A citation-based method for searching scientific literature

Einat Hazkani-Covo, Raymond M Zeller, William Martin. PLoS Genet 2010
Times Cited: 329







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



Times Cited
  Times     Co-cited
Similarity


The genomic landscape of polymorphic human nuclear mitochondrial insertions.
Gargi Dayama, Sarah B Emery, Jeffrey M Kidd, Ryan E Mills. Nucleic Acids Res 2014
86
22



NumtS colonization in mammalian genomes.
F M Calabrese, D L Balacco, R Preste, M A Diroma, R Forino, M Ventura, M Attimonelli. Sci Rep 2017
28
57

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
15

Basic local alignment search tool.
S F Altschul, W Gish, W Miller, E W Myers, D J Lipman. J Mol Biol 1990
15

NUMTs in sequenced eukaryotic genomes.
Erik Richly, Dario Leister. Mol Biol Evol 2004
279
14

Mitochondrial pseudogenes: evolution's misplaced witnesses.
D Bensasson, D -X. Zhang, D L. Hartl, G M. Hewitt. Trends Ecol Evol 2001
532
14

Trimmomatic: a flexible trimmer for Illumina sequence data.
Anthony M Bolger, Marc Lohse, Bjoern Usadel. Bioinformatics 2014
14


Endosymbiotic gene transfer: organelle genomes forge eukaryotic chromosomes.
Jeremy N Timmis, Michael A Ayliffe, Chun Y Huang, William Martin. Nat Rev Genet 2004
808
13

Continued colonization of the human genome by mitochondrial DNA.
Miria Ricchetti, Fredj Tekaia, Bernard Dujon. PLoS Biol 2004
141
12

Fast gapped-read alignment with Bowtie 2.
Ben Langmead, Steven L Salzberg. Nat Methods 2012
12


Migration of mitochondrial DNA in the nuclear genome of colorectal adenocarcinoma.
Vinodh Srinivasainagendra, Michael W Sandel, Bhupendra Singh, Aishwarya Sundaresan, Ved P Mooga, Prachi Bajpai, Hemant K Tiwari, Keshav K Singh. Genome Med 2017
36
27

MrBayes 3.2: efficient Bayesian phylogenetic inference and model choice across a large model space.
Fredrik Ronquist, Maxim Teslenko, Paul van der Mark, Daniel L Ayres, Aaron Darling, Sebastian Höhna, Bret Larget, Liang Liu, Marc A Suchard, John P Huelsenbeck. Syst Biol 2012
10

Mammalian NUMT insertion is non-random.
Junko Tsuji, Martin C Frith, Kentaro Tomii, Paul Horton. Nucleic Acids Res 2012
57
17

MITOS: improved de novo metazoan mitochondrial genome annotation.
Matthias Bernt, Alexander Donath, Frank Jühling, Fabian Externbrink, Catherine Florentz, Guido Fritzsch, Joern Pütz, Martin Middendorf, Peter F Stadler. Mol Phylogenet Evol 2013
9

Human genetic disease caused by de novo mitochondrial-nuclear DNA transfer.
Clesson Turner, Christina Killoran, Nick S T Thomas, Marjorie Rosenberg, Nadia A Chuzhanova, Jennifer Johnston, Yelena Kemel, David N Cooper, Leslie G Biesecker. Hum Genet 2003
81
11

Reanalysis and revision of the Cambridge reference sequence for human mitochondrial DNA.
R M Andrews, I Kubacka, P F Chinnery, R N Lightowlers, D M Turnbull, N Howell. Nat Genet 1999
9

Circos: an information aesthetic for comparative genomics.
Martin Krzywinski, Jacqueline Schein, Inanç Birol, Joseph Connors, Randy Gascoyne, Doug Horsman, Steven J Jones, Marco A Marra. Genome Res 2009
9

Fidelity of capture-enrichment for mtDNA genome sequencing: influence of NUMTs.
Mingkun Li, Roland Schroeder, Albert Ko, Mark Stoneking. Nucleic Acids Res 2012
68
13

Sequence and organization of the human mitochondrial genome.
S Anderson, A T Bankier, B G Barrell, M H de Bruijn, A R Coulson, J Drouin, I C Eperon, D P Nierlich, B A Roe, F Sanger,[...]. Nature 1981
9


SPAdes: a new genome assembly algorithm and its applications to single-cell sequencing.
Anton Bankevich, Sergey Nurk, Dmitry Antipov, Alexey A Gurevich, Mikhail Dvorkin, Alexander S Kulikov, Valery M Lesin, Sergey I Nikolenko, Son Pham, Andrey D Prjibelski,[...]. J Comput Biol 2012
8

Structure and chromosomal distribution of human mitochondrial pseudogenes.
Yves Tourmen, Olivier Baris, Philippe Dessen, Caroline Jacques, Yves Malthièry, Pascal Reynier. Genomics 2002
93
8

Primates and mouse NumtS in the UCSC Genome Browser.
Francesco Maria Calabrese, Domenico Simone, Marcella Attimonelli. BMC Bioinformatics 2012
37
21

Many species in one: DNA barcoding overestimates the number of species when nuclear mitochondrial pseudogenes are coamplified.
Hojun Song, Jennifer E Buhay, Michael F Whiting, Keith A Crandall. Proc Natl Acad Sci U S A 2008
393
8

Biological identifications through DNA barcodes.
Paul D N Hebert, Alina Cywinska, Shelley L Ball, Jeremy R deWaard. Proc Biol Sci 2003
8

Rates of DNA duplication and mitochondrial DNA insertion in the human genome.
Douda Bensasson, Marcus W Feldman, Dmitri A Petrov. J Mol Evol 2003
83
9

Rapid evolution of animal mitochondrial DNA.
W M Brown, M George, A C Wilson. Proc Natl Acad Sci U S A 1979
8


Assessing mitochondrial heteroplasmy using next generation sequencing: A note of caution.
Mauro Santibanez-Koref, Helen Griffin, Douglass M Turnbull, Patrick F Chinnery, Mary Herbert, Gavin Hudson. Mitochondrion 2019
26
30


Pseudomitochondrial genome haunts disease studies.
Y-G Yao, Q-P Kong, A Salas, H-J Bandelt. J Med Genet 2008
89
7

Biparental Inheritance of Mitochondrial DNA in Humans.
Shiyu Luo, C Alexander Valencia, Jinglan Zhang, Ni-Chung Lee, Jesse Slone, Baoheng Gui, Xinjian Wang, Zhuo Li, Sarah Dell, Jenice Brown,[...]. Proc Natl Acad Sci U S A 2018
145
7




A comparative analysis of numt evolution in human and chimpanzee.
Einat Hazkani-Covo, Dan Graur. Mol Biol Evol 2007
78
8

MEGA X: Molecular Evolutionary Genetics Analysis across Computing Platforms.
Sudhir Kumar, Glen Stecher, Michael Li, Christina Knyaz, Koichiro Tamura. Mol Biol Evol 2018
7



MToolBox: a highly automated pipeline for heteroplasmy annotation and prioritization analysis of human mitochondrial variants in high-throughput sequencing.
Claudia Calabrese, Domenico Simone, Maria Angela Diroma, Mariangela Santorsola, Cristiano Guttà, Giuseppe Gasparre, Ernesto Picardi, Graziano Pesole, Marcella Attimonelli. Bioinformatics 2014
108
7

Origins and functional consequences of somatic mitochondrial DNA mutations in human cancer.
Young Seok Ju, Ludmil B Alexandrov, Moritz Gerstung, Inigo Martincorena, Serena Nik-Zainal, Manasa Ramakrishna, Helen R Davies, Elli Papaemmanuil, Gunes Gundem, Adam Shlien,[...]. Elife 2014
211
6

Heteroplasmic mitochondrial DNA mutations in normal and tumour cells.
Yiping He, Jian Wu, Devin C Dressman, Christine Iacobuzio-Donahue, Sanford D Markowitz, Victor E Velculescu, Luis A Diaz, Kenneth W Kinzler, Bert Vogelstein, Nickolas Papadopoulos. Nature 2010
369
6

Animal mitochondrial genomes.
J L Boore. Nucleic Acids Res 1999
6

Evolution of mitochondrial gene content: gene loss and transfer to the nucleus.
Keith L Adams, Jeffrey D Palmer. Mol Phylogenet Evol 2003
368
6

Mitochondrial genomes: anything goes.
Gertraud Burger, Michael W Gray, B Franz Lang. Trends Genet 2003
353
6

Plant Mitochondrial Genomes: Dynamics and Mechanisms of Mutation.
José M Gualberto, Kathleen J Newton. Annu Rev Plant Biol 2017
134
6


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.