Automated serial extraction of DNA and RNA from biobanked tissue specimens

BMC Biotechnology

Volumn 13, Issue , 2013, Pages

  Mathot, Lucy ^a   Wallin, Monica ^a   Sjöblom, Tobias ^a  

^a UPPSALA UNIVERSITY   (Sweden)

Author keywords

Cancer; Nucleic acid extraction; Open automation; Sample preparation; Tissue biobanking

Indexed keywords

ACID EXTRACTION; AUTOMATED PROCEDURES; BIOLOGICAL SAMPLES; CANCER; GENETIC ANALYSIS; HIGH-QUALITY PRODUCTS; SAMPLE PREPARATION; TISSUE SPECIMENS;

AUTOMATION; DISEASES; DNA; EXTRACTION; GENE ENCODING; HISTOLOGY; POLYMERASE CHAIN REACTION; RNA; TISSUE;

TISSUE ENGINEERING;

DNA; NUCLEIC ACID; RNA; TISSUE EXTRACT;

ARTICLE; AUTOMATED SERIAL EXTRACTION; BATCH PROCESS; BREAST; CONTROLLED STUDY; DNA DETERMINATION; DNA EXTRACTION; DNA MICROARRAY; EXTRACTION; GENE DOSAGE; GENETIC ANALYSIS; HEALTH CARE FACILITY; HETEROZYGOSITY LOSS; HUMAN; HUMAN TISSUE; LABORATORY AUTOMATION; POLYMERASE CHAIN REACTION; QUALITY CONTROL; REVERSE TRANSCRIPTION POLYMERASE CHAIN REACTION; RNA ANALYSIS; RNA EXTRACTION; TISSUE CULTURE;

BIOLOGICAL SPECIMEN BANKS; DNA; DNA, NEOPLASM; GENE DOSAGE; HIGH-THROUGHPUT NUCLEOTIDE SEQUENCING; HUMANS; MICROARRAY ANALYSIS; NEOPLASMS; QUALITY CONTROL; REPRODUCIBILITY OF RESULTS; RNA; RNA, NEOPLASM; ROBOTICS;

EID: 84882732124     PISSN: None     EISSN: 14726750     Source Type: Journal    
DOI: 10.1186/1472-6750-13-66     Document Type: Article

References (14)

1. Botling J, Micke P. Fresh frozen tissue: RNA extraction and quality control. Methods Mol Biol 2011, 675:405-413. 10.1007/978-1-59745-423-0_25, 20949406.
2. Micke P, Ohshima M, Tahmasebpoor S, Ren ZP, Ostman A, Pontén F, et al. Biobanking of fresh frozen tissue: RNA is stable in nonfixed surgical specimens. Lab Invest 2006, 86:202-211. 10.1038/labinvest.3700372, 16402036.
3. Hong SH, Baek HA, Jang KY, Chung MJ, Moon WS, Kang MJ, et al. Effects of delay in the snap freezing of colorectal cancer tissues on the quality of DNA and RNA. J Korean Soc Coloproctol 2010, 26:316-323. 10.3393/jksc.2010.26.5.316, 2998017, 21152133.
4. Morente MM, Mager R, Alonso S, Pezzella F, Spatz A, Knox K, et al. TuBaFrost 2: Standardising tissue collection and quality control procedures for a European virtual frozen tissue bank network. Eur J Cancer 2006, 42:2684-2691. 10.1016/j.ejca.2006.04.029, 17027255.
5. Mathot L, Lindman M, Sjöblom T. Efficient and scalable serial extraction of DNA and RNA from frozen tissue samples. Chem Commun 2011, 47:547-549.
6. Reiser V, Smith RC, Xue J, Kurtz MM, Liu R, Legrand C, et al. High-throughput simultaneous analysis of RNA, protein, and lipid biomarkers in heterogeneous tissue samples. Clin chem 2011, 57:1545-1555. 10.1373/clinchem.2010.157743, 21914789.
7. Dahl F, Stenberg J, Fredriksson S, Welch K, Zhang M, Nilsson M, et al. Multigene amplification and massively parallel sequencing for cancer mutation discovery. Proc Natl Acad Sci U S A 2007, 104:9387-9392. 10.1073/pnas.0702165104, 1871563, 17517648.
8. Bentley DR, Balasubramanian S, Swerdlow HP, Smith GP, Milton J, Brown CG, et al. Accurate whole human genome sequencing using reversible terminator chemistry. Nature 2008, 456:53-59. 10.1038/nature07517, 2581791,2581791, 18987734.
9. Glasel JA. Validity of nucleic acid purities monitored by 260nm/280nm absorbance ratios. Biotechniques 1995, 18:62-63.
10. Thermo Scientific Assessment of Nucleic Acid Purity Wilmington, Delaware USA: NanoDrop Spectrophotometers; [cited 2013 16th August]; Technical Bulletin T042], Available from: http://www.nanodrop.com/Library/T042-NanoDrop-Spectrophotometers-Nucleic-Acid-Purity-Ratios.pdf, Thermo Scientific.
11. Coenen MJ, Ploeg M, Schijvenaars MM, Cornel EB, Karthaus HF, Scheffer H, et al. Allelic imbalance analysis using a single-nucleotide polymorphism microarray for the detection of bladder cancer recurrence. Clin Cancer Res 2008, 14:8198-8204. 10.1158/1078-0432.CCR-08-1103, 19088036.
12. Sjöblom T, Jones S, Wood LD, Parsons DW, Lin J, Barber TD, et al. The consensus coding sequences of human breast and colorectal cancers. Science 2006, 314:268-274. 10.1126/science.1133427, 16959974.
13. Schroeder A, Mueller O, Stocker S, Salowsky R, Leiber M, Gassmann M, et al. The RIN: an RNA integrity number for assigning integrity values to RNA measurements. BMC Mol Biol 2006, 7:3. 10.1186/1471-2199-7-3, 1413964, 16448564.
14. Mathot L, Falk-Sorqvist E, Moens L, Allen M, Sjoblom T, Nilsson M. Automated genotyping of biobank samples by multiplex amplification of insertion/deletion polymorphisms. PloS one 2012, 7(12):e52750. 10.1371/journal.pone.0052750, 3531329, 23300761.