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Items: 1 to 20 of 745

1.

Comparison of RNA-Seq by poly (A) capture, ribosomal RNA depletion, and DNA microarray for expression profiling.

Zhao W, He X, Hoadley KA, Parker JS, Hayes DN, Perou CM.

BMC Genomics. 2014 Jun 2;15:419. doi: 10.1186/1471-2164-15-419.

2.

Mining the Archives: A Cross-Platform Analysis of Gene Expression Profiles in Archival Formalin-Fixed Paraffin-Embedded Tissues.

Webster AF, Zumbo P, Fostel J, Gandara J, Hester SD, Recio L, Williams A, Wood CE, Yauk CL, Mason CE.

Toxicol Sci. 2015 Dec;148(2):460-72. doi: 10.1093/toxsci/kfv195.

3.

Whole-Transcriptome profiling of formalin-fixed, paraffin-embedded renal cell carcinoma by RNA-seq.

Li P, Conley A, Zhang H, Kim HL.

BMC Genomics. 2014 Dec 11;15:1087. doi: 10.1186/1471-2164-15-1087.

4.

Gene expression profiles from formalin fixed paraffin embedded breast cancer tissue are largely comparable to fresh frozen matched tissue.

Mittempergher L, de Ronde JJ, Nieuwland M, Kerkhoven RM, Simon I, Rutgers EJ, Wessels LF, Van't Veer LJ.

PLoS One. 2011 Feb 11;6(2):e17163. doi: 10.1371/journal.pone.0017163.

5.

Next-generation sequencing of RNA and DNA isolated from paired fresh-frozen and formalin-fixed paraffin-embedded samples of human cancer and normal tissue.

Hedegaard J, Thorsen K, Lund MK, Hein AM, Hamilton-Dutoit SJ, Vang S, Nordentoft I, Birkenkamp-Demtröder K, Kruhøffer M, Hager H, Knudsen B, Andersen CL, Sørensen KD, Pedersen JS, Ørntoft TF, Dyrskjøt L.

PLoS One. 2014 May 30;9(5):e98187. doi: 10.1371/journal.pone.0098187.

6.

A comparison between ribo-minus RNA-sequencing and polyA-selected RNA-sequencing.

Cui P, Lin Q, Ding F, Xin C, Gong W, Zhang L, Geng J, Zhang B, Yu X, Yang J, Hu S, Yu J.

Genomics. 2010 Nov;96(5):259-65. doi: 10.1016/j.ygeno.2010.07.010.

7.

Gene expression, single nucleotide variant and fusion transcript discovery in archival material from breast tumors.

Norton N, Sun Z, Asmann YW, Serie DJ, Necela BM, Bhagwate A, Jen J, Eckloff BW, Kalari KR, Thompson KJ, Carr JM, Kachergus JM, Geiger XJ, Perez EA, Thompson EA.

PLoS One. 2013 Nov 22;8(11):e81925. doi: 10.1371/journal.pone.0081925.

8.

Preparation of archival formalin-fixed paraffin-embedded mouse liver samples for use with the Agilent gene expression microarray platform.

Jackson AF, Williams A, Moffat I, Phillips SL, Recio L, Waters MD, Lambert IB, Yauk CL.

J Pharmacol Toxicol Methods. 2013 Sep-Oct;68(2):260-8. doi: 10.1016/j.vascn.2013.02.008.

PMID:
23458726
9.

The use of exome capture RNA-seq for highly degraded RNA with application to clinical cancer sequencing.

Cieslik M, Chugh R, Wu YM, Wu M, Brennan C, Lonigro R, Su F, Wang R, Siddiqui J, Mehra R, Cao X, Lucas D, Chinnaiyan AM, Robinson D.

Genome Res. 2015 Sep;25(9):1372-81. doi: 10.1101/gr.189621.115.

10.

Identification and validation of differentially expressed transcripts by RNA-sequencing of formalin-fixed, paraffin-embedded (FFPE) lung tissue from patients with Idiopathic Pulmonary Fibrosis.

Vukmirovic M, Herazo-Maya JD, Blackmon J, Skodric-Trifunovic V, Jovanovic D, Pavlovic S, Stojsic J, Zeljkovic V, Yan X, Homer R, Stefanovic B, Kaminski N.

BMC Pulm Med. 2017 Jan 12;17(1):15. doi: 10.1186/s12890-016-0356-4.

11.

Analyses and interpretation of whole-genome gene expression from formalin-fixed paraffin-embedded tissue: an illustration with breast cancer tissues.

Kibriya MG, Jasmine F, Roy S, Paul-Brutus RM, Argos M, Ahsan H.

BMC Genomics. 2010 Nov 8;11:622. doi: 10.1186/1471-2164-11-622.

12.

Quantitative expression profiling in formalin-fixed paraffin-embedded samples by affymetrix microarrays.

Abdueva D, Wing M, Schaub B, Triche T, Davicioni E.

J Mol Diagn. 2010 Jul;12(4):409-17. doi: 10.2353/jmoldx.2010.090155.

13.

Identification of mRNAs and lincRNAs associated with lung cancer progression using next-generation RNA sequencing from laser micro-dissected archival FFPE tissue specimens.

Morton ML, Bai X, Merry CR, Linden PA, Khalil AM, Leidner RS, Thompson CL.

Lung Cancer. 2014 Jul;85(1):31-9. doi: 10.1016/j.lungcan.2014.03.020.

14.

Clinical relevance of DNA microarray analyses using archival formalin-fixed paraffin-embedded breast cancer specimens.

Sadi AM, Wang DY, Youngson BJ, Miller N, Boerner S, Done SJ, Leong WL.

BMC Cancer. 2011 Jun 16;11:253:1-13. doi: 10.1186/1471-2407-11-25.

15.

Whole transcriptome RNA-Seq analysis of breast cancer recurrence risk using formalin-fixed paraffin-embedded tumor tissue.

Sinicropi D, Qu K, Collin F, Crager M, Liu ML, Pelham RJ, Pho M, Dei Rossi A, Jeong J, Scott A, Ambannavar R, Zheng C, Mena R, Esteban J, Stephans J, Morlan J, Baker J.

PLoS One. 2012;7(7):e40092. doi: 10.1371/journal.pone.0040092.

16.

Single read and paired end mRNA-Seq Illumina libraries from 10 nanograms total RNA.

Sengupta S, Bolin JM, Ruotti V, Nguyen BK, Thomson JA, Elwell AL, Stewart R.

J Vis Exp. 2011 Oct 27;(56):e3340. doi: 10.3791/3340.

17.

Whole-genome gene expression profiling of formalin-fixed, paraffin-embedded tissue samples.

April C, Klotzle B, Royce T, Wickham-Garcia E, Boyaniwsky T, Izzo J, Cox D, Jones W, Rubio R, Holton K, Matulonis U, Quackenbush J, Fan JB.

PLoS One. 2009 Dec 3;4(12):e8162. doi: 10.1371/journal.pone.0008162.

18.

A Method to Correlate mRNA Expression Datasets Obtained from Fresh Frozen and Formalin-Fixed, Paraffin-Embedded Tissue Samples: A Matter of Thresholds.

Mustafa DA, Sieuwerts AM, Smid M, de Weerd V, van der Weiden M, Meijer-van Gelder ME, Martens JW, Foekens JA, Kros JM.

PLoS One. 2015 Dec 30;10(12):e0144097. doi: 10.1371/journal.pone.0144097.

19.

Gene expression profiling of RNA extracted from FFPE tissues: NuGEN technologies' whole-transcriptome amplification system.

Turner L, Heath JD, Kurn N.

Methods Mol Biol. 2011;724:269-80. doi: 10.1007/978-1-61779-055-3_17.

PMID:
21370019
20.

72-gene classifier for predicting prognosis of estrogen receptor-positive and node-negative breast cancer patients using formalin-fixed, paraffin-embedded tumor tissues.

Nishio M, Naoi Y, Tsunashima R, Nakauchi C, Kagara N, Shimoda M, Shimomura A, Maruyama N, Shimazu K, Kim SJ, Noguchi S.

Clin Breast Cancer. 2014 Jun;14(3):e73-80. doi: 10.1016/j.clbc.2013.11.006.

PMID:
24461457
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