Literature DB >> 22072383

NARWHAL, a primary analysis pipeline for NGS data.

R W W Brouwer1, M C G N van den Hout, F G Grosveld, W F J van Ijcken.   

Abstract

UNLABELLED: The NARWHAL software pipeline has been developed to automate the primary analysis of Illumina sequencing data. This pipeline combines a new and flexible de-multiplexing tool with open-source aligners and automated quality assessment. The entire pipeline can be run using only one simple sample-sheet for diverse sequencing applications. NARWHAL creates a sample-oriented data structure and outperforms existing tools in speed. AVAILABILITY: https://trac.nbic.nl/narwhal/.

Entities:  

Mesh：

Year:  2011        PMID： 22072383     DOI： 10.1093/bioinformatics/btr613

Source DB:  PubMed          Journal:  Bioinformatics        ISSN： 1367-4803            Impact factor:   6.937


  24 in total

1.  Exome-sequencing in a large population-based study reveals a rare Asn396Ser variant in the LIPG gene associated with depressive symptoms.

Authors:  N Amin; O Jovanova; H H H Adams; A Dehghan; M Kavousi; M W Vernooij; R P Peeters; F M S de Vrij; S J van der Lee; J G J van Rooij; E M van Leeuwen; L Chaker; A Demirkan; A Hofman; R W W Brouwer; R Kraaij; K Willems van Dijk; T Hankemeier; W F J van Ijcken; A G Uitterlinden; W J Niessen; O H Franco; S A Kushner; M A Ikram; H Tiemeier; C M van Duijn
Journal:  Mol Psychiatry       Date:  2016-07-19       Impact factor: 15.992

2.  Multiplexed chromosome conformation capture sequencing for rapid genome-scale high-resolution detection of long-range chromatin interactions.

Authors:  Ralph Stadhouders; Petros Kolovos; Rutger Brouwer; Jessica Zuin; Anita van den Heuvel; Christel Kockx; Robert-Jan Palstra; Kerstin S Wendt; Frank Grosveld; Wilfred van Ijcken; Eric Soler
Journal:  Nat Protoc       Date:  2013-02-14       Impact factor: 13.491

3.  Next generation sequencing of SNPs for non-invasive prenatal diagnosis: challenges and feasibility as illustrated by an application to β-thalassaemia.

Authors:  Thessalia Papasavva; Wilfred F J van Ijcken; Christel E M Kockx; Mirjam C G N van den Hout; Petros Kountouris; Loukas Kythreotis; Eleni Kalogirou; Frank G Grosveld; Marina Kleanthous
Journal:  Eur J Hum Genet       Date:  2013-04-10       Impact factor: 4.246

4.  The dystrophin gene and cognitive function in the general population.

Authors:  Dina Vojinovic; Hieab H H Adams; Sven J van der Lee; Carla A Ibrahim-Verbaas; Rutger Brouwer; Mirjam C G N van den Hout; Edwin Oole; Jeroen van Rooij; Andre Uitterlinden; Albert Hofman; Wilfred F J van IJcken; Annemieke Aartsma-Rus; GertJan B van Ommen; M Arfan Ikram; Cornelia M van Duijn; Najaf Amin
Journal:  Eur J Hum Genet       Date:  2014-09-17       Impact factor: 4.246

5.  CTCF chromatin residence time controls three-dimensional genome organization, gene expression and DNA methylation in pluripotent cells.

Authors:  Widia Soochit; Frank Sleutels; Gregoire Stik; Frank Grosveld; Ralph Stadhouders; Niels Galjart; Marek Bartkuhn; Sreya Basu; Silvia C Hernandez; Sarra Merzouk; Enrique Vidal; Ruben Boers; Joachim Boers; Michael van der Reijden; Bart Geverts; Wiggert A van Cappellen; Mirjam van den Hout; Zeliha Ozgur; Wilfred F J van IJcken; Joost Gribnau; Rainer Renkawitz; Thomas Graf; Adriaan Houtsmuller
Journal:  Nat Cell Biol       Date:  2021-07-29       Impact factor: 28.824

6.  Loss of LMOD1 impairs smooth muscle cytocontractility and causes megacystis microcolon intestinal hypoperistalsis syndrome in humans and mice.

Authors:  Danny Halim; Michael P Wilson; Daniel Oliver; Erwin Brosens; Joke B G M Verheij; Yu Han; Vivek Nanda; Qing Lyu; Michael Doukas; Hans Stoop; Rutger W W Brouwer; Wilfred F J van IJcken; Orazio J Slivano; Alan J Burns; Christine K Christie; Karen L de Mesy Bentley; Alice S Brooks; Dick Tibboel; Suowen Xu; Zheng Gen Jin; Tono Djuwantono; Wei Yan; Maria M Alves; Robert M W Hofstra; Joseph M Miano
Journal:  Proc Natl Acad Sci U S A       Date:  2017-03-14       Impact factor: 11.205

7.  Variants in TTC25 affect autistic trait in patients with autism spectrum disorder and general population.

Authors:  Dina Vojinovic; Nathalie Brison; Shahzad Ahmad; Ilse Noens; Irene Pappa; Lennart C Karssen; Henning Tiemeier; Cornelia M van Duijn; Hilde Peeters; Najaf Amin
Journal:  Eur J Hum Genet       Date:  2017-05-17       Impact factor: 4.246

8.  Genome instability in Lactobacillus rhamnosus GG.

Authors:  Wilbert Sybesma; Douwe Molenaar; Wilfred van IJcken; Koen Venema; Remco Kort
Journal:  Appl Environ Microbiol       Date:  2013-01-25       Impact factor: 4.792

9.  MLL fusion-driven activation of CDK6 potentiates proliferation in MLL-rearranged infant ALL.

Authors:  Marieke H van der Linden; Merel Willekes; Eddy van Roon; Lidija Seslija; Pauline Schneider; Rob Pieters; Ronald W Stam
Journal:  Cell Cycle       Date:  2014       Impact factor: 4.534

10.  HBS1L-MYB intergenic variants modulate fetal hemoglobin via long-range MYB enhancers.

Authors:  Ralph Stadhouders; Suleyman Aktuna; Supat Thongjuea; Ali Aghajanirefah; Farzin Pourfarzad; Wilfred van Ijcken; Boris Lenhard; Helen Rooks; Steve Best; Stephan Menzel; Frank Grosveld; Swee Lay Thein; Eric Soler
Journal:  J Clin Invest       Date:  2014-03-10       Impact factor: 14.808
View more

北京卡尤迪生物科技股份有限公司 © 2022-2023.