pypi: Dovetail | Projects | Ecosyste.ms: Papers

10.1534/g3.120.401579

High-Quality Assemblies for Three Invasive Social Wasps from the Vespula Genus
Cited by: 19
Author(s): Thomas W. R. Harrop, Joseph Guhlin, Gemma M. McLaughlin, Elizabeth Permina, Peter A. Stockwell, Josh Gilligan, Marissa F. Le Lec, Monica A. M. Gruber, Oliver Quinn, Mackenzie Lovegrove, Elizabeth J. Duncan, Emily J. Remnant, Jens Van Eeckhoven, Brittany Graham, Rosemary A Knapp, Kyle W. Langford, Zev Kronenberg, Maximilian O. Press, Stephen Eacker, Erin E. Wilson Rankin, Jessica Purcell, Philip J. Lester, Peter K. Dearden
Software Mentions: 7
Published: about 4 years ago

10.1038/s42003-019-0719-5

Genetic variation drives seasonal onset of hibernation in the 13-lined ground squirrel
Cited by: 25
Author(s): Katharine R. Grabek, Thomas F. Cooke, L. Elaine Epperson, Kaitlyn Spees, Gleyce Fonseca Cabral, Shirley Sutton, Dana K. Merriman, Sandra L. Martin, Carlos D. Bustamante
Software Mentions: 7
Published: about 5 years ago

10.1186/s12864-020-06990-4

Nucleotide diversity of functionally different groups of immune response genes in Old World camels based on newly annotated and reference-guided assemblies
Cited by: 13
Author(s): Sara Lado, Jean P. Elbers, Mark F. Rogers, José Melo‐Ferreira, Adiya Yadamsuren, Jukka Corander, Petr Hořín, Pamela A. Burger
Software Mentions: 6
Published: over 4 years ago

10.1371/journal.pone.0249899

A pseudomolecule assembly of the Rocky Mountain elk genome
Cited by: 2
Author(s): Rick E. Masonbrink, David P. Alt, Darrell O. Bayles, Paola M. Boggiatto, William H. Edwards, Fred M. Tatum, Jeffrey T. Williams, Jennifer H. Wilson-Welder, Aleksey V. Zimin, Andrew J. Severin, Steven C. Olsen
Software Mentions: 5
Published: over 3 years ago

10.1186/s12915-019-0734-5

Long live the king: chromosome-level assembly of the lion (Panthera leo) using linked-read, Hi-C, and long-read data
Cited by: 25
Author(s): Ellie E. Armstrong, Ryan W. Taylor, Danny E. Miller, Christopher B. Kaelin, Gregory S. Barsh, Elizabeth A. Hadly, Dmitri A. Petrov
Software Mentions: 5
Published: almost 5 years ago

10.1111/1755-0998.13020

Improving Illumina assemblies with Hi‐C and long reads: An example with the North African dromedary
Cited by: 36
Author(s): Jean P. Elbers, Mark F. Rogers, Polina L. Perelman, Anastasia A. Proskuryakova, Natalia A. Serdyukova, Warren E. Johnson, Petr Hořín, Jukka Corander, David Murphy, Pamela A. Burger
Software Mentions: 5
Published: over 5 years ago

10.1093/bib/bbz020

New approaches for metagenome assembly with short reads
Cited by: 113
Author(s): Martin Ayling, Matthew D. Clark, Richard M. Leggett
Software Mentions: 4
Published: almost 6 years ago

10.1038/s42003-021-02373-x

Global patterns in genomic diversity underpinning the evolution of insecticide resistance in the aphid crop pest Myzus persicae
Cited by: 48
Author(s): Kumar Saurabh Singh, Erick M. G. Cordeiro, Bartlomiej J. Troczka, Adam Pym, Joanna Mackisack, Thomas C. Mathers, Ana Duarte, Fabrice Legeai, Stéphanie Robin, Pablo Bielza, Hannah J. Burrack, Kamel Charaabi, I. Denholm, Christian C. Figueroa, Richard H. ffrench‐Constant, Georg Jander, John T. Margaritopoulos, Emanuele Mazzoni, Ralf Nauen, Claudio C. Ramı́rez, Guangwei Ren, Ilona Stepanyan, Paul A Umina, Нина Владимировна Воронова, John Vontas, Martin S. Williamson, Alex C. C. Wilson, Xiwu Gao, Young‐Nam Youn, Christoph Zimmer, Jean‐Christophe Simon, Alex Hayward, Chris Bass
Software Mentions: 4
Published: over 3 years ago

10.1093/gigascience/giab037

The genome of the venomous snail Lautoconus ventricosus sheds light on the origin of conotoxin diversity
Cited by: 21
Author(s): José Ramón Pardos-Blas, Iker Irisarri, Samuel Abalde, Carlos M.L. Afonso, Manuel Jiménez‐Tenorio, Rafael Zardoya
Software Mentions: 4
Published: over 3 years ago

10.1186/s12915-019-0697-6

Haplotype-resolved genomes of geminivirus-resistant and geminivirus-susceptible African cassava cultivars
Cited by: 39
Author(s): Joel‐Elias Kuon, Weihong Qi, Pascal Schläpfer, Matthias Hirsch‐Hoffmann, Philipp Rogalla von Bieberstein, Andrea Patrignani, Lucy Poveda, Stefan Grob, Miyako Keller, Rie Shimizu‐Inatsugi, Ueli Grossniklaus, Hervé Vanderschuren, Wilhelm Gruissem
Software Mentions: 4
Published: over 5 years ago

10.1038/s41598-018-19430-x

Whole-genome assembly of the coral reef Pearlscale Pygmy Angelfish (Centropyge vrolikii)
Cited by: 9
Author(s): Iria Fernandez‐Silva, James Henderson, Luiz A. Rocha, W. Brian Simison
Software Mentions: 3
Published: almost 7 years ago

10.1186/s12864-019-6168-1

Assembly, annotation, and comparison of Macrophomina phaseolina isolates from strawberry and other hosts
Cited by: 16
Author(s): Alyssa Burkhardt, Kevin L. Childs, Jie Wang, Marina L. Ramon, Frank N. Martin
Software Mentions: 3
Published: about 5 years ago

10.1093/molbev/msz191

Contemporary Demographic Reconstruction Methods Are Robust to Genome Assembly Quality: A Case Study in Tasmanian Devils
Cited by: 68
Author(s): Austin H. Patton, Mark J. Margres, Amanda R. Stahlke, Sarah A. Hendricks, Kevin Lewallen, Rodrigo Hamede, Manuel Ruiz‐Aravena, Oliver A. Ryder, Hamish McCallum, Menna Lloyd Jones, Paul A. Hohenlohe, Andrew Storfer
Software Mentions: 3
Published: over 5 years ago

10.1534/g3.119.400392

De Novo Genome Sequence Assemblies of Gossypium raimondii and Gossypium turneri
Cited by: 65
Author(s): Joshua A. Udall, Evan Long, Chris Hanson, Daojun Yuan, Thiruvarangan Ramaraj, Justin L. Conover, Lei Gong, Mark A. Arick, Corrinne E. Grover, Daniel G. Peterson, Jonathan F. Wendel
Software Mentions: 3
Published: about 5 years ago

10.1186/s13059-019-1899-5

TRITEX: chromosome-scale sequence assembly of Triticeae genomes with open-source tools
Cited by: 166
Author(s): Cécile Monat, Sudharsan Padmarasu, Thomas Lux, Thomas Wicker, Heidrun Gundlach, Axel Himmelbach, Jennifer Ens, Chengdao Li, Gary J. Muehlbauer, Alan H. Schulman, Robbie Waugh, Ilka Braumann, Curtis Pozniak, Uwe Scholz, Klaus Mayer, Manuel Spannagl, Nils Stein, Martin Mascher
Software Mentions: 3
Published: about 5 years ago

10.1093/gigascience/giy162

A near-chromosome-scale genome assembly of the gemsbok (Oryx gazella): an iconic antelope of the Kalahari desert
Cited by: 116
Author(s): Marta Farré, Qiye Li, Yang Zhou, Joana Damas, Leona G. Chemnick, Jaebum Kim, Oliver A. Ryder, Jian Ma, Guojie Zhang, Denis M. Larkin, Harris A. Lewin
Software Mentions: 3
Published: almost 6 years ago

10.1093/gbe/evz269

A High-Quality Reference Genome Assembly of the Saltwater Crocodile, Crocodylus porosus, Reveals Patterns of Selection in Crocodylidae
Cited by: 13
Author(s): Arnab Ghosh, Matthew G. Johnson, Austin Osmanski, Swarnali Louha, Natalia J. Bayona‐Vásquez, Travis C. Glenn, Jaime Gongora, Edward Green, Sally R. Isberg, Richard D. Stevens, David A. Ray
Software Mentions: 2
Published: about 5 years ago

10.1093/gbe/evab098

Chromosome-Level Assembly of the Atlantic Silverside Genome Reveals Extreme Levels of Sequence Diversity and Structural Genetic Variation
Cited by: 16
Author(s): Anna Tigano, Arne Jacobs, Aryn P. Wilder, Ankita Nand, Zhan Ye, Job Dekker, Nina Overgaard Therkildsen
Software Mentions: 2
Published: over 3 years ago

10.1093/gigascience/gix098

A 3-way hybrid approach to generate a new high-quality chimpanzee reference genome (Pan_tro_3.0)
Cited by: 17
Author(s): Lukas F. K. Kuderna, Chad Tomlinson, LaDeana W. Hillier, Annabel Tran, Ian T. Fiddes, Joel Armstrong, Hafid Laayouni, David Gordon, John Huddleston, Raquel García-Pérez, Inna Povolotskaya, Aitor Serres Armero, Jèssica Gómez-Garrido, Daniel J. Ho, Paolo Ribeca, Tyler Alioto, Edward Green, Benedict Paten, Arcadi Navarro, Jaume Betranpetit, Javier Herrero, Evan E. Eichler, Andrew J. Sharp, Lars Feuk, Wesley C. Warren, Tomàs Marquès‐Bonet
Software Mentions: 2
Published: about 7 years ago

10.1093/gigascience/gix135

Analysis of the Aedes albopictus C6/36 genome provides insight into cell line utility for viral propagation
Cited by: 40
Author(s): Jason R. Miller, Sergey Koren, Kari A. Dilley, Vinita Puri, David Brown, Derek M. Harkins, Françoise Thibaud‐Nissen, Benjamin D. Rosen, Xiaoguang Chen, Zhijian Tu, Igor V. Sharakhov, Maria V. Sharakhova, Robert Sebra, Timothy B. Stockwell, Nicholas H. Bergman, Granger Sutton, Adam M. Phillippy, Peter M. Piermarini, Reed S. Shabman
Software Mentions: 2
Published: almost 7 years ago

10.1093/molbev/msaa271

Widespread Recombination Suppression Facilitates Plant Sex Chromosome Evolution
Cited by: 32
Author(s): Joanna L. Rifkin, Felix E.G. Beaudry, Zoë Humphries, B. I. Choudhury, Spencer C. H. Barrett, Stephen I. Wright
Software Mentions: 2
Published: about 4 years ago

10.1093/gigascience/giy163

A critical comparison of technologies for a plant genome sequencing project
Cited by: 39
Author(s): Pirita Paajanen, George Kettleborough, Elena López‐Girona, Michael Giolai, Darren Heavens, David Baker, Ashleigh Lister, Fiorella Cugliandolo, Gail Wilde, Ingo Hein, Iain C. Macaulay, Glenn J. Bryan, Matt Clark
Software Mentions: 2
Published: almost 6 years ago

10.3389/fpls.2020.00624

A Chromosome-Scale Assembly of the Garden Orach (Atriplex hortensis L.) Genome Using Oxford Nanopore Sequencing
Cited by: 9
Author(s): Spencer P. Hunt, David E. Jarvis, Dallas J. Larsen, Sergei L. Mosyakin, Bożena Kolano, Eric W. Jackson, Sara L. Martin, Eric N. Jellen, Peter J. Maughan
Software Mentions: 2
Published: over 4 years ago

10.1534/g3.117.300443

Improved Genome Assembly and Annotation for the Rock Pigeon (Columba livia)
Cited by: 51
Author(s): Carson Holt, Michael S. Campbell, David A. Keays, Nathaniel B. Edelman, Aurélie Kapusta, Emily Maclary, Eric T. Domyan, Alexander Suh, Wesley C. Warren, Mark Yandell, M. Thomas P. Gilbert, Michael D. Shapiro
Software Mentions: 2
Published: over 6 years ago

10.3389/fgene.2019.00586

Chromosome-Level Alpaca Reference Genome VicPac3.1 Improves Genomic Insight Into the Biology of New World Camelids
Cited by: 15
Author(s): Mark F. Richardson, Kylie Munyard, Larry Croft, Theo R. Allnutt, Felicity C. Jackling, Fahad Alshanbari, Matthew Jevit, Gus A. Wright, Rhys Cransberg, Ahmed Tibary, Polina L. Perelman, Belinda Appleton, Terje Raudsepp
Software Mentions: 2
Published: over 5 years ago

10.1534/g3.118.200101

A High-Quality Reference Genome for the Invasive Mosquitofish Gambusia affinis Using a Chicago Library
Cited by: 13
Author(s): Sandra L. Hoffberg, Nicholas J. Troendle, Travis C. Glenn, Ousman Mahmud, Swarnali Louha, Domitille Chalopin, Jeffrey L. Bennetzen, Rodney Mauricio
Software Mentions: 2
Published: over 6 years ago

10.1093/gigascience/giaa069

Chromosome-level de novo assembly of the pig-tailed macaque genome using linked-read sequencing and HiC proximity scaffolding
Cited by: 5
Author(s): Morteza Roodgar, Afshin Babveyh, Linh P. Nguyen, Wenyu Zhou, Rahul Sinha, Hayan Lee, John B. Hanks, Mohan Avula, Lihua Jiang, Ruiqi Jian, Ho-Yong Lee, Giltae Song, Hassan Chaı̈b, Irving Weissman, Serafim Batzoglou, Susan Holmes, David Glenn Smith, Joseph L. Mankowski, Stefan Prost, M Snyder
Software Mentions: 2
Published: over 4 years ago

10.1534/g3.119.400609

A Highly Contiguous Reference Genome for Northern Bobwhite (Colinus virginianus)
Cited by: 9
Author(s): Jessie F. Salter, Oscar W. Johnson, Norman J. Stafford, William F. Herrin, Darren Schilling, Cody Cedotal, Robb T. Brumfield, Brant C. Faircloth
Software Mentions: 2
Published: about 5 years ago

10.1186/s12864-019-6029-y

The Komodo dragon (Varanus komodoensis) genome and identification of innate immunity genes and clusters
Cited by: 16
Author(s): Monique L. van Hoek, M. Dennis Prickett, Robert E. Settlage, Lin Kang, Pawel Michalak, Kent A. Vliet, Barney Bishop
Software Mentions: 1
Published: over 5 years ago

10.1093/g3journal/jkab010

Genome assemblies for two Neotropical trees: Jacaranda copaia and Handroanthus guayacan
Cited by: 3
Author(s): John Burley, James R. Kellner, Stephen P. Hubbell, Brant C. Faircloth
Software Mentions: 1
Published: almost 4 years ago

10.3390/genes9010006

Genome Sequencing and Assembly by Long Reads in Plants
Cited by: 76
Author(s): Changsheng Li, Feng Lin, Dong An, Wen-Qin Wang, Huang Rui
Software Mentions: 1
Published: about 7 years ago

10.1186/s13059-018-1550-x

Chromosome-level assembly reveals extensive rearrangement in saker falcon and budgerigar, but not ostrich, genomes
Cited by: 53
Author(s): Rebecca E. O’Connor, Marta Farré, Sunitha Joseph, Joana Damas, Lucas G. Kiazim, Rebecca Jennings, Sophie Bennett, Eden A Slack, Emily Allanson, Denis M. Larkin, Darren K. Griffin
Software Mentions: 1
Published: about 6 years ago

10.3389/fmed.2019.00171

A Ledger of Me: Personalizing Healthcare Using Blockchain Technology
Cited by: 63
Author(s): Gary Leeming, James A. Cunningham, John Ainsworth
Software Mentions: 1
Published: over 5 years ago

10.1093/gbe/evz135

Draft Genome of the Rice Coral Montipora capitata Obtained from Linked-Read Sequencing
Cited by: 25
Author(s): Martin Helmkampf, M. Renee Bellinger, Scott M. Geib, Sheina B. Sim, Misaki Takabayashi
Software Mentions: 1
Published: over 5 years ago

10.1186/s12864-017-3971-4

Strategies for optimizing BioNano and Dovetail explored through a second reference quality assembly for the legume model, Medicago truncatula
Cited by: 48
Author(s): Karen M. Moll, Peng Zhou, Thiruvarangan Ramaraj, Diego Fajardo, Nicholas P. Devitt, Michael J. Sadowsky, Robert M. Stupar, Peter Tiffin, Jason R. Miller, Nevin D. Young, Kevin A.T. Silverstein, Joann Mudge
Software Mentions: 1
Published: over 7 years ago

10.1016/j.dib.2021.106852

Raw pacific biosciences and illumina sequencing reads and assembled genome data for the cattle ticks Rhipicephalus microplus and Rhipicephalus annulatus
Cited by: 4
Author(s): Felix D. Guerrero, Noushin Ghaffari, Kylie G. Bendele, Richard Metz, C. Michael Dickens, Philip D. Blood, Jason Tidwell, Robert J. Miller, Adalberto A. Pérez de León, Pete D. Teel, Charles D. Johnson
Software Mentions: 1
Published: over 3 years ago

10.1186/s13227-017-0070-1

Hydroidfest 2016: celebrating a renaissance in hydrozoan research
Cited by: 4
Author(s): Christophe Dupré, Juris A. Grasis, Robert E. Steele, Christine E. Schnitzler, Celina E. Juliano
Software Mentions: 1
Published: over 7 years ago

Ecosyste.ms: Papers

Projects: pypi: Dovetail

Papers Mentioning Dovetail 37