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: hmmer

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

HMMER binaries.
18 versions
Latest release: over 1 year ago
2 dependent packages
1,013 downloads last month

Papers Mentioning hmmer 196

10.1099/mgen.0.000440
Exploration into the origins and mobilization of di-hydrofolate reductase genes and the emergence of clinical resistance to trimethoprim
Cited by: 19
Author(s): Miquel Sánchez-Osuna, Pilar Cortés, Montserrat Llagostera, Jordi Barbé, Ivan Erill
Software Mentions: 2
Published: about 4 years ago
10.1186/s40168-019-0768-5
Diversity, evolution, and classification of virophages uncovered through global metagenomics
Cited by: 46
Author(s): David Páez-Espino, Jizhong Zhou, Simon Roux, Stephen Nayfach, Georgios A. Pavlopoulos, Frederik Schulz, Katherine D. McMahon, David A. Walsh, Tanja Woyke, Natalia Ivanova, Emiley A. Eloe‐Fadrosh, Susannah G. Tringe, Nikos C. Kyrpides
Software Mentions: 2
Published: almost 5 years ago
10.3390/microorganisms8081252
The Absence of C-5 DNA Methylation in Leishmania donovani Allows DNA Enrichment from Complex Samples
Cited by: 8
Author(s): Bart Cuypers, Franck Dumetz, Pieter Meysman, Kris Laukens, Géraldine De Muylder, Jean Claude Dujardin, Malgorzata A. Domagalska
Software Mentions: 2
Published: over 4 years ago
10.1080/23802359.2021.1944386
The complete chloroplast genome of Codonopsis convolvulacea subsp. vinciflora
Cited by: 0
Author(s): Yangzom Pema, Chao Ma
Software Mentions: 2
Published: over 3 years ago
10.1080/23802359.2020.1861558
Characteristics of complete chloroplast genome of a high-quality forage on Qinghai-Tibet Plateau, Medicago archiducis-nicolai Sirj. (Fabaceae:Trifolieae)
Cited by: 2
Author(s): Jun Xie, Chengbo Liang, Zongren Li, Zhongke Ji, Weiyou Ou, Lun Hua, Haichun Wang, Kazhuocairang, Zhiqiang Hou
Software Mentions: 2
Published: almost 4 years ago
10.1186/s13100-016-0069-5
Virus-like attachment sites as structural landmarks of plants retrotransposons
Cited by: 3
Author(s): Edgar Andrés Ochoa Cruz, Guilherme M. Q. Cruz, Andréia Prata Vieira, Marie‐Anne Van Sluys
Software Mentions: 2
Published: over 8 years ago
10.1111/j.1365-2958.2010.07442.x
An essential Aurora-related kinase transiently associates with spindle pole bodies during Plasmodium falciparum erythrocytic schizogony
Cited by: 67
Author(s): Luc Reininger, Jonathan M. Wilkes, Hélène Bourgade, Diego Miranda‐Saavedra, Christian Doerig
Software Mentions: 2
Published: about 14 years ago
10.15252/msb.20209600
Network‐based visualisation reveals new insights into transposable element diversity
Cited by: 1
Author(s): Laura Schneider, Yike Guo, David Birch, Peter Sarkies
Software Mentions: 2
Published: over 3 years ago
10.7717/peerj.2098
Characterizing the adult and larval transcriptome of the multicolored Asian lady beetle,Harmonia axyridis
Cited by: 4
Author(s): Lindsay Havens, Matthew D. MacManes
Software Mentions: 2
Published: over 8 years ago
10.1371/journal.pcbi.1003898
A Taxonomy of Bacterial Microcompartment Loci Constructed by a Novel Scoring Method
Cited by: 202
Author(s): Seth D. Axen, Onur Erbilgin, Cheryl A. Kerfeld
Software Mentions: 2
Published: about 10 years ago
10.1371/journal.pone.0223033
Whole genome sequence analysis reveals the broad distribution of the RtxA type 1 secretion system and four novel putative type 1 secretion systems throughout the Legionella genus
Cited by: 5
Author(s): Connor Brown, Emily Garner, Guillaume Jospin, David A. Coil, David Otto Schwake, Jonathan A. Eisen, Biswarup Mukhopadhyay, Amy Pruden
Software Mentions: 2
Published: almost 5 years ago
10.1371/journal.pone.0068672
Plant F-Box Protein Evolution Is Determined by Lineage-Specific Timing of Major Gene Family Expansion Waves
Cited by: 24
Author(s): Aura Navarro‐Quezada, Nadine Schumann, Marcel Quint
Software Mentions: 2
Published: over 11 years ago
10.1371/journal.pone.0134738
Draft De Novo Transcriptome of the Rat Kangaroo Potorous tridactylus as a Tool for Cell Biology
Cited by: 18
Author(s): Dylan B. Udy, Mark Voorhies, Patricia P. Chan, Todd M. Lowe, Sophie Dumont
Software Mentions: 2
Published: over 9 years ago
10.1371/journal.pone.0017546
Genome-Wide Identification of Molecular Mimicry Candidates in Parasites
Cited by: 45
Author(s): Philipp Ludin, Daniel Nilsson, Pascal Mäser
Software Mentions: 2
Published: over 13 years ago
10.1371/journal.pone.0142636
Identification of Putative Nuclear Receptors and Steroidogenic Enzymes in Murray-Darling Rainbowfish (Melanotaenia fluviatilis) Using RNA-Seq and De Novo Transcriptome Assembly
Cited by: 2
Author(s): Peter A. Bain, Alexie Papanicolaou, Anu Kumar
Software Mentions: 2
Published: almost 9 years ago
10.1371/journal.pone.0192452
Comparative genomic analysis of the multispecies probiotic-marketed product VSL#3
Cited by: 29
Author(s): François P. Douillard, Diego Mora, Robyn T. Eijlander, Michiel Wels, Willem M. de Vos
Software Mentions: 2
Published: almost 7 years ago
10.1371/journal.pone.0000115
Detection of Conjugation Related Type Four Secretion Machinery in Aeromonas culicicola
Cited by: 14
Author(s): Ashraf Yusuf Rangrez, Kannayakanahalli M. Dayananda, Santosh S. Atanur, Rajendra Joshi, Milind S. Patole, Yogesh S. Shouche
Software Mentions: 2
Published: almost 18 years ago
10.1371/journal.pone.0188219
Identification and characterization of the three members of the CLC family of anion transport proteins in Trypanosoma brucei
Cited by: 3
Author(s): Michael E. Steinmann, Roman Schmidt, Juan Pereira de Macêdo, Christina Kunz Renggli, Peter Bütikofer, Doris Rentsch, Pascal Mäser, Erwin Sigel
Software Mentions: 2
Published: almost 7 years ago
10.1371/journal.pone.0087723
Citrus sinensis Annotation Project (CAP): A Comprehensive Database for Sweet Orange Genome
Cited by: 40
Author(s): Jia Wang, Dijun Chen, Lei Yang, Jiangfang Chang, Bin Hao, Xing Feng, Sen Li, Qiang Xu, Xiuxin Deng, Lingling Chen
Software Mentions: 2
Published: almost 11 years ago
10.1371/journal.pone.0112420
Transcriptomic Analysis of the Mussel Elliptio complanata Identifies Candidate Stress-Response Genes and an Abundance of Novel or Noncoding Transcripts
Cited by: 14
Author(s): Robert S. Cornman, Laura S. Robertson, Heather S. Galbraith, Carrie J. Blakeslee
Software Mentions: 2
Published: about 10 years ago
10.3390/cells9071697
In Silico Evaluation of Putative S100B Interacting Proteins in Healthy and IBD Gut Microbiota
Cited by: 8
Author(s): Massimiliano Orsini, Rosa Di Liddo, Federica Valeriani, Marzia Mancin, R. D’Incà, Andréa Castagnetti, Antonio Aceti, Pier Paolo Parnigotto, Vincenzo Romano Spica, Fabrizio Michetti
Software Mentions: 2
Published: over 4 years ago
10.12688/f1000research.18776.2
RVDB-prot, a reference viral protein database and its HMM profiles
Cited by: 37
Author(s): Thomas Bigot, Sarah Temmam, Philippe Pérot, Marc Éloit
Software Mentions: 2
Published: about 4 years ago
10.1002/2211-5463.12804
Comparative and evolutionary analyses of the divergence of plant oligosaccharyltransferase STT3 isoforms
Cited by: 4
Author(s): Guanting Niu, Zhu‐Qing Shao, Chuanfa Liu, Tianshu Chen, Qingsong Jiao, Zhi Hong
Software Mentions: 2
Published: almost 5 years ago
10.1111/j.1574-6976.2010.00231.x
RTX proteins: a highly diverse family secreted by a common mechanism
Cited by: 394
Author(s): Irena Linhartová, Ladislav Bumba, Jiří Mašín, Marek Basler, Radim Osička, Jana Kamanová, Kateřina Procházková, Irena Adkins, Jana Hejnová-Holubová, Lenka Sadílková, Jana Morová, Peter Šebo
Software Mentions: 2
Published: about 14 years ago
10.3389/fpls.2018.01435
Functional Analysis of Four Terpene Synthases in Rose-Scented Pelargonium Cultivars (Pelargonium × hybridum) and Evolution of Scent in the Pelargonium Genus
Cited by: 15
Author(s): Bernard Blerot, Laure Martinelli, Cécile Prunier, Denis Saint-Marcoux, Sylvain Legrand, Aurélie Bony, Loïc Sarrabère, Florence Gros, Nicolas Boyer, Jean‐Claude Caissard, Sylvie Baudino, Frédéric Jullien
Software Mentions: 2
Published: about 6 years ago
10.1534/g3.114.012567
Genome Sequence of <i>Candidatus</i> Riesia pediculischaeffi, Endosymbiont of Chimpanzee Lice, and Genomic Comparison of Recently Acquired Endosymbionts from Human and Chimpanzee Lice
Cited by: 28
Author(s): Bret M. Boyd, Julie M. Allen, Valérie de Crécy‐Lagard, David L. Reed
Software Mentions: 2
Published: about 10 years ago
10.1186/gb-2013-14-11-r130
Single-cell genomics reveal low recombination frequencies in freshwater bacteria of the SAR11 clade
Cited by: 73
Author(s): Katarzyna Zaremba-Niedźwiedzka, Jenny Viklund, Weizhou Zhao, Jennifer C. Ast, Alexander Sczyrba, Tanja Woyke, Katherine D. McMahon, Stefan Bertilsson, Ramunas Stepanauskas, Siv G. E. Andersson
Software Mentions: 2
Published: almost 12 years ago
10.1093/gbe/evx041
Cross-Species Genome-Wide Identification of Evolutionary Conserved MicroProteins
Cited by: 22
Author(s): Daniel Straub, Stephan Wenkel
Software Mentions: 2
Published: over 7 years ago
10.1038/s41598-018-38442-1
Antimicrobial peptides from Rana [Lithobates] catesbeiana: Gene structure and bioinformatic identification of novel forms from tadpoles
Cited by: 15
Author(s): Caren C. Helbing, S. Austin Hammond, Shireen H. Jackman, Stanley Houston, René L. Warren, Caroline E. Cameron, İnanç Birol
Software Mentions: 2
Published: almost 6 years ago
10.1038/s41598-021-90932-x
Comparative analyses of transcriptional responses of Dectes texanus LeConte (Coleoptera: Cerambycidae) larvae fed on three different host plants and artificial diet
Cited by: 4
Author(s): Lina Maria Aguirre-Rojas, Erin D. Scully, Harold N. Trick, Kun Yan Zhu, C. Michael Smith
Software Mentions: 2
Published: over 3 years ago
10.1128/mSystems.00752-19
Network-Based Prediction of Novel CRISPR-Associated Genes in Metagenomes
Cited by: 0
Author(s): Jake L. Weissman, Philip L. F. Johnson
Software Mentions: 2
Published: almost 5 years ago
10.1038/s41396-020-00750-8
Acidobacteria are active and abundant members of diverse atmospheric H2-oxidizing communities detected in temperate soils
Cited by: 18
Author(s): Andrew T. Giguere, Stephanie A. Eichorst, Dimitri V. Meier, Craig W. Herbold, Andreas Richter, Chris Greening, Dagmar Woebken
Software Mentions: 2
Published: about 4 years ago
10.1038/s41396-017-0009-5
The enigmatic SAR202 cluster up close: shedding light on a globally distributed dark ocean lineage involved in sulfur cycling
Cited by: 82
Author(s): Maliheh Mehrshad, Francisco Rodríguez‐Valera, Mohammad Ali Amoozegar, Purificación López‐García, Rohit Ghai
Software Mentions: 2
Published: almost 7 years ago
10.1371/journal.pone.0172966
Peptidomic and transcriptomic profiling of four distinct spider venoms
Cited by: 25
Author(s): Vera Wanda Oldrati, Dominique Koua, Pierre‐Marie Allard, Nicolas Hulo, Miriam Arrell, Wolfgang Nentwig, Frédérique Lisacek, Jean‐Luc Wolfender, Lucia Kuhn‐Nentwig, Reto Stöcklin
Software Mentions: 1
Published: over 7 years ago
10.3389/fgene.2020.00226
Translation-Targeting RiPPs and Where to Find Them
Cited by: 8
Author(s): Dmitrii Y. Travin, Dmitry Bikmetov, Konstantin Severinov
Software Mentions: 1
Published: over 4 years ago
10.1371/journal.pbio.1001942
Transient Hypermutagenesis Accelerates the Evolution of Legume Endosymbionts following Horizontal Gene Transfer
Cited by: 49
Author(s): Philippe Remigi, Delphine Capela, Camille Clérissi, Léna Tasse, Rachel Torchet, Olivier Bouchez, Jacques Batut, Stéphane Cruveiller, Eduardo P. C. Rocha, Catherine Masson‐Boivin
Software Mentions: 1
Published: about 10 years ago
10.3389/fgene.2021.682734
Transcriptome Atlas of 16 Donkey Tissues
Cited by: 8
Author(s): Yinan Wang, Xinyao Miao, Zhonghua Zhao, Yonghui Wang, Shuai Cheng Li, Changfa Wang
Software Mentions: 1
Published: over 3 years ago
10.3389/fgene.2020.597890
UDP-Glucose Dehydrogenases: Identification, Expression, and Function Analyses in Upland Cotton (Gossypium hirsutum)
Cited by: 4
Author(s): Tingting Jia, Qún Gě, Shuya Zhang, Zhen Zhang, Àiyīng Liú, Senmiao Fan, Xiao Jiang, Yulong Feng, Lipeng Zhang, Doudou Niu, Shuxian Huang, Wànkuí Gǒng, Yǒulù Yuán, Hǎihóng Shāng
Software Mentions: 1
Published: almost 4 years ago
10.7717/peerj.6286
Genome-wide identification of long non-coding RNAs in tomato plants irradiated by neutrons followed by infection with<i>Tomato yellow leaf curl virus</i>
Cited by: 12
Author(s): Yujie Zhou, Won Kyong Cho, Hee-Seong Byun, Vivek Chavan, Eui-Joon Kil, Sukchan Lee, Seung-Woo Hong
Software Mentions: 1
Published: almost 6 years ago
10.1093/ve/vey035
Identification and characterization of Coronaviridae genomes from Vietnamese bats and rats based on conserved protein domains
Cited by: 53
Author(s): My V. T. Phan, Tue Ngo Tri, Pham Hong Anh, Stephen Baker, Paul Kellam, Matthew Cotten
Software Mentions: 1
Published: over 6 years ago
10.3389/fmicb.2020.574080
Deltaproteobacteria and Spirochaetes-Like Bacteria Are Abundant Putative Mercury Methylators in Oxygen-Deficient Water and Marine Particles in the Baltic Sea
Cited by: 30
Author(s): Eric Capo, Andrea G. Bravo, Anne L. Soerensen, Stefan Bertilsson, Jarone Pinhassi, Chude Feng, Anders F. Andersson, Moritz Buck, Erik Björn
Software Mentions: 1
Published: about 4 years ago
10.1111/j.1365-2958.2008.06320.x
Functional characterization of cohesin subunit SCC1 in<i>Trypanosoma brucei</i>and dissection of mutant phenotypes in two life cycle stages
Cited by: 38
Author(s): Eva Gluenz, Reuben Sunil Kumar Sharma, Mark Carrington, Keith Gull
Software Mentions: 1
Published: over 16 years ago
10.1111/j.1365-2958.2008.06348.x
Identification and characterization of two trypanosome TFIIS proteins exhibiting particular domain architectures and differential nuclear localizations
Cited by: 6
Author(s): Pierrick Uzureau, Jan-Peter Daniels, David Walgraffe, Bill Wickstead, Étienne Pays, Keith Gull, Luc Vanhamme
Software Mentions: 1
Published: over 16 years ago
10.1093/molbev/msaa291
Phylogenomics of the <i>Maverick</i> Virus-Like Mobile Genetic Elements of Vertebrates
Cited by: 15
Author(s): Barreat Jgn., Aris Katzourakis
Software Mentions: 1
Published: almost 4 years ago
10.1080/23802359.2021.1981161
Characterization of the complete chloroplast genome of <i>Lonicera similis</i> (Caprifoliaceae)
Cited by: 1
Author(s): Xiaomei Wei, Ying Hu, Kunhua Wei, Qinghua Wu, Yong Huang, Wei Fan
Software Mentions: 1
Published: about 3 years ago
10.1080/23802359.2020.1845578
Complete chloroplast genome of a high-quality forage in north China, <i>Medicago ruthenica</i> (Fabaceae:Trifolieae)
Cited by: 3
Author(s): Jun Xie, Junping Mao, Zongren Li, Chengbo Liang, Weiyou Ou, Junwei Tang, Hua Liu, Haichun Wang, Zhongke Ji, Kazhuocairang, Yingfang Shen
Software Mentions: 1
Published: almost 4 years ago
10.1080/23802359.2020.1866463
The complete chloroplast genome of <i>Androsace mariae</i>
Cited by: 3
Author(s): Yupeng Guo, Rui Ma, Jun Xie, Qiujuan Liu, Ye Zhu, Wenjing Yang, Gao Li-na, Yupo Ma
Software Mentions: 1
Published: almost 4 years ago
10.3389/fpls.2019.00018
Unraveling the Developmental and Genetic Mechanisms Underpinning Floral Architecture in Proteaceae
Cited by: 11
Author(s): Catherine Damerval, Hélène L. Citerne, Natalia Conde e Silva, Yves Deveaux, Étienne Delannoy, Johann Joets, Franck Simonnet, Yannick M. Staedler, Jürg Schönenberger, Jennifer Yansouni, Martine Le Guilloux, Hervé Sauquet, Sophie Nadot
Software Mentions: 1
Published: almost 6 years ago
10.1099/vir.0.000209
Arterivirus nsp12 versus the coronavirus nsp16 2′-O-methyltransferase: comparison of the C-terminal cleavage products of two nidovirus pp1ab polyproteins
Cited by: 12
Author(s): Kathleen Lehmann, Lisa Hooghiemstra, Anastasia Gulyaeva, Dmitry V. Samborskiy, Jessika C. Zevenhoven-Dobbe, Eric J. Snijder, Alexander E. Gorbalenya, Clara C. Posthuma
Software Mentions: 1
Published: about 9 years ago
10.1186/1471-2148-8-159
Molecular evolution of Cide family proteins: Novel domain formation in early vertebrates and the subsequent divergence
Cited by: 44
Author(s): Congyang Wu, Yinxin Zhang, Zhirong Sun, Peng Li
Software Mentions: 1
Published: over 16 years ago
10.1534/g3.119.400913
<i>De Novo</i> Genome Assembly of <i>Populus simonii</i> Further Supports That <i>Populus simonii</i> and <i>Populus trichocarpa</i> Belong to Different Sections
Cited by: 18
Author(s): Hualong Wu, Dan Yao, Yuhua Chen, Wenguo Yang, Wei Zhao, Hua Gao, Chunfa Tong
Software Mentions: 1
Published: almost 5 years ago
10.1186/s40168-018-0563-8
Hidden in plain sight—highly abundant and diverse planktonic freshwater Chloroflexi
Cited by: 119
Author(s): Maliheh Mehrshad, Michaela M. Salcher, Yusuke Okazaki, Susumu Nakano, Karel Šimek, Adrian‐Ştefan Andrei, Rohit Ghai
Software Mentions: 1
Published: about 6 years ago
10.1111/1751-7915.12126
Gene expression of lactobacilli in murine forestomach biofilms
Cited by: 25
Author(s): Clarissa Schwab, Alexander Tøsdal Tveit, Christa Schleper, Tim Urich
Software Mentions: 1
Published: over 10 years ago
10.1186/1471-2148-8-9
The amphioxus (Branchiostoma floridae) genome contains a highly diversified set of G protein-coupled receptors
Cited by: 76
Author(s): Karl Nordström, Robert Fredriksson, Helgi B. Schiöth
Software Mentions: 1
Published: almost 17 years ago
10.3390/md17020136
Functional Characterization of OXYL, A SghC1qDC LacNAc-specific Lectin from The Crinoid Feather Star Anneissia Japonica
Cited by: 8
Author(s): Imtiaj Hasan, Marco Gerdol, Yuki Fujii, Yasuhiro Ozeki
Software Mentions: 1
Published: over 5 years ago
10.3390/md18090439
In-Depth In Silico Search for Cuttlefish (Sepia officinalis) Antimicrobial Peptides Following Bacterial Challenge of Haemocytes
Cited by: 8
Author(s): Louis Benoist, Baptiste Houyvet, Joël Henry, Matthieu Le Corre, Bruno Zanuttini, Céline Zatylny-Gaudin
Software Mentions: 1
Published: about 4 years ago
10.3390/md19090490
Marine Transcriptomics Analysis for the Identification of New Antimicrobial Peptides
Cited by: 3
Author(s): Baptiste Houyvet, Yolande Bouchon‐Navaro, Claude Bouchon, Matthieu Le Corre, Céline Zatylny-Gaudin
Software Mentions: 1
Published: about 3 years ago
10.1242/bio.035519
Anomalies in the valve morphogenesis of the centric diatom alga Aulacoseira islandica caused by microtubule inhibitors
Cited by: 7
Author(s): Yekaterina D. Bedoshvili, К. В. Гнеушева, Maria Popova, Morozov Aa, Ye. V. Likhoshway
Software Mentions: 1
Published: almost 7 years ago
10.7554/eLife.51599
Resurrection of a global, metagenomically defined gokushovirus
Cited by: 26
Author(s): Paul C. Kirchberger, Howard Ochman
Software Mentions: 1
Published: over 4 years ago
10.1186/1471-2229-5-15
Highly syntenic regions in the genomes of soybean, Medicago truncatula, and Arabidopsis thaliana
Cited by: 90
Author(s): Joann Mudge, Steven B. Cannon, Péter Kaló, Giles Oldroyd, Bruce A. Roe, Christopher D. Town, Nevin D. Young
Software Mentions: 1
Published: over 19 years ago
10.1186/1471-2164-9-558
Evolutionary origin and genomic organisation of runt-domain containing genes in arthropods
Cited by: 19
Author(s): Elizabeth J. Duncan, Megan J. Wilson, James M Smith, Peter K. Dearden
Software Mentions: 1
Published: almost 16 years ago
10.1038/s41438-021-00514-1
Genomic analysis uncovers functional variation in the C-terminus of anthocyanin-activating MYB transcription factors
Cited by: 20
Author(s): Jessica A. Rodrigues, Richard V. Espley, Andrew C. Allan
Software Mentions: 1
Published: over 3 years ago
10.3390/insects11020101
De Novo Transcriptomic Resources in the Brain of Vespa velutina for Invasion Control
Cited by: 2
Author(s): Miao Wang, Hanyu Li, Huoqing Zheng, Luping Zhao, Xiao‐Feng Xue, Liming Wu
Software Mentions: 1
Published: almost 5 years ago
10.1093/jxb/erw217
Evolutionary divergence of phytochrome protein function in<i>Zea mays</i>PIF3 signaling
Cited by: 27
Author(s): Indrajit Kumar, Kankshita Swaminathan, Karen A. Hudson, Matthew E. Hudson
Software Mentions: 1
Published: over 8 years ago
10.1186/1471-2164-8-102
An insight into the sialome of the oriental rat flea, Xenopsylla cheopis (Rots)
Cited by: 63
Author(s): John F. Andersen, B. Joseph Hinnebusch, David A. Lucas, Thomas P. Conrads, Timothy D. Veenstra, Van My Pham, José M. C. Ribeiro
Software Mentions: 1
Published: over 17 years ago
10.3390/proteomes2010072
Is Five Percent Too Small? Analysis of the Overlaps between Disorder, Coiled Coil and Collagen Predictions in Complete Proteomes
Cited by: 5
Author(s): Zoltán Gáspári
Software Mentions: 1
Published: almost 11 years ago
10.1038/sdata.2018.114
Viruses of the Nahant Collection, characterization of 251 marine Vibrionaceae viruses
Cited by: 26
Author(s): Kathryn M. Kauffman, Julia Brown, Raghav Sharma, David VanInsberghe, Joseph Elsherbini, Martin F. Polz, Libusha Kelly
Software Mentions: 1
Published: over 6 years ago
10.1186/1471-2164-8-97
A kingdom-specific protein domain HMM library for improved annotation of fungal genomes
Cited by: 13
Author(s): Intikhab Álam, Simon J. Hubbard, Stephen G. Oliver, Magnus Rattray
Software Mentions: 1
Published: almost 18 years ago
10.1186/1471-2164-12-287
Site-Specific Mobilization of Vinyl Chloride Respiration Islands by a Mechanism Common in Dehalococcoides
Cited by: 54
Author(s): Paul J. McMurdie, Laura Hug, Elizabeth A. Edwards, Susan Holmes, Alfred M. Spormann
Software Mentions: 1
Published: over 13 years ago
10.1186/1471-2164-7-197
An inventory of mucin genes in the chicken genome shows that the mucin domain of Muc13 is encoded by multiple exons and that ovomucin is part of a locus of related gel-forming mucins
Cited by: 68
Author(s): Tiange Lang, Gunnar C. Hansson, Tore Samuelsson
Software Mentions: 1
Published: over 18 years ago
10.1038/srep23959
Protein Repeats from First Principles
Cited by: 6
Author(s): Pablo Turjanski, R. Gonzalo Parra, Rocío Espada, Verónica Becher, Diego U. Ferreiro
Software Mentions: 1
Published: over 8 years ago
10.1038/srep28350
The evolution of genes encoding for green fluorescent proteins: insights from cephalochordates (amphioxus)
Cited by: 4
Author(s): Jia-Xing Yue, Nicholas D. Holland, Linda Z. Holland, Dimitri D. Deheyn
Software Mentions: 1
Published: over 8 years ago
10.1038/s41598-018-26532-z
Ubiquitin Proteasome pathway proteins as potential drug targets in parasite Trypanosoma cruzi
Cited by: 28
Author(s): Ishita Gupta, Suruchi Aggarwal, Kanika Singh, Amit Kumar Yadav, Sameena Khan
Software Mentions: 1
Published: over 6 years ago
10.1038/s41598-018-29673-3
In silico analyses of protein glycosylating genes in the helminth Fasciola hepatica (liver fluke) predict protein-linked glycan simplicity and reveal temporally-dynamic expression profiles
Cited by: 11
Author(s): Paul McVeigh, Krystyna Cwiklinski, Garcia-Campos Andres, Grace Mulcahy, Sandra M. O’Neill, Aaron G. Maule, John P. Dalton
Software Mentions: 1
Published: over 6 years ago
10.1186/1741-7007-7-68
TonB-dependent transporters and their occurrence in cyanobacteria
Cited by: 61
Author(s): Oliver Mirus, Sascha Strauß, Kerstin Nicolaisen, Arndt von Haeseler, Enrico Schleiff
Software Mentions: 1
Published: about 15 years ago
10.1038/s41598-021-82369-z
First finding of free-living representatives of Prokinetoplastina and their nuclear and mitochondrial genomes
Cited by: 11
Author(s): Denis V. Tikhonenkov, Ryan M.R. Gawryluk, Alexander P. Mylnikov, Patrick J. Keeling
Software Mentions: 1
Published: almost 4 years ago
10.3390/ijms13045112
Genome-Wide Identification and in Silico Analysis of Poplar Peptide Deformylases
Cited by: 4
Author(s): Chang-Cai Liu, Baoguang Liu, Zhiwei Yang, Chunming Li, Baichen Wang, Chuanping Yang
Software Mentions: 1
Published: over 12 years ago
10.1186/s40793-015-0120-z
Permanent draft genome sequence of the probiotic strain Propionibacterium freudenreichii CIRM-BIA 129 (ITG P20)
Cited by: 8
Author(s): Hélène Falentin, Stéphanie-Marie Deutsch, Valentin Loux, Amal Plaudet Hammani, Julien Buratti, Sandrine Parayre, Victoria Chuat, Valérie Barbe, Jean‐Marc Aury, Gwenaël Jan, Yves Le Loir
Software Mentions: 1
Published: almost 9 years ago
10.3390/toxins10010029
A Dipteran’s Novel Sucker Punch: Evolution of Arthropod Atypical Venom with a Neurotoxic Component in Robber Flies (Asilidae, Diptera)
Cited by: 28
Author(s): Stephan Drukewitz, Nico Fuhrmann, Eivind A. B. Undheim, Alexander Blanke, Julien Giribaldi, Rosanna Mary, Guillaume Laconde, Sébastien Dutertre, Björn M. von Reumont
Software Mentions: 1
Published: almost 7 years ago
10.1186/1471-2164-11-490
The genome of Geobacter bemidjiensis, exemplar for the subsurface clade of Geobacter species that predominate in Fe(III)-reducing subsurface environments.
Cited by: 56
Author(s): Muktak Aklujkar, Nelson D. Young, Dawn E. Holmes, Milind A. Chavan, Carla Risso, Hajnalka Kiss, Cliff Han, Miriam Land, Derek R. Lovley
Software Mentions: 1
Published: almost 15 years ago
10.1186/1471-2164-14-564
The root transcriptome for North American ginseng assembled and profiled across seasonal development
Cited by: 34
Author(s): Di Wu, Ryan E Austin, Sijun Zhou, Dan Brown
Software Mentions: 1
Published: over 11 years ago
10.3390/ijms15021852
In Silico Identification and Characterization of N-Terminal Acetyltransferase Genes of Poplar (Populus trichocarpa)
Cited by: 9
Author(s): Hang-Yong Zhu, Chunming Li, Lifeng Wang, Hui Bai, Yanping Li, Wenxi Yu, Dean Xia, Chang-Cai Liu
Software Mentions: 1
Published: almost 11 years ago
10.1371/journal.pone.0223581
Identification of DNA methyltransferases and demethylases in Solanum melongena L., and their transcription dynamics during fruit development and after salt and drought stresses
Cited by: 17
Author(s): Andrea Moglia, Silvia Gianoglio, Alberto Acquadro, Danila Valentino, A. Milani, Sergio Lanteri, Cinzia Comino
Software Mentions: 1
Published: about 5 years ago
10.1186/s12864-018-5019-9
Complete genome of streamlined marine actinobacterium Pontimonas salivibrio strain CL-TW6T adapted to coastal planktonic lifestyle
Cited by: 11
Author(s): Byung Cheol Cho, Stephen C. Hardies, Gwang Il Jang, Chung Yeon Hwang
Software Mentions: 1
Published: over 6 years ago
10.1186/s12864-021-07600-7
Genome-wide identification and transcriptional characterization of DNA methyltransferases conferring temperature-sensitive male sterility in wheat
Cited by: 3
Author(s): Dan Li, Biane Feng, Yongjie Liu, Jie Gong, Yimiao Tang, Liping Zhang, Bao-sen Pang, Renwei Sun, Fengting Zhang, Zhaobo Chen, Yongbo Wang, Xianchao Chen, Aiping Wang, Changping Zhao, Shiqing Gao
Software Mentions: 1
Published: over 3 years ago
10.1371/journal.pone.0058681
Identification and Analysis of the Acetylated Status of Poplar Proteins Reveals Analogous N-Terminal Protein Processing Mechanisms with Other Eukaryotes
Cited by: 8
Author(s): Chang-Cai Liu, Hang-Yong Zhu, Xueyi Dong, De-Li Ning, Hongxia Wang, Weihua Li, Chuanping Yang, Baichen Wang
Software Mentions: 1
Published: over 11 years ago
10.1371/journal.pone.0181669
The genome-wide identification and transcriptional levels of DNA methyltransferases and demethylases in globe artichoke
Cited by: 11
Author(s): Silvia Gianoglio, Andrea Moglia, Alberto Acquadro, Cinzia Comino, Ezio Portis
Software Mentions: 1
Published: over 7 years ago
10.1371/journal.pone.0233865
Large Ankyrin repeat proteins are formed with similar and energetically favorable units
Cited by: 12
Author(s): Ezequiel A. Galpern, María I. Freiberger, Diego U. Ferreiro
Software Mentions: 1
Published: over 4 years ago
10.1002/ece3.5035
Clonal diversity impacts coral cover in<i>Acropora cervicornis</i>thickets: Potential relationships between density, growth, and polymorphisms
Cited by: 20
Author(s): Crawford Drury, Justin B. Greer, Iliana B. Baums, Brooke Gintert, Diego Lirman
Software Mentions: 1
Published: over 5 years ago
10.1371/journal.pone.0009502
Proteomic Analysis of Tardigrades: Towards a Better Understanding of Molecular Mechanisms by Anhydrobiotic Organisms
Cited by: 54
Author(s): Elham Schokraie, Agnes Hotz‐Wagenblatt, Uwe Warnken, Brahim Mali, Marcus Frohme, Frank Förster, Thomas Dandekar, Steffen Hengherr, Ralph O. Schill, Martina Schnölzer
Software Mentions: 1
Published: over 14 years ago
10.1371/journal.pone.0143336
Genome Analysis of Staphylococcus agnetis, an Agent of Lameness in Broiler Chickens
Cited by: 42
Author(s): Adnan A.K. Alrubaye, Matthew Brian Couger, Sohita Ojha, Jeff Pummill, Joseph A. Koon, Robert F. Wideman, David B. Rhoads
Software Mentions: 1
Published: almost 9 years ago
10.1002/evl3.142
Sex is determined by XY chromosomes across the radiation of dioecious<i>Nepenthes</i>pitcher plants
Cited by: 11
Author(s): Mathias Scharmann, T. Ulmar Grafe, Faizah Metali, Alex Widmer
Software Mentions: 1
Published: almost 5 years ago
10.3390/antibiotics9010037
Molecular Diversity of Mytilin-Like Defense Peptides in Mytilidae (Mollusca, Bivalvia)
Cited by: 8
Author(s): Samuele Greco, Marco Gerdol, Paolo Edomi, Alberto Pallavicini
Software Mentions: 1
Published: almost 5 years ago
10.1186/1471-2148-13-262
Evolution and dynamics of megaplasmids with genome sizes larger than 100 kb in the Bacillus cereus group
Cited by: 33
Author(s): Jinshui Zheng, Donghai Peng, Lifang Ruan, Ming Sun
Software Mentions: 1
Published: almost 11 years ago
10.1111/j.1574-6976.2008.00130.x
Protein secretion and outer membrane assembly in<i>Alphaproteobacteria</i>
Cited by: 79
Author(s): Xenia Gatsos, Andrew Perry, Khatira Anwari, Pavel Doležal, P. Peter Wolynec, Vladimir A Likić, Anthony W. Purcell, Susan K. Buchanan, Trevor Lithgow
Software Mentions: 1
Published: about 16 years ago
10.3390/ijms22169056
Diatoms and Plants Acyl-CoA:lysophosphatidylcholine Acyltransferases (LPCATs) Exhibit Diverse Substrate Specificity and Biochemical Properties
Cited by: 5
Author(s): Ada Połońska, Katarzyna Jasieniecka‐Gazarkiewicz, Lingjie You, Xiahui Hao, Sylwia Klińska, Yiqin Gong, Antoni Banaś
Software Mentions: 1
Published: over 3 years ago