The BRD is a free and publicly accessible database that contains peer-reviewed primary and review articles as well as SOPs in the field of human Biospecimen Science.
Each literature curation has been created by a Ph.D.-level scientist to capture the following: (1) relevant parameters that include the biospecimen investigated (type and location, patient diagnosis), preservation method, analyte(s) of interest and technology platform(s) used for analysis; (2) the pre-analytical factors investigated, including those relating to pre-acquisition, acquisition, preservation, processing, storage, and analysis; and (3) an original summary of relevant results. Browse literature curations or submit specific queries using the Advanced Search page with keyword search for specific biomakers or genes, PubMed ID, or pre-analytical factor values (anticoagulant, fixative, reagent, etc).
SOPs are 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. SOP-tiered documents are a product of the Source organization specified. SOPs shared by external organizations are done so only with their consent, and have not been vetted by BBRB. SOP documents are searchable by keyword, or by curated fields (source organization, tier, applicable biospecimens, and topic) on the Search SOPs page. Related SOP documents are assembled in Compendiums, which are viewable on the SOP Compendiums page. You can also create your own Compendium and download SOPs together rather than individually.
We encourage you to submit SOPs from your lab or institution for inclusion in the BRD by clicking on the Submit an SOP tab or at biospecimens@mail.nih.gov. Individuals and organizations that suggest articles for inclusion in the BRD will receive acknowledgement on the paper's curation page. Articles may be submitted by clicking on the Suggest a New Paper tab or via the email above. Feedback is also welcome.
The BRD is an initiative of the NCI Biorepositories and Biospecimen Research Branch (BBRB).
This study compared the yield and purity of total DNA and DNA from the microbiome between specimens that underwent extraction with the AllPrep DNA/RNA Mini Kit (AllPrep) compared to the QIAamp Fast DNA Stool Mini Kit (QIAamp). The analysis was conducted using fecal specimens from two different Dutch cohorts. Potential associations between microbial composition, extraction method effects, and volunteer characteristics were also investigated. Fecal specimens were self-collected at home by 292 participants as part of the Lifelines-DEEP (LLD) follow-up (diagnosis not specified) and from 453 healthy participants from the 500 Functional Genomics cohort. Within 15 min of collection, specimens were frozen, transported on dry ice, and stored at -80°C until DNA extraction. DNA was extracted using the AllPrep DNA/RNA Mini Kit or the QIAamp Fast DNA Stool Mini Kit using a modification for the QIAcube instrument that increased the lysis temperature from 70°C to 95°C. DNA yield was quantified by spectrophotometer in all specimens from the LLD cohort and in specimens from the 500FG that underwent extraction with the QIAamp Fast DNA Stool Mini Kit.; DNA yield was quantified by the Quant-iT PicoGreen dsDNA assay in specimens from the 500FP cohort that underwent extraction with the AllPrep DNA/RNA Kit. DNA purity was evaluated using a spectrophotometer (A260/A280). Sequencing libraries were prepared from DNA extracted with the QIAamp Fast DNA Kit using the NEBNext DNA Library Prep Kit or from DNA extracted with the AllPrep DNA/RNA Kit with the Nextera XT DNA Library Preparation Kit off-site.
Technology Platform | Analyte | Spectrophotometry | DNA | Next generation sequencing | DNA | Fluorometry | DNA |
---|
A new paper from BBRB reporting notable histologic findings in GTEx tissues was just released online in Archives of Pathology and Laboratory Medicine. View it HERE.
Join us for a Biobanking for Precision Medicine Seminar by Dr. Muhammed Murtaza, M.B.B.S., Ph.D., entitled "Preanalytical Considerations for Analysis of Circulating Tumor DNA"
Date: Wednesday, April 24, 2024, 1:00 p.m.–2:30 p.m. ET
Location: Virtual, WebEx Registration
Participants must register using the WebEx link prior to the meeting.