Tag: cancer

The Human Protein Atlas is program started with the aim to map of all the human proteins in cells, tissues and organs using integration of various omics technologies. It consists of three parts: Tissue Atlas showing the distribution of proteins acros ...

IntAct provides a database system and analysis tools for molecular interaction data. All interactions are derived from literature curation or direct user submissions. IntAct (with MINT) is a Core Data Resource of ELIXIR. IntAct contains data from all ...

The cBioPortal for Cancer Genomics provides visualization, analysis and download of large-scale cancer genomics data sets.

The European Genome-phenome Archive (EGA) allows you to explore datasets from genomic studies, provided by a range of data providers. Access to datasets must be approved by the specified Data Access Committee (DAC).

The Catalogue of Somatic Mutations in Cancer (COSMIC) is a database of manually-curated somatic mutation information relating to human cancers. The COSMIC database combines manually-curated data and genome-wide screen data.

NCI Thesaurus (NCIt) provides reference terminology for many NCI and other systems. It covers vocabulary for clinical care, translational and basic research and public information.

The Cancer Genome Atlas (TCGA) is a comprehensive, collaborative effort led by the National Institutes of Health (NIH) to map the genomic changes associated with specific types of tumors to improve the prevention, diagnosis and treatment of cancer. I ...

The Cancer Imaging Archive (TCIA) is a service which de-identifies and hosts medical images of cancer for public download. The data are organized as “collections”; typically patients’ imaging related by a common disease (e.g. lung cancer), image moda ...

Characterizations of hundreds of strains of laboratory mice to facilitate translational discoveries and to assist in selection of strains for experimental studies. Data sets are voluntarily contributed by researchers or retrieved by us from public so ...

BRCA Share is a novel gene datashare initiative that provides scientists and commercial laboratory organizations around the world with open access to BRCA Share (formerly UMD-BRCA1) contains BRCA1 and BRCA2 genetic data. The program’s goal is to acce ...

NDEx is an online commons where scientists can upload, share, and publicly distribute biological networks and pathway models. The NDEx Project maintains a web-accessible public server, a documentation website, provides seamless connectivity to Cytosc ...

Part of the Progenetix project, the arrayMap database facilitates the study of the genetics of human cancer. The Progenetix project provides the data customisation and visualization tools to mine the available data. The arrayMap database is developed ...

Genomics England PanelApp is a publicly-available knowledgebase that allows virtual gene panels related to human disorders to be created, stored and queried. It includes a crowdsourcing tool that allows genes and genomic entities (short tandem repeat ...

The Progenetix database provides an overview of copy number abnormalities in human cancer from Comparative Genomic Hybridization (CGH) experiments. With 30817 cases from 1016 publications (Oct 2013), Progenetix is the largest curated database for who ...

The National Cancer Institute’s (NCI’s) Genomic Data Commons (GDC) is a data sharing The National Cancer Institute's Genomic Data Commons (GDC) was created to promote precision medicine in oncology. It supports the import and standardization of genom ...

The Open Science Framework (OSF) is a free and open source project management tool that supports the entire research lifecycle: planning, execution, reporting, archiving, and discovery. Features include automated versioning, logging of all actions, c ...

The Exome Aggregation Consortium (ExAC) is a coalition of investigators seeking to aggregate and harmonize exome sequencing data from a variety of large-scale sequencing projects, and to make summary data available for the wider scientific community. ...

BloodSpot is a database of mRNA expression in healthy and malignant haematopoiesis and includes data from both humans and mice. The core function of BloodSpot is to provide an expression plot of genes in healthy and cancerous haematopoietic cells at ...

canSAR is an integrated cancer research and drug discovery resource that brings together large-scale data from different disciplines and allows query and exploration to help cancer research and drug discovery.

CIViC is an expert-crowdsourced knowledgebase for Clinical Interpretation of Variants in Cancer describing the therapeutic, prognostic, diagnostic and predisposing relevance of inherited and somatic variants of all types. Realizing precision medicine ...

The Pancreatic Expression Database (PED) is a repository for pancreatic-derived -omics data. With a generic web-based system, the database provides the research community with an open access tool to mine currently available pancreatic cancer experime ...

The Network of Cancer Genes (NCG) contains information on duplicability, evolution, protein-protein and microRNA-gene interaction, function, expression and essentiality of cancer genes from manually curated publications . NCG also provides informatio ...

HumanCyc is a bioinformatics database that describes human metabolic pathways and the human genome. By presenting metabolic pathways as an organizing framework for the human genome, HumanCyc provides the user with an extended dimension for functional ...

HIstome (Human histone database) is a freely available, specialist, electronic database dedicated to display information about human histone variants, sites of their post-translational modifications and about various histone modifying enzymes.

caNanoLab is a data sharing portal designed to facilitate information sharing across the international biomedical nanotechnology research community to expedite and validate the use of nanotechnology in biomedicine. caNanoLab provides support for the ...

The Human Ageing Genomic Resources (HAGR) is a collection of databases and tools for the biology and genetics of ageing. HAGR features several databases with high-quality, manually-curated data: 1) GenAge, a database of genes associated with ageing i ...

ReMap is an integrative analysis of transcription factor ChIP-seq experiments publicly available, merged with the Encode dataset. The resource is an extensive regulatory catalogue of transcription factor binding sites from transcription factors (TFs) ...

PDX Finder is an open repository for the upload and storage of clinical, genomic and functional Patient-Derived Xenograph (PDX) data which provides a comprehensive global catalogue of PDX models available for researchers across distributed repository ...

Gene Signature DataBase (GeneSigDB) is a database of gene signatures (or gene sets) that have been extracted and manually curated from articles that are indexed by PubMed.

ACSN is a web-based multi-scale resource of biological maps depicting molecular processes in cancer cell and tumor microenvironment. The Atlas represents interconnected cancer-related signalling and metabolic network maps. Molecular mechanisms are de ...

The miRandola database is the first resource for extracellular circulating RNAs. The first version of the database has been published on Plos One in 2012. It mainly contains information on circulating microRNAs and other non-coding RNAs. It is manual ...

A coding system for reporting adverse events that occur in the course of cancer therapy. It was derived from the Common Toxicity Criteria (CTC) v2.0 and is maintained by the Cancer Therapy Evaluation Program (CTEP) at the National Cancer Institution ...

The Jackson Laboratory Clinical Knowledgebase (CKB) is a semi-automated/manually curated database of gene/variant annotations, therapy knowledge, diagnostic/prognostic information, and clinical trials related to oncology. CKB not only contains curren ...

Patients-derived tumor xenograft (PDX) mouse models are an important oncology research platform to study tumor evolution, drug response and personalised medicine approaches. We identified critical attributes to accurately describe PDX production and ...

DNMIVD is a comprehensive annotation and interactive visualization database for DNA methylation profile of diverse human cancer constructed with high throughput microarray data from TCGA and GEO databases, and it also integrates some data from Pancan ...

The tumor-associated gene (TAG) database was designed to utilize information from well-characterized oncogenes and tumor suppressor genes to facilitate cancer research. All target genes were identified through text-mining approach from the PubMed dat ...

The Ontology for General Medical Science (OGMS) is an ontology of entities involved in a clinical encounter. OGMS includes very general terms that are used across medical disciplines, including: 'disease', 'disorder', 'disease course', 'diagnosis', ' ...

Guidelines for Information About Therapy Experiments (GIATE)is a minimum information checklist creating a consistent framework to transparently report the purpose, methods and results of the therapeutic experiments.

The database of human DNA Methylation and Cancer (MethyCancer) is developed to study interplay of DNA methylation, gene expression and cancer. It hosts both highly integrated data of DNA methylation, cancer-related gene, mutation and cancer informati ...

The dbDEPC is a database of differentially expressed proteins in human cancers.

<<<!!!<<< This repository is no longer available >>>!!!>>>

The Candidate Cancer Gene Database (CCGD) was developed to disseminate the results of transposon-based forward genetic screens in mice that identify candidate cancer genes. The purpose of the database is to allow cancer researchers to quickly determi ...

Physician Data Query (PDQ) Terminology is part of NCI's comprehensive cancer information database, which contains expert summaries on a wide range of cancer topics, a listing of some 30,000 cancer clinical trials from around the world, a directory of ...

The Mouse Tumor Biology (MTB) Database supports the use of the mouse as a model system of human cancers by providing access to information on and data for: spontaneous and induced tumors in mice, genetically defined mice (inbred, hybrid, mutant, and ...

Biomarkers of exposure to disease risk factors

Colorectral Cancer Atlas is an web-based resource which integrates genomic and proteomic pertaining to colorectal cancer cell lines and tissues. Data catalogued includes, quantitative and non-quantitative protein expression, sequence variations, cell ...

The Radiation Oncology Ontology (ROO) aims to cover the radiation oncology domain with a strong focus on re-using existing ontologies. ROO models terms including: uniform and non-uniform margins; ROI target volumes and organs-at-risk; dose-volume his ...

The American Society of Clinical Oncology (ASCO) Survey on COVID-19 in Oncology Registry (ASCO Registry) aims to help the cancer community learn more about the patterns of symptoms and severity of COVID-19 among patients with cancer, as well as how C ...

A collection of molecular interaction maps and pathways involved in cancer development and progression with a focus on melanoma.

The intention of the ACGT Master Ontology (MO) is to represent the domain of cancer research and management, with special emphasis on mammary carcinoma (“breast cancer”), Wilms’ tumor (nephroblastoma) and rhabdoid tumor.

Originally developed as part of the FP7 Transatlantic Tumor Model Repositories project, TumorML has been developed as an XML-based domain-specific vocabulary that includes elements from existing vocabularies, to deal with storing and transmitting exi ...

The Cancer Chemoprevention Ontology constitutes a vocabulary that is able to describe and semantically interconnect the different paradigms of the cancer chemoprevention domain.

Contains controlled vocabulary terms from National Cancer Institute used to classify clinical trial electronic content (documents, images, etc). A Content model contains content classification categories (classes) and metadata properties (data proper ...

STOREDB provides infrastructure for sharing data and resources in radiation biology and epidemiology. It is a platform for the archiving and sharing of primary data and outputs of all kinds, including epidemiological and experimental data, from resea ...

The NCI's Proteomic Data Commons has been created to make cancer-related proteomic datasets easily accessible to the public, and to facilitate multi-omic integration in support of precision medicine through interoperability with other resources. The ...

European Organisation for Research and Treatment of Cancer database of clinical trials.

The colorectal cancer cohort (CRC-Cohort) is developed within the EU-funded project ADOPT BBMRI-ERIC (H2020) as a use case for piloting access to European biobanks. The CRC-Cohort is developed by BBMRI-ERIC, its National Nodes and BBMRI-ERIC partner ...

The International Classification of Diseases for Oncology, 3rd Edition (ICD-O-3) is used principally in tumour or cancer registries for coding the site (topography) and the histology (morphology) of neoplasms, usually obtained from a pathology report ...

The CancerData site is an effort of the Medical Informatics and Knowledge Engineering team (MIKE for short) of Maastro Clinic, Maastricht, The Netherlands. It offers a central, online repository for the sustained storage of clinical protocols, public ...

Breast Cancer Grading Ontology assigns a grade to a tumor starting from the 3 criteria of the NGS.

An ontology that describes the medical information necessary for early detection of the oral cancer reoccurrence extracted from the NeoMark Project.

An ontology that describes the medical information necessary for early detection of the oral cancer reoccurrence extracted from the NeoMark Project.

Gene copy number changes in cancer

A repository for collection and distribution of plasmid clones

Collection of samples and data across the following diseases: Leukaemia, disease, Malignant tumour of breast, Malignant tumour of colon, Malignant tumour of lung, Malignant tumour of oesophagus, Malignant tumour of pancreas Centre for Trials Research ...

Cancer Network Information System includes multidisciplinary team diagnosis, proposed treatments, and a system-generated summary of the patient’s cancer record.

CPRD GOLD linked Cancer Patient Experience Survey (CPES) data on initial GP visit, through diagnosis/treatment, to the ongoing management of cancer. Note, these data are no longer routinely available; contact [email protected] to discuss.

CPRD Aurum linked Cancer Patient Experience Survey (CPES) data on initial GP visit, through diagnosis/treatment, to the ongoing management of cancer. Note, these data are no longer routinely available; contact [email protected] to discuss.

Cancer diagnoses before and after hospitalised cerebrovascular events. A dataset of more than 16,000 stroke patients including granular ethnicity, multi-morbidity, serial physiology, blood biomarkers, intervention and outcome data.

NHS Digital’s Trusted Research Environment service for England provides approved researchers with access to essential linked, de-identified health data to answer COVID-19 related questions. TRE service provides researchers support on data access requ ...

Public Health Scotland is responsible for the collection of information on Scottish residents when they are diagnosed with malignant (and some benign) tumours.

Cancer data are presented for either the patient level cancer diagnosis or “disease type” or the tumour specific sample details of participants in the Cancer arm of the 100,000 Genomes Project. Data Relating to Cancer Participants: cancer_participa ...

Collection of samples and data across the following diseases: Malignant tumour of breast. King's Health Partners Cancer Biobank collects blood, tissue and urine samples from patients with a range of cancer types who are referred to Guy's & St Thomas' ...

Dataset includes all patients receiving systemic anti-cancer therapies in or funded by the NHS. This includes adult and paediatric cancer patients receiving systemic anti-cancer treatment, in acute inpatient, day-case and outpatient settings.

A continuous, record-level dataset of hospital treatment and outcomes of patients with bowel cancer in England and Wales, including patient and tumour characteristics, route to diagnosis, diagnosis, treatment, length of stay, complications and outcom ...

Collection of samples and data across the following diseases: Malignant neoplasm of brain, Malignant neoplasm of skin, Malignant tumour of thyroid gland (disorder), Malignant tumour of breast, Malignant tumour of lung. Facilitating high quality cance ...

The Comprehensive Patient Records research dataset relates to the medical history of cancer patients prior to cancer, their diagnosis and treatment, long-term outcomes, and medical history of matched non-cancer patients that form a comparator cohort. ...

Population-based cancer registration data for all patients diagnosed with a primary tumour (ICD 10 C00-97x, D00-48x) in England. Linked chemotherapy, radiotherapy, hospital admission, diagnostic imaging, primary care diagnosis, and patient experience ...

The Welsh Cancer Intelligence & Surveillance Unit (WCISU) is the National Cancer Registry for Wales and its primary role is to record, store and report on all incidence of cancer for the resident population of Wales wherever they are treated.

GOSH is the custodian of the latest study dataset - IMPORT. All of the trial/study datasets include: full patient and tumour demographics, associated congenital abnormalities, tumour stage, treatment received and follow up for relapse and death. GOSH ...

The NOGCA data set includes continuously ascertained, record-level data on the diagnosis, investigation and management) received in hospitals in England and Wales for patients with invasive, epithelial cancer of the oesophagus, gastro-oesophageal jun ...

Collection of samples and data across the following diseases: Malignant tumour of thyroid gland (disorder) The primary objective is to establish an international anaplastic thyroid cancer tissue collection to facilitate research. Patients have the op ...

Survey completed by consultant surgeons at each hospital in England and Wales on the availability of a range of services for patients with bowel cancer including palliative care, oncology, diagnostics, enhanced recovery and specialist surgical servic ...

A regional asset for Yorkshire and Humber Data, a population-based database of all children and young people (0–29 yrs) diagnosed with cancer residing in the Yorkshire and Humber region in England (10,000 tumour registrations in children aged 0-14 ye ...

This uses the data within PPM+, the EHR for the Leeds Cancer Centre and Leeds Teaching Hospitals. It includes all patients diagnosed with cancer since 1990, all chemotherapy since 1993, all radiotherapy since 1994. It integrates all sources of EHR da ...

Near-real time aggregated cancer activity data from 8 major sites across the UK, for the purpose of testing the effect of the COVID-19 pandemic on cancer diagnostic and cancer treatment pathways. This data set has been designed to support the aim to ...

Admission and discharge details (dates, times, specialties) from NHS Lothian hospitals and facilities. Includes data from Inpatients, Outpatients, Maternity Services, Mental Health Services, and the Scottish Cancer Registry.

Through the collaboration with Exeter the South West Cancer Alliance has submitted primary care datasets

Cancer diagnoses before and after hospitalisation. This dataset includes 907 patients from 2004 to present, including granular ethnicity, multi morbidity, serial physiology, blood biomarkers, intervention and outcome data.

Collection of samples and data across the following diseases: Malignant tumour of ovary An international phase III randomised study to evaluate the efficacy of maintenance cediranib and olaparib combination therapy or olaparib alone in patients with ...

Data views that bring together data from several LabKey tables for convenient access Quickviews bring together data from several LabKey tables for convenient access, including: rare_disease_analysis Data for all rare disease participants including: ...

Nearly 60% of patients undergoing cancer treatment are estimated to have had at least one potential drug-drug interaction; for patients receiving oral anticancer therapy, up to 50% have been reported to experience a potential drug-drug interaction, w ...

Oral Cancer Gene Database is an initiative of the Advanced Centre for Treatment, Research and Education in Cancer, Navi Mumbai. The present database, version II, consists of 374 genes. It is developed as a user friendly site that would provide the s ...

The Cancer Immunome Database (TCIA) provides results of comprehensive immunogenomic analyses of next generation sequencing data (NGS) data for 20 solid cancers from The Cancer Genome Atlas (TCGA) and other datasource. The Cancer Immunome Atlas (TCIA) ...

The Netherlands Cancer Registry is the national registration since 1989, providing statistics on cancer in the Netherlands. The registry is maintained by the Netherlands Comprehensive Cancer Organisation (IKNL). Data on incidence, prevalence, surviva ...

A premier source for United States cancer statistics, SEER gathers information related to incidence, prevalence, and survival from specific geographic areas that represent 28 percent of the population, as well as compiles related reports and reports ...

CaPSURE™ is a longitudinal, observational study of approximately 15,000 men with all stages of biopsy-proven prostate cancer. Patients have enrolled at 43 community urology practices, academic medical centers, and VA hospitals throughout the United S ...

Project Achilles is a systematic effort aimed at identifying and cataloging genetic vulnerabilities across hundreds of genomically characterized cancer cell lines. The project uses genome-wide genetic perturbation reagents (shRNAs or Cas9/sgRNAs) to ...

Patient Reported Outcomes Following Initial treatment and Long term Evaluation of Survivorship (PROFILES)’ is a registry for the study of the physical and psychosocial impact of cancer and its treatment from a dynamic, growing population-based cohort ...

The NCI's Genomic Data Commons (GDC) provides the cancer research community with a unified data repository that enables data sharing across cancer genomic studies in support of precision medicine. The GDC obtains validated datasets from NCI programs ...

The Mouse Tumor Biology (MTB) Database supports the use of the mouse as a model system of hereditary cancer by providing electronic access to: Information on endogenous spontaneous and induced tumors in mice, including tumor frequency & latency data, ...

<<<!!!<<< Genome data generated by BC Genome Sciences Centre is no longer available through this site as it is regularly deposited into controlled data repositories such as the European Genome Phenome Archive (EGA); ICGC (International Cancer Genome ...

PRIMESDB is a systems biology platform that is being developed to enable the collection, integration and analysis of state-of-the-art genomics, proteomics and mathematical modelling data being generated by the PRIMES project. PRIMES is investigating ...

The world’s largest collection of TCR and BCR sequences. Easily incorporate millions of sequences worth of public data into your next papers and projects using immunoSEQ Analyzer. Construct your own projects, draw your own conclusions, and freely pub ...

Project Data Sphere, LLC, operates a free digital library-laboratory where the research community can broadly share, integrate and analyze historical, de-identified, patient-level data from academic and industry cancer Phase II-III clinical trials. ...

>>>!!!<<< caArray Retirement Announcement >>>!!!<<< The National Cancer Institute (NCI) Center for Biomedical Informatics and Information Technology (CBIIT) instance of the caArray database was retired on March 31st, 2015. All publicly-accessib ...

The German National Cohort (NAKO) has been inviting men and women aged between 20 and 69 to 18 study centers throughout Germany since 2014. The participants are medically examined and questioned about their living conditions. The GNC’s aim is to inve ...

The CSSI Data Coordinating Center (DCC) provides the greater Cancer Research and Biomedical Research communities access to the data from a myriad of projects that have been supported by CSSI -- serving as a permanent repository for these and related ...

CEEHRC represents a multi-stage funding commitment by the Canadian Institutes of Health Research (CIHR) and multiple Canadian and international partners. The overall aim is to position Canada at the forefront of international efforts to translate new ...

A data repository for the storage and sharing of Adaptive Immune Receptor Repertoire data. Primary public repository for the iReceptor Platform and Scientific Gateway. Further URL for the repository: http://www.ireceptor.org

database of pSILAC data – information about changes in mRNA levels and protein synthesis following microRNA misexpression in HeLa cells

Wiki-Pi is a wiki resource centered on human protein-protein interactions. Wiki-Pi's intuitive search functionality allows you to retrieve and discover interactions effectively.

XNAT CENTRAL is a publicly accessible datasharing portal at Washinton University Medical School using XNAT software. XNAT provides neuroimaging data through a web interface and a customizable open source platform. XNAT facilitates data uploads and d ...

<<<<!! The database is archived: https://web.archive.org/web/20071012173502/http://moltable.ncl.res.in/index.htm !!>>>> MolTable: An Open Access (Molecule Table) Portal for "Advanced Chemoinformatics Research, Training and Services"

BioGrid Australia Limited operates a federated data sharing platform for collaborative translational health and medical research providing a secure infrastructure that advances health research by linking privacy-protected and ethically approved data ...

The IMEx consortium is an international collaboration between a group of major public interaction data providers who have agreed to share curation effort and develop and work to a single set of curation rules when capturing data from both directly de ...

The Dutch ColoRectal Audit - Radiotherapy is the national clinical quality of care registry for radiotherapy treatment of colorectal carcinoma. The registry contains information about target areas, dose volumes histograms and organs at risk and is us ...

CDC WONDER, developed by the Centers for Disease Control and Prevention (CDC), is an integrated information and communication system for public health. It allows you to access wide-ranging online data for epidemiologic research.

GAZEL is an open epidemiologic laboratory. Like major scientific instruments (telescopes or particle accelerators, for example, or genotyping laboratories equipped with sequencers), GAZEL was not constructed to answer a specific question. Instead it ...

Androgen Receptor Gene Mutations Database is for all who are interested in mutations of the Androgen Receptor Gene. In light of the difficulty in getting new AR mutations published the curator will now accept new mutations that have not been publish ...

CBS offers Comprehensive public databases of DNA- and protein sequences, macromolecular structure, g ene and protein expression levels, pathway organization and cell signalling, have been established to optimise scientific exploitation of the explosi ...

ALEXA is a microarray design platform for 'alternative expression analysis'. This platform facilitates the design of expression arrays for analysis of mRNA isoforms generated from a single locus by the use of alternative transcription initiation, spl ...

The Health Data Research Innovation Gateway (the ‘Gateway’) provides a common entry point to discover and enquire about access to UK health datasets for research and innovation. It provides detailed information about the datasets, which are held by m ...