Literature DB >> 24955734

How to design biospecimen identifiers and integrate relevant functionalities into your biospecimen management system.

Sara Y Nussbeck1, Daniela Skrowny, Sheila O'Donoghue, Thomas G Schulze, Krister Helbing.   

Abstract

Effective tracking of biospecimens within a biobank requires that each biospecimen has a unique identifier (ID). This ID can be found on the sample container as well as in the biospecimen management system. In the latter, the biospecimen ID is the key to annotation data such as location, quality, and sample processing. Guidelines such as the Best Practices from the International Society of Biological and Environmental Repositories only state that a unique identifier should be issued for each sample. However, to our knowledge, all guidelines lack a specific description of how to actually generate such an ID and how this can be supported by an IT system. Here, we provide a guide for biobankers on how to generate a biospecimen ID for your biobank. We also provide an example of how to apply this guide using a longitudinal multi-center research project (and its biobank). Starting with a description of the biobank's purpose and workflows through to collecting requirements from stakeholders and relevant documents (i.e., guidelines or data protection concepts), and existing IT-systems, we describe in detail how a concept to develop an ID system can be developed from this information. The concept contains two parts: one is the generation of the biospecimen ID according to the requirements of stakeholders, existing documentation such as guidelines or data protection concepts, and existing IT-infrastructures, and the second is the implementation of the biospecimen IDs and related functionalities covering the handling of individual biospecimens within an existing biospecimen management system. From describing the concept, the article moves on to how the new concept supports both existing or planned biobank workflows. Finally, the implementation and validation step is outlined to the reader and practical hints are provided for each step.

Mesh:

Year:  2014        PMID: 24955734      PMCID: PMC4066232          DOI: 10.1089/bio.2013.0085

Source DB:  PubMed          Journal:  Biopreserv Biobank        ISSN: 1947-5543            Impact factor:   2.300


  18 in total

1.  Managing sensitive phenotypic data and biomaterial in large-scale collaborative psychiatric genetic research projects: practical considerations.

Authors:  S Y Demiroglu; D Skrowny; M Quade; J Schwanke; M Budde; V Gullatz; D Reich-Erkelenz; J J Jakob; P Falkai; O Rienhoff; K Helbing; U Heilbronner; T G Schulze
Journal:  Mol Psychiatry       Date:  2012-03-06       Impact factor: 15.992

2.  Considerations for uniform and accurate biospecimen labelling in a biorepository and research environment.

Authors:  Andrew B Kay; Daniel K Estrada; Sergey Mareninov; Steven S Silver; Clara E Magyar; Sarah M Dry; Timothy F Cloughesy; William H Yong
Journal:  J Clin Pathol       Date:  2011-01-07       Impact factor: 3.411

3.  Translating cryobiology principles into trans-disciplinary storage guidelines for biorepositories and biobanks: a concept paper.

Authors:  E Benson; F Betson; B J Fuller; K Harding; O Kofanova
Journal:  Cryo Letters       Date:  2013 May-Jun       Impact factor: 1.066

4.  Barcode of life.

Authors:  Mark Y Stoeckle; Paul D N Hebert
Journal:  Sci Am       Date:  2008-10       Impact factor: 2.142

5.  Standard preanalytical coding for biospecimens: review and implementation of the Sample PREanalytical Code (SPREC).

Authors:  Sabine Lehmann; Fiorella Guadagni; Helen Moore; Garry Ashton; Michael Barnes; Erica Benson; Judith Clements; Iren Koppandi; Domenico Coppola; Sara Yasemin Demiroglu; Yvonne DeSouza; Annemieke De Wilde; Jacko Duker; James Eliason; Barbara Glazer; Keith Harding; Jae Pil Jeon; Joseph Kessler; Theresa Kokkat; Umberto Nanni; Kathi Shea; Amy Skubitz; Stella Somiari; Gunnel Tybring; Elaine Gunter; Fotini Betsou
Journal:  Biopreserv Biobank       Date:  2012-08       Impact factor: 2.300

6.  International approaches to advancing biospecimen science.

Authors:  Helen M Moore; Carolyn C Compton; Joseph Alper; Jimmie B Vaught
Journal:  Cancer Epidemiol Biomarkers Prev       Date:  2011-03-23       Impact factor: 4.254

7.  A proposed schema for classifying human research biobanks.

Authors:  Peter H Watson; Rebecca O Barnes
Journal:  Biopreserv Biobank       Date:  2011-10-03       Impact factor: 2.300

Review 8.  Biobanking past, present and future: responsibilities and benefits.

Authors:  Yvonne G De Souza; John S Greenspan
Journal:  AIDS       Date:  2013-01-28       Impact factor: 4.177

9.  Sources of bias in specimens for research about molecular markers for cancer.

Authors:  David F Ransohoff; Margaret L Gourlay
Journal:  J Clin Oncol       Date:  2009-12-28       Impact factor: 44.544

10.  bold: The Barcode of Life Data System (http://www.barcodinglife.org).

Authors:  Sujeevan Ratnasingham; Paul D N Hebert
Journal:  Mol Ecol Notes       Date:  2007-05-01
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  6 in total

1.  [The German research network for mental disorders].

Authors:  M Bauer; T Banaschewski; A Heinz; I Kamp-Becker; A Meyer-Lindenberg; F Padberg; M A Rapp; R Rupprecht; F Schneider; T G Schulze; H-U Wittchen
Journal:  Nervenarzt       Date:  2016-09       Impact factor: 1.214

Review 2.  Biobanking for necrotizing enterocolitis: Needs and standards.

Authors:  Hala Chaaban; Troy A Markel; Jennifer Canvasser; Misty Good
Journal:  J Pediatr Surg       Date:  2019-05-11       Impact factor: 2.545

3.  HDAC1 links early life stress to schizophrenia-like phenotypes.

Authors:  Sanaz Bahari-Javan; Hristo Varbanov; Rashi Halder; Eva Benito; Lalit Kaurani; Susanne Burkhardt; Heike Anderson-Schmidt; Ion Anghelescu; Monika Budde; Roman M Stilling; Joan Costa; Juan Medina; Detlef E Dietrich; Christian Figge; Here Folkerts; Katrin Gade; Urs Heilbronner; Manfred Koller; Carsten Konrad; Sara Y Nussbeck; Harald Scherk; Carsten Spitzer; Sebastian Stierl; Judith Stöckel; Andreas Thiel; Martin von Hagen; Jörg Zimmermann; Antje Zitzelsberger; Sybille Schulz; Andrea Schmitt; Ivana Delalle; Peter Falkai; Thomas G Schulze; Alexander Dityatev; Farahnaz Sananbenesi; André Fischer
Journal:  Proc Natl Acad Sci U S A       Date:  2017-05-22       Impact factor: 11.205

4.  Neoadjuvant Therapy in Rectal Cancer - Biobanking of Preoperative Tumor Biopsies.

Authors:  Peter Jo; Manuel Nietert; Linda Gusky; Julia Kitz; Lena C Conradi; Annegret Müller-Dornieden; Philipp Schüler; Hendrik A Wolff; Josef Rüschoff; Philipp Ströbel; Marian Grade; Torsten Liersch; Tim Beißbarth; Michael B Ghadimi; Ulrich Sax; Jochen Gaedcke
Journal:  Sci Rep       Date:  2016-10-18       Impact factor: 4.379

Review 5.  Aspects of Modern Biobank Activity - Comprehensive Review.

Authors:  Wiktor Paskal; Adriana M Paskal; Tomasz Dębski; Maciej Gryziak; Janusz Jaworowski
Journal:  Pathol Oncol Res       Date:  2018-05-05       Impact factor: 3.201

Review 6.  A Checklist for Reproducible Computational Analysis in Clinical Metabolomics Research.

Authors:  Xinsong Du; Juan J Aristizabal-Henao; Timothy J Garrett; Mathias Brochhausen; William R Hogan; Dominick J Lemas
Journal:  Metabolites       Date:  2022-01-17
  6 in total

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