Biobank Toolkit

The Biobank TOOLKIT provides a one-stop location for access to biobanking tools.

Tools are searchable by:

This 2007 document focuses on developing recommendations towards common minimal technical standards in order to stimulate the creation, development and networking of Biological Resource Centres (BRCs) at the international level, and, through their use, enhance and improve cancer research worldwide. Prepared by the International Agency for Research on Cancer (IARC) (2007).
This document compares selected reference guidelines written by well-known organizations. These guidelines cover all biobanking steps, i.e. biological sample collection, labelling, processing, and storage applied to a wide range of sample types. A P3G-prepared document (2008).
Display P3G documents
This website aims to contribute to the integration of genetics and epidemiologic research. A recommended minimal set of high priority measures for use in Genome-wide Association Studies (GWAS) and other large-scale genomic research effort are presented in the PhenX toolkit under different domains. Standard procedure protocols are provided for each measure in the toolkit. PhenX is led by RTI International and funded by the National Human Genome Research Institute (NHGRI).
In support of the Framework for Responsible Sharing of Genomic and Health-Related Data, P3G-IPAC* prepared 3 consent tools for the Global Alliance for Genomics and Health. The first, on Legacy Consent and International Data Sharing (A), covers situations where researchers already have data collected using older “legacy” consents. The second, on Clauses for International Data Sharing (B) addresses situations where researchers wish to add clauses on international data sharing to actual consents. The third, a Generic International Data Sharing Prospective Consent Form, provides a generic template for new, prospective studies (C). All will require local adaptation. *Public Population Project in Genomics and Society: International Policy interoperability and data Access Clearinghouse (2014)
Display P3G documents
This website lists studies investigating the interaction of genotype and phenotype. Open access data includes a study description, phenotypic variables of interest, study documents (questionnaire, standard operating procedures, consent forms, etc), and genotype-phenotype analyses. The database can be searched by studies, disease, or keywords and access to datasets can be requested. This website is maintained by the National Center for Biotechnology Information (NCBI). (2006).
The DataSHaPER (Data Schema and Harmonization Platform for Epidemiological Research) is both a scientific approach and a suite of practical tools. Its primary aims are to facilitate the prospective harmonization of emerging biobanks, provide a template for retrospective synthesis and support the development of questionnaires and information-collection devices, even when pooling of data with other biobanks is not foreseen. The development of these tools has been jointly funded by P³G, CPT, PHOEBE, and Generation Scotland.
Note: The software on this page is no longer supported and is to be used at your own risk. This website contains the C and C++ source files for SPLINKExternal, TRANSMITExternal, PED2SPLExternal, GH2STATExternal and SNPHAPExternal. It also displays packages for analysis of genetic association studies for the STATA statistical system together with some exercises, and some miscellaneous programs in the R language. A Cambridge Institute for Medical Research-maintained website.
Dr David Reich's Laboratory does both theoretical and experimental work in human population genetics. The website provides access to a variety of software including ANCESTRYMAP, EIGENSOFT and EIGENSTRAT. The software that are available address a range of key issues in population genetics including admixture mapping, and the exploration, detection and correction for population stratification (ancestral substructure) in genetic association studies. A Harvard University-maintained website.
This website presents the EGAPP™ (Evaluation of Genomic Applications in Practice and Prevention) project whose main goal is to establish and test a systematic, evidence-based process for evaluating genetic tests and other applications of genomic technology that are in transition from research to clinical and public health practice. EGAPP is an initiative launched by the Centers for Disease Control and Prevention in 2004.
Epi Info is a versatile suite of software tools developed for the interface between epidemiology and public health. It can be used to develop a simple questionnaire or form, customize the data entry process or undertake basic analyses. The emphasis is on speed and ease of use; it is not a platform for sophisticated modelling. The software and website are maintained by the Centers for Disease Control and Prevention (CDC) in the United States.
The EQUATOR Network is an international initiative that seeks to improve reliability and value of medical research literature by promoting transparent and accurate reporting of research studies. The EQUATOR Network Resource Centre provides up-to-date resources related to health research reporting mainly for  authors of research articles, journal editors and peer reviewers and reporting guideline developers.
The ESPRESSO project and the DataSHIELD project develop statistical methods for meta-analysis of large scale studies. These projects provide biostatistical tools for designing and conducting harmonized meta-analyses in line with the aim of BioSHaRE-EU to "develop and apply methods and tools that will provide a foundation for an ambitious program of harmonisation and standardisation in European biobanks and major biomedical studies"". The ESPRESSO algorithm was developed by Dr Amadou Gaye and Prof Paul R. Burton of the Data to Knowledge research group (D2K).

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