Literature DB >> 27551929

Effects of Cold Ischemia on Gene Expression: A Review and Commentary.

William E Grizzle1, Dennis Otali1, Katherine C Sexton1, Daniel S Atherton1.   

Abstract

Frequently investigators request that tissues be collected and processed in less than one hour following removal from a patient. Some biorepositories expend significant personnel time and other resources in trying to meet such goals; however, it is unclear whether the perceived benefits of relatively short cold ischemia times warrant these added costs. The literature of human surgical tissues prospectively exposed to cold ischemia at several time points was reviewed to compare the changes in transcripts/genes and microRNA with time of cold ischemia. Also, reports of protein changes in response to cold ischemia were correlated to changes in genes. The literature is limited; however, for most tissues, only a small proportion of transcripts/genes (<1%) changes up to 3 hours following surgery and most transcripts increase rather than decrease in less than 2 hours of cold ischemia. Biorepositories and investigators must consider the literature for evidence of significant changes in molecular results from tissues before spending significant resources on relatively rapid collection of tissues to meet cold ischemia times of less than 3 hours. Instead, those using human tissues in research must consider if the cold ischemia times affect their use in specific research; hence are these tissues "fit for purpose?"

Entities:  

Keywords:  cold; collection; human; ischemia; research; tissue

Mesh:

Substances:

Year:  2016        PMID: 27551929      PMCID: PMC5180081          DOI: 10.1089/bio.2016.0013

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


  41 in total

1.  Effects of ischemia on gene expression.

Authors:  J Huang; R Qi; J Quackenbush; E Dauway; E Lazaridis; T Yeatman
Journal:  J Surg Res       Date:  2001-08       Impact factor: 2.192

2.  Stability and heterogeneity of expression profiles in lung cancer specimens harvested following surgical resection.

Authors:  Fiona H Blackhall; Melania Pintilie; Dennis A Wigle; Igor Jurisica; Ni Liu; Nikolina Radulovich; Michael R Johnston; Shaf Keshavjee; Ming-Sound Tsao
Journal:  Neoplasia       Date:  2004 Nov-Dec       Impact factor: 5.715

3.  Comparison of relative mRNA quantification models and the impact of RNA integrity in quantitative real-time RT-PCR.

Authors:  Simone Fleige; Vanessa Walf; Silvia Huch; Christian Prgomet; Julia Sehm; Michael W Pfaffl
Journal:  Biotechnol Lett       Date:  2006-08-10       Impact factor: 2.461

Review 4.  Developments in biospecimen research.

Authors:  Jim Vaught
Journal:  Br Med Bull       Date:  2015-04-24       Impact factor: 4.291

5.  Effects of tissue handling on RNA integrity and microarray measurements from resected breast cancers.

Authors:  Christos Hatzis; Hongxia Sun; Hui Yao; Rebekah E Hubbard; Funda Meric-Bernstam; Gildy V Babiera; Yun Wu; Lajos Pusztai; W Fraser Symmans
Journal:  J Natl Cancer Inst       Date:  2011-10-27       Impact factor: 13.506

6.  Influence of surgical manipulation on prostate gene expression: implications for molecular correlates of treatment effects and disease prognosis.

Authors:  Daniel W Lin; Ilsa M Coleman; Sarah Hawley; Chung Y Huang; Ruth Dumpit; David Gifford; Philip Kezele; Hau Hung; Beatrice S Knudsen; Alan R Kristal; Peter S Nelson
Journal:  J Clin Oncol       Date:  2006-07-05       Impact factor: 44.544

7.  Analysis of the molecular quality of human tissues: an experience from the Cooperative Human Tissue Network.

Authors:  Scott D Jewell; Mythily Srinivasan; Linda M McCart; Nita Williams; William H Grizzle; Virginia LiVolsi; Greg MacLennan; Daniel D Sedmak
Journal:  Am J Clin Pathol       Date:  2002-11       Impact factor: 2.493

8.  Assessing the impact of tissue devitalization time on genome-wide gene expression analysis in ovarian tumor samples.

Authors:  Catherine I Dumur; Sherjeel Sana; Amy C Ladd; Andrea Ferreira-Gonzalez; David S Wilkinson; Celeste N Powers; Carleton T Garrett
Journal:  Diagn Mol Pathol       Date:  2008-12

9.  Impact of RNA degradation on gene expression profiling.

Authors:  Lennart Opitz; Gabriela Salinas-Riester; Marian Grade; Klaus Jung; Peter Jo; Georg Emons; B Michael Ghadimi; Tim Beissbarth; Jochen Gaedcke
Journal:  BMC Med Genomics       Date:  2010-08-09       Impact factor: 3.063

10.  Gene expression in colorectal neoplasia: modifications induced by tissue ischaemic time and tissue handling protocol.

Authors:  Susan E Bray; Fiona E M Paulin; Siew Chinn Fong; Lee Baker; Frank A Carey; David A Levison; Robert J C Steele; Neil M Kernohan
Journal:  Histopathology       Date:  2010-01       Impact factor: 5.087

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  13 in total

1.  Commentary on Improving Biospecimen Utilization by Classic Biobanks: Identifying Past and Minimizing Future Mistakes.

Authors:  William E Grizzle; Katherine C Sexton
Journal:  Biopreserv Biobank       Date:  2018-12-01       Impact factor: 2.300

2.  Biological, Medical, and Other Tissue Variables Affecting Biospecimen Utilization.

Authors:  Dennis Otali; Sameer Al Diffalha; William E Grizzle
Journal:  Biopreserv Biobank       Date:  2019-06       Impact factor: 2.300

3.  Ensuring Effective Utilization of Biospecimens: Design, Marketing, and Other Important Approaches.

Authors:  Marianna J Bledsoe; Katherine C Sexton
Journal:  Biopreserv Biobank       Date:  2019-06       Impact factor: 2.300

4.  The Use of Human Tissues for Research: What Investigators Need to Know.

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Journal:  Altern Lab Anim       Date:  2022-07-08       Impact factor: 2.438

5.  The effect of pre-analytical variables on downstream application and data analysis of human endometrial biopsies.

Authors:  A Maclean; M Adishesh; L Button; L Richards; R Alnafakh; E Newton; J Drury; D K Hapangama
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Review 6.  Cancer biology as revealed by the research autopsy.

Authors:  Christine A Iacobuzio-Donahue; Chelsea Michael; Priscilla Baez; Rajya Kappagantula; Jody E Hooper; Travis J Hollman
Journal:  Nat Rev Cancer       Date:  2019-09-13       Impact factor: 60.716

7.  Impact of Preanalytical Factors on the Measurement of Tumor Tissue Biomarkers Using Immunohistochemistry.

Authors:  Aditi Bagchi; Zachary Madaj; Kelly B Engel; Ping Guan; Daniel C Rohrer; Dana R Valley; Emily Wolfrum; Kristin Feenstra; Nancy Roche; Galen Hostetter; Helen M Moore; Scott D Jewell
Journal:  J Histochem Cytochem       Date:  2021-03-01       Impact factor: 2.479

8.  Multicenter fresh frozen tissue sampling in colorectal cancer: does the quality meet the standards for state of the art biomarker research?

Authors:  Z S Lalmahomed; R R J Coebergh van den Braak; M H A Oomen; S P Arshad; P H J Riegman; J N M IJzermans
Journal:  Cell Tissue Bank       Date:  2017-03-03       Impact factor: 1.522

Review 9.  Application of Next-Generation Sequencing in Neurodegenerative Diseases: Opportunities and Challenges.

Authors:  Cigir Biray Avci; Behrouz Shademan; Masoud Nikanfar; Alireza Nourazarian
Journal:  Neuromolecular Med       Date:  2020-05-12       Impact factor: 3.843

10.  Differential effect of surgical manipulation on gene expression in normal breast tissue and breast tumor tissue.

Authors:  Inge Søkilde Pedersen; Mads Thomassen; Qihua Tan; Torben Kruse; Ole Thorlacius-Ussing; Jens Peter Garne; Henrik Bygum Krarup
Journal:  Mol Med       Date:  2018-11-16       Impact factor: 6.354

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