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Items: 1 to 20 of 105

1.

Guide for library design and bias correction for large-scale transcriptome studies using highly multiplexed RNAseq methods.

Katayama S, Skoog T, Söderhäll C, Einarsdottir E, Krjutškov K, Kere J.

BMC Bioinformatics. 2019 Aug 13;20(1):418. doi: 10.1186/s12859-019-3017-9.

2.

Evaluation of commercially available small RNASeq library preparation kits using low input RNA.

Yeri A, Courtright A, Danielson K, Hutchins E, Alsop E, Carlson E, Hsieh M, Ziegler O, Das A, Shah RV, Rozowsky J, Das S, Van Keuren-Jensen K.

BMC Genomics. 2018 May 5;19(1):331. doi: 10.1186/s12864-018-4726-6.

3.

Improving RNA-Seq expression estimation by modeling isoform- and exon-specific read sequencing rate.

Liu X, Shi X, Chen C, Zhang L.

BMC Bioinformatics. 2015 Oct 16;16:332. doi: 10.1186/s12859-015-0750-6.

4.

A novel ultra high-throughput 16S rRNA gene amplicon sequencing library preparation method for the Illumina HiSeq platform.

de Muinck EJ, Trosvik P, Gilfillan GD, Hov JR, Sundaram AYM.

Microbiome. 2017 Jul 6;5(1):68. doi: 10.1186/s40168-017-0279-1.

5.

Single-Cell RNA Sequencing of Glioblastoma Cells.

Sen R, Dolgalev I, Bayin NS, Heguy A, Tsirigos A, Placantonakis DG.

Methods Mol Biol. 2018;1741:151-170. doi: 10.1007/978-1-4939-7659-1_12.

PMID:
29392698
6.

A comparative analysis of library prep approaches for sequencing low input translatome samples.

Song Y, Milon B, Ott S, Zhao X, Sadzewicz L, Shetty A, Boger ET, Tallon LJ, Morell RJ, Mahurkar A, Hertzano R.

BMC Genomics. 2018 Sep 21;19(1):696. doi: 10.1186/s12864-018-5066-2.

7.

Recovery and analysis of transcriptome subsets from pooled single-cell RNA-seq libraries.

Riemondy KA, Ransom M, Alderman C, Gillen AE, Fu R, Finlay-Schultz J, Kirkpatrick GD, Di Paola J, Kabos P, Sartorius CA, Hesselberth JR.

Nucleic Acids Res. 2019 Feb 28;47(4):e20. doi: 10.1093/nar/gky1204.

8.

Library preparation methods for next-generation sequencing: tone down the bias.

van Dijk EL, Jaszczyszyn Y, Thermes C.

Exp Cell Res. 2014 Mar 10;322(1):12-20. doi: 10.1016/j.yexcr.2014.01.008. Epub 2014 Jan 15. Review.

PMID:
24440557
9.

Preparation of highly multiplexed small RNA sequencing libraries.

Persson H, Søkilde R, Pirona AC, Rovira C.

Biotechniques. 2017 Aug 1;63(2):57-64. doi: 10.2144/000114574.

10.

PAR-CLIP and streamlined small RNA cDNA library preparation protocol for the identification of RNA binding protein target sites.

Benhalevy D, McFarland HL, Sarshad AA, Hafner M.

Methods. 2017 Apr 15;118-119:41-49. doi: 10.1016/j.ymeth.2016.11.009. Epub 2016 Nov 18.

PMID:
27871973
11.

Selective and flexible depletion of problematic sequences from RNA-seq libraries at the cDNA stage.

Archer SK, Shirokikh NE, Preiss T.

BMC Genomics. 2014 May 26;15:401. doi: 10.1186/1471-2164-15-401.

12.

Gel-seq: whole-genome and transcriptome sequencing by simultaneous low-input DNA and RNA library preparation using semi-permeable hydrogel barriers.

Hoople GD, Richards A, Wu Y, Kaneko K, Luo X, Feng GS, Zhang K, Pisano AP.

Lab Chip. 2017 Jul 25;17(15):2619-2630. doi: 10.1039/c7lc00430c.

PMID:
28660979
13.

High-throughput multiplex sequencing of miRNA.

Vigneault F, Ter-Ovanesyan D, Alon S, Eminaga S, C Christodoulou D, Seidman JG, Eisenberg E, M Church G.

Curr Protoc Hum Genet. 2012 Apr;Chapter 11:Unit 11.12.1-10. doi: 10.1002/0471142905.hg1112s73.

14.

Next-Generation Sequencing RNA-Seq Library Construction.

Podnar J, Deiderick H, Huerta G, Hunicke-Smith S.

Curr Protoc Mol Biol. 2014 Apr 14;106:4.21.1-19. doi: 10.1002/0471142727.mb0421s106. Review.

PMID:
24733242
15.

Molecular Profiling of RNA Tumors Using High-Throughput RNA Sequencing: Overview of Library Preparation Methods.

Courtney SM, da Silveira WA, Hazard ES, Hardiman G.

Methods Mol Biol. 2019;1908:169-184. doi: 10.1007/978-1-4939-9004-7_12.

PMID:
30649728
16.

Barcoding bias in high-throughput multiplex sequencing of miRNA.

Alon S, Vigneault F, Eminaga S, Christodoulou DC, Seidman JG, Church GM, Eisenberg E.

Genome Res. 2011 Sep;21(9):1506-11. doi: 10.1101/gr.121715.111. Epub 2011 Jul 12.

17.

RNaseIII and T4 polynucleotide Kinase sequence biases and solutions during RNA-seq library construction.

Lee C, Harris RA, Wall JK, Mayfield RD, Wilke CO.

Biol Direct. 2013 Jul 4;8:16. doi: 10.1186/1745-6150-8-16.

18.

Preparation of Single-Cell RNA-Seq Libraries for Next Generation Sequencing.

Trombetta JJ, Gennert D, Lu D, Satija R, Shalek AK, Regev A.

Curr Protoc Mol Biol. 2014 Jul 1;107:4.22.1-17. doi: 10.1002/0471142727.mb0422s107. Review.

19.

Quantitative bias in Illumina TruSeq and a novel post amplification barcoding strategy for multiplexed DNA and small RNA deep sequencing.

Van Nieuwerburgh F, Soetaert S, Podshivalova K, Ay-Lin Wang E, Schaffer L, Deforce D, Salomon DR, Head SR, Ordoukhanian P.

PLoS One. 2011;6(10):e26969. doi: 10.1371/journal.pone.0026969. Epub 2011 Oct 28.

20.

Whole-transcriptome RNAseq analysis from minute amount of total RNA.

Tariq MA, Kim HJ, Jejelowo O, Pourmand N.

Nucleic Acids Res. 2011 Oct;39(18):e120. doi: 10.1093/nar/gkr547. Epub 2011 Jul 6.

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