Welcome to the newest version of the Biospecimen Research Database (BRD), which accommodates Standard Operating Procedures (SOP). We encourage your contributions to our new SOP library!
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 email@example.com. 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).
The purpose of this study was to determine the effects of cold ischemia duration and temperature on the immunofluorescence of 34 proteins in formalin-fixed, paraffin-embedded (FFPE) breast cancer specimens and to identify protein pairs which could serve as tissue quality biomarkers of cold ischemia time. The study consisted of 93 breast cancer specimens with cold ischemia times of 25-415 min on a tissue microarray (2 0.6 mm cores/tumor) and 100 breast cancer specimens that were vacuum sealed and stored at 4°C for 1-72 h before fixation on a tissue microarray (2 1 mm cores/tumor). A tissue microarray containing 0.6 mm cores of 11 normal breast tissue specimens, each of which were exposed to cold ischemia times of 20 min, 2 h, 24 h and 48 h (4 cores/time-point) was also included in the study. TQI was calculated by subtraction of the log2 normalization of the AQUA score of pairs of proteins.
|Technology Platform||Analyte||Immunohistochemistry||Protein||Tissue microarray||Protein|
Look for a link to the BRD on the bottom of the PubMed abstract page, under "LinkOut-more resources".
The review appears in Cancer Research's OnlineFirst section, and both summarizes the challenges associated with molecular analysis of FFPE biospecimens as well as highlights analytical techniques and parameters that result in strong concordance with a fresh or frozen cohort.More...