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Items: 1 to 20 of 64

1.

Detection of single nucleotide variations in expressed exons of the human genome using RNA-Seq.

Chepelev I, Wei G, Tang Q, Zhao K.

Nucleic Acids Res. 2009 Sep;37(16):e106. doi: 10.1093/nar/gkp507. Epub 2009 Jun 15.

2.

Multivariate models from RNA-Seq SNVs yield candidate molecular targets for biomarker discovery: SNV-DA.

Paul MR, Levitt NP, Moore DE, Watson PM, Wilson RC, Denlinger CE, Watson DK, Anderson PE.

BMC Genomics. 2016 Mar 31;17:263. doi: 10.1186/s12864-016-2542-4.

3.

Efficient targeted resequencing of human germline and cancer genomes by oligonucleotide-selective sequencing.

Myllykangas S, Buenrostro JD, Natsoulis G, Bell JM, Ji HP.

Nat Biotechnol. 2011 Oct 23;29(11):1024-7. doi: 10.1038/nbt.1996.

4.

High-throughput resequencing of target-captured cDNA in cancer cells.

Ueno T, Yamashita Y, Soda M, Fukumura K, Ando M, Yamato A, Kawazu M, Choi YL, Mano H.

Cancer Sci. 2012 Jan;103(1):131-5. doi: 10.1111/j.1349-7006.2011.02105.x. Epub 2011 Oct 13.

5.

Screening the human exome: a comparison of whole genome and whole transcriptome sequencing.

Cirulli ET, Singh A, Shianna KV, Ge D, Smith JP, Maia JM, Heinzen EL, Goedert JJ, Goldstein DB; Center for HIV/AIDS Vaccine Immunology (CHAVI)..

Genome Biol. 2010;11(5):R57. doi: 10.1186/gb-2010-11-5-r57. Epub 2010 May 28.

6.

Inferring the expression variability of human transposable element-derived exons by linear model analysis of deep RNA sequencing data.

Zhang W, Edwards A, Fan W, Fang Z, Deininger P, Zhang K.

BMC Genomics. 2013 Aug 28;14:584. doi: 10.1186/1471-2164-14-584.

7.

Genome-wide detection of single-nucleotide and copy-number variations of a single human cell.

Zong C, Lu S, Chapman AR, Xie XS.

Science. 2012 Dec 21;338(6114):1622-6. doi: 10.1126/science.1229164.

9.

In silico whole-genome screening for cancer-related single-nucleotide polymorphisms located in human mRNA untranslated regions.

Aouacheria A, Navratil V, López-Pérez R, Gutiérrez NC, Churkin A, Barash D, Mouchiroud D, Gautier C.

BMC Genomics. 2007 Jan 3;8:2.

10.

Impact of library preparation on downstream analysis and interpretation of RNA-Seq data: comparison between Illumina PolyA and NuGEN Ovation protocol.

Sun Z, Asmann YW, Nair A, Zhang Y, Wang L, Kalari KR, Bhagwate AV, Baker TR, Carr JM, Kocher JP, Perez EA, Thompson EA.

PLoS One. 2013 Aug 19;8(8):e71745. doi: 10.1371/journal.pone.0071745. eCollection 2013.

11.

Genome and transcriptome sequencing of lung cancers reveal diverse mutational and splicing events.

Liu J, Lee W, Jiang Z, Chen Z, Jhunjhunwala S, Haverty PM, Gnad F, Guan Y, Gilbert HN, Stinson J, Klijn C, Guillory J, Bhatt D, Vartanian S, Walter K, Chan J, Holcomb T, Dijkgraaf P, Johnson S, Koeman J, Minna JD, Gazdar AF, Stern HM, Hoeflich KP, Wu TD, Settleman J, de Sauvage FJ, Gentleman RC, Neve RM, Stokoe D, Modrusan Z, Seshagiri S, Shames DS, Zhang Z.

Genome Res. 2012 Dec;22(12):2315-27. doi: 10.1101/gr.140988.112. Epub 2012 Oct 2.

12.
13.

Genome-wide in situ exon capture for selective resequencing.

Hodges E, Xuan Z, Balija V, Kramer M, Molla MN, Smith SW, Middle CM, Rodesch MJ, Albert TJ, Hannon GJ, McCombie WR.

Nat Genet. 2007 Dec;39(12):1522-7. Epub 2007 Nov 4.

PMID:
17982454
14.

Prioritizing single-nucleotide variations that potentially regulate alternative splicing.

Teng M, Wang Y, Wang G, Jung J, Edenberg HJ, Sanford JR, Liu Y.

BMC Proc. 2011 Nov 29;5 Suppl 9:S40. doi: 10.1186/1753-6561-5-S9-S40.

15.

Intron retention is a widespread mechanism of tumor-suppressor inactivation.

Jung H, Lee D, Lee J, Park D, Kim YJ, Park WY, Hong D, Park PJ, Lee E.

Nat Genet. 2015 Nov;47(11):1242-8. doi: 10.1038/ng.3414. Epub 2015 Oct 5.

PMID:
26437032
16.

Detecting transcription of ribosomal protein pseudogenes in diverse human tissues from RNA-seq data.

Tonner P, Srinivasasainagendra V, Zhang S, Zhi D.

BMC Genomics. 2012 Aug 21;13:412. doi: 10.1186/1471-2164-13-412.

17.

Promoter-sharing by different genes in human genome--CPNE1 and RBM12 gene pair as an example.

Yang W, Ng P, Zhao M, Wong TK, Yiu SM, Lau YL.

BMC Genomics. 2008 Oct 3;9:456. doi: 10.1186/1471-2164-9-456.

18.

Impacts of variation in the human genome on gene regulation.

Haraksingh RR, Snyder MP.

J Mol Biol. 2013 Nov 1;425(21):3970-7. doi: 10.1016/j.jmb.2013.07.015. Epub 2013 Jul 16. Review.

19.

Identifying differential expression genes and single nucleotide variations using RNA-seq in metastatic melanoma.

Liu D, Zhao ZG, Jiao ZL, Li HJ.

Genet Mol Res. 2014 Oct 7;13(4):8153-62. doi: 10.4238/2014.October.7.10.

20.

RNA-seq analysis of gene expression and alternative splicing by double-random priming strategy.

Lovci MT, Li HR, Fu XD, Yeo GW.

Methods Mol Biol. 2011;729:247-55. doi: 10.1007/978-1-61779-065-2_16.

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