Literature DB >> 22422962

Comment on "Widespread RNA and DNA sequence differences in the human transcriptome".

Claudia L Kleinman1, Jacek Majewski.   

Abstract

Li et al. (Research Articles, 1 July 2011, p. 53; published online 19 May 2011) reported large numbers of differences between DNA and messenger RNA in human cells, indicating unprecedented levels of RNA editing, and including sequence changes not produced by any of the known RNA editing mechanisms. However, common sources of systematic errors in high-throughput sequencing technology, which were not properly accounted for in this study, explain most of the claimed differences.

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Year:  2012        PMID: 22422962     DOI: 10.1126/science.1209658

Source DB:  PubMed          Journal:  Science        ISSN: 0036-8075            Impact factor:   47.728


  99 in total

1.  RASER: reads aligner for SNPs and editing sites of RNA.

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Journal:  Bioinformatics       Date:  2015-08-30       Impact factor: 6.937

2.  RNA Sequencing and Analysis.

Authors:  Kimberly R Kukurba; Stephen B Montgomery
Journal:  Cold Spring Harb Protoc       Date:  2015-04-13

3.  Analysis of allele-specific expression in mouse liver by RNA-Seq: a comparison with Cis-eQTL identified using genetic linkage.

Authors:  Sandrine Lagarrigue; Lisa Martin; Farhad Hormozdiari; Pierre-François Roux; Calvin Pan; Atila van Nas; Olivier Demeure; Rita Cantor; Anatole Ghazalpour; Eleazar Eskin; Aldons J Lusis
Journal:  Genetics       Date:  2013-09-11       Impact factor: 4.562

4.  Characterization and comparison of human nuclear and cytosolic editomes.

Authors:  Liang Chen
Journal:  Proc Natl Acad Sci U S A       Date:  2013-07-01       Impact factor: 11.205

5.  Reliable identification of genomic variants from RNA-seq data.

Authors:  Robert Piskol; Gokul Ramaswami; Jin Billy Li
Journal:  Am J Hum Genet       Date:  2013-09-26       Impact factor: 11.025

6.  New insights from existing sequence data: generating breakthroughs without a pipette.

Authors:  Alex M Plocik; Brenton R Graveley
Journal:  Mol Cell       Date:  2013-02-21       Impact factor: 17.970

7.  Human coding RNA editing is generally nonadaptive.

Authors:  Guixia Xu; Jianzhi Zhang
Journal:  Proc Natl Acad Sci U S A       Date:  2014-02-24       Impact factor: 11.205

8.  Hippocampal Characteristics and Invariant Sequence Elements Distribution of GLRA2 and GLRA3 C-to-U Editing.

Authors:  Philipp Schaefermeier; Sarah Heinze
Journal:  Mol Syndromol       Date:  2016-12-16

9.  Assessing the validity and reproducibility of genome-scale predictions.

Authors:  Lauren A Sugden; Michael R Tackett; Yiannis A Savva; William A Thompson; Charles E Lawrence
Journal:  Bioinformatics       Date:  2013-09-17       Impact factor: 6.937

10.  Inconsistency and features of single nucleotide variants detected in whole exome sequencing versus transcriptome sequencing: A case study in lung cancer.

Authors:  Timothy D O'Brien; Peilin Jia; Junfeng Xia; Uma Saxena; Hailing Jin; Huy Vuong; Pora Kim; Qingguo Wang; Martin J Aryee; Mari Mino-Kenudson; Jeffrey A Engelman; Long P Le; A John Iafrate; Rebecca S Heist; William Pao; Zhongming Zhao
Journal:  Methods       Date:  2015-04-23       Impact factor: 3.608

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