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 compare and contrast mass spectrometry-generated peptide profiles among serum, EDTA plasma, citrate plasma, and heparin plasma. A total of 22 samples were collected from healthy males into tubes containing clot activator (serum) or EDTA, heparin, or citrate (plasma). Prior to freezing at -80C, plasma specimens were centrifuged and filtered (0.2 m pore size). After a clot time of 1 h, serum was centrifuged and frozen at -80°C. Specimens were fractionated by reversed-phase (RP)-HPLC prior to peptide identification by matrix-assisted laser desorption/ionization tandem mass spectrometry (MALDI-TOF MS/MS) and electrospray ionization quadrupole time-of-flight tandem mass spectrometry (nESI-qTOF MS/MS).
|Technology Platform||Analyte||HPLC||Peptide||MALDI-TOF MS||Peptide||ESI-TOF-MS||Peptide|
The purpose of this study was to compare peptide profiles produced by platelet poor plasma (PPP) processed by different methods. Plasma (EDTA and citrate) was collected from healthy male volunteers at two different sites, which also differed in their PPP preparation: filtration of centrifuged specimens through a 0.2 µm cellulose acetate filter, or two rounds of centrifugation at 4°C. A controlled experimental comparison of different PPP preparation methods was also conducted in which plasma was filtered through a 0.2 µm cellulose acetate filter, or by centrifugation at 2000 x g for 10 min, then 2500 x g for 15 min at either room temperature or 4°C. PPP was frozen at -80°C before being fractionated using RP-HPLC prior to analysis by MALDI-TOF MS/MS and nESI-qTOF MS/MS.
|Technology Platform||Analyte||HPLC||Peptide||ESI-TOF-MS||Peptide||MALDI-TOF MS||Peptide|
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...