A citation-based method for searching scientific literature

Indira Somanathan, Chris Baysdorfer. Biotechniques 2018
Times Cited: 5







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



Times Cited
  Times     Co-cited
Similarity



Repbase Update, a database of repetitive elements in eukaryotic genomes.
Weidong Bao, Kenji K Kojima, Oleksiy Kohany. Mob DNA 2015
893
60

Trimmomatic: a flexible trimmer for Illumina sequence data.
Anthony M Bolger, Marc Lohse, Bjoern Usadel. Bioinformatics 2014
40

BLAT--the BLAST-like alignment tool.
W James Kent. Genome Res 2002
40

Allium telomeres unmasked: the unusual telomeric sequence (CTCGGTTATGGG)n is synthesized by telomerase.
Petr Fajkus, Vratislav Peška, Zdeňka Sitová, Jana Fulnečková, Martina Dvořáčková, Roman Gogela, Eva Sýkorová, Jan Hapala, Jiří Fajkus. Plant J 2016
39
40

The absence of Arabidopsis-type telomeres in Cestrum and closely related genera Vestia and Sessea (Solanaceae): first evidence from eudicots.
Eva Sykorova, Kar Yoong Lim, Mark W Chase, Sandra Knapp, Ilia Judith Leitch, Andrew Rowland Leitch, Jiri Fajkus. Plant J 2003
63
40

Comparative analysis of tandem repeats from hundreds of species reveals unique insights into centromere evolution.
Daniël P Melters, Keith R Bradnam, Hugh A Young, Natalie Telis, Michael R May, J Graham Ruby, Robert Sebra, Paul Peluso, John Eid, David Rank,[...]. Genome Biol 2013
198
40

Telomerase RNAs in land plants.
Petr Fajkus, Vratislav Peška, Michal Závodník, Miloslava Fojtová, Jana Fulnečková, Šimon Dobias, Agata Kilar, Martina Dvořáčková, Dagmar Zachová, Ivona Nečasová,[...]. Nucleic Acids Res 2019
20
40

A broad phylogenetic survey unveils the diversity and evolution of telomeres in eukaryotes.
Jana Fulnecková, Tereza Sevcíková, Jirí Fajkus, Alena Lukesová, Martin Lukes, Cestmír Vlcek, B Franz Lang, Eunsoo Kim, Marek Eliás, Eva Sykorová. Genome Biol Evol 2013
47
40

BUSCO Applications from Quality Assessments to Gene Prediction and Phylogenomics.
Robert M Waterhouse, Mathieu Seppey, Felipe A Simão, Mosè Manni, Panagiotis Ioannidis, Guennadi Klioutchnikov, Evgenia V Kriventseva, Evgeny M Zdobnov. Mol Biol Evol 2018
736
40

Pilon: an integrated tool for comprehensive microbial variant detection and genome assembly improvement.
Bruce J Walker, Thomas Abeel, Terrance Shea, Margaret Priest, Amr Abouelliel, Sharadha Sakthikumar, Christina A Cuomo, Qiandong Zeng, Jennifer Wortman, Sarah K Young,[...]. PLoS One 2014
40

Nonhybrid, finished microbial genome assemblies from long-read SMRT sequencing data.
Chen-Shan Chin, David H Alexander, Patrick Marks, Aaron A Klammer, James Drake, Cheryl Heiner, Alicia Clum, Alex Copeland, John Huddleston, Evan E Eichler,[...]. Nat Methods 2013
40

Canu: scalable and accurate long-read assembly via adaptive k-mer weighting and repeat separation.
Sergey Koren, Brian P Walenz, Konstantin Berlin, Jason R Miller, Nicholas H Bergman, Adam M Phillippy. Genome Res 2017
40

Infernal 1.1: 100-fold faster RNA homology searches.
Eric P Nawrocki, Sean R Eddy. Bioinformatics 2013
933
40

GeneWise and Genomewise.
Ewan Birney, Michele Clamp, Richard Durbin. Genome Res 2004
40

BLAST+: architecture and applications.
Christiam Camacho, George Coulouris, Vahram Avagyan, Ning Ma, Jason Papadopoulos, Kevin Bealer, Thomas L Madden. BMC Bioinformatics 2009
40

Non-Coding RNA Analysis Using the Rfam Database.
Ioanna Kalvari, Eric P Nawrocki, Joanna Argasinska, Natalia Quinones-Olvera, Robert D Finn, Alex Bateman, Anton I Petrov. Curr Protoc Bioinformatics 2018
96
40

BUSCO: assessing genome assembly and annotation completeness with single-copy orthologs.
Felipe A Simão, Robert M Waterhouse, Panagiotis Ioannidis, Evgenia V Kriventseva, Evgeny M Zdobnov. Bioinformatics 2015
40

tRNAscan-SE: Searching for tRNA Genes in Genomic Sequences.
Patricia P Chan, Todd M Lowe. Methods Mol Biol 2019
218
40


Gene body DNA methylation in plants.
Adam J Bewick, Robert J Schmitz. Curr Opin Plant Biol 2017
116
20

Inbreeding drives maize centromere evolution.
Kevin L Schneider, Zidian Xie, Thomas K Wolfgruber, Gernot G Presting. Proc Natl Acad Sci U S A 2016
52
20

Nucleosomes and DNA methylation shape meiotic DSB frequency in Arabidopsis thaliana transposons and gene regulatory regions.
Kyuha Choi, Xiaohui Zhao, Andrew J Tock, Christophe Lambing, Charles J Underwood, Thomas J Hardcastle, Heïdi Serra, Juhyun Kim, Hyun Seob Cho, Jaeil Kim,[...]. Genome Res 2018
76
20

Fine-scale population recombination rates, hotspots, and correlates of recombination in the Medicago truncatula genome.
Timothy Paape, Peng Zhou, Antoine Branca, Roman Briskine, Nevin Young, Peter Tiffin. Genome Biol Evol 2012
42
20

Hotspots for Initiation of Meiotic Recombination.
Andrew J Tock, Ian R Henderson. Front Genet 2018
23
20

The Interrelationships of Land Plants and the Nature of the Ancestral Embryophyte.
Mark N Puttick, Jennifer L Morris, Tom A Williams, Cymon J Cox, Dianne Edwards, Paul Kenrick, Silvia Pressel, Charles H Wellman, Harald Schneider, Davide Pisani,[...]. Curr Biol 2018
132
20


REVIGO summarizes and visualizes long lists of gene ontology terms.
Fran Supek, Matko Bošnjak, Nives Škunca, Tomislav Šmuc. PLoS One 2011
20

The Physcomitrella patens chromosome-scale assembly reveals moss genome structure and evolution.
Daniel Lang, Kristian K Ullrich, Florent Murat, Jörg Fuchs, Jerry Jenkins, Fabian B Haas, Mathieu Piednoel, Heidrun Gundlach, Michiel Van Bel, Rabea Meyberg,[...]. Plant J 2018
132
20

Evidence for widespread GC-biased gene conversion in eukaryotes.
Eugénie Pessia, Alexandra Popa, Sylvain Mousset, Clément Rezvoy, Laurent Duret, Gabriel A B Marais. Genome Biol Evol 2012
79
20


Gene duplication and evolution in recurring polyploidization-diploidization cycles in plants.
Xin Qiao, Qionghou Li, Hao Yin, Kaijie Qi, Leiting Li, Runze Wang, Shaoling Zhang, Andrew H Paterson. Genome Biol 2019
101
20


The timescale of early land plant evolution.
Jennifer L Morris, Mark N Puttick, James W Clark, Dianne Edwards, Paul Kenrick, Silvia Pressel, Charles H Wellman, Ziheng Yang, Harald Schneider, Philip C J Donoghue. Proc Natl Acad Sci U S A 2018
209
20

Evolutionary forces affecting synonymous variations in plant genomes.
Yves Clément, Gautier Sarah, Yan Holtz, Felix Homa, Stéphanie Pointet, Sandy Contreras, Benoit Nabholz, François Sabot, Laure Sauné, Morgane Ardisson,[...]. PLoS Genet 2017
16
20

Epigenetic activation of meiotic recombination near Arabidopsis thaliana centromeres via loss of H3K9me2 and non-CG DNA methylation.
Charles J Underwood, Kyuha Choi, Christophe Lambing, Xiaohui Zhao, Heïdi Serra, Filipe Borges, Joe Simorowski, Evan Ernst, Yannick Jacob, Ian R Henderson,[...]. Genome Res 2018
54
20

RdDM-independent de novo and heterochromatin DNA methylation by plant CMT and DNMT3 orthologs.
Rafael Yaari, Aviva Katz, Katherine Domb, Keith D Harris, Assaf Zemach, Nir Ohad. Nat Commun 2019
21
20

Where to Cross Over? Defining Crossover Sites in Plants.
Julia Dluzewska, Maja Szymanska, Piotr A Ziolkowski. Front Genet 2018
9
20

Nuclear DNA content variation and evolution in liverworts.
Jillian D Bainard, Laura L Forrest, Bernard Goffinet, Steven G Newmaster. Mol Phylogenet Evol 2013
14
20


The dispersal process of asexual propagules and the contribution to population persistence in Marchantia (Marchantiaceae).
Christopher R Stieha, Aurea R Middleton, Joseph K Stieha, Skylar H Trott, D Nicholas McLetchie. Am J Bot 2014
9
20

MareyMap Online: A User-Friendly Web Application and Database Service for Estimating Recombination Rates Using Physical and Genetic Maps.
Aurélie Siberchicot, Adrien Bessy, Laurent Guéguen, Gabriel A B Marais. Genome Biol Evol 2017
4
25


GC content evolution in coding regions of angiosperm genomes: a unifying hypothesis.
Sylvain Glémin, Yves Clément, Jacques David, Adrienne Ressayre. Trends Genet 2014
42
20

MareyMap: an R-based tool with graphical interface for estimating recombination rates.
Clément Rezvoy, Delphine Charif, Laurent Guéguen, Gabriel A B Marais. Bioinformatics 2007
70
20

Phytozome: a comparative platform for green plant genomics.
David M Goodstein, Shengqiang Shu, Russell Howson, Rochak Neupane, Richard D Hayes, Joni Fazo, Therese Mitros, William Dirks, Uffe Hellsten, Nicholas Putnam,[...]. Nucleic Acids Res 2012
20

RETINOBLASTOMA RELATED1 mediates germline entry in Arabidopsis.
Xin'Ai Zhao, Jonathan Bramsiepe, Matthias Van Durme, Shinichiro Komaki, Maria Ada Prusicki, Daisuke Maruyama, Joachim Forner, Anna Medzihradszky, Erik Wijnker, Hirofumi Harashima,[...]. Science 2017
37
20


Genome-wide association genetics of an adaptive trait in lodgepole pine.
Thomas L Parchman, Zachariah Gompert, Joann Mudge, Faye D Schilkey, Craig W Benkman, C Alex Buerkle. Mol Ecol 2012
207
20

Chromosome-level genome assembly and transcriptome of the green alga Chromochloris zofingiensis illuminates astaxanthin production.
Melissa S Roth, Shawn J Cokus, Sean D Gallaher, Andreas Walter, David Lopez, Erika Erickson, Benjamin Endelman, Daniel Westcott, Carolyn A Larabell, Sabeeha S Merchant,[...]. Proc Natl Acad Sci U S A 2017
65
20


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.