1 - 30 of 30 results


A robust, secure, web-based, database-backed open-source system that supports all major needs of a modern cancer biobank. Its modules allow for i) up-to-the-minute 'scoreboard' and graphical reporting of collections; ii) end user roles and permissions; iii) specimen inventory through caTissue Suite; iv) shipping forms for distribution of specimens to pathology, genomic analysis and PDX/cell line creation facilities; v) robust ad hoc querying; vi) molecular and cellular quality control metrics to track specimens' progress and quality; vii) public researcher request; viii) resource allocation committee distribution request review and oversight and ix) linkage to available derivatives of specimen.

BARCdb / Biobanking Analysis Resource Catalogue

A freely available web resource, listing expertise and molecular resource capabilities of research centres and biotechnology companies. The database is designed for researchers who require information on how to make best use of valuable biospecimens from biobanks and other sample collections, focusing on the choice of analytical techniques and the demands they make on the type of samples, pre-analytical sample preparation and amounts needed.

dkNET / National Institute of Diabetes and Digestive and Kidney Diseases Information Network

An information network launched to serve the needs of basic and clinical investigators in metabolic, digestive and kidney disease by facilitating access to research resources, as data, software tools, materials, services, projects and organizations. dkNET functions as a “search engine for data”, searching across millions of database records contained in hundreds of biomedical databases developed and maintained by independent projects around the world. dkNET provides an ideal environment for illustrating some of the opportunities and challenges associated with organizing and searching the new types of digital research objects, including dynamic databases, produced in support of biomedical research.


Helps researchers to find data of interest in a broad spectrum of high quality repositories. DataMed is designed to be, for data, what PubMed has been for the scientific literature. DataMed stores metadata generic enough to describe any dataset using a model called Data Tag Suite. DataMed is intended to point to data of interest by indicating the repository in which it is found, and providing some minimal information about the data so users can elect to follow the links to those repositories or move on to the next entry.

LIDPD / Levodopa-Induced Dyskinesia in Parkinson's Disease

Summarizes literature-curated information on levodopa-induced dyskinesia (LID) genetics. LIPDP is a publicly available web resource that investigates the LID-associated genes in a broader functional context through analysis of their relationships based on network models. It uses different underlying networks and allows to incorporate data into the analyses. The core of LIDPD is a set of Panel genes that have been associated with LID in the scientific literature. Different Highlight datasets provide additional gene annotations or associations with Parkinson's disease.

IARP / International Aging Research Portfolio

An online database to centralize aging research projects across numerous research disciplines. IARP integrates information on research grants, peer-reviewed publications, and issued patent applications from multiple sources. Additionally, the database uses flexible project classification mechanisms and tools for analyzing project associations and trends. This system enables scientists to search the centralized project database, to classify and categorize aging projects, and to analyze the funding aspects across multiple research disciplines. The IARP is designed to provide improved allocation and prioritization of scarce research funding, to reduce project overlap and improve scientific collaboration thereby accelerating scientific and medical progress in a rapidly growing area of research.


Collects experimental supported associations between biomolecules (miRNAs, metabolites, small molecules/drugs) and metabolic diseases. BioM2MetDisease provides detailed information including biomolecule and metabolic disease names, species, experimental techniques, experimental tissue, dysregulation patterns, etc. to describe how a biomolecule is related to metabolic disease. It also offers PubChem Compound Identifier (CID) for metabolites and small molecules/drugs, miRBase accession for miRNAs, Disease Ontology (DO) identifier and International Classification of Diseases (ICD-10) for metabolic diseases.


A knowledge base of spinal cord injury (SCI) biology. RegenBase integrates curated literature-sourced facts and experimental details, raw assay data profiling the effect of compounds on enzyme activity and cell growth, and structured SCI domain knowledge in the form of the first ontology for SCI, using Semantic Web representation languages and frameworks. RegenBase uses consistent identifier schemes and data representations that enable automated linking among RegenBase statements and also to other biological databases and electronic resources.

Prep Plus

Receives and edits batches of abstracts in standard North American Association of Central Cancer Registries (NAACCR) format into the central registry. Prep Plus is a program that can run in file-server or client-server mode and stores tracking information in a database. The software can handle abstracts created by any software system. It allows edition of abstracts and presentation of cases individually for correction, as well as generation of error report and visual edition of cases.

DeTEXT / Database for Extracting TEXT

Assists users in assessing text extraction from biomedical literature figures. DeTEXT contains over 500 typical biomedical literature figures existing in about 300 full-text articles randomly chosen from PubMed Central. The database provides annotation guidelines, tools and makes available to users text detection and word recognition evaluation protocols. It constitutes an image dataset for biomedical literature figure detection, recognition, and retrieval that can be used as a benchmark dataset.

DESTAF / Dragon Exploration System for Toxicants and Fertility

A specialized, public resource specifically aimed at researchers investigating reproductive toxicity. Its primary goal is to enable researchers to efficiently and rapidly query the human reproductive toxicity literature in an innovative manner and on a deeper level than articles and from differing gene/protein-, protein-, metabolite / enzyme-, biological- and chemical/toxin-, disease- and human anatomical-centric perspectives.

Manually annotated miRNA-disease and miRNA-gene interaction Corpora

Permits to extract automatically mentions of miRNAs, species, genes/proteins, disease and relations from scientific literature. This tool manually annotated is able to two types of miRNA mentions namely Specific (with numerical identifiers) and Non-Specific (without numerical identifiers). It uses information about miRNAs and miRNA-relations based on published scientific literature. This tool provides the basis for building a knowledge-based approach to model regulatory network for identification of deregulated miRNAs and genes/proteins.

BRD / Biospecimen Research Database

Accommodates Standard Operating Procedures (SOP). BRD contains peer-reviewed primary and review articles as well as SOPs in the field of human Biospecimen Science. It is organized in a hierarchy system consisting of two tiers: (1) SOPs, established protocols; and (2) Biospecimen Evidence-based Practices (BEBP), procedural guidelines developed using literature evidence. The database is searchable by keywords or by curated files like: source organization, tier, applicable biospecimens, and topic.

PGC DB / Psychiatric Genomics Consortium DataBase

Contains the full results from all published PGC studies. The results files of the PGC Database are available below along with the LD pruned version suitable for polygenic profile scoring. The purpose of the Psychiatric Genomics Consortium (PGC) is to unite investigators around the world to conduct meta- and mega-analyses of genome-wide genomic data for psychiatric disorders. The PGC includes over 800 investigators from 38 countries, it represents the largest consortium and the largest biological experiment in the history of psychiatry.

PAHKB / Pulmonary Arterial Hypertension KnowledgeBase

A comprehensive database committed to establishing a comprehensive resource for pulmonary arterial hypertension. PAHKB extracts genetic data from all available sources, including those from association studies, genetic mutation, gene expression, animal model, supporting literature, various genomic annotations, gene networks, cellular and regulatory pathways, as well as microRNAs. Moreover, PAHKB provides online tools for data browsing and searching, data integration, pathway graphical presentation, and gene ranking.