A citation-based method for searching scientific literature

Justin M Zook, David Catoe, Jennifer McDaniel, Lindsay Vang, Noah Spies, Arend Sidow, Ziming Weng, Yuling Liu, Christopher E Mason, Noah Alexander, Elizabeth Henaff, Alexa B R McIntyre, Dhruva Chandramohan, Feng Chen, Erich Jaeger, Ali Moshrefi, Khoa Pham, William Stedman, Tiffany Liang, Michael Saghbini, Zeljko Dzakula, Alex Hastie, Han Cao, Gintaras Deikus, Eric Schadt, Robert Sebra, Ali Bashir, Rebecca M Truty, Christopher C Chang, Natali Gulbahce, Keyan Zhao, Srinka Ghosh, Fiona Hyland, Yutao Fu, Mark Chaisson, Chunlin Xiao, Jonathan Trow, Stephen T Sherry, Alexander W Zaranek, Madeleine Ball, Jason Bobe, Preston Estep, George M Church, Patrick Marks, Sofia Kyriazopoulou-Panagiotopoulou, Grace X Y Zheng, Michael Schnall-Levin, Heather S Ordonez, Patrice A Mudivarti, Kristina Giorda, Ying Sheng, Karoline Bjarnesdatter Rypdal, Marc Salit. Sci Data 2016
Times Cited: 240



Justin M Zook, Jennifer McDaniel, Nathan D Olson, Justin Wagner, Hemang Parikh, Haynes Heaton, Sean A Irvine, Len Trigg, Rebecca Truty, Cory Y McLean, Francisco M De La Vega, Chunlin Xiao, Stephen Sherry, Marc Salit. Nat Biotechnol 2019
Times Cited: 73




List of shared articles



Times cited


Reliability of genomic variants across different next-generation sequencing platforms and bioinformatic processing pipelines.
Stephan Weißbach, Stanislav Sys, Charlotte Hewel, Hristo Todorov, Susann Schweiger, Jennifer Winter, Markus Pfenninger, Ali Torkamani, Doug Evans, Joachim Burger,[...]. BMC Genomics 2021
1

Megabase-scale methylation phasing using nanopore long reads and NanoMethPhase.
Vahid Akbari, Jean-Michel Garant, Kieran O'Neill, Pawan Pandoh, Richard Moore, Marco A Marra, Martin Hirst, Steven J M Jones. Genome Biol 2021
3

Haplotype-resolved diverse human genomes and integrated analysis of structural variation.
Peter Ebert, Peter A Audano, Qihui Zhu, Bernardo Rodriguez-Martin, David Porubsky, Marc Jan Bonder, Arvis Sulovari, Jana Ebler, Weichen Zhou, Rebecca Serra Mari,[...]. Science 2021
32

Reducing Sanger confirmation testing through false positive prediction algorithms.
James M Holt, Melissa Kelly, Brett Sundlof, Ghunwa Nakouzi, David Bick, Elaine Lyon. Genet Med 2021
1

A verified genomic reference sample for assessing performance of cancer panels detecting small variants of low allele frequency.
Wendell Jones, Binsheng Gong, Natalia Novoradovskaya, Dan Li, Rebecca Kusko, Todd A Richmond, Donald J Johann, Halil Bisgin, Sayed Mohammad Ebrahim Sahraeian, Pierre R Bushel,[...]. Genome Biol 2021
2

Next-generation sequencing for constitutional variants in the clinical laboratory, 2021 revision: a technical standard of the American College of Medical Genetics and Genomics (ACMG).
Catherine Rehder, Lora J H Bean, David Bick, Elizabeth Chao, Wendy Chung, Soma Das, Julianne O'Daniel, Heidi Rehm, Vandana Shashi, Lisa M Vincent. Genet Med 2021
4

Evaluation of saliva as a source of accurate whole-genome and microbiome sequencing data.
Anthony F Herzig, Lourdes Velo-Suárez, Gaëlle Le Folgoc, Anne Boland, Hélène Blanché, Robert Olaso, Liana Le Roux, Christelle Delmas, Marcel Goldberg, Marie Zins,[...]. Genet Epidemiol 2021
0


Haplotype diversity and sequence heterogeneity of human telomeres.
Kirill Grigorev, Jonathan Foox, Daniela Bezdan, Daniel Butler, Jared J Luxton, Jake Reed, Miles J McKenna, Lynn Taylor, Kerry A George, Cem Meydan,[...]. Genome Res 2021
1

Creation of an Expert Curated Variant List for Clinical Genomic Test Development and Validation: A ClinGen and GeT-RM Collaborative Project.
Emma Wilcox, Steven M Harrison, Edward Lockhart, Karl Voelkerding, Ira M Lubin, Heidi L Rehm, Lisa V Kalman, Birgit Funke. J Mol Diagn 2021
0

Building a Chinese pan-genome of 486 individuals.
Qiuhui Li, Shilin Tian, Bin Yan, Chi Man Liu, Tak-Wah Lam, Ruiqiang Li, Ruibang Luo. Commun Biol 2021
0


Establishing community reference samples, data and call sets for benchmarking cancer mutation detection using whole-genome sequencing.
Li Tai Fang, Bin Zhu, Yongmei Zhao, Wanqiu Chen, Zhaowei Yang, Liz Kerrigan, Kurt Langenbach, Maryellen de Mars, Charles Lu, Kenneth Idler,[...]. Nat Biotechnol 2021
0

Performance assessment of DNA sequencing platforms in the ABRF Next-Generation Sequencing Study.
Jonathan Foox, Scott W Tighe, Charles M Nicolet, Justin M Zook, Marta Byrska-Bishop, Wayne E Clarke, Michael M Khayat, Medhat Mahmoud, Phoebe K Laaguiby, Zachary T Herbert,[...]. Nat Biotechnol 2021
1

Genomic diversity affects the accuracy of bacterial single-nucleotide polymorphism-calling pipelines.
Stephen J Bush, Dona Foster, David W Eyre, Emily L Clark, Nicola De Maio, Liam P Shaw, Nicole Stoesser, Tim E A Peto, Derrick W Crook, A Sarah Walker. Gigascience 2020
26

Genotyping structural variants in pangenome graphs using the vg toolkit.
Glenn Hickey, David Heller, Jean Monlong, Jonas A Sibbesen, Jouni Sirén, Jordan Eizenga, Eric T Dawson, Erik Garrison, Adam M Novak, Benedict Paten. Genome Biol 2020
34


Assembly and annotation of an Ashkenazi human reference genome.
Alaina Shumate, Aleksey V Zimin, Rachel M Sherman, Daniela Puiu, Justin M Wagner, Nathan D Olson, Mihaela Pertea, Marc L Salit, Justin M Zook, Steven L Salzberg. Genome Biol 2020
12

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
44

A universal and independent synthetic DNA ladder for the quantitative measurement of genomic features.
Andre L M Reis, Ira W Deveson, Ted Wong, Bindu Swapna Madala, Chris Barker, James Blackburn, Esteban Marcellin, Tim R Mercer. Nat Commun 2020
0

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
70

HiCanu: accurate assembly of segmental duplications, satellites, and allelic variants from high-fidelity long reads.
Sergey Nurk, Brian P Walenz, Arang Rhie, Mitchell R Vollger, Glennis A Logsdon, Robert Grothe, Karen H Miga, Evan E Eichler, Adam M Phillippy, Sergey Koren. Genome Res 2020
55

Improved haplotype inference by exploiting long-range linking and allelic imbalance in RNA-seq datasets.
Emily Berger, Deniz Yorukoglu, Lillian Zhang, Sarah K Nyquist, Alex K Shalek, Manolis Kellis, Ibrahim Numanagić, Bonnie Berger. Nat Commun 2020
4

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
11