A citation-based method for searching scientific literature

Wouter De Coster, Matthias H Weissensteiner, Fritz J Sedlazeck. Nat Rev Genet 2021
Times Cited: 7







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



Times Cited
  Times     Co-cited
Similarity



Major Impacts of Widespread Structural Variation on Gene Expression and Crop Improvement in Tomato.
Michael Alonge, Xingang Wang, Matthias Benoit, Sebastian Soyk, Lara Pereira, Lei Zhang, Hamsini Suresh, Srividya Ramakrishnan, Florian Maumus, Danielle Ciren,[...]. Cell 2020
108
42

Structural variation in the sequencing era.
Steve S Ho, Alexander E Urban, Ryan E Mills. Nat Rev Genet 2020
81
42

Phenotypic impact of genomic structural variation: insights from and for human disease.
Joachim Weischenfeldt, Orsolya Symmons, François Spitz, Jan O Korbel. Nat Rev Genet 2013
259
42

Accurate detection of complex structural variations using single-molecule sequencing.
Fritz J Sedlazeck, Philipp Rescheneder, Moritz Smolka, Han Fang, Maria Nattestad, Arndt von Haeseler, Michael C Schatz. Nat Methods 2018
390
42

Piercing the dark matter: bioinformatics of long-range sequencing and mapping.
Fritz J Sedlazeck, Hayan Lee, Charlotte A Darby, Michael C Schatz. Nat Rev Genet 2018
172
42

Structural variant calling: the long and the short of it.
Medhat Mahmoud, Nastassia Gobet, Diana Ivette Cruz-Dávalos, Ninon Mounier, Christophe Dessimoz, Fritz J Sedlazeck. Genome Biol 2019
78
42

Long-read sequencing of 3,622 Icelanders provides insight into the role of structural variants in human diseases and other traits.
Doruk Beyter, Helga Ingimundardottir, Asmundur Oddsson, Hannes P Eggertsson, Eythor Bjornsson, Hakon Jonsson, Bjarni A Atlason, Snaedis Kristmundsdottir, Svenja Mehringer, Marteinn T Hardarson,[...]. Nat Genet 2021
17
42

A robust benchmark for detection of germline large deletions and insertions.
Justin M Zook, Nancy F Hansen, Nathan D Olson, Lesley Chapman, James C Mullikin, Chunlin Xiao, Stephen Sherry, Sergey Koren, Adam M Phillippy, Paul C Boutros,[...]. Nat Biotechnol 2020
55
42

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
42

Coming of age: ten years of next-generation sequencing technologies.
Sara Goodwin, John D McPherson, W Richard McCombie. Nat Rev Genet 2016
42

Mosdepth: quick coverage calculation for genomes and exomes.
Brent S Pedersen, Aaron R Quinlan. Bioinformatics 2018
128
28

Navigating highly homologous genes in a molecular diagnostic setting: a resource for clinical next-generation sequencing.
Diana Mandelker, Ryan J Schmidt, Arunkanth Ankala, Kristin McDonald Gibson, Mark Bowser, Himanshu Sharma, Elizabeth Duffy, Madhuri Hegde, Avni Santani, Matthew Lebo,[...]. Genet Med 2016
76
28

Telomere-to-telomere assembly of a complete human X chromosome.
Karen H Miga, Sergey Koren, Arang Rhie, Mitchell R Vollger, Ariel Gershman, Andrey Bzikadze, Shelise Brooks, Edmund Howe, David Porubsky, Glennis A Logsdon,[...]. Nature 2020
166
28

GBA Analysis in Next-Generation Era: Pitfalls, Challenges, and Possible Solutions.
Stefania Zampieri, Silvia Cattarossi, Bruno Bembi, Andrea Dardis. J Mol Diagn 2017
20
28

Short and long-read genome sequencing methodologies for somatic variant detection; genomic analysis of a patient with diffuse large B-cell lymphoma.
Hannah E Roberts, Maria Lopopolo, Alistair T Pagnamenta, Eshita Sharma, Duncan Parkes, Lorne Lonie, Colin Freeman, Samantha J L Knight, Gerton Lunter, Helene Dreau,[...]. Sci Rep 2021
2
100


A diploid assembly-based benchmark for variants in the major histocompatibility complex.
Chen-Shan Chin, Justin Wagner, Qiandong Zeng, Erik Garrison, Shilpa Garg, Arkarachai Fungtammasan, Mikko Rautiainen, Sergey Aganezov, Melanie Kirsche, Samantha Zarate,[...]. Nat Commun 2020
14
28

Comprehensive analysis of structural variants in breast cancer genomes using single-molecule sequencing.
Sergey Aganezov, Sara Goodwin, Rachel M Sherman, Fritz J Sedlazeck, Gayatri Arun, Sonam Bhatia, Isac Lee, Melanie Kirsche, Robert Wappel, Melissa Kramer,[...]. Genome Res 2020
16
28

Accurate circular consensus long-read sequencing improves variant detection and assembly of a human genome.
Aaron M Wenger, Paul Peluso, William J Rowell, Pi-Chuan Chang, Richard J Hall, Gregory T Concepcion, Jana Ebler, Arkarachai Fungtammasan, Alexey Kolesnikov, Nathan D Olson,[...]. Nat Biotechnol 2019
269
28


Long-read-based human genomic structural variation detection with cuteSV.
Tao Jiang, Yongzhuang Liu, Yue Jiang, Junyi Li, Yan Gao, Zhe Cui, Yadong Liu, Bo Liu, Yadong Wang. Genome Biol 2020
21
28

NanoPack: visualizing and processing long-read sequencing data.
Wouter De Coster, Svenn D'Hert, Darrin T Schultz, Marc Cruts, Christine Van Broeckhoven. Bioinformatics 2018
435
28

Transient structural variations have strong effects on quantitative traits and reproductive isolation in fission yeast.
Daniel C Jeffares, Clemency Jolly, Mimoza Hoti, Doug Speed, Liam Shaw, Charalampos Rallis, Francois Balloux, Christophe Dessimoz, Jürg Bähler, Fritz J Sedlazeck. Nat Commun 2017
134
28

lra: A long read aligner for sequences and contigs.
Jingwen Ren, Mark J P Chaisson. PLoS Comput Biol 2021
4
50

Multi-platform discovery of haplotype-resolved structural variation in human genomes.
Mark J P Chaisson, Ashley D Sanders, Xuefang Zhao, Ankit Malhotra, David Porubsky, Tobias Rausch, Eugene J Gardner, Oscar L Rodriguez, Li Guo, Ryan L Collins,[...]. Nat Commun 2019
247
28

Characterizing the Major Structural Variant Alleles of the Human Genome.
Peter A Audano, Arvis Sulovari, Tina A Graves-Lindsay, Stuart Cantsilieris, Melanie Sorensen, AnneMarie E Welch, Max L Dougherty, Bradley J Nelson, Ankeeta Shah, Susan K Dutcher,[...]. Cell 2019
153
28

Nanopore sequencing and assembly of a human genome with ultra-long reads.
Miten Jain, Sergey Koren, Karen H Miga, Josh Quick, Arthur C Rand, Thomas A Sasani, John R Tyson, Andrew D Beggs, Alexander T Dilthey, Ian T Fiddes,[...]. Nat Biotechnol 2018
657
28


Haplotype-resolved de novo assembly using phased assembly graphs with hifiasm.
Haoyu Cheng, Gregory T Concepcion, Xiaowen Feng, Haowen Zhang, Heng Li. Nat Methods 2021
50
14

Snakemake-a scalable bioinformatics workflow engine.
Johannes Köster, Sven Rahmann. Bioinformatics 2018
85
14

Detecting DNA cytosine methylation using nanopore sequencing.
Jared T Simpson, Rachael E Workman, P C Zuzarte, Matei David, L J Dursi, Winston Timp. Nat Methods 2017
305
14

An open resource for accurately benchmarking small variant and reference calls.
Justin M Zook, Jennifer McDaniel, Nathan D Olson, Justin Wagner, Hemang Parikh, Haynes Heaton, Sean A Irvine, Len Trigg, Rebecca Truty, Cory Y McLean,[...]. Nat Biotechnol 2019
80
14


Nanopore sequencing and the Shasta toolkit enable efficient de novo assembly of eleven human genomes.
Kishwar Shafin, Trevor Pesout, Ryan Lorig-Roach, Marina Haukness, Hugh E Olsen, Colleen Bosworth, Joel Armstrong, Kristof Tigyi, Nicholas Maurer, Sergey Koren,[...]. Nat Biotechnol 2020
79
14

Double-slit photoelectron interference in strong-field ionization of the neon dimer.
Maksim Kunitski, Nicolas Eicke, Pia Huber, Jonas Köhler, Stefan Zeller, Jörg Voigtsberger, Nikolai Schlott, Kevin Henrichs, Hendrik Sann, Florian Trinter,[...]. Nat Commun 2019
14

The GBAP1 pseudogene acts as a ceRNA for the glucocerebrosidase gene GBA by sponging miR-22-3p.
Letizia Straniero, Valeria Rimoldi, Maura Samarani, Stefano Goldwurm, Alessio Di Fonzo, Rejko Krüger, Michela Deleidi, Massimo Aureli, Giulia Soldà, Stefano Duga,[...]. Sci Rep 2017
35
14


Systematic genetic analysis of the MHC region reveals mechanistic underpinnings of HLA type associations with disease.
Matteo D'Antonio, Joaquin Reyna, David Jakubosky, Margaret Kr Donovan, Marc-Jan Bonder, Hiroko Matsui, Oliver Stegle, Naoki Nariai, Agnieszka D'Antonio-Chronowska, Kelly A Frazer. Elife 2019
7
14

The HLA genomic loci map: expression, interaction, diversity and disease.
Takashi Shiina, Kazuyoshi Hosomichi, Hidetoshi Inoko, Jerzy K Kulski. J Hum Genet 2009
356
14

Assessing structural variation in a personal genome-towards a human reference diploid genome.
Adam C English, William J Salerno, Oliver A Hampton, Claudia Gonzaga-Jauregui, Shruthi Ambreth, Deborah I Ritter, Christine R Beck, Caleb F Davis, Mahmoud Dahdouli, Singer Ma,[...]. BMC Genomics 2015
88
14

Plasma Hsp90 levels in patients with systemic sclerosis and relation to lung and skin involvement: a cross-sectional and longitudinal study.
Hana Štorkánová, Sabína Oreská, Maja Špiritović, Barbora Heřmánková, Kristýna Bubová, Martin Komarc, Karel Pavelka, Jiří Vencovský, Jörg H W Distler, Ladislav Šenolt,[...]. Sci Rep 2021
226
14

Spinal muscular atrophy diagnosis and carrier screening from genome sequencing data.
Xiao Chen, Alba Sanchis-Juan, Courtney E French, Andrew J Connell, Isabelle Delon, Zoya Kingsbury, Aditi Chawla, Aaron L Halpern, Ryan J Taft, David R Bentley,[...]. Genet Med 2020
22
14

Mutations in the glucocerebrosidase gene are responsible for Chinese patients with Parkinson's disease.
Zhe Yu, Ting Wang, Jun Xu, Wei Wang, Guifang Wang, Chao Chen, Lili Zheng, Li Pan, Dianrong Gong, Xueli Li,[...]. J Hum Genet 2015
17
14

Discovery and population genomics of structural variation in a songbird genus.
Matthias H Weissensteiner, Ignas Bunikis, Ana Catalán, Kees-Jan Francoijs, Ulrich Knief, Wieland Heim, Valentina Peona, Saurabh D Pophaly, Fritz J Sedlazeck, Alexander Suh,[...]. Nat Commun 2020
19
14

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
14

Ocular phenotypes in a mouse model of impaired glucocerebrosidase activity.
Martin Weber, Sang-Won Min, Tom Truong, Jeffrey Hung, Stephanie Dale, Mike Reichelt, Savita Ubhayakar, Carol Cain-Hom, Miriam Baca, Zhiyu Jiang,[...]. Sci Rep 2021
1
100

A complete bacterial genome assembled de novo using only nanopore sequencing data.
Nicholas J Loman, Joshua Quick, Jared T Simpson. Nat Methods 2015
535
14

Putative second hit rare genetic variants in families with seemingly GBA-associated Parkinson's disease.
Muhammad Aslam, Nirosiya Kandasamy, Anwar Ullah, Nagarajan Paramasivam, Mehmet Ali Öztürk, Saima Naureen, Abida Arshad, Mazhar Badshah, Kafaitullah Khan, Muhammad Wajid,[...]. NPJ Genom Med 2021
1
100

Human genetic variation and its contribution to complex traits.
Kelly A Frazer, Sarah S Murray, Nicholas J Schork, Eric J Topol. Nat Rev Genet 2009
635
14


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.