Literature DB >> 20858594

Small insertions and deletions (INDELs) in human genomes.

Julienne M Mullaney1, Ryan E Mills, W Stephen Pittard, Scott E Devine.   

Abstract

In this review, we focus on progress that has been made with detecting small insertions and deletions (INDELs) in human genomes. Over the past decade, several million small INDELs have been discovered in human populations and personal genomes. The amount of genetic variation that is caused by these small INDELs is substantial. The number of INDELs in human genomes is second only to the number of single nucleotide polymorphisms (SNPs), and, in terms of base pairs of variation, INDELs cause similar levels of variation as SNPs. Many of these INDELs map to functionally important sites within human genes, and thus, are likely to influence human traits and diseases. Therefore, small INDEL variation will play a prominent role in personalized medicine.

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Year:  2010        PMID: 20858594      PMCID: PMC2953750          DOI: 10.1093/hmg/ddq400

Source DB:  PubMed          Journal:  Hum Mol Genet        ISSN: 0964-6906            Impact factor:   6.150


  46 in total

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Journal:  Nature       Date:  2000-09-28       Impact factor: 49.962

2.  A haplotype map of the human genome.

Authors: 
Journal:  Nature       Date:  2005-10-27       Impact factor: 49.962

3.  Automating resequencing-based detection of insertion-deletion polymorphisms.

Authors:  Tushar R Bhangale; Matthew Stephens; Deborah A Nickerson
Journal:  Nat Genet       Date:  2006-11-19       Impact factor: 38.330

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Journal:  Genome Res       Date:  2009-05-26       Impact factor: 9.043

6.  Mapping short DNA sequencing reads and calling variants using mapping quality scores.

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Journal:  Genome Res       Date:  2008-08-19       Impact factor: 9.043

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Journal:  Nature       Date:  2009-07-08       Impact factor: 49.962

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Journal:  PLoS Biol       Date:  2007-09-04       Impact factor: 8.029

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Authors:  Jeffrey M Kidd; Gregory M Cooper; William F Donahue; Hillary S Hayden; Nick Sampas; Tina Graves; Nancy Hansen; Brian Teague; Can Alkan; Francesca Antonacci; Eric Haugen; Troy Zerr; N Alice Yamada; Peter Tsang; Tera L Newman; Eray Tüzün; Ze Cheng; Heather M Ebling; Nadeem Tusneem; Robert David; Will Gillett; Karen A Phelps; Molly Weaver; David Saranga; Adrianne Brand; Wei Tao; Erik Gustafson; Kevin McKernan; Lin Chen; Maika Malig; Joshua D Smith; Joshua M Korn; Steven A McCarroll; David A Altshuler; Daniel A Peiffer; Michael Dorschner; John Stamatoyannopoulos; David Schwartz; Deborah A Nickerson; James C Mullikin; Richard K Wilson; Laurakay Bruhn; Maynard V Olson; Rajinder Kaul; Douglas R Smith; Evan E Eichler
Journal:  Nature       Date:  2008-05-01       Impact factor: 49.962

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  122 in total

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2.  Development of Novel High-Resolution Melting-Based Assays for Genotyping Two Alu Insertion Polymorphisms (FXIIIB and PV92).

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3.  Meet me halfway: when genomics meets structural bioinformatics.

Authors:  Sungsam Gong; Catherine L Worth; Tammy M K Cheng; Tom L Blundell
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4.  Beyond STRs: The Role of Diallelic Markers in Forensic Genetics.

Authors:  Peter M Schneider
Journal:  Transfus Med Hemother       Date:  2012-05-15       Impact factor: 3.747

5.  Indel variant analysis of short-read sequencing data with Scalpel.

Authors:  Han Fang; Ewa A Bergmann; Kanika Arora; Vladimir Vacic; Michael C Zody; Ivan Iossifov; Jason A O'Rawe; Yiyang Wu; Laura T Jimenez Barron; Julie Rosenbaum; Michael Ronemus; Yoon-Ha Lee; Zihua Wang; Esra Dikoglu; Vaidehi Jobanputra; Gholson J Lyon; Michael Wigler; Michael C Schatz; Giuseppe Narzisi
Journal:  Nat Protoc       Date:  2016-11-17       Impact factor: 13.491

6.  Evaluation of a 3-base pair indel polymorphism within pre-microRNA-3131 in patients with prostate cancer using mismatch polymerase chain reaction-restriction fragment length polymorphism.

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Journal:  Mol Clin Oncol       Date:  2017-08-08

7.  A specific indel marker for the Philippines Schistosoma japonicum revealed by analysis of mitochondrial genome sequences.

Authors:  Juan Li; Fen Chen; Hiromu Sugiyama; David Blair; Rui-Qing Lin; Xing-Quan Zhu
Journal:  Parasitol Res       Date:  2015-04-22       Impact factor: 2.289

8.  Genome-wide association study of INDELs identified four novel susceptibility loci associated with lung cancer risk.

Authors:  Juncheng Dai; Mingtao Huang; Christopher I Amos; Rayjean J Hung; Adonina Tardon; Angeline Andrew; Chu Chen; David C Christiani; Demetrius Albanes; Gadi Rennert; Jingyi Fan; Gary Goodman; Geoffrey Liu; John K Field; Kjell Grankvist; Lambertus A Kiemeney; Loic Le Marchand; Matthew B Schabath; Mattias Johansson; Melinda C Aldrich; Mikael Johansson; Neil Caporaso; Philip Lazarus; Stephan Lam; Stig E Bojesen; Susanne Arnold; Maria Teresa Landi; Angela Risch; H-Erich Wichmann; Heike Bickeboller; Paul Brennan; Sanjay Shete; Olle Melander; Hans Brunnstrom; Shan Zienolddiny; Penella Woll; Victoria Stevens; Zhibin Hu; Hongbing Shen
Journal:  Int J Cancer       Date:  2019-10-31       Impact factor: 7.396

9.  Fitness Effects of Single Amino Acid Insertions and Deletions in TEM-1 β-Lactamase.

Authors:  Courtney E Gonzalez; Paul Roberts; Marc Ostermeier
Journal:  J Mol Biol       Date:  2019-04-26       Impact factor: 5.469

10.  Impact of human pathogenic micro-insertions and micro-deletions on post-transcriptional regulation.

Authors:  Xinjun Zhang; Hai Lin; Huiying Zhao; Yangyang Hao; Matthew Mort; David N Cooper; Yaoqi Zhou; Yunlong Liu
Journal:  Hum Mol Genet       Date:  2014-01-16       Impact factor: 6.150

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