A citation-based method for searching scientific literature

Brian L Browning, Ying Zhou, Sharon R Browning. Am J Hum Genet 2018
Times Cited: 491







List of co-cited articles
376 articles co-cited >1



Times Cited
  Times     Co-cited
Similarity


The variant call format and VCFtools.
Petr Danecek, Adam Auton, Goncalo Abecasis, Cornelis A Albers, Eric Banks, Mark A DePristo, Robert E Handsaker, Gerton Lunter, Gabor T Marth, Stephen T Sherry,[...]. Bioinformatics 2011
26

PLINK: a tool set for whole-genome association and population-based linkage analyses.
Shaun Purcell, Benjamin Neale, Kathe Todd-Brown, Lori Thomas, Manuel A R Ferreira, David Bender, Julian Maller, Pamela Sklar, Paul I W de Bakker, Mark J Daly,[...]. Am J Hum Genet 2007
26

Second-generation PLINK: rising to the challenge of larger and richer datasets.
Christopher C Chang, Carson C Chow, Laurent Cam Tellier, Shashaank Vattikuti, Shaun M Purcell, James J Lee. Gigascience 2015
22

The Genome Analysis Toolkit: a MapReduce framework for analyzing next-generation DNA sequencing data.
Aaron McKenna, Matthew Hanna, Eric Banks, Andrey Sivachenko, Kristian Cibulskis, Andrew Kernytsky, Kiran Garimella, David Altshuler, Stacey Gabriel, Mark Daly,[...]. Genome Res 2010
18

The Sequence Alignment/Map format and SAMtools.
Heng Li, Bob Handsaker, Alec Wysoker, Tim Fennell, Jue Ruan, Nils Homer, Gabor Marth, Goncalo Abecasis, Richard Durbin. Bioinformatics 2009
16

GCTA: a tool for genome-wide complex trait analysis.
Jian Yang, S Hong Lee, Michael E Goddard, Peter M Visscher. Am J Hum Genet 2011
15




Prediction of total genetic value using genome-wide dense marker maps.
T H Meuwissen, B J Hayes, M E Goddard. Genetics 2001
13

Fast model-based estimation of ancestry in unrelated individuals.
David H Alexander, John Novembre, Kenneth Lange. Genome Res 2009
12

Trimmomatic: a flexible trimmer for Illumina sequence data.
Anthony M Bolger, Marc Lohse, Bjoern Usadel. Bioinformatics 2014
11

rMVP: A Memory-efficient, Visualization-enhanced, and Parallel-accelerated Tool for Genome-wide Association Study.
Lilin Yin, Haohao Zhang, Zhenshuang Tang, Jingya Xu, Dong Yin, Zhiwu Zhang, Xiaohui Yuan, Mengjin Zhu, Shuhong Zhao, Xinyun Li,[...]. Genomics Proteomics Bioinformatics 2021
133
10

A framework for variation discovery and genotyping using next-generation DNA sequencing data.
Mark A DePristo, Eric Banks, Ryan Poplin, Kiran V Garimella, Jared R Maguire, Christopher Hartl, Anthony A Philippakis, Guillermo del Angel, Manuel A Rivas, Matt Hanna,[...]. Nat Genet 2011
10


A global reference for human genetic variation.
Adam Auton, Lisa D Brooks, Richard M Durbin, Erik P Garrison, Hyun Min Kang, Jan O Korbel, Jonathan L Marchini, Shane McCarthy, Gil A McVean, Gonçalo R Abecasis. Nature 2015
9

TASSEL: software for association mapping of complex traits in diverse samples.
Peter J Bradbury, Zhiwu Zhang, Dallas E Kroon, Terry M Casstevens, Yogesh Ramdoss, Edward S Buckler. Bioinformatics 2007
9

Iterative Usage of Fixed and Random Effect Models for Powerful and Efficient Genome-Wide Association Studies.
Xiaolei Liu, Meng Huang, Bin Fan, Edward S Buckler, Zhiwu Zhang. PLoS Genet 2016
451
8

A unified mixed-model method for association mapping that accounts for multiple levels of relatedness.
Jianming Yu, Gael Pressoir, William H Briggs, Irie Vroh Bi, Masanori Yamasaki, John F Doebley, Michael D McMullen, Brandon S Gaut, Dahlia M Nielsen, James B Holland,[...]. Nat Genet 2006
8

A program for annotating and predicting the effects of single nucleotide polymorphisms, SnpEff: SNPs in the genome of Drosophila melanogaster strain w1118; iso-2; iso-3.
Pablo Cingolani, Adrian Platts, Le Lily Wang, Melissa Coon, Tung Nguyen, Luan Wang, Susan J Land, Xiangyi Lu, Douglas M Ruden. Fly (Austin) 2012
7

Genome-wide regression and prediction with the BGLR statistical package.
Paulino Pérez, Gustavo de los Campos. Genetics 2014
533
7

A robust, simple genotyping-by-sequencing (GBS) approach for high diversity species.
Robert J Elshire, Jeffrey C Glaubitz, Qi Sun, Jesse A Poland, Ken Kawamoto, Edward S Buckler, Sharon E Mitchell. PLoS One 2011
7

Next-generation genotype imputation service and methods.
Sayantan Das, Lukas Forer, Sebastian Schönherr, Carlo Sidore, Adam E Locke, Alan Kwong, Scott I Vrieze, Emily Y Chew, Shawn Levy, Matt McGue,[...]. Nat Genet 2016
7

A new approach for efficient genotype imputation using information from relatives.
Mehdi Sargolzaei, Jacques P Chesnais, Flavio S Schenkel. BMC Genomics 2014
457
7

Genotype Imputation with Millions of Reference Samples.
Brian L Browning, Sharon R Browning. Am J Hum Genet 2016
528
6



PopLDdecay: a fast and effective tool for linkage disequilibrium decay analysis based on variant call format files.
Chi Zhang, Shan-Shan Dong, Jun-Yang Xu, Wei-Ming He, Tie-Lin Yang. Bioinformatics 2019
337
6

Improved maize reference genome with single-molecule technologies.
Yinping Jiao, Paul Peluso, Jinghua Shi, Tiffany Liang, Michelle C Stitzer, Bo Wang, Michael S Campbell, Joshua C Stein, Xuehong Wei, Chen-Shan Chin,[...]. Nature 2017
542
5

Fast gapped-read alignment with Bowtie 2.
Ben Langmead, Steven L Salzberg. Nat Methods 2012
5

The Ensembl Variant Effect Predictor.
William McLaren, Laurent Gil, Sarah E Hunt, Harpreet Singh Riat, Graham R S Ritchie, Anja Thormann, Paul Flicek, Fiona Cunningham. Genome Biol 2016
5

Stacks: an analysis tool set for population genomics.
Julian Catchen, Paul A Hohenlohe, Susan Bassham, Angel Amores, William A Cresko. Mol Ecol 2013
5

fastSTRUCTURE: variational inference of population structure in large SNP data sets.
Anil Raj, Matthew Stephens, Jonathan K Pritchard. Genetics 2014
712
5

Linkage disequilibrium in finite populations.
W G Hill, A Robertson. Theor Appl Genet 1968
5

From FastQ data to high confidence variant calls: the Genome Analysis Toolkit best practices pipeline.
Geraldine A Van der Auwera, Mauricio O Carneiro, Christopher Hartl, Ryan Poplin, Guillermo Del Angel, Ami Levy-Moonshine, Tadeusz Jordan, Khalid Shakir, David Roazen, Joel Thibault,[...]. Curr Protoc Bioinformatics 2013
5

Genotype imputation.
Yun Li, Cristen Willer, Serena Sanna, Gonçalo Abecasis. Annu Rev Genomics Hum Genet 2009
772
5

TASSEL-GBS: a high capacity genotyping by sequencing analysis pipeline.
Jeffrey C Glaubitz, Terry M Casstevens, Fei Lu, James Harriman, Robert J Elshire, Qi Sun, Edward S Buckler. PLoS One 2014
765
5



Twelve years of SAMtools and BCFtools.
Petr Danecek, James K Bonfield, Jennifer Liddle, John Marshall, Valeriu Ohan, Martin O Pollard, Andrew Whitwham, Thomas Keane, Shane A McCarthy, Robert M Davies,[...]. Gigascience 2021
762
5


Common SNPs explain a large proportion of the heritability for human height.
Jian Yang, Beben Benyamin, Brian P McEvoy, Scott Gordon, Anjali K Henders, Dale R Nyholt, Pamela A Madden, Andrew C Heath, Nicholas G Martin, Grant W Montgomery,[...]. Nat Genet 2010
4

DELLY: structural variant discovery by integrated paired-end and split-read analysis.
Tobias Rausch, Thomas Zichner, Andreas Schlattl, Adrian M Stütz, Vladimir Benes, Jan O Korbel. Bioinformatics 2012
4

ANNOVAR: functional annotation of genetic variants from high-throughput sequencing data.
Kai Wang, Mingyao Li, Hakon Hakonarson. Nucleic Acids Res 2010
4



Efficient control of population structure in model organism association mapping.
Hyun Min Kang, Noah A Zaitlen, Claire M Wade, Andrew Kirby, David Heckerman, Mark J Daly, Eleazar Eskin. Genetics 2008
994
4

Variance component model to account for sample structure in genome-wide association studies.
Hyun Min Kang, Jae Hoon Sul, Susan K Service, Noah A Zaitlen, Sit-Yee Kong, Nelson B Freimer, Chiara Sabatti, Eleazar Eskin. Nat Genet 2010
4


A powerful tool for genome analysis in maize: development and evaluation of the high density 600 k SNP genotyping array.
Sandra Unterseer, Eva Bauer, Georg Haberer, Michael Seidel, Carsten Knaak, Milena Ouzunova, Thomas Meitinger, Tim M Strom, Ruedi Fries, Hubert Pausch,[...]. BMC Genomics 2014
135
4


Co-cited is the co-citation frequency, indicating how many articles cite the article together with the query article. Similarity is the co-citation as percentage of the times cited of the query article or the article in the search results, whichever is the lowest. These numbers are calculated for the last 100 citations when articles are cited more than 100 times.