Ecosyste.ms: Papers

An open API service providing mapping between scientific papers and software projects that are mentioned in them.
All mentions data is based on the CZI Software Mentions dataset.

Projects: pypi: blast

https://packages.ecosyste.ms/registries/pypi.org/packages/blast

a simple web-based, multi-platform music/mp3 player written in python, HTML/CSS and javascript
3 versions
Latest release: over 12 years ago
120 downloads last month

Papers Mentioning blast 1,819

10.1186/s12864-016-2574-9
De novo transcriptomic assembly and profiling of Rigidoporus microporus during saprotrophic growth on rubber wood
Cited by: 12
Author(s): Abbot O. Oghenekaro, Tommaso Raffaello, Andriy Kovalchuk, Fred O. Asiegbu
Software Mentions: 3
Published: over 8 years ago
10.1371/journal.pntd.0006786
Genetic diversity, infection prevalence, and possible transmission routes of Bartonella spp. in vampire bats
Cited by: 32
Author(s): Daniel J. Becker, Laura M. Bergner, Alexandra B. Bentz, Richard Orton, Sonia Altizer, Daniel G. Streicker
Software Mentions: 3
Published: about 6 years ago
10.1371/journal.pntd.0002728
Presence of Extensive Wolbachia Symbiont Insertions Discovered in the Genome of Its Host Glossina morsitans morsitans
Cited by: 63
Author(s): Corey L. Brelsfoard, George Tsiamis, Marco Falchetto, Ludvik M. Gomulski, Erich Loza Telleria, Uzma Alam, Vangelis Doudoumis, Francesca Scolari, Joshua B. Benoit, Martin Swain, Peter Takáč, Anna R. Malacrida, Kostas Bourtzis, Serap Aksoy
Software Mentions: 3
Published: over 10 years ago
10.1186/s12870-020-02459-4
Reducing the nicotine content of tobacco by grafting with eggplant
Cited by: 5
Author(s): Mengjuan Ren, Mengyue Zhang, Huijuan Yang, Hongzhi Shi
Software Mentions: 3
Published: over 4 years ago
10.1186/s12864-021-07467-8
Chloroplast genome sequence of Chongming lima bean (Phaseolus lunatus L.) and comparative analyses with other legume chloroplast genomes
Cited by: 22
Author(s): Shoubo Tian, Panling Lu, Zhaohui Zhang, Jian Wu, Hui Zhang, Haibin Shen
Software Mentions: 3
Published: over 3 years ago
10.1371/journal.pgen.1009541
Mobile Type VI secretion system loci of the gut Bacteroidales display extensive intra-ecosystem transfer, multi-species spread and geographical clustering
Cited by: 25
Author(s): Leonor García-Bayona, Michael J. Coyne, Laurie E. Comstock
Software Mentions: 3
Published: over 3 years ago
10.1371/journal.pgen.1003323
Plant-Symbiotic Fungi as Chemical Engineers: Multi-Genome Analysis of the Clavicipitaceae Reveals Dynamics of Alkaloid Loci
Cited by: 343
Author(s): Christopher L. Schardl, Carolyn A. Young, Uljana Hesse, Stefan G. Amyotte, Kalina Andreeva, Patrick J. Calie, Damien J. Fleetwood, David Haws, Neil Moore, Birgitt Oeser, Daniel G. Panaccione, Kathryn Schweri, Christine R. Voisey, Mark L. Farman, Jerzy W. Jaromczyk, Bruce A. Roe, Donal M. O’Sullivan, Barry Scott, Paul Tudzynski, Zhiqiang An, Elissaveta G. Arnaoudova, Charles T. Bullock, Nikki D. Charlton, Li Chen, Murray P. Cox, Randy D. Dinkins, Simona Florea, Anthony E. Glenn, Anna Gordon, Ulrich Güldener, Daniel R. Harris, Walter Hollin, Jolanta Jaromczyk, Richard D. Johnson, Anar Khan, Eckhard Leistner, Adrian Leuchtmann, Chunjie Li, Jin Ge Liu, Jinze Liu, Miao Liu, Wade J. Mace, Caroline Machado, Padmaja Nagabhyru, Juan Pan, Jan Schmid, Kazuo Sugawara, Ulrike Steiner, Johanna E. Takach, Eiji Tanaka, James D. Webb, Ella V. Wilson, Jennifer L. Wiseman, Ruriko Yoshida, Zheng Zeng
Software Mentions: 3
Published: over 11 years ago
10.1371/journal.pgen.1004531
Positive Selection and Multiple Losses of the LINE-1-Derived L1TD1 Gene in Mammals Suggest a Dual Role in Genome Defense and Pluripotency
Cited by: 21
Author(s): Richard N. McLaughlin, Janet M. Young, Lei Yang, Rafik Neme, Holly A. Wichman, Harmit S. Malik
Software Mentions: 3
Published: about 10 years ago
10.1371/journal.pgen.1002602
The Atypical Calpains: Evolutionary Analyses and Roles in Caenorhabditis elegans Cellular Degeneration
Cited by: 24
Author(s): Peter Joyce, Rahul Satija, Maozi C Chen, Patricia E. Kuwabara
Software Mentions: 3
Published: over 12 years ago
10.1186/s12859-017-1902-7
Scaling bioinformatics applications on HPC
Cited by: 8
Author(s): Mike Mikailov, Fu-Jyh Luo, Stuart J. Barkley, Lohit Valleru, Stephen Whitney, Zhichao Liu, Shraddha Thakkar, Weida Tong, Nicholas Petrick
Software Mentions: 3
Published: almost 7 years ago
10.1186/s12862-019-1353-z
Origin and diversification of the plasminogen activation system among chordates
Cited by: 26
Author(s): Andrés Chana-Muñoz, Agnieszka Jendroszek, Malene Sønnichsen, Tobias Wang, Michael Ploug, Jan K. Jensen, Peter A. Andreasen, Christian Berthou, Frank Panitz
Software Mentions: 3
Published: almost 6 years ago
10.1111/tpj.14596
Vegetative desiccation tolerance in the resurrection plant <i>Xerophyta humilis</i> has not evolved through reactivation of the seed canonical LAFL regulatory network
Cited by: 16
Author(s): Rafe Lyall, Stephen A Schlebusch, Jessica Proctor, Mayur Prag, Steven G. Hussey, Robert A. Ingle, Nicola Illing
Software Mentions: 3
Published: almost 5 years ago
10.1111/pbi.13111
Tea Plant Information Archive: a comprehensive genomics and bioinformatics platform for tea plant
Cited by: 177
Author(s): Enhua Xia, Fangdong Li, Wei Tong, Penghui Li, Qiong Wu, Hongxing Zhao, Ruoheng Ge, Ruopei Li, Yeyun Li, Zhengzhu Zhang, Chaoling Wei, Xiaochun Wan
Software Mentions: 3
Published: over 5 years ago
10.7717/peerj.7421
Different expression pattern of flowering pathway genes contribute to male or female organ development during floral transition in the monoecious weed<i>Ambrosia artemisiifolia</i>L. (<i>Asteraceae</i>)
Cited by: 13
Author(s): Kinga Mátyás, Géza Hegedűs, János Taller, Eszter Farkas, Kincső Decsi, Barbara Kutasy, Nikoletta Kálmán, Erzsébet Nagy, Balázs Kolics, Eszter Virág
Software Mentions: 3
Published: about 5 years ago
10.1186/1471-2105-6-S4-S22
NemaFootPrinter: a web based software for the identification of conserved non-coding genome sequence regions between C. elegans and C. briggsae
Cited by: 3
Author(s): Davide Rambaldi, Alessandro Guffanti, Paolo Morandi, Giuseppe Cassata
Software Mentions: 3
Published: almost 19 years ago
10.1186/1471-2164-15-262
Exome capture from saliva produces high quality genomic and metagenomic data
Cited by: 35
Author(s): Jeffrey M. Kidd, Thomas J. Sharpton, Dean Bobo, Paul J. Norman, Alicia R. Martin, Meredith L. Carpenter, Martin Sikora, Christopher R. Gignoux, Neda Nemat-Gorgani, Alexandra Adams, Moraima Guadalupe, Xiaosen Guo, Qiang Feng, Yingrui Li, Xiao Liu, Peter Parham, Eileen G. Hoal, Marcus W. Feldman, Katherine S. Pollard, Jeffrey D. Wall, Carlos D. Bustamante, Brenna M. Henn
Software Mentions: 3
Published: over 10 years ago
10.7717/peerj.9387
The level of putative carotenoid-binding proteins determines the body color in two species of endemic Lake Baikal amphipods
Cited by: 4
Author(s): Polina Drozdova, Alexandra Saranchina, M. M. Morgunova, Alena Kizenko, Yulia Lubyaga, Boris Baduev, Maxim A. Timofeyev
Software Mentions: 3
Published: over 4 years ago
10.1186/s12864-018-4448-9
The invasive MED/Q Bemisia tabaci genome: a tale of gene loss and gene gain
Cited by: 37
Author(s): Wen Xie, Xin Yang, Chunhai Chen, Zezhong Yang, Long Guo, Dan Wang, Jinqun Huang, Hailin Zhang, Yanan Wen, Jinyang Zhao, Qingjun Wu, Shaoli Wang, Brad S. Coates, Xuguo Zhou, Youjun Zhang
Software Mentions: 3
Published: almost 7 years ago
10.3390/pathogens8020061
The Mechanism of Action of Ursolic Acid as a Potential Anti-Toxoplasmosis Agent, and Its Immunomodulatory Effects
Cited by: 16
Author(s): Won Hyung Choi, In Ah Lee
Software Mentions: 3
Published: over 5 years ago
10.1186/s12864-020-6522-3
Tuberomics: a molecular profiling for the adaption of edible fungi (Tuber magnatum Pico) to different natural environments
Cited by: 13
Author(s): Federico Vita, Beatrice Giuntoli, Edoardo Bertolini, Cosimo Taiti, Elettra Marone, Chiara D’Ambrosio, Emanuela Trovato, Danilo Sciarrone, Mariosimone Zoccali, Raffaella Balestrini, Andrea Scaloni, Luigi Mondello, Stefano Mancuso, Massimo Alessio, Amedeo Alpi
Software Mentions: 3
Published: almost 5 years ago
10.7717/peerj.3134
Genomic comparisons of a bacterial lineage that inhabits both marine and terrestrial deep subsurface systems
Cited by: 44
Author(s): Sean P. Jungbluth, Tijana Glavina del Rio, Susannah G. Tringe, Ramunas Stepanauskas, Michael S. Rappé
Software Mentions: 3
Published: over 7 years ago
10.7717/peerj.6898
Towards an in-depth characterization of Symbiodiniaceae in tropical giant clams via metabarcoding of pooled multi-gene amplicons
Cited by: 24
Author(s): Xavier Pochon, Patricia Wecker, Michael Stat, Véronique Berteaux‐Lecellier, Gaël Lecellier
Software Mentions: 3
Published: over 5 years ago
10.1186/s13062-017-0195-0
ASXL gain-of-function truncation mutants: defective and dysregulated forms of a natural ribosomal frameshifting product?
Cited by: 12
Author(s): Adam M. Dinan, John F. Atkins, Andrew E. Firth
Software Mentions: 3
Published: about 7 years ago
10.7717/peerj.4073
Detection of bacterial contaminants and hybrid sequences in the genome of the kelp <i>Saccharina japonica</i> using Taxoblast
Cited by: 19
Author(s): Simon M. Dittami, Matthieu Le Corre
Software Mentions: 3
Published: about 7 years ago
10.1371/journal.pgen.1000732
Exceptional Diversity, Non-Random Distribution, and Rapid Evolution of Retroelements in the B73 Maize Genome
Cited by: 332
Author(s): Regina S. Baucom, James C. Estill, Cristian Chaparro, Naadira C. Upshaw, Ansuya Jogi, Jean-Marc Deragon, Richard P. Westerman, Phillip SanMiguel, Jeffrey L. Bennetzen
Software Mentions: 3
Published: about 15 years ago
10.1111/tpj.12600
The low‐recombining pericentromeric region of barley restricts gene diversity and evolution but not gene expression
Cited by: 31
Author(s): Katie Baker, Micha Bayer, Nicola Cook, Steven Dreißig, Taniya Dhillon, Joanne Russell, Pete E. Hedley, Jenny Morris, Luke Ramsay, Isabelle Colas, Robbie Waugh, Brian J. Steffenson, Iain Milne, Gordon Stephen, David Marshall, Andrew J. Flavell
Software Mentions: 3
Published: over 10 years ago
10.3390/biology10080732
Sequencing and Chromosome-Scale Assembly of Plant Genomes, Brassica rapa as a Use Case
Cited by: 10
Author(s): Benjamin Istace, Caroline Belser, Cyril Falentin, Karine Labadie, Franz Boideau, Gwenaëlle Deniot, Loeiz Maillet, Corinne Cruaud, Laurie Bertrand, Anne‐Marie Chèvre, Patrick Wincker, Mathieu Rousseau‐Gueutin, Jean‐Marc Aury
Software Mentions: 3
Published: over 3 years ago
10.1186/1471-2148-7-135
Extensive variation in synonymous substitution rates in mitochondrial genes of seed plants
Cited by: 220
Author(s): Jeffrey P. Mower, Pascal Touzet, Julie S Gummow, Lynda F. Delph, Jeffrey D. Palmer
Software Mentions: 3
Published: over 17 years ago
10.1371/journal.pgen.1008850
Evolution of Salmonella enterica serotype Typhimurium driven by anthropogenic selection and niche adaptation
Cited by: 37
Author(s): Matt Bawn, Nabil-Fareed Alikhan, Gaëtan Thilliez, Mark Kirkwood, Nicole E. Wheeler, Liljana Petrovska, Timothy J. Dallman, Evelien M. Adriaenssens, Neil Hall, Robert A. Kingsley
Software Mentions: 3
Published: over 4 years ago
10.1002/1878-0261.12119
Novel landscape of HLA-G isoforms expressed in clear cell renal cell carcinoma patients
Cited by: 62
Author(s): Diana Tronik‐Le Roux, Julie Renard, Jérôme Verine, Victor Renault, Emmanuel Tubacher, Joël LeMaoult, Nathalie Rouas‐Freiss, Jean‐François Deleuze, François Desgrandschamps, Edgardo D. Carosella
Software Mentions: 3
Published: about 7 years ago
10.3390/ijms22147312
Structure, Distribution, Chemical Composition, and Gene Expression Pattern of Glandular Trichomes on the Leaves of Rhus potaninii Maxim
Cited by: 1
Author(s): Qin Lu, Nawaz Haider Bashir, Haixia Wu, Weiwei Wang, Zhang Jin-wen, Yongzhong Cui, Hang Chen
Software Mentions: 3
Published: over 3 years ago
10.7508/ibj.2015.03.007
Association of Lecithin Cholesterol Acyltransferase rs5923 Polymorphism in Iranian Individuals with Extremely Low High-Density Lipoprotein Cholesterol: Tehran Lipid and Glucose Study.
Cited by: 2
Author(s): Mohsen Naseri, Mehdi Hedayati, Maryam Sadat Daneshpour, Fatemeh Bandarian, Fereidoun Azizi
Software Mentions: 3
Published: almost 10 years ago
10.1186/1471-2148-9-215
The small heat shock protein (sHSP) genes in the silkworm, Bombyx mori, and comparative analysis with other insect sHSP genes
Cited by: 104
Author(s): Zi-Wen Li, Xue-zhi Li, Qiuhan Yu, Xiang Zhang, Hirohisa Kishino, Ze Zhang
Software Mentions: 3
Published: about 15 years ago
10.1186/s12870-019-2074-6
Transcriptomic and metabolomic profiling provide novel insights into fruit development and flesh coloration in Prunus mira Koehne, a special wild peach species
Cited by: 37
Author(s): Ying Hong, Jian Shi, Shanshan Zhang, Gesang Pingcuo, Shuo Wang, Fan Zhao, Yongning Cui, Xiuli Zeng
Software Mentions: 3
Published: about 5 years ago
10.1186/1471-2164-11-S1-S14
Bioinformatic search of plant microtubule-and cell cycle related serine-threonine protein kinases
Cited by: 21
Author(s): П. А. Карпов, Е. С. Надеждина, А. І. Yemets, V. G. Matusov, A. Yu. Nyporko, Nadezhda Yu Shashina, Ya. B. Blume
Software Mentions: 3
Published: almost 15 years ago
10.1099/ijsem.0.004438
Mycolicibacterium nivoides sp. nov isolated from a peat bog
Cited by: 7
Author(s): John L. Dahl, Wayne Gatlin, Phuong M. Tran, Cody S. Sheik
Software Mentions: 3
Published: over 5 years ago
10.7554/eLife.23435
Co-expression of xenopsin and rhabdomeric opsin in photoreceptors bearing microvilli and cilia
Cited by: 49
Author(s): Oliver Vöcking, Ioannis Kourtesis, Sharat Chandra Tumu, Harald Hausen
Software Mentions: 3
Published: about 7 years ago
10.1155/2015/292950
Challenges of the Unknown: Clinical Application of Microbial Metagenomics
Cited by: 14
Author(s): Graham Rose, David Wooldridge, Catherine Anscombe, Edward T. Mee, Raju Misra, Saheer E. Gharbia
Software Mentions: 3
Published: almost 10 years ago
10.1099/jgv.0.000338
First complete genome sequence of European turkey coronavirus suggests complex recombination history related with US turkey and guinea fowl coronaviruses
Cited by: 31
Author(s): Paul A. Brown, Fabrice Touzain, François-Xavier Briand, A. M. Gouilh, Céline Courtillon, Chantal Allée, Evelyne Lemaitre, Claire de Boisséson, Yannick Blanchard, Nicolas Eterradossi
Software Mentions: 3
Published: almost 9 years ago
10.1155/2017/8027626
Transcriptome Analysis of Two Different Developmental Stages of <i>Paeonia lactiflora</i> Seeds
Cited by: 7
Author(s): Yong-Lei Ma, Jinqiu Cui, Xiujun Lu, Lijie Zhang, Zhijing Chen, Riwen Fei, Xiulan Sun
Software Mentions: 3
Published: almost 8 years ago
10.1099/vir.0.043182-0
Application of next-generation sequencing technologies in virology
Cited by: 223
Author(s): Alan Radford, Dave Chapman, Lucas Dixon, Julian Chantrey, Alistair C. Darby, Neil Hall
Software Mentions: 3
Published: about 12 years ago
10.1099/jgv.0.000902
Polycipiviridae: a proposed new family of polycistronic picorna-like RNA viruses
Cited by: 33
Author(s): Ingrida Olendraitė, Nina I. Lukhovitskaya, Sanford D. Porter, Steven M. Valles, Andrew E. Firth
Software Mentions: 3
Published: about 7 years ago
10.1371/journal.pone.0146283
Multiple and Diverse vsp and vlp Sequences in Borrelia miyamotoi, a Hard Tick-Borne Zoonotic Pathogen
Cited by: 34
Author(s): Alan G. Barbour
Software Mentions: 3
Published: almost 9 years ago
10.1155/2008/619832
Blast2GO: A Comprehensive Suite for Functional Analysis in Plant Genomics
Cited by: 1,633
Author(s): Ana Conesa, Stefan Götz
Software Mentions: 3
Published: over 16 years ago
10.1111/mec.15168
Dynamic virulence‐related regions of the plant pathogenic fungus <i>Verticillium dahliae</i> display enhanced sequence conservation
Cited by: 34
Author(s): Jasper R L Depotter, Xiaoqian Shi-Kunne, Hélène Missonnier, Tingli Liu, Luigi Faino, Grardy C. M. van den Berg, Thomas A. Wood, Baolong Zhang, Alban Jacques, Michael Seidl, B.P.H.J. Thomma
Software Mentions: 3
Published: over 5 years ago
10.1186/s13046-019-1239-3
RETRACTED ARTICLE: Down-regulated lncRNA DLX6-AS1 inhibits tumorigenesis through STAT3 signaling pathway by suppressing CADM1 promoter methylation in liver cancer stem cells
Cited by: 64
Author(s): Dongmei Wu, Zihui Zheng, Yingbo Zhang, Shao‐Hua Fan, Zi-Feng Zhang, Yongjian Wang, Yuxin Zheng, Jun Lü
Software Mentions: 3
Published: over 5 years ago
10.1128/mSphere.00305-16
Coordinate Regulation of Antimycin and Candicidin Biosynthesis
Cited by: 34
Author(s): Thomas C McLean, Paul A. Hoskisson, Ryan F. Seipke
Software Mentions: 3
Published: almost 8 years ago
10.1186/1471-2105-10-416
DescFold: A web server for protein fold recognition
Cited by: 31
Author(s): Renxiang Yan, Jing-Na Si, Chuan Wang, Ziding Zhang
Software Mentions: 3
Published: almost 15 years ago
10.1111/1755-0998.12240
Rapid and accurate taxonomic classification of insect (class Insecta) cytochrome <i>c</i> oxidase subunit 1 (<scp>COI</scp>) <scp>DNA</scp> barcode sequences using a naïve Bayesian classifier
Cited by: 48
Author(s): Teresita M. Porter, Joel F. Gibson, Shadi Shokralla, Donald J. Baird, G. Brian Golding, Mehrdad Hajibabaei
Software Mentions: 3
Published: over 10 years ago
10.1155/2016/6261490
Validation of Housekeeping Genes to Study Human Gingival Stem Cells and Their<i>In Vitro</i>Osteogenic Differentiation Using Real-Time RT-qPCR
Cited by: 14
Author(s): Ihsène Taïhi, Ali Nassif, Tsouria Berbar, Juliane Isaac, Ariane Berdal, Bruno Gogly, Benjamin Fournier
Software Mentions: 3
Published: almost 9 years ago
10.1371/journal.pone.0145053
Synergistic Interactions of Eugenol-tosylate and Its Congeners with Fluconazole against Candida albicans
Cited by: 57
Author(s): Aijaz Ahmad, Mohmmad Younus Wani, Amber Khan, Nikhat Manzoor, Julitha Molepo
Software Mentions: 3
Published: almost 9 years ago
10.1128/mSystems.00187-18
New Insights into Human Nostril Microbiome from the Expanded Human Oral Microbiome Database (eHOMD): a Resource for the Microbiome of the Human Aerodigestive Tract
Cited by: 302
Author(s): Isabel F. Escapa, Tsute Chen, Yanmei Huang, Prasad Gajare, Floyd E. Dewhirst, Katherine P. Lemon
Software Mentions: 3
Published: about 6 years ago
10.1371/journal.pone.0250758
Comprehensive at-arrival transcriptomic analysis of post-weaned beef cattle uncovers type I interferon and antiviral mechanisms associated with bovine respiratory disease mortality
Cited by: 9
Author(s): Matthew A. Scott, Amelia R. Woolums, Cyprianna E. Swiderski, Andy D. Perkins, Bindu Nanduri, David R. Smith, Brandi B. Karisch, William B. Epperson, J. R. Blanton
Software Mentions: 3
Published: over 3 years ago
10.3390/jof6010007
Chromosome-Level Comprehensive Genome of Mangrove Sediment-Derived Fungus Penicillium variabile HXQ-H-1
Cited by: 5
Author(s): Ling Peng, Liangwei Li, Xiaochuan Liu, Jianwei Chen, Chengcheng Shi, Wenjie Guo, Qiwu Xu, Guangyi Fan, Xin Liu, Dehai Li
Software Mentions: 3
Published: almost 5 years ago
10.1099/ijsem.0.004837
Belnapia mucosa sp. nov. and Belnapia arida sp. nov., isolated from desert biocrust
Cited by: 7
Author(s): Esther Molina‐Menor, Àngela Vidal‐Verdú, Leila Satari, Alba Calonge-García, Javier Pascual, Juli Peretó, Manuel Porcar
Software Mentions: 3
Published: over 3 years ago
10.1155/2018/5692840
Noncoding RNA Transcripts during Differentiation of Induced Pluripotent Stem Cells into Hepatocytes
Cited by: 5
Author(s): Aniela Skrzypczyk, Stephanie Kehr, Ilona Krystel, Stephan H. Bernhart, Shibashish Giri, Augustinus Bader, Peter F. Stadler
Software Mentions: 3
Published: over 6 years ago
10.3390/microorganisms9051006
Ornithobacterium rhinotracheale: MALDI-TOF MS and Whole Genome Sequencing Confirm That Serotypes K, L and M Deviate from Well-Known Reference Strains and Numerous Field Isolates
Cited by: 6
Author(s): Merima Alispahic, Lukas Endler, Michael Heß, Claudia Heß
Software Mentions: 3
Published: over 3 years ago
10.3390/toxins10120503
Discovery of Novel Conotoxin Candidates Using Machine Learning
Cited by: 18
Author(s): Qing Li, Maren Watkins, Samuel D. Robinson, Helena Safavi-­Hemami, Mark Yandell
Software Mentions: 3
Published: almost 6 years ago
10.3390/microorganisms7110551
Meta-16S rRNA Gene Phylogenetic Reconstruction Reveals the Astonishing Diversity of Cosmopolitan Myxobacteria
Cited by: 10
Author(s): Yang Liu, Qing Yao, Honghui Zhu
Software Mentions: 3
Published: about 5 years ago
10.3390/microorganisms7100444
A Diverse Repertoire of Exopolysaccharide Biosynthesis Gene Clusters in Lactobacillus Revealed by Comparative Analysis in 106 Sequenced Genomes
Cited by: 40
Author(s): Dipti Deo, Dimple Davray, Ram Kulkarni
Software Mentions: 3
Published: about 5 years ago
10.3390/microorganisms8101621
Deciphering the Infectious Process of Colletotrichum lupini in Lupin through Transcriptomic and Proteomic Analysis
Cited by: 16
Author(s): Guillaume Dubrulle, Adeline Picot, Stéphanie Madec, Matthieu Le Corre, Audrey Pawtowski, Riccardo Baroncelli, Michel Zivy, Thierry Balliau, Gaétan Le Floch, Flora Pensec
Software Mentions: 3
Published: about 4 years ago
10.1038/tp.2016.181
Impaired GABA synthesis, uptake and release are associated with depression-like behaviors induced by chronic mild stress
Cited by: 110
Author(s): Kewei Ma, Aidong Xu, Sheng Cui, Sun Mr, Xue Yc, Wang Jh
Software Mentions: 3
Published: about 8 years ago
10.1186/s12864-018-5183-y
Improved Macaca fascicularis gene annotation reveals evolution of gene expression profiles in multiple tissues
Cited by: 4
Author(s): Tao Tan, Lin Xia, Kailing Tu, Jie Tang, Senlin Yin, Lunzhi Dai, Peng Lei, Biao Dong, Hongbo Hu, Yong Fan, Yang Yu, Dan Xie
Software Mentions: 3
Published: about 6 years ago
10.1038/s41598-020-65724-4
Simultaneous identification of animal-derived components in meats using high-throughput sequencing in combination with a custom-built mitochondrial genome database
Cited by: 6
Author(s): Yinan Zhang, Qinfeng Qu, RAO Mingzhen, Zhang Nana, Yu Zhao, Fei Tao
Software Mentions: 3
Published: over 4 years ago
10.1186/s12870-021-02904-y
QTLs and candidate genes analyses for fruit size under domestication and differentiation in melon (Cucumis melo L.) based on high resolution maps
Cited by: 22
Author(s): Qiang Lian, Qihua Fu, Yong Xu, Zhicheng Hu, Jing Zheng, Aiai Zhang, Yue He, Changsheng Wang, Chuanqiang Xu, Benxue Chen, Jordi García-Más, Guangwei Zhao, Huaisong Wang
Software Mentions: 3
Published: over 3 years ago
10.1186/s12870-020-02461-w
Molecular footprints of selection effects and whole genome duplication (WGD) events in three blueberry species: detected by transcriptome dataset
Cited by: 14
Author(s): Yunsheng Wang, Fude Nie, Muhammad Qasim Shahid, Faheem Shehzad Baloch
Software Mentions: 3
Published: over 4 years ago
10.1099/mic.0.000861
Variation in genome content and predatory phenotypes between Bdellovibrio sp. NC01 isolated from soil and B. bacteriovorus type strain HD100
Cited by: 11
Author(s): Laura E. Williams, Nicole Cullen, Joseph A. DeGiorgis, Karla J Martinez, Justina Mellone, Molly Oser, Jing Wang, Ying Zhang
Software Mentions: 3
Published: almost 5 years ago
10.1038/s41598-019-55896-z
System OMICs analysis of Mycobacterium tuberculosis Beijing B0/W148 cluster
Cited by: 7
Author(s): Julia Bespyatykh, Egor Shitikov, Andrei Guliaev, Alexander Smolyakov, Ksenia M. Klimina, Vladimir A. Veselovsky, М В Малахова, Georgij Arapidi, Marine Dogonadze, Olga Manicheva, Dmitry Bespiatykh, Igor Mokrousov, Viacheslav Zhuravlev, Elena N. Ilina, Vadim M. Govorun
Software Mentions: 3
Published: almost 5 years ago
10.1038/s41598-021-82201-8
A metabolomic approach to target antimalarial metabolites in the Artemisia annua fungal endophytes
Cited by: 24
Author(s): Hani A. Alhadrami, Ahmed M. Sayed, Ahmed O. El-Gendy, Yara I. Shamikh, Yasser Gaber, Walid Bakeer, Noheir H. Sheirf, Eman Zekry Attia, Gehan M. Shaban, Basma Ali Khalifa, Che Julius Ngwa, Gabriele Pradel, Mostafa E. Rateb, Hossam M. Hassan, Dalal Hussien M. Alkhalifah, Usama Ramadan Abdelmohsen, Wael N. Hozzein
Software Mentions: 3
Published: almost 4 years ago
10.1099/mgen.0.000347
Comparison of core-genome MLST, coreSNP and PFGE methods for Klebsiella pneumoniae cluster analysis
Cited by: 29
Author(s): Floriana Gona, Francesco Comandatore, Simone Battaglia, Aurora Piazza, Alberto Trovato, Giovanni Lorenzin, Paola Cichero, Anna Biancardi, Paola Nizzero, Matteo Moro, Daniela María Cirillo
Software Mentions: 3
Published: over 4 years ago
10.1038/s41598-019-41189-y
Identifying High Confidence microRNAs in the Developing Seeds of Jatropha curcas
Cited by: 11
Author(s): Mo Yang, Hongyu Lu, Feiqun Xue, Lanqing Ma
Software Mentions: 3
Published: over 5 years ago
10.1186/s12870-019-1672-7
Genome-wide discovery and characterization of flower development related long non-coding RNAs in Prunus mume
Cited by: 35
Author(s): Xinxin Wu, Ting Shi, Shahid Iqbal, Yong Zhang, Lin Liu, Zhihong Gao
Software Mentions: 3
Published: almost 6 years ago
10.1186/s12859-019-3261-z
Comparative transcriptomic analysis of the flower induction and development of the Lei bamboo (Phyllostachys violascens)
Cited by: 12
Author(s): Yulian Jiao, Qiutao Hu, Yan Zhu, Longfei Zhu, Tengfei Ma, Haiyong Zeng, Qiaolu Zang, Xuan Li, Xinchun Lin
Software Mentions: 3
Published: almost 5 years ago
10.3390/genes12020254
Paracellular and Transcellular Leukocytes Diapedesis Are Divergent but Interconnected Evolutionary Events
Cited by: 20
Author(s): Michel‐Edwar Mickael, Norwin Kubick, Pavel Klimovich, Patrick Henckell Flournoy, Irmina Bieńkowska, Mariusz Sacharczuk
Software Mentions: 3
Published: almost 4 years ago
10.1186/s12915-016-0311-0
Generation of an integrated Hieracium genomic and transcriptomic resource enables exploration of small RNA pathways during apomixis initiation
Cited by: 18
Author(s): David S. Rabiger, Jennifer Taylor, Andrew Spriggs, Melanie L. Hand, Steven T. Henderson, Susan D. Johnson, Karsten Oelkers, Mária Hrmová, Keisuke Saito, Go Suzuki, Yasuhiko Mukai, Bernard J. Carroll, Anna M. Koltunow
Software Mentions: 3
Published: about 8 years ago
10.1038/s41598-017-05222-2
Impacts of Early Life Stress on the Methylome and Transcriptome of Atlantic Salmon
Cited by: 41
Author(s): Hooman K. Moghadam, Hanne Johnsen, Nick Robinson, Øivind Andersen, Even H. Jørgensen, Hanne Johnsen, Vegar J. Bæhr, Helge Tveiten
Software Mentions: 3
Published: over 7 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
10.1038/s41598-019-42686-w
Enhanced early-life nutrition upregulates cholesterol biosynthetic gene expression and Sertoli cell maturation in testes of pre-pubertal Holstein bulls
Cited by: 12
Author(s): Chinju Johnson, Alysha Dance, Igor Kovalchuk, John P. Kastelic, Jacob C. Thundathil
Software Mentions: 3
Published: over 5 years ago
10.18632/oncotarget.8338
Upregulation of long intergenic noncoding RNA 00673 promotes tumor proliferation via LSD1 interaction and repression of NCALD in non-small-cell lung cancer
Cited by: 59
Author(s): Xuefei Shi, Chenhui Ma, Qingqing Zhu, Dongmei Yuan, Ming Sun, Xiaoling Gu, Guannan Wu, Tangfeng Lv, Yong Song
Software Mentions: 3
Published: over 8 years ago
10.1534/g3.119.400326
<i>De Novo</i>, Divergence, and Mixed Origin Contribute to the Emergence of Orphan Genes in<i>Pristionchus</i>Nematodes
Cited by: 32
Author(s): Neel Prabh, Christian Rödelsperger
Software Mentions: 3
Published: over 5 years ago
10.1186/s12915-020-00822-3
Genomic architecture of endogenous ichnoviruses reveals distinct evolutionary pathways leading to virus domestication in parasitic wasps
Cited by: 22
Author(s): Fabrice Legeai, Bernardo F. Santos, Stéphanie Robin, Anthony Bretaudeau, Rebecca B. Dikow, Claire Lemaitre, Véronique Jouan, Marc Ravallec, Jean‐Michel Drezen, Denis Tagu, Frédéric Baudat, Gábor Gyapay, Xin Zhou, Shanlin Liu, Bruce A. Webb, Seán G. Brady, Anne Nathalie Volkoff
Software Mentions: 3
Published: over 4 years ago
10.1534/g3.116.031120
Genome-Wide Analysis of Polyadenylation Events in <i>Schmidtea mediterranea</i>
Cited by: 12
Author(s): Vairavan Lakshmanan, Dhiru Bansal, Jahnavi Kulkarni, Deepak Poduval, Srikar Krishna, Vidyanand Sasidharan, Praveen Anand, Aswin Sai Narain Seshasayee
Software Mentions: 3
Published: about 8 years ago
10.1534/g3.111.001834
Integration of the Draft Sequence and Physical Map as a Framework for Genomic Research in Soybean (<i>Glycine max</i> (L.) Merr.) and Wild Soybean (<i>Glycine soja</i> Sieb. and Zucc.)
Cited by: 8
Author(s): Jung Min Ha, Brian Abernathy, William M. Nelson, David Grant, Xiaolei Wu, Henry T. Nguyen, Gary Stacey, Yeisoo Yu, Rod A. Wing, Randy C. Shoemaker, Scott A. Jackson
Software Mentions: 3
Published: over 12 years ago
10.1186/s12859-015-0633-x
PredSTP: a highly accurate SVM based model to predict sequential cystine stabilized peptides
Cited by: 24
Author(s): S. M. Ashiqul Islam, Tanvir Sajed, Christopher Michel Kearney, Erich J. Baker
Software Mentions: 3
Published: over 9 years ago
10.3389/fpls.2020.607651
Isolation of Four Microalgal Strains From the Lake Massaciuccoli: Screening of Common Pollutants Tolerance Pattern and Perspectives for Their Use in Biotechnological Applications
Cited by: 8
Author(s): Carolina Chiellini, Lorenzo Guglielminetti, Sabrina Sarrocco, Adriana Ciurli
Software Mentions: 3
Published: almost 4 years ago
10.3389/fpls.2019.01015
Detection of First Marker Trait Associations for Resistance Against Sclerotinia sclerotiorum in Brassica juncea–Erucastrum cardaminoides Introgression Lines
Cited by: 39
Author(s): Kusum Rana, Chhaya Atri, Javed Akhatar, Ramanjeet Kaur, Anna Goyal, Mohini Singh, Nitin Kumar, Anju Sharma, P. Sandhu, Gurpreet Kaur, Martin J. Barbetti, S. S. Banga
Software Mentions: 3
Published: over 5 years ago
10.1186/1471-2350-7-18
Breakpoint Associated with a novel 2.3 Mb deletion in the VCFS region of 22q11 and the role of Alu (SINE) in recurring microdeletions
Cited by: 24
Author(s): Raihan K. Uddin, Yang Zhang, Victoria Mok Siu, Yao Shan Fan, Richard O’Reilly, Jay Rao, Shiva M. Singh
Software Mentions: 3
Published: over 18 years ago
10.1186/s12864-018-4675-0
Comparative omics and feeding manipulations in chicken indicate a shift of the endocrine role of visceral fat towards reproduction
Cited by: 31
Author(s): Susanne Bornelöv, Eyal Seroussi, Sara Yosefi, Sharon Benjamini, Shoval Miyara, M. Ruzal, Manfred Grabherr, Nima Rafati, Anna Maja Molin, Ken Pendavis, Shane C. Burgess, Leif Andersson, Miriam Friedman‐Einat
Software Mentions: 3
Published: over 6 years ago
10.3389/fpls.2018.00217
Identification of Metabolites and Transcripts Involved in Salt Stress and Recovery in Peanut
Cited by: 70
Author(s): Feng Cui, Na Sui, Guangyou Duan, Yiyang Liu, Han Yan, Shanshan Liu, Shubo Wan, Guowei Li
Software Mentions: 3
Published: over 6 years ago
10.3389/fpls.2016.00266
Identification and Characterization of the Sucrose Synthase 2 Gene (Sus2) in Durum Wheat
Cited by: 14
Author(s): Mariateresa Volpicella, Immacolata Fanizza, Claudia Leoni, Ágata Gadaleta, Domenica Nigro, B. Gattulli, Giacomo Mangini, Antonio Blanco, Luigi R. Ceci
Software Mentions: 3
Published: over 8 years ago
10.1186/1471-2164-13-31
Sequencing and comparative genomic analysis of 1227 Felis catus cDNA sequences enriched for developmental, clinical and nutritional phenotypes
Cited by: 8
Author(s): Kristopher J. L. Irizarry, S. B. Malladi, Xiangming Gao, Katherine Mitsouras, Lynda Melendez, Patricia A Burris, Jeffrey A. Brockman, Samer Al-Murrani
Software Mentions: 3
Published: almost 13 years ago
10.1099/mgen.0.000231
SynerClust: a highly scalable, synteny-aware orthologue clustering tool
Cited by: 12
Author(s): C Georgescu, Abigail L. Manson, Alexander D. Griggs, Christopher A. Desjardins, Alejandro Pironti, Ilan Wapinski, Thomas Abeel, Brian J. Haas, Ashlee M. Earl
Software Mentions: 3
Published: about 6 years ago
10.1099/mgen.0.000187
Using glycolysis enzyme sequences to inform Lactobacillus phylogeny
Cited by: 8
Author(s): Katelyn Brandt, Rodolphe Barrangou
Software Mentions: 3
Published: over 6 years ago
10.1099/mgen.0.000142
Vibrio cholerae genomic diversity within and between patients
Cited by: 24
Author(s): Inès Levade, Yves Terrat, Jean-Baptiste Leducq, Ana A. Weil, Leslie M. Mayo-Smith, Fahima Chowdhury, Ashraful Islam Khan, Jacques Boncy, Josiane Buteau, Louise C. Ivers, Edward T. Ryan, Richelle C. Charles, Stephen B. Calderwood, Firdausi Qadri, Jason B. Harris, Regina C. LaRocque, B. Jesse Shapiro
Software Mentions: 3
Published: almost 7 years ago
10.3389/fmicb.2018.01272
Comparison of Database Search Methods for the Detection of Legionella pneumophila in Water Samples Using Metagenomic Analysis
Cited by: 8
Author(s): Jednipit Borthong, Ryosuke Omori, Chihiro Sugimoto, Orasa Suthienkul, Ryo Nakao, Kimihito Ito
Software Mentions: 3
Published: over 6 years ago
10.1099/mgen.0.000307
Quantitative real-time PCR assay for the rapid identification of the intrinsically multidrug-resistant bacterial pathogen Stenotrophomonas maltophilia
Cited by: 6
Author(s): Tamieka A. Fraser, Mikaela G. Bell, Patrick N A Harris, S. C. Bell, Haakon Bergh, Thuy‐Khanh Nguyen, Timothy J. Kidd, Graeme R. Nimmo, Derek S. Sarovich, Erin P. Price
Software Mentions: 3
Published: about 5 years ago
10.1099/mgen.0.000080
Metagenomic data-mining reveals contrasting microbial populations responsible for trimethylamine formation in human gut and marine ecosystems
Cited by: 34
Author(s): Eleanor Jameson, Andrew C. Doxey, Ruth L. Airs, Kevin J. Purdy, J. Colin Murrell, Yin Chen
Software Mentions: 3
Published: about 8 years ago
10.3389/fmicb.2021.642587
Inorganic Chemical Fertilizer Application to Wheat Reduces the Abundance of Putative Plant Growth-Promoting Rhizobacteria
Cited by: 18
Author(s): Tessa E. Reid, Vanessa Nessner Kavamura, Maïder Abadie, Adriana Torres-Ballesteros, Mark Pawlett, Ian M. Clark, J. Arthur Harris, Tim H. Mauchline
Software Mentions: 3
Published: over 3 years ago
10.1186/s12864-015-2142-8
Gene expression analysis at the onset of sex differentiation in turbot (Scophthalmus maximus)
Cited by: 35
Author(s): Diego Robledo, Laia Ribas, Rosa Cal, Laura Sánchez, Francesc Piferrer, Paulino Martı́nez, Ana Viñas
Software Mentions: 3
Published: about 9 years ago
10.1099/mgen.0.000188
A complete high-quality MinION nanopore assembly of an extensively drug-resistant Mycobacterium tuberculosis Beijing lineage strain identifies novel variation in repetitive PE/PPE gene regions
Cited by: 32
Author(s): Arnold Bainomugisa, Tânia Duarte, Evelyn Lavu, Sushil Pandey, Chris Coulter, Ben J. Marais, Lachlan Coin
Software Mentions: 3
Published: over 6 years ago