoma Medical Research Foundation OMRF Clinical Genomics Center Core Facility |
Heart disease, Cancer, Lupus, Alzheimer's disease | Public | grid.274264.1, ISNI: 0000 0000 8527 6890, Wikidata: Q7082264, nlx_144327, Crossref funder ID: 100008907 | https://ror.org/035z6xf33 | SCR_005287 | 2026-02-07 02:06:39 | 60 | ||||||
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Patchwork Resource Report Resource Website 1+ mentions |
Patchwork (RRID:SCR_000072) | Patchwork | software resource | Software tool for analyzing and visualizing allele-specific copy numbers and loss-of-heterozygosity in cancer genomes. The data input is in the format of whole-genome sequencing data which enables characterization of genomic alterations ranging in size from point mutations to entire chromosomes. High quality results are obtained even if samples have low coverage, ~4x, low tumor cell content or are aneuploid. Patchwork takes BAM files as input whereas PatchworkCG takes input from CompleteGenomics files. TAPS performs the same analysis as Patchwork but for microarray data. | genome, allele, copy number, bam, unix, r, bio.tools |
is listed by: OMICtools is listed by: bio.tools is listed by: Debian has parent organization: Uppsala University; Uppsala; Sweden |
Cancer, Tumor | PMID:23531354 | Free, Available for download, Freely available | biotools:patchwork, OMICS_02118 | https://bio.tools/patchwork | SCR_000072 | 2026-02-07 02:05:18 | 5 | |||||
|
GISTIC Resource Report Resource Website 10+ mentions |
GISTIC (RRID:SCR_000151) | GISTIC | software resource | Software to identify genes targeted by somatic copy-number alterations (SCNAs) that drive cancer growth. By separating SCNA profiles into underlying arm-level and focal alterations, they improve the estimation of background rates for each category. | somatic copy-number alteration, gene |
is listed by: OMICtools has parent organization: Massachusetts Institute of Technology; Massachusetts; USA; |
Cancer | PMID:21527027 | Free, Available for download, Freely available | OMICS_02296 | SCR_000151 | GISTIC2.0, GISTIC 2.0, GISTIC 2 | 2026-02-07 02:05:17 | 45 | |||||
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DMI Resource Report Resource Website |
DMI (RRID:SCR_008599) | DMI | software resource | Computational tool developed to help identify cancer-associated ''driver'' mutations from ''passenger'' ones in a cancer genome. | is listed by: OMICtools | Cancer | OMICS_00148 | SCR_008599 | Driver Mutation Identification | 2026-02-07 02:07:52 | 0 | ||||||||
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Cancer Registry of Norway Resource Report Resource Website 1+ mentions |
Cancer Registry of Norway (RRID:SCR_008879) | Cancer Registry of Norway | institution | Comprises 3 registries of cancer patients in Norway: the Incidence Registry, the Clinical Registry and Cancer Statistics. The Incidence Registry contains the basic data items collected from clinicians and pathologists, as well as from administrative discharge and mortality sources. It is updated continuously with information on both new cases, as well as cases diagnosed in previous years. All medical doctors in the country are instructed by law to notify new cancer cases. Clinical Registries: Registration of treatment and follow-up of Norwegian cancer patients. Clinical registries comprehensive registration schemes dedicated to specific cancers have been established to include detailed information on diagnostic measures, therapy, and follow-up. Cancer Statistics: Database of cancer statistics. The Cancer Registry of Norway is maintained by the Institute of Population-based Cancer Research and established in 1951. It is one of the oldest national cancer registries in the world. This, combined with the unique personal identification number used in Norway, makes the Cancer Registry''s data suitable, also internationally; by establishing new knowledge through research and spreading information on cancer. | is parent organization of: Janus Serum Bank | Cancer, Breast cancer, Cervical cancer, Colorectal cancer, Prostate cancer, Lung cancer, Hereditary cancer, Pediatric solid tumor, Ovarian cancer, Malignant melanoma | grid.418941.1, ISNI: 0000 0001 0727 140X, nlx_149447 | https://ror.org/03sm1ej59 | SCR_008879 | Cancer Registry of Norway: Institute of Population-based Cancer Research | 2026-02-07 02:07:33 | 6 | |||||||
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JISTIC Resource Report Resource Website 1+ mentions |
JISTIC (RRID:SCR_003482) | JISTIC | software resource | Software tool for analyzing datasets of genome-wide copy number variation to identify driver aberrations in cancer. | copy number variation, candidate gene, gene |
is listed by: OMICtools has parent organization: Columbia University; New York; USA |
Cancer | PMID:20398270 | Free, Public | OMICS_02297 | SCR_003482 | 2026-02-07 02:06:04 | 2 | ||||||
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Hybrigenics Resource Report Resource Website 10+ mentions |
Hybrigenics (RRID:SCR_003822) | commercial organization | A bio-pharmaceutical company with a focus on research and development of new targets & therapies against proliferative diseases. Its current development program is based on inecalcitol, a vitamin D receptor agonist being studied in three potential indications: * alone in chronic lymphocytic leukaemia * in combination with imatinib in chronic myeloid leukaemia * in prostate cancer, for use with current standards of care Hybrigenics'' research program investigates the action of enzymes called Deubiquitinating Enzymes (DUBs) in the recycling of onco-proteins and the utility of proprietary patented DUB inhibitors against various cancer indications. Hybrigenics Services, a Hybrigenics subsidiary, markets very specialized scientific services to researchers in all areas of life sciences who want to identify, validate and inhibit protein interactions in animal, plant or microbiological cells. | enzyme, proteomic, protein interaction network, protein interaction | is related to: AgedBrainSYSBIO | Lymphocytic leukaemia, Myeloid leukaemia, Prostate cancer, Cancer | nlx_158127 | SCR_003822 | 2026-02-07 02:06:28 | 16 | |||||||||
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Amorfix Resource Report Resource Website 1+ mentions |
Amorfix (RRID:SCR_003783) | AMF | commercial organization | Product development company focused on therapeutic products and diagnostic devices targeting misfolded protein diseases. On July, 2015 the company name was changed to ProMIS Neurosciences, Inc. | diagnostic, therapy, alzheimer, protein, misfolded protein disease | Alzheimer's disease, Amyotrophic Lateral Sclerosis, Cancer | Crossref funder ID: 100007611, nlx_158072, grid.422608.a | https://ror.org/045rtab03 | SCR_003783 | Amorfix Life Science, Amorfix Life Sciences Ltd., Amorfix Life Sciences, ProMIS Neurosciences | 2026-02-07 02:06:27 | 2 | |||||||
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ChemoCentryx Resource Report Resource Website 10+ mentions |
ChemoCentryx (RRID:SCR_003976) | commercial organization | A biopharmaceutical company focused exclusively on discovering, developing and commercializing orally-administered therapeutics to treat autoimmune diseases, inflammatory disorders and cancer. Each drug candidate is a small molecule designed to target a specific chemokine or chemo-attractant receptor, thereby blocking the inflammatory response driven by that particular chemokine while leaving the rest of the immune system unaffected., THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025. | biopharmaceutical, oral administration, medicine, small molecule, chemokine, chemo-attractant receptor, clinical, drug, oral drug | is related to: Kidney Health Initiative | Autoimmune disease, Inflammatory disorder, Cancer | THIS RESOURCE IS NO LONGER IN SERVICE | nlx_158383, grid.452218.8, ISNI: 0000 0004 0408 7502 | https://ror.org/04gp12571 | SCR_003976 | ChemoCentryx Inc, ChemoCentryx Inc. | 2026-02-07 02:06:33 | 43 | ||||||
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C. R. Bard Resource Report Resource Website 1+ mentions |
C. R. Bard (RRID:SCR_003975) | BARD, BCR | commercial organization | A multinational developer, manufacturer, and marketer of medical technologies specializing in the manufacture of vascular, urology, oncology and surgical specialty products. BARD pioneered the development of single-patient-use medical products for hospital procedures; today BARD is dedicated to pursuing technological innovations that offer superior clinical benefits while helping to reduce overall costs. Bard is perhaps best known for having introduced the Foley catheter. (Adapted from Wikipedia) | medical equipment, vascular, urology, oncology, surgical, medical technology, medical, clinical | is related to: Kidney Health Initiative | Cancer | nlx_158382 | SCR_003975 | C. R. Bard Inc., C.R. Bard Inc., C. R. Bard Inc, CR Bard, C.R. Bard Inc, C.R. Bard, CR Bard Inc. | 2026-02-07 02:06:12 | 2 | |||||||
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Centre for Genomics and Oncological Research Resource Report Resource Website |
Centre for Genomics and Oncological Research (RRID:SCR_003920) | GENYO | institution | Center for excellence research in genomic medicine, focusing on the comprehensive study and understanding of the genetic basis of human diseases in general, placing special emphasis on cancer and its genetic disorders related to inheritance. GENYO was created as a multidisciplinary research space, where different professionals from the healthcare, university and business areas interact, making it possible to generate new systems to diagnose, prevent and treat diseases based on the joint and coordinated application of first-rate knowledge in the different areas of genetics. The center is the benchmark center of the Andalusian Program for Research in Clinical Genetics and Genomic Medicine, a program which, together with those of Cell Therapy and Regenerative Medicine, and Nanomedicine have the main objective of supporting and fostering translational research in Advanced Therapies. The activities performed within these three research programs are developed in coordination with the Andalusian Initiative for Advanced Therapies (IATA), an initiative of the Andalusian Government promoted by the Regional Ministries of Health and Innovation, Science and Enterprise. | genomic medicine, genomic, oncology, pharmacogenomics, inheritance, genetics |
is related to: PRECISESADS has parent organization: University of Granada; Granada; Spain has parent organization: Progress and Health Foundation; Seville; Spain is parent organization of: PRECISESADS |
Cancer, Genetic disorder | grid.470860.d, Crossref funder ID: 501100007321, nlx_158281, ISNI: 0000 0004 4677 7069 | https://ror.org/04hr99439 | SCR_003920 | Pfizer-University of Granada-Junta de Andaluc??a Centre for Genomics and Oncological Research (GENYO), Pfizer-University of Granada-Junta de Andaluc??a Centre for Genomics and Oncological Research | 2026-02-07 02:06:12 | 0 | ||||||
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Institute of Cancer Research Resource Report Resource Website 10+ mentions |
Institute of Cancer Research (RRID:SCR_003912) | ICR | institution | Academic cancer research center, a postgrad college, and a charity in the United Kingdom that is making discoveries that defeat cancer. With their partners The Royal Marsden NHS Foundation Trust they form the largest comprehensive cancer center in Europe and perform high quality and original basic research and translational studies, with the aim of developing better treatments for the benefit of cancer patients worldwide. The ICR offers comprehensive, modern facilities for research and studentships supported by the Wellcome Trust, MRC, CRUK and EPSRC and the ICR''s own resources which are awarded on a competitive basis. The ICR offers postgraduate research degrees (MPhil, PhD and MD (Res)) and a modular postgraduate taught degree in oncology aimed at clinicians undertaking specialist training in the field of Clinical or Medical Oncology leading to a Postgraduate Certificate, Postgraduate Diploma or MSc in Oncology. | clinical, medical, oncology |
is related to: PREDECT has parent organization: University of London; London; United Kingdom is parent organization of: FLIGHT is parent organization of: MoKCa- Mutations of Kinases in Cancer |
Cancer | nlx_158259, grid.18886.3f, Wikidata: Q6039999, ISNI: 0000 0001 1271 4623 | https://ror.org/043jzw605 | SCR_003912 | The Institute of Cancer Research | 2026-02-07 02:06:12 | 12 | ||||||
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Orion Resource Report Resource Website 10+ mentions |
Orion (RRID:SCR_003911) | Orion | commercial organization | A globally operating Finnish developer, manufacturer and marketer of human and veterinary pharmaceuticals, active pharmaceutical ingredients and diagnostic tests. They are continuously developing new drugs and treatment methods. Pharmaceutical RD focuses on central nervous system drugs, oncology and critical care drugs, and Easyhaler pulmonary drugs. | pharmaceutical, drug, diagnostic test, diagnostic, central nervous system, drug, oncology, critical care, pulmonary, central nervous system drug, pulmonary drug, cancer, veterinary drug, medicine, clinical, hygiene monitoring |
is related to: MIP-DILI is related to: NEWMEDS is related to: ORBITO is related to: PREDECT |
Cancer, Asthma, Alzheimer's disease, Parkinson's disease, Breast cancer, Prostate cancer | nlx_158257 | SCR_003911 | Orion Corporation, Orion Pharma | 2026-02-07 02:06:31 | 34 | |||||||
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Genentech Resource Report Resource Website 1000+ mentions |
Genentech (RRID:SCR_003997) | Genentech | commercial organization | A biotechnology corporation that uses human genetic information to discover, develop, manufacture and commercialize medicines to treat patients with serious or life-threatening medical conditions. | drug, genetic, medicine, biotechnology, oncology, immunology, tissue growth, tissue repair, neuroscience, infectious disease, microbiology, medical imaging |
is related to: Alzheimers Disease Genetics Consortium has parent organization: Roche is parent organization of: GMAP |
Infectious disease, Cancer | nlx_158417 | SCR_003997 | Genentech Inc, F. Hoffmann-La Roche Ltd / Genentech | 2026-02-07 02:06:12 | 3306 | |||||||
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Eisai Resource Report Resource Website 10+ mentions |
Eisai (RRID:SCR_003936) | Eisai | commercial organization | A global pharmaceutical company. | pharmaceutical, healthcare, drug, oncology, central nervous system, neurology, medicine | is related to: PharmaCog | Cancer, Epilepsy, Alzheimer's disease, Obesity, Immune-mediated disease, Insomnia | grid.418767.b, Wikidata: Q29123933, nlx_158312, ISNI: 0000 0004 0599 8842 | https://ror.org/0469x1750 | SCR_003936 | Eisai Co. Ltd., EISAI Ltd | 2026-02-07 02:06:13 | 16 | ||||||
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Osaka Medical Center for Cancer and Cardiovascular Diseases; Osaka; Japan Resource Report Resource Website |
Osaka Medical Center for Cancer and Cardiovascular Diseases; Osaka; Japan (RRID:SCR_011477) | OMCCCD | institution | Center for cancer and cardiovascular diseases with a focus on advanced cancer therapy in the Kansai area. It consists of the Hospital, the Research Institute, and the Department of Cancer Control and Statistics. The Research Institute is responsible for acquiring and applying knowledge of the molecular and genetic aspects of human cancer. The mission of the Research Institute is to perform basic and applied cancer research through collaboration with the Hospital and the Department of Cancer Control and Statistics. The large tumor tissue collection is the major focus of their research efforts. The Research Institute includes seven official departments: Biology, Biochemistry, Pathology, Molecular Medicine & Pathophysiology, Molecular Biology, Molecular Genetics, and Immunology. In addition, a group conducted by the Director (Director''s Unit) and Laboratory of Genome Informatics. The research objectives are as follows. # Clinical research. ## Prognosis predictor of gliomas based on gene expression profiling ## Targeted oncolytic virus # Technical developments for cancer research ## A new method for storing cancer cells taken from human tumor tissues (cancer tissue-originated spheroid) ## Bioinformatics for personalized genomics # Basic research ## Mechanism of metastasis ## Low oxygen environment and cancer ## Structure analysis of oligosaccharide on human cancer cells ## Proof-of-principle study of artificial adjuvants | is parent organization of: Brain Gene Expression Database | Cancer, Cardiovascular disease | nlx_66393 | SCR_011477 | 2026-02-07 02:08:18 | 0 | |||||||||
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Genome Alteration Print Resource Report Resource Website 1+ mentions |
Genome Alteration Print (RRID:SCR_012016) | GAP | software resource | Software for automatic detection of absolute segmental copy numbers and genotype status in complex cancer genome profiles measured by single-nucleotide polymorphism (SNP) arrays. The method is based on pattern recognition of segmented and smoothed copy number and allelic imbalance profiles. The method performs well even for poor-quality data, low tumor content, and highly rearranged tumor genomes. | genome, segmental copy number, genotype, genome profile, copy number, single-nucleotide polymorphism, array |
is listed by: OMICtools has parent organization: Curie Institute; Paris; France |
Cancer, Tumor | PMID:19903341 | OMICS_02119 | SCR_012016 | Genome Alteration Print (GAP): Mining complex cancer genomic profiles | 2026-02-07 02:08:26 | 4 | ||||||
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German Cancer Research Center Resource Report Resource Website 1+ mentions |
German Cancer Research Center (RRID:SCR_012942) | DKFZ | institution | Biomedical research institute in Germany that investigates the mechanisms of cancer and works to identify cancer risk factors. They provide the foundations for developing novel approaches in the prevention, diagnosis, and treatment of cancer and are a member of the Helmholtz Association of National Research Centers. Professor Harald zur Hausen was awarded the Nobel Prize for Medicine for his outstanding scientific contribution to the study of human papillomaviruses (HPV). In addition, the staff of the Cancer Information Service (KID) offers information about the widespread disease of cancer for patients, their families, and the general public. The Center is funded by the German Federal Ministry of Education and Research (90%) and the State of Baden-Württemberg (10%). |
is related to: Helmholtz Center Munich is related to: MIP-DILI is parent organization of: AutoPrime is parent organization of: Axel Database is parent organization of: glycomedb is parent organization of: MITK Diffusion is parent organization of: LifeDB is parent organization of: LipOXygenases DataBase is parent organization of: Diffusion MRI - In-vivo and Phantom Data is parent organization of: Diffusion MRI at DKFZ Heidelberg is parent organization of: DKFZ Genomics and Proteomics Core Facility is parent organization of: German Cancer Research Center Labs and Facilities is parent organization of: GenomeRNAi is parent organization of: Division of Molecular Genome Analysis is parent organization of: LiGraph is parent organization of: pdb-data is parent organization of: GENSCAN is parent organization of: DKFZ Small Animal Imaging Core Facility |
Cancer | grid.7497.d, Wikidata: Q449325, ISNI: 0000 0004 0492 0584, nlx_36666, Crossref funder ID: 100008658 | https://ror.org/04cdgtt98 | SCR_012942 | Deutsches Krebsforschungszentrum | 2026-02-07 02:08:50 | 7 |
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