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Items: 1 to 20 of 83

1.

Single-cell semiconductor sequencing.

Kohn AB, Moroz TP, Barnes JP, Netherton M, Moroz LL.

Methods Mol Biol. 2013;1048:247-84. doi: 10.1007/978-1-62703-556-9_18.

2.

Single-neuron transcriptome and methylome sequencing for epigenomic analysis of aging.

Moroz LL, Kohn AB.

Methods Mol Biol. 2013;1048:323-52. doi: 10.1007/978-1-62703-556-9_21.

3.

A strategy to capture and characterize the synaptic transcriptome.

Puthanveettil SV, Antonov I, Kalachikov S, Rajasethupathy P, Choi YB, Kohn AB, Citarella M, Yu F, Karl KA, Kinet M, Morozova I, Russo JJ, Ju J, Moroz LL, Kandel ER.

Proc Natl Acad Sci U S A. 2013 Apr 30;110(18):7464-9. doi: 10.1073/pnas.1304422110. Epub 2013 Apr 15.

4.

Transcriptome analysis using next-generation sequencing.

Mutz KO, Heilkenbrinker A, Lönne M, Walter JG, Stahl F.

Curr Opin Biotechnol. 2013 Feb;24(1):22-30. doi: 10.1016/j.copbio.2012.09.004. Epub 2012 Sep 25. Review.

PMID:
23020966
5.

Retinal transcriptome profiling by directional next-generation sequencing using 100 ng of total RNA.

Brooks MJ, Rajasimha HK, Swaroop A.

Methods Mol Biol. 2012;884:319-34. doi: 10.1007/978-1-61779-848-1_23.

PMID:
22688717
6.

Seeing is believing: new methods for in situ single-cell transcriptomics.

Avital G, Hashimshony T, Yanai I.

Genome Biol. 2014 Mar 31;15(3):110. doi: 10.1186/gb4169. Review.

7.

Using single nuclei for RNA-seq to capture the transcriptome of postmortem neurons.

Krishnaswami SR, Grindberg RV, Novotny M, Venepally P, Lacar B, Bhutani K, Linker SB, Pham S, Erwin JA, Miller JA, Hodge R, McCarthy JK, Kelder M, McCorrison J, Aevermann BD, Fuertes FD, Scheuermann RH, Lee J, Lein ES, Schork N, McConnell MJ, Gage FH, Lasken RS.

Nat Protoc. 2016 Mar;11(3):499-524. doi: 10.1038/nprot.2016.015. Epub 2016 Feb 18.

8.

The transcriptome of the early life history stages of the California Sea Hare Aplysia californica.

Fiedler TJ, Hudder A, McKay SJ, Shivkumar S, Capo TR, Schmale MC, Walsh PJ.

Comp Biochem Physiol Part D Genomics Proteomics. 2010 Jun;5(2):165-70. doi: 10.1016/j.cbd.2010.03.003. Epub 2010 Apr 2.

9.

Whole transcriptome analysis with sequencing: methods, challenges and potential solutions.

Jiang Z, Zhou X, Li R, Michal JJ, Zhang S, Dodson MV, Zhang Z, Harland RM.

Cell Mol Life Sci. 2015 Sep;72(18):3425-39. doi: 10.1007/s00018-015-1934-y. Epub 2015 May 28. Review.

PMID:
26018601
10.

Sequencing and characterization of the guppy (Poecilia reticulata) transcriptome.

Fraser BA, Weadick CJ, Janowitz I, Rodd FH, Hughes KA.

BMC Genomics. 2011 Apr 20;12:202. doi: 10.1186/1471-2164-12-202.

11.

Next-generation sequencing facilitates quantitative analysis of wild-type and Nrl(-/-) retinal transcriptomes.

Brooks MJ, Rajasimha HK, Roger JE, Swaroop A.

Mol Vis. 2011;17:3034-54. Epub 2011 Nov 23.

12.

Developmental transcriptome of Aplysia californica.

Heyland A, Vue Z, Voolstra CR, Medina M, Moroz LL.

J Exp Zool B Mol Dev Evol. 2011 Mar 15;316B(2):113-34. doi: 10.1002/jez.b.21383. Epub 2010 Dec 6.

13.

Single-cell RNA-seq transcriptome analysis of linear and circular RNAs in mouse preimplantation embryos.

Fan X, Zhang X, Wu X, Guo H, Hu Y, Tang F, Huang Y.

Genome Biol. 2015 Jul 23;16:148. doi: 10.1186/s13059-015-0706-1.

15.

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
16.

Next-generation transcriptome assembly.

Martin JA, Wang Z.

Nat Rev Genet. 2011 Sep 7;12(10):671-82. doi: 10.1038/nrg3068. Review.

PMID:
21897427
17.

A platform independent RNA-Seq protocol for the detection of transcriptome complexity.

Calabrese C, Mangiulli M, Manzari C, Paluscio AM, Caratozzolo MF, Marzano F, Kurelac I, D'Erchia AM, D'Elia D, Licciulli F, Liuni S, Picardi E, Attimonelli M, Gasparre G, Porcelli AM, Pesole G, Sbisà E, Tullo A.

BMC Genomics. 2013 Dec 5;14:855. doi: 10.1186/1471-2164-14-855.

18.

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.

19.

Fluorescent in situ sequencing (FISSEQ) of RNA for gene expression profiling in intact cells and tissues.

Lee JH, Daugharthy ER, Scheiman J, Kalhor R, Ferrante TC, Terry R, Turczyk BM, Yang JL, Lee HS, Aach J, Zhang K, Church GM.

Nat Protoc. 2015 Mar;10(3):442-58. doi: 10.1038/nprot.2014.191. Epub 2015 Feb 12.

20.

EMSAR: estimation of transcript abundance from RNA-seq data by mappability-based segmentation and reclustering.

Lee S, Seo CH, Alver BH, Lee S, Park PJ.

BMC Bioinformatics. 2015 Sep 3;16:278. doi: 10.1186/s12859-015-0704-z.

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