☆Comparing the proteome of snap frozen, RNAlater preserved, and formalin-fixed paraffin-embedded human tissue samples
Large biobanks exist worldwide containing formalin-fixed, paraffin-embedded samples and samples stored in RNAlater. However, the impact of tissue preservation on the result of a quantative proteome analysis remains poorly described. Human colon mucosal biopsies were extracted from the sigmoideum and...
| Main Authors: | , , , , , , |
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| Format: | Article |
| Language: | English |
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Elsevier
2016-03-01
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| Series: | EuPA Open Proteomics |
| Subjects: | |
| Online Access: | http://www.sciencedirect.com/science/article/pii/S2212968515300222 |
| _version_ | 1818570438491504640 |
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| author | Tue Bjerg Bennike Kenneth Kastaniegaard Simona Padurariu Michael Gaihede Svend Birkelund Vibeke Andersen Allan Stensballe |
| author_facet | Tue Bjerg Bennike Kenneth Kastaniegaard Simona Padurariu Michael Gaihede Svend Birkelund Vibeke Andersen Allan Stensballe |
| author_sort | Tue Bjerg Bennike |
| collection | DOAJ |
| description | Large biobanks exist worldwide containing formalin-fixed, paraffin-embedded samples and samples stored in RNAlater. However, the impact of tissue preservation on the result of a quantative proteome analysis remains poorly described.
Human colon mucosal biopsies were extracted from the sigmoideum and either immediately frozen, stabilized in RNAlater, or stabilized by formalin-fixation. In one set of biopsies, formalin stabilization was delayed for 30 min. The protein content of the samples was characterized by high throughput quantitative proteomics.
We were able to identify a similar high number of proteins in the samples regardless of preservation method, with only minor differences in protein quantitation. |
| first_indexed | 2024-12-14T13:41:19Z |
| format | Article |
| id | doaj.art-9a93e4a9f1994a8294053f8079fe86ef |
| institution | Directory Open Access Journal |
| issn | 2212-9685 |
| language | English |
| last_indexed | 2024-12-14T13:41:19Z |
| publishDate | 2016-03-01 |
| publisher | Elsevier |
| record_format | Article |
| series | EuPA Open Proteomics |
| spelling | doaj.art-9a93e4a9f1994a8294053f8079fe86ef2022-12-21T22:59:26ZengElsevierEuPA Open Proteomics2212-96852016-03-0110C91810.1016/j.euprot.2015.10.001☆Comparing the proteome of snap frozen, RNAlater preserved, and formalin-fixed paraffin-embedded human tissue samplesTue Bjerg Bennike0Kenneth Kastaniegaard1Simona Padurariu2Michael Gaihede3Svend Birkelund4Vibeke Andersen5Allan Stensballe6Research Unit for Molecular Diagnostic and Clinical Research, Hospital of Southern Jutland, Aabenraa, DenmarkDepartment of Health Science and Technology, Aalborg University, Aalborg, DenmarkDepartment of Otolaryngology, Head and Neck Surgery, Aalborg University Hospital, Aalborg, Denmark,Department of Otolaryngology, Head and Neck Surgery, Aalborg University Hospital, Aalborg, Denmark,Department of Health Science and Technology, Aalborg University, Aalborg, DenmarkResearch Unit for Molecular Diagnostic and Clinical Research, Hospital of Southern Jutland, Aabenraa, DenmarkDepartment of Health Science and Technology, Aalborg University, Aalborg, DenmarkLarge biobanks exist worldwide containing formalin-fixed, paraffin-embedded samples and samples stored in RNAlater. However, the impact of tissue preservation on the result of a quantative proteome analysis remains poorly described. Human colon mucosal biopsies were extracted from the sigmoideum and either immediately frozen, stabilized in RNAlater, or stabilized by formalin-fixation. In one set of biopsies, formalin stabilization was delayed for 30 min. The protein content of the samples was characterized by high throughput quantitative proteomics. We were able to identify a similar high number of proteins in the samples regardless of preservation method, with only minor differences in protein quantitation.http://www.sciencedirect.com/science/article/pii/S2212968515300222ProteomicsRNAlaterFormalin-fixedParaffin-embeddedHuman colon mucosaPreservationMass spectrometry |
| spellingShingle | Tue Bjerg Bennike Kenneth Kastaniegaard Simona Padurariu Michael Gaihede Svend Birkelund Vibeke Andersen Allan Stensballe ☆Comparing the proteome of snap frozen, RNAlater preserved, and formalin-fixed paraffin-embedded human tissue samples EuPA Open Proteomics Proteomics RNAlater Formalin-fixed Paraffin-embedded Human colon mucosa Preservation Mass spectrometry |
| title | ☆Comparing the proteome of snap frozen, RNAlater preserved, and formalin-fixed paraffin-embedded human tissue samples |
| title_full | ☆Comparing the proteome of snap frozen, RNAlater preserved, and formalin-fixed paraffin-embedded human tissue samples |
| title_fullStr | ☆Comparing the proteome of snap frozen, RNAlater preserved, and formalin-fixed paraffin-embedded human tissue samples |
| title_full_unstemmed | ☆Comparing the proteome of snap frozen, RNAlater preserved, and formalin-fixed paraffin-embedded human tissue samples |
| title_short | ☆Comparing the proteome of snap frozen, RNAlater preserved, and formalin-fixed paraffin-embedded human tissue samples |
| title_sort | ☆comparing the proteome of snap frozen rnalater preserved and formalin fixed paraffin embedded human tissue samples |
| topic | Proteomics RNAlater Formalin-fixed Paraffin-embedded Human colon mucosa Preservation Mass spectrometry |
| url | http://www.sciencedirect.com/science/article/pii/S2212968515300222 |
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