Ecosyste.ms: Papers

10.1371/journal.pgen.1008405

Causal relationships between obesity and the leading causes of death in women and men
Cited by: 106
Author(s): Jenny C Censin, Sanne A.E. Peters, Jonas Bovijn, Teresa Ferreira, Sara L. Pulit, Reedik Mägi, Anubha Mahajan, Michael V Holmes, Cecilia M. Lindgren
Software Mentions: 14
Published: about 5 years ago

10.7554/eLife.50087

Dynamic regulation of chromatin accessibility by pluripotency transcription factors across the cell cycle
Cited by: 58
Author(s): Elias T Friman, Cédric Deluz, Antonio C. A. Meireles-Filho, Subashika Govindan, Vincent Gardeux, Bart Deplancke, David M. Suter
Software Mentions: 13
Published: about 5 years ago

10.3390/ijms20225621

APOBEC3-Mediated RNA Editing in Breast Cancer is Associated with Heightened Immune Activity and Improved Survival
Cited by: 45
Author(s): Mariko Asaoka, Takashi Ishikawa, Kazuaki Takabe, Santosh K. Patnaik
Software Mentions: 11
Published: about 5 years ago

10.1371/journal.pone.0152747

The Identification of Novel Diagnostic Marker Genes for the Detection of Beer Spoiling Pediococcus damnosus Strains Using the BlAst Diagnostic Gene findEr
Cited by: 32
Author(s): Jürgen Behr, Andreas Geißler, Jonas Schmid, Anja Zehe, Rudi F. Vogel
Software Mentions: 9
Published: over 8 years ago

10.1038/s41598-019-42310-x

Mitogenomics of historical type specimens of Australasian turtles: clarification of taxonomic confusion and old mitochondrial introgression
Cited by: 19
Author(s): Christian Kehlmaier, Xiuwen Zhang, Arthur Georges, Patrick D. Campbell, Scott Thomson, Uwe Fritz
Software Mentions: 9
Published: over 5 years ago

10.1371/journal.pgen.1009435

A cohesin cancer mutation reveals a role for the hinge domain in genome organization and gene expression
Cited by: 14
Author(s): Zachary Carico, Holden C. Stefan, Megan Justice, Askar Yimit, Jill M. Dowen
Software Mentions: 8
Published: over 3 years ago

10.7554/eLife.44036

Neuroblast-specific open chromatin allows the temporal transcription factor, Hunchback, to bind neuroblast-specific loci
Cited by: 38
Author(s): Sonia Sen, Sachin Chanchani, Tony D. Southall, Chris Q. Doe
Software Mentions: 8
Published: almost 6 years ago

10.1371/journal.pone.0023947

Rational Design of Temperature-Sensitive Alleles Using Computational Structure Prediction
Cited by: 19
Author(s): Christopher S. Poultney, Glenn L. Butterfoss, Michelle Gutwein, Kevin Drew, David Gresham, Kristin C. Gunsalus, Dennis Shasha, Richard Bonneau
Software Mentions: 8
Published: over 13 years ago

10.1590/1678-4685-GMB-2016-0230

Approaches for in silico finishing of microbial genome sequences
Cited by: 17
Author(s): Frederico Schmitt Kremer, Alan J. A. McBride, Luciano da Silva Pinto
Software Mentions: 8
Published: over 7 years ago

10.1084/jem.20201833

ADAR and hnRNPC deficiency synergize in activating endogenous dsRNA-induced type I IFN responses
Cited by: 7
Author(s): Anna‐Maria Herzner, Zia Khan, Eric L. Van Nostrand, Sara M. Chan, Trinna Cuellar, Ronald Chen, Ximo Pechuan-Jorge, László G. Kömüves, Margaret Solon, Zora Modrušan, Benjamin Haley, G Yeo, Timothy W. Behrens, Matthew L. Albert
Software Mentions: 8
Published: over 3 years ago

10.1093/gigascience/giab062

Genetic demultiplexing of pooled single-cell RNA-sequencing samples in cancer facilitates effective experimental design
Cited by: 16
Author(s): Lukas M. Weber, Ariel A. Hippen, Peter Hickey, Kristofer C. Berrett, Jason Gertz, Jennifer A. Doherty, Casey S. Greene, Stephanie C. Hicks
Software Mentions: 8
Published: over 3 years ago

10.7717/peerj.5299

BTW—Bioinformatics Through Windows: an easy-to-install package to analyze marker gene data
Cited by: 2
Author(s): Daniel Morais, Luiz Fernando Würdig Roesch, Marc Redmile‐Gordon, Fausto G. dos Santos, Petr Baldrián, Fernando Dini Andreote, Victor Satler Pylro
Software Mentions: 7
Published: over 6 years ago

10.1186/s13059-020-02049-5

Molecular mechanisms of coronary disease revealed using quantitative trait loci for TCF21 binding, chromatin accessibility, and chromosomal looping
Cited by: 13
Author(s): Quanyi Zhao, Michael Dacre, Trieu Nguyen, Milos Pjanic, Boxiang Liu, Dharini Iyer, Paul Cheng, Robert Wirka, Juyong Brian Kim, Hunter B. Fraser, Thomas Quertermous
Software Mentions: 7
Published: over 4 years ago

10.3389/fpls.2016.01446

A Developmental Transcriptome Map for Allotetraploid Arachis hypogaea
Cited by: 149
Author(s): Josh Clevenger, Ye Chu, Brian E. Scheffler, Peggy Ozias‐Akins
Software Mentions: 7
Published: about 8 years ago

10.7554/eLife.01256

Chromatin signature of widespread monoallelic expression
Cited by: 74
Author(s): Anwesha Nag, Virginia Savova, Ho Lim Fung, Alexander Miron, Guo Cheng Yuan, Kun Zhang, Alexander A. Gimelbrant
Software Mentions: 6
Published: almost 11 years ago

10.1186/2045-9769-3-1

glbase: a framework for combining, analyzing and displaying heterogeneous genomic and high-throughput sequencing data
Cited by: 52
Author(s): Andrew P. Hutchins, Ralf Jauch, Mateusz Dyla, Diego Miranda‐Saavedra
Software Mentions: 6
Published: almost 11 years ago

10.1371/journal.pone.0118867

A Deep Catalog of Autosomal Single Nucleotide Variation in the Pig
Cited by: 22
Author(s): Erica Bianco, Bruno Nevado, Sebastián E. Ramos-Onsins, Miguel Pérez‐Enciso
Software Mentions: 6
Published: almost 10 years ago

10.1186/1471-2105-14-158

Phylotastic! Making tree-of-life knowledge accessible, reusable and convenient
Cited by: 33
Author(s): Arlin Stoltzfus, Hilmar Lapp, Naim Matasci, Helena F. Deus, Brian L. Sidlauskas, Christian M. Zmasek, Gaurav Vaidya, Enrico Pontelli, Karen Cranston, Rutger A. Vos, Campbell O. Webb, Luke J. Harmon, Megan Pirrung, Brian C. O’Meara, Matthew W. Pennell, Siavash Mirarab, Michael S. Rosenberg, James P. Balhoff, Holly M. Bik, Tracy A. Heath, Peter E. Midford, Joseph W. Brown, Emily Jane McTavish, Jeet Sukumaran, Mark W. Westneat, Michael E. Alfaro, Aaron Steele, G. Gulli Jordan
Software Mentions: 6
Published: over 11 years ago

10.1186/s12859-019-2955-6

Polymorphic edge detection (PED): two efficient methods of polymorphism detection from next-generation sequencing data
Cited by: 3
Author(s): Akio Miyao, Jianyu Song Kiyomiya, Kei Iida, Koji Doi, Hiroshi Yasue
Software Mentions: 6
Published: over 5 years ago

10.1371/journal.ppat.1005815

Minimally Mutated HIV-1 Broadly Neutralizing Antibodies to Guide Reductionist Vaccine Design
Cited by: 97
Author(s): Joseph G. Jardine, Devin Sok, Jean-Philippe Julien, Bryan Briney, Achyut Sarkar, Chi Liang, Erin A. Scherer, Carole J. Henry Dunand, Yumiko Adachi, Devan Diwanji, Jessica Hsueh, Meaghan Jones, Oleksandr Kalyuzhniy, Michael Kubitz, Skye Spencer, Matthias Pauthner, Karen L. Saye-Francisco, Fabian Sesterhenn, Patrick C. Wilson, Denise Galloway, Robyn L. Stanfield, Ian A. Wilson, Dennis R. Burton, William R. Schief
Software Mentions: 6
Published: over 8 years ago

10.1186/1472-6947-5-30

Automation of a problem list using natural language processing
Cited by: 93
Author(s): Stéphane M. Meystre, Peter J. Haug
Software Mentions: 6
Published: over 19 years ago

10.26508/lsa.202000731

Exploiting somatic piRNAs in <i>Bemisia tabac</i>i enables novel gene silencing through RNA feeding
Cited by: 18
Author(s): Mosharrof Mondal, Judith K. Brown, Alex S. Flynt
Software Mentions: 6
Published: over 4 years ago

10.1099/mgen.0.000211

PlaScope: a targeted approach to assess the plasmidome from genome assemblies at the species level
Cited by: 35
Author(s): Guilhem Royer, Jean‐Winoc Decousser, Catherine Branger, Mathieu Dubois, Claudine Médigue, Erick Denamur, David Vallenet
Software Mentions: 6
Published: over 6 years ago

10.1016/j.dib.2020.105757

The molecular entities in linked data dataset
Cited by: 1
Author(s): Dominik Tomaszuk, Łukasz Szeremeta
Software Mentions: 6
Published: over 4 years ago

10.1186/1471-2164-8-191

C-terminal motif prediction in eukaryotic proteomes using comparative genomics and statistical over-representation across protein families
Cited by: 15
Author(s): Ryan E Austin, Nicholas J. Provart, Sean R. Cutler
Software Mentions: 5
Published: over 17 years ago

10.1111/mec.13481

Assessing vertebrate biodiversity in a kelp forest ecosystem using environmental <scp>DNA</scp>
Cited by: 318
Author(s): Jesse A. Port, James L. O’Donnell, Ofelia C. Romero‐Maraccini, Paul Leary, Steven Y. Litvin, Kerry J. Nickols, Kevan M. Yamahara, Ryan P. Kelly
Software Mentions: 5
Published: almost 9 years ago

10.3389/fgene.2021.695124

Folate Deficiency Triggers the Abnormal Segregation of a Region With Large Cluster of CG-Rich Trinucleotide Repeats on Human Chromosome 2
Cited by: 1
Author(s): Lorenza Garribba, Ivan Vogel, Mads Lerdrup, Marisa M Gonçalves Dinis, Liqun Ren, Ying Liu
Software Mentions: 5
Published: over 3 years ago

10.1038/s42003-021-02501-7

Phase separation of Epstein-Barr virus EBNA2 protein reorganizes chromatin topology for epigenetic regulation
Cited by: 12
Author(s): Yiting Yang, Xidong Ye, Ranran Dai, Zhaoqiang Li, Yan Zhang, Wei Xue, Yafang Zhu, Delong Feng, Litao Qin, Xin Wang, Bo Lei, Shixiu Liao, Bingtao Hao
Software Mentions: 5
Published: over 3 years ago

10.12688/f1000research.16301.2

Increasing workflow development speed and reproducibility with Vectools
Cited by: 0
Author(s): Tyler Weirick, Raphael Müller, Shizuka Uchida
Software Mentions: 5
Published: about 6 years ago

10.1186/s13321-018-0312-9

MER: a shell script and annotation server for minimal named entity recognition and linking
Cited by: 27
Author(s): Francisco M. Couto, André Lamúrias
Software Mentions: 5
Published: about 6 years ago

10.1038/srep26447

MetaTrans: an open-source pipeline for metatranscriptomics
Cited by: 84
Author(s): Xavier Martínez, Marta Pozuelo, Victoria Pascal, David Campos, Marta Gut, Fernando Azpiroz, Francisco Guarner, Chaysavanh Manichanh
Software Mentions: 5
Published: over 8 years ago

10.1186/gb-2014-15-3-r41

Dynamics of chromatin accessibility and gene regulation by MADS-domain transcription factors in flower development
Cited by: 205
Author(s): Alice Pajoro, Pedro Madrigal, Jose M. Muiño, José Tomás Matus, Jiaxin Jin, Martín A. Mecchia, Juan M. Debernardi, Javier F. Palatnik, Salma Balazadeh, Muhammad Arif, Diarmuid S. Ó’Maoiléidigh, Frank Wellmer, Paweł Krajewski, José Luis Riechmann, Gerco C. Angenent, Kerstin Kaufmann
Software Mentions: 5
Published: almost 11 years ago

10.1371/journal.pgen.1005422

Retrohoming of a Mobile Group II Intron in Human Cells Suggests How Eukaryotes Limit Group II Intron Proliferation
Cited by: 11
Author(s): David M. Truong, F. Curtis Hewitt, Joseph H. Hanson, Xiaoxia Cui, Alan M. Lambowitz
Software Mentions: 4
Published: over 9 years ago

10.1186/s12859-018-2446-1

Developing reproducible bioinformatics analysis workflows for heterogeneous computing environments to support African genomics
Cited by: 26
Author(s): Shakuntala Baichoo, Yassine Souilmi, Sumir Panji, Gerrit Botha, Ayton Meintjes, Scott Hazelhurst, Hocine Bendou, Eugene de Beste, Phelelani T. Mpangase, Oussema Souiai, Mustafa Alghali, Long Yi, Brian D. O’Connor, Michael R. Crusoe, Don Armstrong, Shaun Aron, Fourie Joubert, Azza E. Ahmed, Mamana Mbiyavanga, Peter van Heusden, Lerato E Magosi, Jennie Zermeno, Liudmila Sergeevna Mainzer, Faisal M. Fadlelmola, C V Jongeneel, Nicola Mulder
Software Mentions: 4
Published: about 6 years ago

10.1186/s12859-020-3484-z

Short paired-end reads trump long single-end reads for expression analysis
Cited by: 13
Author(s): Adam H. Freedman, John Gaspar, Timothy B. Sackton
Software Mentions: 4
Published: over 4 years ago

10.1186/s12864-021-07409-4

Impact of PNPase on the transcriptome of Rhodobacter sphaeroides and its cooperation with RNase III and RNase E
Cited by: 7
Author(s): Daniel-Timon Spanka, Carina M. Reuscher, Gabriele Klug
Software Mentions: 4
Published: almost 4 years ago

10.1186/s12864-020-07200-x

iCLIP analysis of RNA substrates of the archaeal exosome
Cited by: 2
Author(s): Jochen Bathke, A. Susann Gauernack, Oliver Rupp, Lennart Weber, Christian Preußer, Marcus Lechner, Oliver Roßbach, Alexander Goesmann, Elena Evguenieva‐Hackenberg, Gabriele Klug
Software Mentions: 4
Published: about 4 years ago

10.1371/journal.pone.0241253

CaBagE: A Cas9-based Background Elimination strategy for targeted, long-read DNA sequencing
Cited by: 16
Author(s): Amelia D. Wallace, Thomas A Sasani, Jordan Swanier, Brooke L. Gates, Jeff Greenland, Brent S. Pedersen, Katherine E. Varley, Aaron R. Quinlan
Software Mentions: 4
Published: over 3 years ago

10.3389/fgene.2019.00549

Comprehensive Review of Models and Methods for Inferences in Bio-Chemical Reaction Networks
Cited by: 32
Author(s): Pavel Loskot, Komlan Atitey, Lyudmila Mihaylova
Software Mentions: 4
Published: over 5 years ago

10.3389/fmicb.2019.01400

Complete Assembly of the Genome of an Acidovorax citrulli Strain Reveals a Naturally Occurring Plasmid in This Species
Cited by: 11
Author(s): Rongzhi Yang, Diego Santos-García, Francisco Pérez‐Montaño, Gustavo Mateus da Silva, Mei Zhao, Irene Jiménez‐Guerrero, Tally Rosenberg, Gong Chen, Inbar Plaschkes, Shai Morin, R. R. Walcott, Saul Burdman
Software Mentions: 4
Published: over 5 years ago

10.1038/s41431-020-00770-0

Long-read trio sequencing of individuals with unsolved intellectual disability
Cited by: 23
Author(s): Marc Pauper, Erdi Küçük, Aaron M. Wenger, Shreyasee Chakraborty, Primo Baybayan, Michael Kwint, Bart van der Sanden, Marcel Nelen, Ronny Derks, Han G. Brunner, Alexander Hoischen, Lisenka E L M Vissers, Christian Gilissen
Software Mentions: 3
Published: about 4 years ago

10.3390/v11050397

RNAseq Analysis Reveals Virus Diversity within Hawaiian Apiary Insect Communities
Cited by: 24
Author(s): Laura E. Brettell, Declan C. Schroeder, Stephen J. Martin
Software Mentions: 3
Published: over 5 years ago

10.1186/1471-2105-9-532

Extended Newick: it is time for a standard representation of phylogenetic networks
Cited by: 90
Author(s): Gabriel Cardona, Francesc Rosselló, Gabriel Valiente
Software Mentions: 3
Published: about 16 years ago

10.3390/ani11071924

Comparative Analysis for Genetic Characterization in Korean Native Jeju Horse
Cited by: 0
Author(s): Wooseok Lee, Seyoung Mun, Song‐Yi Choi, Do Hoon Oh, Yong Soo Park, Kyudong Han
Software Mentions: 3
Published: over 3 years ago

10.1186/1471-2105-6-287

ArrayQuest: a web resource for the analysis of DNA microarray data
Cited by: 23
Author(s): Gary L. Argraves, Saurin D Jani, Jeremy L. Barth, W. Scott Argraves
Software Mentions: 3
Published: about 19 years ago

10.1038/srep15839

Littoral lichens as a novel source of potentially bioactive Actinobacteria
Cited by: 51
Author(s): Delphine Parrot, Sanjay Antony-Babu, Laurent Intertaglia, Martín Grube, Sophie Tomasi, Marcelino T. Suzuki
Software Mentions: 3
Published: about 9 years ago

10.1111/pbi.13305

Cytokinin dehydrogenase: a genetic target for yield improvement in wheat
Cited by: 84
Author(s): Lei Chen, Jingjing Zhao, Jiancheng Song, Paula E. Jameson
Software Mentions: 3
Published: about 5 years ago

10.1186/1471-2105-6-168

High-Throughput GoMiner, an 'industrial-strength' integrative gene ontology tool for interpretation of multiple-microarray experiments, with application to studies of Common Variable Immune Deficiency (CVID)
Cited by: 258
Author(s): Barry R. Zeebèrg, Haiying Qin, Sudarshan Narasimhan, Margot Sunshine, Hong Yuan Cao, David W. Kane, Mark Reimers, Robert M. Stephens, David Bryant, Stanley K. Burt, Eldad Elnekave, Danielle M. Hari, Thomas A. Wynn, Charlotte Cunningham‐Rundles, Dawn Stewart, David E. Nelson, John N. Weinstein
Software Mentions: 3
Published: over 19 years ago

10.1371/journal.pone.0116262

Data Mining Strategies to Improve Multiplex Microbead Immunoassay Tolerance in a Mouse Model of Infectious Diseases
Cited by: 10
Author(s): Akshay Mani, Resmi Ravindran, Soujanya Mannepalli, Daniel P. Vang, Paul A. Luciw, Michael Hogarth, Imran Khan, Viswanathan V Krishnan
Software Mentions: 2
Published: almost 10 years ago

10.1371/journal.pone.0144294

Deciphering the Dynamics of Non-Covalent Interactions Affecting Thermal Stability of a Protein: Molecular Dynamics Study on Point Mutant of Thermus thermophilus Isopropylmalate Dehydrogenase
Cited by: 17
Author(s): Reetu Sharma, G. Narahari Sastry
Software Mentions: 2
Published: about 9 years ago

10.1371/journal.pone.0237689

Similarity between mutation spectra in hypermutated genomes of rubella virus and in SARS-CoV-2 genomes accumulated during the COVID-19 pandemic
Cited by: 49
Author(s): Leszek J. Klimczak, Thomas A. Randall, Natalie Saini, Jianliang Li, Dmitry A. Gordenin
Software Mentions: 2
Published: about 4 years ago

10.1371/journal.pone.0241306

Prediction of Burkholderia pseudomallei DsbA substrates identifies potential virulence factors and vaccine targets
Cited by: 2
Author(s): Ben Vezina, Guillaume A. Petit, Jennifer L. Martin, Maria A. Halili
Software Mentions: 2
Published: about 4 years ago

10.3389/fcvm.2021.711694

Case Report: BMPR2-Targeted MinION Sequencing as a Tool for Genetic Analysis in Patients With Pulmonary Arterial Hypertension
Cited by: 1
Author(s): Tomoya Takashima, Sophie Brisset, Asuka Furukawa, Hirohisa Taniguchi, Rika Takeyasu, Akio Kawamura, Yuichi Tamura
Software Mentions: 2
Published: over 3 years ago

10.3389/fgene.2018.00647

Interpreting Non-coding Genetic Variation in Multiple Sclerosis Genome-Wide Associated Regions
Cited by: 21
Author(s): Elvezia Maria Paraboschi, Giulia Cardamone, Giulia Soldà, Stefano Duga, Rosanna Asselta
Software Mentions: 2
Published: about 6 years ago

10.1534/g3.119.400301

Fragmentation of Pooled PCR Products for Highly Multiplexed TILLING
Cited by: 4
Author(s): Andrea Tramontano, Luka Jarc, Joanna Jankowicz-Cieślak, Bernhard J. Hofinger, Katarzyna Gajek, Miriam Szurman-Zubrzycka, Iwona Szarejko, Ivan Ingelbrecht, Bradley J. Till
Software Mentions: 2
Published: over 5 years ago

10.1534/g3.120.401205

Improving the Chromosome-Level Genome Assembly of the Siamese Fighting Fish (<i>Betta splendens</i>) in a University Master’s Course
Cited by: 11
Author(s): Stefan Prost, Malte Petersen, Martin Grethlein, Sarah Joy Hahn, Nina Kuschik-Maczollek, Martyna Ewa Olesiuk, Jan-Olaf Reschke, Tamara Elke Schmey, Caroline Zimmer, Deepak Kumar Gupta, Tilman Schell, Raphael T. F. Coimbra, Jordi de Raad, Fritjof Lammers, Sven Winter, Axel Janke
Software Mentions: 2
Published: over 4 years ago

10.1186/1471-2164-15-682

Characterisation of novel microRNAs in the Black flying fox (Pteropus alecto) by deep sequencing
Cited by: 30
Author(s): Christopher Cowled, Cameron R. Stewart, Vladimir A Likić, Marc R. Friedländer, Mary Tachedjian, Kristie A. Jenkins, Mark Tizard, Pauline Cottee, Glenn A. Marsh, Peng Zhou, Michelle L. Baker, Andrew G.D. Bean, Lin‐Fa Wang
Software Mentions: 2
Published: almost 11 years ago

10.1371/journal.ppat.1007647

Sympatric versus allopatric evolutionary contexts shape differential immune response in Biomphalaria / Schistosoma interaction
Cited by: 15
Author(s): Anaïs Portet, Silvain Pinaud, Cristian Chaparro, Richard Galinier, Nolwenn M. Dheilly, Julien Portela, Guillaume M. Charrière, Jean‐François Allienne, David Timothy Duval, Benjamin Gourbal
Software Mentions: 2
Published: almost 6 years ago

10.1038/srep29017

Genome-scale DNA variant analysis and functional validation of a SNP underlying yellow fruit color in wild strawberry
Cited by: 64
Author(s): Charles Hawkins, Julie Caruana, Erin Schiksnis, Zhongchi Liu
Software Mentions: 2
Published: over 8 years ago

10.1038/s41598-018-34431-6

Artificially designed hybrids facilitate efficient generation of high-resolution linkage maps
Cited by: 4
Author(s): Kazutoshi Yoshitake, Yoji Igarashi, Misaki Mizukoshi, Shigeharu Kinoshita, Susumu Mitsuyama, Yutaka Suzuki, Kazuyoshi Saito, Shugo Watabe, Shuichi Asakawa
Software Mentions: 2
Published: about 6 years ago

10.1186/1471-2164-11-270

Genomic organization of eukaryotic tRNAs
Cited by: 71
Author(s): Clara Isabel Bermúdez-Santana, Camille Stephan‐Otto Attolini, Toralf Kirsten, Jan Engelhardt, Sonja J. Prohaska, Stephan Steigele, Peter F. Stadler
Software Mentions: 2
Published: over 14 years ago

10.1101/2020.09.04.283077

Improvements to the ARTIC multiplex PCR method for SARS-CoV-2 genome sequencing using nanopore
Cited by: 271
Author(s): John R. Tyson, Phillip James, David Stoddart, Natalie Sparks, Arthur Wickenhagen, Grant Hall, Jane Ru Choi, Hope R. Lapointe, Kimia Kamelian, Andrew D. Smith, Natalie Prystajecky, Ian Goodfellow, Sam J. Wilson, Richard Harrigan, Terrance P. Snutch, Nicholas J. Loman, Joshua Quick
Software Mentions: 2
Published: over 4 years ago

10.1128/mSystems.00392-21

Catching SARS-CoV-2 by Sequence Hybridization: a Comparative Analysis
Cited by: 7
Author(s): Alexandra Rehn, Peter Braun, Mandy Knüpfer, Roman Wölfel, Markus Antwerpen, Mathias C. Walter
Software Mentions: 2
Published: over 3 years ago

10.1371/journal.pone.0021739

A Novel Nonsense Mutation in the DMP1 Gene Identified by a Genome-Wide Association Study Is Responsible for Inherited Rickets in Corriedale Sheep
Cited by: 48
Author(s): Zhao Xiao, Keren E. Dittmer, Hugh T. Blair, K. G. Thompson, Max F. Rothschild, Dorian J. Garrick
Software Mentions: 2
Published: over 13 years ago

10.1038/srep14538

Targeting substrate-site in Jak2 kinase prevents emergence of genetic resistance
Cited by: 43
Author(s): Meenu Kesarwani, Erika Huber, Zachary Kincaid, Chris R. Evelyn, Jacek Biesiada, Mark Rance, Mahendra Thapa, Neil P. Shah, Jarosław Meller, Yi Zheng, Mohammad Azam
Software Mentions: 1
Published: about 9 years ago

10.1534/g3.114.012468

Resolution of Genetic Map Expansion Caused by Excess Heterozygosity in Plant Recombinant Inbred Populations
Cited by: 24
Author(s): Sandra K. Truong, Ryan F. McCormick, Daryl T. Morishige, John E. Mullet
Software Mentions: 1
Published: about 10 years ago

10.1038/srep22496

Bilaterian-like promoters in the highly compact Amphimedon queenslandica genome
Cited by: 20
Author(s): Selene L. Fernández-Valverde, Bernard M. Degnan
Software Mentions: 1
Published: almost 9 years ago

10.1186/1471-2164-12-397

A codon substitution model that incorporates the effect of the GC contents, the gene density and the density of CpG islands of human chromosomes
Cited by: 10
Author(s): Kazuharu Misawa
Software Mentions: 1
Published: over 13 years ago

10.1371/journal.pone.0186329

High throughput SNP discovery and genotyping in hexaploid wheat
Cited by: 149
Author(s): Hélène Rimbert, Benoît Darrier, J. Alberto Romero Navarro, Jonathan Kitt, Frédéric Choulet, Magalie Leveugle, Jorge Duarte, Nathalie Rivière, Kellye Eversole, Jacques Le Gouis, Alessandro Davassi, François Balfourier, Marie‐Christine Le Paslier, Aurélie Bérard, Dominique Brunel, Catherine Feuillet, Charles Poncet, Pierre Sourdille, Etienne Paux
Software Mentions: 1
Published: almost 7 years ago

10.1128/MRA.01306-19

Draft Genome Sequences of Type Strains of <i>Adlercreutzia muris</i> and <i>Ellagibacter urolithinifaciens</i> , Belonging to the Family <i>Eggerthellaceae</i>
Cited by: 5
Author(s): Nicolas Danylec, Dominic A. Stoll, Melanie Huch
Software Mentions: 1
Published: about 5 years ago

10.1186/1471-2105-6-12

Cited by: 62
Author(s): Rotem Rubinstein, Itamar Simon
Software Mentions: 1
Published: almost 20 years ago

10.3390/s18124395

Interdomain I/O Optimization in Virtualized Sensor Networks
Cited by: 17
Author(s): Congfeng Jiang, Tiantian Fan, Yeliang Qiu, Hongyuan Wu, Jilin Zhang, Naixue Xiong, Jian Wan
Software Mentions: 1
Published: about 6 years ago

10.3390/genes11050542

Complex Analysis of Retroposed Genes’ Contribution to Human Genome, Proteome and Transcriptome
Cited by: 8
Author(s): Magdalena Regina Kubiak, Michał Wojciech Szcześniak, Izabela Makałowska
Software Mentions: 1
Published: over 4 years ago

10.1128/MRA.00938-18

Draft Genome Sequence of Salmonella enterica subsp. enterica Serovar Enteritidis MS 501, a Potential Human Pathogen Isolated from Red Lettuce (Lactuca sativa var. capitata) in Karlsruhe, Germany
Cited by: 4
Author(s): Dominic A. Stoll, Nicolas Danylec, Andreas Dötsch, Biserka Becker, Melanie Huch
Software Mentions: 1
Published: over 6 years ago

10.1128/MRA.00200-19

Draft Genome Sequences of 42 Environmental Vibrio vulnificus Strains Isolated from the Northern Gulf of Mexico
Cited by: 1
Author(s): Megan M. Mullis, I‐Shuo Huang, Githzette M. Planas-Costas, Reavelyn Pray, Gregory W. Buck, Arian Nassiri, Courtney Fuentes, Lauren Turner, Gabriel D. Ramirez, Joanna Mott, John Turner
Software Mentions: 1
Published: over 5 years ago

10.1186/s12864-018-5194-8

Colombia, an unknown genetic diversity in the era of Big Data
Cited by: 13
Author(s): Alejandra Noreña – P, Andrea González Muñoz, Jeanneth Mosquera-Rendón, Kelly Botero, Marco Cristancho
Software Mentions: 1
Published: about 6 years ago

10.1186/1745-6215-15-46

Movement as Medicine for Type 2 Diabetes: protocol for an open pilot study and external pilot clustered randomised controlled trial to assess acceptability, feasibility and fidelity of a multifaceted behavioural intervention targeting physical activity in primary care
Cited by: 11
Author(s): Leah Avery, Falko F. Sniehotta, Sarah J. Denton, Nick Steen, Elaine McColl, Roy Taylor, Michael I. Trenell
Software Mentions: 1
Published: almost 11 years ago

10.1186/s12864-016-2531-7

Evaluation of DISCOVAR de novo using a mosquito sample for cost-effective short-read genome assembly
Cited by: 43
Author(s): R. Rebecca Love, Neil Weisenfeld, David B. Jaffe, Nora J. Besansky, Daniel E. Neafsey
Software Mentions: 1
Published: almost 9 years ago

10.1186/s12864-015-1232-y

Fast forward genetics to identify mutations causing a high light tolerant phenotype in Chlamydomonas reinhardtii by whole-genome-sequencing
Cited by: 50
Author(s): Lisa Schierenbeck, David Ries, Kristin Rogge, Sabrina Grewe, Bernd Weißhaar, Olaf Kruse
Software Mentions: 1
Published: almost 10 years ago

10.1107/S2059798321001893

Identification of Mg²⁺ ions next to nucleotides in cryo-EM maps using electrostatic potential maps
Cited by: 6
Author(s): J. Wang, S. Kundhavai Natchiar, Peter B. Moore, Bruno P. Klaholz
Software Mentions: 1
Published: over 3 years ago