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Results: 1 to 20 of 96

1.

Profiling the HeLa S3 transcriptome using randomly primed cDNA and massively parallel short-read sequencing.

Morin R, Bainbridge M, Fejes A, Hirst M, Krzywinski M, Pugh T, McDonald H, Varhol R, Jones S, Marra M.

Biotechniques. 2008 Jul;45(1):81-94. doi: 10.2144/000112900.

PMID:
18611170
[PubMed - indexed for MEDLINE]
Free Article
2.

Analysis of the prostate cancer cell line LNCaP transcriptome using a sequencing-by-synthesis approach.

Bainbridge MN, Warren RL, Hirst M, Romanuik T, Zeng T, Go A, Delaney A, Griffith M, Hickenbotham M, Magrini V, Mardis ER, Sadar MD, Siddiqui AS, Marra MA, Jones SJ.

BMC Genomics. 2006 Sep 29;7:246.

PMID:
17010196
[PubMed - indexed for MEDLINE]
Free PMC Article
3.

Generation of longer 3' cDNA fragments from massively parallel signature sequencing tags.

Silva AP, Chen J, Carraro DM, Wang SM, Camargo AA.

Nucleic Acids Res. 2004 Jul 6;32(12):e94.

PMID:
15247327
[PubMed - indexed for MEDLINE]
Free PMC Article
4.

Transcriptome analysis for Caenorhabditis elegans based on novel expressed sequence tags.

Shin H, Hirst M, Bainbridge MN, Magrini V, Mardis E, Moerman DG, Marra MA, Baillie DL, Jones SJ.

BMC Biol. 2008 Jul 8;6:30. doi: 10.1186/1741-7007-6-30.

PMID:
18611272
[PubMed - indexed for MEDLINE]
Free PMC Article
5.

A global view of gene activity and alternative splicing by deep sequencing of the human transcriptome.

Sultan M, Schulz MH, Richard H, Magen A, Klingenhoff A, Scherf M, Seifert M, Borodina T, Soldatov A, Parkhomchuk D, Schmidt D, O'Keeffe S, Haas S, Vingron M, Lehrach H, Yaspo ML.

Science. 2008 Aug 15;321(5891):956-60. doi: 10.1126/science.1160342. Epub 2008 Jul 3.

PMID:
18599741
[PubMed - indexed for MEDLINE]
Free Article
6.

Stem cell transcriptome profiling via massive-scale mRNA sequencing.

Cloonan N, Forrest AR, Kolle G, Gardiner BB, Faulkner GJ, Brown MK, Taylor DF, Steptoe AL, Wani S, Bethel G, Robertson AJ, Perkins AC, Bruce SJ, Lee CC, Ranade SS, Peckham HE, Manning JM, McKernan KJ, Grimmond SM.

Nat Methods. 2008 Jul;5(7):613-9. doi: 10.1038/nmeth.1223. Epub 2008 May 30.

PMID:
18516046
[PubMed - indexed for MEDLINE]
7.

RNA-Seq: a method for comprehensive transcriptome analysis.

Nagalakshmi U, Waern K, Snyder M.

Curr Protoc Mol Biol. 2010 Jan;Chapter 4:Unit 4.11.1-13. doi: 10.1002/0471142727.mb0411s89.

PMID:
20069539
[PubMed - indexed for MEDLINE]
8.

High-resolution analysis of the 5'-end transcriptome using a next generation DNA sequencer.

Hashimoto S, Qu W, Ahsan B, Ogoshi K, Sasaki A, Nakatani Y, Lee Y, Ogawa M, Ametani A, Suzuki Y, Sugano S, Lee CC, Nutter RC, Morishita S, Matsushima K.

PLoS One. 2009;4(1):e4108. doi: 10.1371/journal.pone.0004108. Epub 2009 Jan 1.

PMID:
19119315
[PubMed - indexed for MEDLINE]
Free PMC Article
9.

Ab initio construction of a eukaryotic transcriptome by massively parallel mRNA sequencing.

Yassour M, Kaplan T, Fraser HB, Levin JZ, Pfiffner J, Adiconis X, Schroth G, Luo S, Khrebtukova I, Gnirke A, Nusbaum C, Thompson DA, Friedman N, Regev A.

Proc Natl Acad Sci U S A. 2009 Mar 3;106(9):3264-9. doi: 10.1073/pnas.0812841106. Epub 2009 Feb 10.

PMID:
19208812
[PubMed - indexed for MEDLINE]
Free PMC Article
10.

Comprehensive sampling of gene expression in human cell lines with massively parallel signature sequencing.

Jongeneel CV, Iseli C, Stevenson BJ, Riggins GJ, Lal A, Mackay A, Harris RA, O'Hare MJ, Neville AM, Simpson AJ, Strausberg RL.

Proc Natl Acad Sci U S A. 2003 Apr 15;100(8):4702-5. Epub 2003 Apr 1.

PMID:
12671075
[PubMed - indexed for MEDLINE]
Free PMC Article
11.

Gene expression profiling by massively parallel sequencing.

Torres TT, Metta M, Ottenwälder B, Schlötterer C.

Genome Res. 2008 Jan;18(1):172-7. Epub 2007 Nov 21.

PMID:
18032722
[PubMed - indexed for MEDLINE]
Free PMC Article
12.

Transcriptome annotation using tandem SAGE tags.

Rivals E, Boureux A, Lejeune M, Ottones F, Pérez OP, Tarhio J, Pierrat F, Ruffle F, Commes T, Marti J.

Nucleic Acids Res. 2007;35(17):e108. Epub 2007 Aug 20.

PMID:
17709346
[PubMed - indexed for MEDLINE]
Free PMC Article
13.

Exon expression arrays as a tool to identify new cancer genes.

Schutte M, Elstrodt F, Bralten LB, Nagel JH, Duijm E, Hollestelle A, Vuerhard MJ, Wasielewski M, Peeters JK, van der Spek P, Sillevis Smitt PA, French PJ.

PLoS One. 2007 Aug 20;3(8):e3007. doi: 10.1371/journal.pone.0003007.

PMID:
18688287
[PubMed - indexed for MEDLINE]
Free PMC Article
14.

Determination of tag density required for digital transcriptome analysis: application to an androgen-sensitive prostate cancer model.

Li H, Lovci MT, Kwon YS, Rosenfeld MG, Fu XD, Yeo GW.

Proc Natl Acad Sci U S A. 2008 Dec 23;105(51):20179-84. doi: 10.1073/pnas.0807121105. Epub 2008 Dec 16.

PMID:
19088194
[PubMed - indexed for MEDLINE]
Free PMC Article
15.

Rapid transcriptome characterization for a nonmodel organism using 454 pyrosequencing.

Vera JC, Wheat CW, Fescemyer HW, Frilander MJ, Crawford DL, Hanski I, Marden JH.

Mol Ecol. 2008 Apr;17(7):1636-47. doi: 10.1111/j.1365-294X.2008.03666.x. Epub 2008 Feb 5.

PMID:
18266620
[PubMed - indexed for MEDLINE]
16.

Accurate identification and analysis of human mRNA isoforms using deep long read sequencing.

Tilgner H, Raha D, Habegger L, Mohiuddin M, Gerstein M, Snyder M.

G3 (Bethesda). 2013 Mar;3(3):387-97. doi: 10.1534/g3.112.004812. Epub 2013 Mar 1.

PMID:
23450794
[PubMed - indexed for MEDLINE]
Free PMC Article
17.

A rescue strategy for multimapping short sequence tags refines surveys of transcriptional activity by CAGE.

Faulkner GJ, Forrest AR, Chalk AM, Schroder K, Hayashizaki Y, Carninci P, Hume DA, Grimmond SM.

Genomics. 2008 Mar;91(3):281-8. doi: 10.1016/j.ygeno.2007.11.003.

PMID:
18178374
[PubMed - indexed for MEDLINE]
Free Article
18.

Analysis of the Pythium ultimum transcriptome using Sanger and Pyrosequencing approaches.

Cheung F, Win J, Lang JM, Hamilton J, Vuong H, Leach JE, Kamoun S, André Lévesque C, Tisserat N, Buell CR.

BMC Genomics. 2008 Nov 15;9:542. doi: 10.1186/1471-2164-9-542.

PMID:
19014603
[PubMed - indexed for MEDLINE]
Free PMC Article
19.

A modified polymerase chain reaction-long serial analysis of gene expression protocol identifies novel transcripts in human CD34+ bone marrow cells.

Zhao Y, Raouf A, Kent D, Khattra J, Delaney A, Schnerch A, Asano J, McDonald H, Chan C, Jones S, Marra MA, Eaves CJ.

Stem Cells. 2007 Jul;25(7):1681-9. Epub 2007 Apr 5.

PMID:
17412892
[PubMed - indexed for MEDLINE]
Free Article
20.

Ribosomal footprints on a transcriptome landscape.

Morris DR.

Genome Biol. 2009;10(4):215. doi: 10.1186/gb-2009-10-4-215. Epub 2009 Apr 28. Review.

PMID:
19439030
[PubMed - indexed for MEDLINE]
Free PMC Article

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