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: bioconductor: MAST

https://packages.ecosyste.ms/registries/bioconductor.org/packages/MAST

Model-based Analysis of Single Cell Transcriptomics
1 version
Latest release: about 1 year ago
6 dependent packages
130,521 downloads total

Papers Mentioning MAST 668

10.7554/eLife.04517
Enhanced stability and polyadenylation of select mRNAs support rapid thermogenesis in the brown fat of a hibernator
Cited by: 28
Author(s): Katharine R. Grabek, Cecilia Diniz Behn, Gregory S. Barsh, Jay R. Hesselberth, Sandra L. Martin
Software Mentions: 2
Published: almost 10 years ago
10.1186/s13756-019-0572-9
Extended spectrum beta-lactamase producing Enterobacterales faecal carriage in a medical intensive care unit: low rates of cross-transmission and infection
Cited by: 15
Author(s): Renaud Prével, Alexandre Boyer, Fatima M’Zali, Thibaut Cockenpot, A. Lashéras, Véronique Dubois, Didier Gruson
Software Mentions: 2
Published: over 5 years ago
10.1093/infdis/jiaa002
Neisseria gonorrhoeae Population Genomics: Use of the Gonococcal Core Genome to Improve Surveillance of Antimicrobial Resistance
Cited by: 29
Author(s): Odile B. Harrison, Ana Cehovin, Jessica Skett, Keith A. Jolley, Paola Massi, Caroline A. Genco, Christoph M. Tang, Martin C. J. Maiden
Software Mentions: 2
Published: over 4 years ago
10.1673/031.008.5301
Odorant Receptor C-Terminal Motifs in Divergent Insect Species
Cited by: 15
Author(s): Raymond R. Miller, Zhijian Tu
Software Mentions: 2
Published: about 16 years ago
10.2196/23314
Selecting Mobile Health Technologies for Electronic Health Record Integration: Case Study
Cited by: 4
Author(s): Ryan Shaw, Marissa Stroo, Christopher Fiander, Katlyn McMillan
Software Mentions: 2
Published: about 4 years ago
10.1016/j.gpb.2019.11.006
MicroRNAs Are Involved in Maize Immunity Against Fusarium verticillioides Ear Rot
Cited by: 12
Author(s): Zijian Zhou, Yan Cao, Tao Li, Xinghao Wang, Jiafa Chen, Hang He, Wen Yao, Jianyu Wu, Huiyong Zhang
Software Mentions: 2
Published: over 4 years ago
10.1007/s11357-021-00347-9
Ageing affects subtelomeric DNA methylation in blood cells from a large European population enrolled in the MARK-AGE study
Cited by: 2
Author(s): Maria Giulia Bacalini, Anna Reale, Marco Malavolta, Fabio Ciccarone, María Moreno‐Villanueva, Martijn E.T. Dollé, Eugène Jansen, Tilman Grune, Efstathios S. Gonos, Christiane Schön, J. Bernhardt, Beatrix Grubeck‐Loebenstein, Ewa Sikora, Olivier Toussaint, Florence Debacq‐Chainiaux, Miriam Capri, Antti Hervonen, Mikko Hurme, P. Eline Slagboom, Nicolle Breusing, Valentina Aversano, Stefano Tagliatesta, Claudio Franceschi, Marı́a A. Blasco, Alexander Bürkle, Paola Caiafa, Michele Zampieri
Software Mentions: 2
Published: over 3 years ago
10.1093/gigascience/giy133
NAT/NCS2-hound: a webserver for the detection and evolutionary classification of prokaryotic and eukaryotic nucleobase-cation symporters of the NAT/NCS2 family
Cited by: 8
Author(s): Anargyros Chaliotis, Panayotis Vlastaridis, Chrysoula Ntountoumi, Maria Botou, Vassilis Yalelis, Panayiota Lazou, Ekaterini Tatsaki, Dimitris Mossialos, Stathis Frillingos, Grigoris D. Amoutzias
Software Mentions: 2
Published: about 6 years ago
10.1186/1471-2105-13-25
Predicting tissue specific cis-regulatory modules in the human genome using pairs of co-occurring motifs
Cited by: 21
Author(s): Hani Z. Girgis, Ivan Ovcharenko
Software Mentions: 2
Published: almost 13 years ago
10.1186/1471-2105-8-96
Linear array of conserved sequence motifs to discriminate protein subfamilies: study on pyridine nucleotide-disulfide reductases
Cited by: 9
Author(s): César L. Ávila, Viviana Andrea Rapisarda, Ricardo N. Farı́as, Javier De Las Rivas, Rosana Chehı́n
Software Mentions: 2
Published: over 17 years ago
10.15171/hpp.2015.019
Measurement Scales of Suicidal Ideation and Attitudes: A Systematic Review Article
Cited by: 51
Author(s): Parvin Ghasemi, Abdolreza Shaghaghi, Hamid Allahverdipour
Software Mentions: 2
Published: about 9 years ago
10.1186/s12955-020-01388-y
Factors associated with health related quality of life of patients with stroke in Sri Lankan context
Cited by: 8
Author(s): Pramudika Nirmani Kariyawasam, K.D. Pathirana, Chandana Hewage
Software Mentions: 2
Published: over 4 years ago
10.1186/s41065-019-0106-8
bicoid RNA localization requires the trans-Golgi network
Cited by: 4
Author(s): Xiaoli Cai, Khalid Fahmy, Stefan Baumgärtner
Software Mentions: 2
Published: about 5 years ago
10.1186/1748-7188-9-16
Enumerating all maximal frequent subtrees in collections of phylogenetic trees
Cited by: 1
Author(s): A. Deepak, David Fernández-Baca
Software Mentions: 2
Published: over 10 years ago
10.2196/ijmr.4270
Large Controlled Observational Study on Remote Monitoring of Pacemakers and Implantable Cardiac Defibrillators: A Clinical, Economic, and Organizational Evaluation
Cited by: 29
Author(s): Claudio Dario, P Delise, Lorenzo Gubian, Claudio Saccavini, Glauco Brandolino, Silvia Mancin
Software Mentions: 2
Published: almost 9 years ago
10.1186/s12864-015-1216-y
Genome-wide analysis of the R2R3-MYB transcription factor genes in Chinese cabbage (Brassica rapa ssp. pekinensis) reveals their stress and hormone responsive patterns
Cited by: 64
Author(s): Zhen Wang, Jun Tang, Rong Hu, Peng Wu, Xilin Hou, Xiaoming Song, Ai‐Sheng Xiong
Software Mentions: 2
Published: almost 10 years ago
10.7448/IAS.18.1.20226
The green shoots of a novel training programme: progress and identified key actions to providing services to MSM at Kenyan health facilities
Cited by: 26
Author(s): Elise van der Elst, Bernadette Kombo, Evans Gichuru, Anisa Omar, Helgar Musyoki, Susan M. Graham, Adrian D. Smith, Eduard J. Sanders, Don Operario
Software Mentions: 2
Published: almost 10 years ago
10.1186/s13223-021-00525-6
Non-association between low vitamin d levels and aeroallergen-positivity evaluated using multiple allergen simultaneous test in Korean adults
Cited by: 0
Author(s): Jee Hye Wee, Sung Woo Cho, Jeong Whun Kim, Chae Seo Rhee
Software Mentions: 2
Published: over 3 years ago
10.4103/0974-2700.43181
Military anti-shock garment: Historical relic or a device with unrealized potential?
Cited by: 18
Author(s): Fatimah Lateef, Tan Kelvin
Software Mentions: 2
Published: almost 17 years ago
10.1111/jeu.12524
Rhizarian ‘Novel Clade 10’ Revealed as Abundant and Diverse Planktonic and Terrestrial Flagellates, including <i>Aquavolon</i> n. gen.
Cited by: 22
Author(s): David Bass, Denis V. Tikhonenkov, Rachel Foster, Patricia Dyal, Jan Janouškovec, Patrick J. Keeling, Michelle Gardner, Sigrid Neuhauser, Hanna Hartikainen, Alexander P. Mylnikov, Cédric Berney
Software Mentions: 2
Published: over 6 years ago
10.1186/1471-2164-13-191
Comparative genome analysis of central nitrogen metabolism and its control by GlnR in the class Bacilli
Cited by: 36
Author(s): Tom Groot Kormelink, Eric Koenders, Yanick Hagemeijer, Lex Overmars, Roland J. Siezen, Willem M. de Vos, Christof Francke
Software Mentions: 2
Published: over 12 years ago
10.1093/jxb/erv331
Three genes encoding AOP2, a protein involved in aliphatic glucosinolate biosynthesis, are differentially expressed in<i>Brassica rapa</i>
Cited by: 28
Author(s): Jifang Zhang, Zhiyuan Liu, Jiansheng Liang, Jian Wu, Feng Cheng, Xiaowu Wang
Software Mentions: 2
Published: over 9 years ago
10.1371/journal.ppat.0020050
The Malarial Host-Targeting Signal Is Conserved in the Irish Potato Famine Pathogen
Cited by: 211
Author(s): Souvik Bhattacharjee, N. Luisa Hiller, Konstantinos Liolios, Joe Win, Thirumala‐Devi Kanneganti, Carolyn A. Young, Sophien Kamoun, Kasturi Haldar
Software Mentions: 2
Published: over 18 years ago
10.1371/journal.ppat.1000084
The Malaria Secretome: From Algorithms to Essential Function in Blood Stage Infection
Cited by: 139
Author(s): Christiaan van Ooij, Pamela A. Tamez, Souvik Bhattacharjee, N. Luisa Hiller, Travis Harrison, Konstantinos Liolios, Taco W. A. Kooij, Jai Ramesar, Bharath Balu, John Adams, Andrew P. Waters, Chris J. Janse, Kasturi Haldar
Software Mentions: 2
Published: over 16 years ago
10.1186/1471-2164-11-286
Most transcription factor binding sites are in a few mosaic classes of the human genome
Cited by: 1
Author(s): Katharine Evans
Software Mentions: 2
Published: almost 15 years ago
10.1371/journal.ppat.1003844
Inflammation Fuels Colicin Ib-Dependent Competition of Salmonella Serovar Typhimurium and E. coli in Enterobacterial Blooms
Cited by: 92
Author(s): Lubov Nedialkova, Rémy Denzler, Martin B. Koeppel, Manuel Diehl, Diana Ring, Thorsten Wille, Roman G. Gerlach, Bärbel Stecher
Software Mentions: 2
Published: almost 11 years ago
10.1186/1759-8753-2-4
Plant centromeric retrotransposons: a structural and cytogenetic perspective
Cited by: 161
Author(s): Pavel Neumann, Alice Navrátilová, Andrea Koblížková, Eduard Kejnovský, Eva Hřibová, Roman Hobza, Alex Widmer, Jaroslav Doležel, Jiří Macas
Software Mentions: 2
Published: almost 14 years ago
10.1371/journal.ppat.1006445
Combined single-cell quantitation of host and SIV genes and proteins ex vivo reveals host-pathogen interactions in individual cells
Cited by: 24
Author(s): Diane L. Bolton, Kathleen A. McGinnis, Greg Finak, Pratip K. Chattopadhyay, Raphaël Gottardo, Mario Roederer
Software Mentions: 2
Published: over 7 years ago
10.1093/bioinformatics/btv005
NLR-parser: rapid annotation of plant NLR complements
Cited by: 99
Author(s): Burkhard Steuernagel, Florian Jupe, Kamil Witek, Jonathan D. G. Jones, Brande B. H. Wulff
Software Mentions: 2
Published: almost 10 years ago
10.1099/mic.0.000664
Antisense transcription in Pseudomonas aeruginosa
Cited by: 10
Author(s): Denitsa Eckweiler, Susanne Häußler
Software Mentions: 2
Published: over 6 years ago
10.1371/journal.ppat.1008766
YAP in epithelium senses gut barrier loss to deploy defenses against pathogens
Cited by: 14
Author(s): Yi‐Cheng Ma, Zhongshan Yang, Lan-Qing Ma, Ruiwen Shu, Cheng‐Gang Zou, Ke‐Qin Zhang
Software Mentions: 2
Published: about 4 years ago
10.1002/mbo3.57
Phylogenetic composition and distribution of picoeukaryotes in the hypoxic northwestern coast of the <scp>G</scp> ulf of <scp>M</scp> exico
Cited by: 19
Author(s): Emma Rocke, Hongmei Jing, Hongbin Liu
Software Mentions: 2
Published: almost 12 years ago
10.1099/mgen.0.000076
NGMASTER: in silico multi-antigen sequence typing for Neisseria gonorrhoeae
Cited by: 18
Author(s): Jason C Kwong, Anders Gonçalves da Silva, Kristin Dyet, Deborah A. Williamson, Timothy P. Stinear, Benjamin P Howden, Torsten Seemann
Software Mentions: 2
Published: about 8 years ago
10.1016/j.plabm.2016.01.002
Comparison and clinical utility evaluation of four multiple allergen simultaneous tests including two newly introduced fully automated analyzers
Cited by: 11
Author(s): John Hoon Rim, Borae G. Park, Jeong-Ho Kim, Hyun Sook Kim
Software Mentions: 2
Published: over 8 years ago
10.1007/s13238-018-0566-z
Effective and precise adenine base editing in mouse zygotes
Cited by: 24
Author(s): Puping Liang, Hongwei Sun, Xiya Zhang, Xiaowei Xie, Jinran Zhang, Yaofu Bai, Xueling Ouyang, Shengyao Zhi, Yuanyan Xiong, Wenbin Ma, Dan Liŭ, Junjiu Huang, Zhou Songyang
Software Mentions: 2
Published: over 6 years ago
10.1186/s41155-020-00157-6
Brief Montreal-Toulouse Language Assessment Battery: adaptation and content validity
Cited by: 1
Author(s): Raira Fernanda Altmann, Karin Zazo Ortiz, Tainá Rossato Benfica, Eduarda P. Oliveira, Karina Carlesso Pagliarin
Software Mentions: 2
Published: over 4 years ago
10.1007/s00702-021-02390-4
The association of the 5-HTTLPR polymorphism and the response to different stressors in healthy males
Cited by: 3
Author(s): Leandra Kuhn, Hannes Noack, Nadine Skoluda, Lisa Wagels, Ann-Kristin Röhr, Christina Schulte, Sana Eisenkolb, Vanessa Nieratschker, Birgit Derntl, Ute Habel
Software Mentions: 2
Published: over 3 years ago
10.1186/s12934-019-1258-y
Phosphate regulator PhoP directly and indirectly controls transcription of the erythromycin biosynthesis genes in Saccharopolyspora erythraea
Cited by: 13
Author(s): Ya Ming Xu, Di You, Lili Yao, Xiaohe Chu, Bang‐Ce Ye
Software Mentions: 2
Published: almost 5 years ago
10.1186/1471-2105-11-554
FITBAR: a web tool for the robust prediction of prokaryotic regulons
Cited by: 28
Author(s): Jacques Oberto
Software Mentions: 2
Published: about 14 years ago
10.1186/1742-4690-11-53
Human immunodeficiency virus Tat associates with a specific set of cellular RNAs
Cited by: 9
Author(s): Russell D. Bouwman, Anne L. Palser, Chris M. Parry, Eve Coulter, Jane Rasaiyaah, Paul Kellam, Richard G. Jenner
Software Mentions: 2
Published: over 10 years ago
10.1126/sciadv.1500686
Accretion-induced variability links young stellar objects, white dwarfs, and black holes
Cited by: 56
Author(s): Simone Scaringi, Thomas J. Maccarone, Elmar Körding, Christian Knigge, S. Vaughan, T. R. Marsh, E. Aranzana, V. S. Dhillon, S. C. C. Barros
Software Mentions: 2
Published: about 9 years ago
10.1186/1471-2105-8-463
Identification of DNA-binding proteins using support vector machines and evolutionary profiles
Cited by: 230
Author(s): Manish Kumar, M. Michael Gromiha, Gajendra P. S. Raghava
Software Mentions: 2
Published: almost 17 years ago
10.1186/1471-2458-12-S2-A21
Selection of HMG-coenzyme A reductase inhibitors using multiattribute scoring tool
Cited by: 0
Author(s): Azuana Ramli, Syed Mohamed Aljunid, Saperi Sulong, Faridah Aryani Mohd Yusof
Software Mentions: 2
Published: about 12 years ago
10.1186/1471-2105-14-343
Transferring functional annotations of membrane transporters on the basis of sequence similarity and sequence motifs
Cited by: 21
Author(s): Ahmad Barghash, Volkhard Helms
Software Mentions: 2
Published: almost 11 years ago
10.1186/1471-2105-14-S4-S1
Evaluation and integration of existing methods for computational prediction of allergens
Cited by: 46
Author(s): Jing Wang, Yabin Yu, Yunan Zhao, Dabing Zhang, Jing Li
Software Mentions: 2
Published: over 11 years ago
10.1186/1752-0509-5-S2-S7
Combinatorial motif analysis of regulatory gene expression in Mafb deficient macrophages
Cited by: 5
Author(s): Mariko Morita, Megumi Nakamura, Michito Hamada, Satoru Takahashi
Software Mentions: 2
Published: almost 14 years ago
10.1186/s12879-021-06262-w
Antimicrobial resistance and molecular epidemiological typing of Neisseria gonorrhoeae isolates from Kyrgyzstan in Central Asia, 2012 and 2017
Cited by: 5
Author(s): Saliya Karymbaeva, Iryna Boiko, Susanne Jacobsson, Галина Григорьевна Мамаева, А. Ибраева, Dilara Usupova, Daniel Golparian, Magnus Unemo
Software Mentions: 2
Published: over 3 years ago
10.1186/s12879-015-0988-7
Molecular epidemiology of Neisseria gonorrhoeae using multi-antigen sequence typing and pulse-field gel electrophoresis in highly endemic Western Australian populations
Cited by: 9
Author(s): Lyn C. O’Reilly, Namraj Goire, Rachel E. Fisk, David Speers
Software Mentions: 2
Published: over 9 years ago
10.1038/srep29311
Genome-wide analysis of HIF-2α chromatin binding sites under normoxia in human bronchial epithelial cells (BEAS-2B) suggests its diverse functions
Cited by: 9
Author(s): Meng Chang Lee, Hsin Ju Huang, Tzu Hao Chang, Hung‐Tsai Huang, Shen Yuan Hsieh, Yi Siou Chen, Wei-Yuan Chou, Chiao–Hsi Chiang, Chao Hung Lai, Chia Yang Shiau
Software Mentions: 2
Published: over 8 years ago
10.1186/1471-2334-13-570
Neisseria gonorrhoeae and extended-spectrum cephalosporins in California: surveillance and molecular detection of mosaic penA
Cited by: 30
Author(s): Severin Gose, Duylinh Nguyen, Daniella Lowenberg, Michael C. Samuel, Heidi M. Bauer, Mark Pandori
Software Mentions: 2
Published: almost 11 years ago
10.1038/srep32474
Identification of p53-target genes in Danio rerio
Cited by: 10
Author(s): Barbara Mandriani, Stefano Castellana, Carmela Rinaldi, Marta Manzoni, Santina Venuto, Eva Rodriguez-Aznar, Juan Galceran, M. Ángela Nieto, Giuseppe Borsani, Eugenio Monti, Tommaso Mazza, Giuseppe Merla, Lucia Micale
Software Mentions: 2
Published: about 8 years ago
10.1038/srep32517
Identification and characterization of the GhHsp20 gene family in Gossypium hirsutum
Cited by: 27
Author(s): Wei Ma, Ting Zhao, Jie Li, Bingliang Liu, Lei Fang, Yan Hu, Tianzhen Zhang
Software Mentions: 2
Published: about 8 years ago
10.1038/srep32673
Genome-wide identification and comparison of legume MLO gene family
Cited by: 37
Author(s): Nicolás Rispail, Diego Rubiales
Software Mentions: 2
Published: about 8 years ago
10.1155/2013/340513
Comparison of Three Multiple Allergen Simultaneous Tests: RIDA Allergy Screen, MAST Optigen, and Polycheck Allergy
Cited by: 22
Author(s): Minje Han, Sue Shin, Hyewon Park, Kyoung Un Park, Myoung Hee Park, Eun Young Song
Software Mentions: 2
Published: almost 12 years ago
10.1038/srep45456
Phylogenomic evolutionary surveys of subtilase superfamily genes in fungi
Cited by: 37
Author(s): Juan Li, Fangyi Gu, Ru‐Nian Wu, Jinkui Yang, Ke‐Qin Zhang
Software Mentions: 2
Published: over 7 years ago
10.1038/s41598-017-00951-w
Identification and Characterization of Differentially-Regulated Type IVb Pilin Genes Necessary for Predation in Obligate Bacterial Predators
Cited by: 25
Author(s): Ofir Avidan, Margarita Petrenko, René Becker, Sebastian Beck, Michael Linscheid, Shmuel Pietrokovski, Édouard Jurkevitch
Software Mentions: 2
Published: over 7 years ago
10.1038/s41598-017-05405-x
A Novel Dual Eigen-Analysis of Mouse Multi-Tissues’ Expression Profiles Unveils New Perspectives into Type 2 Diabetes
Cited by: 4
Author(s): Lei M. Li, Xiuxiu Liu, Lin Wang, Yong Wang, Xiuqin Liu, Tian Xue, Fuzhou Gong, Li Shen, Xiao Peng
Software Mentions: 2
Published: over 7 years ago
10.1186/s12913-021-06929-9
Facilitators and barriers for the implementation of telemedicine from a local government point of view - a cross-sectional survey in Germany
Cited by: 12
Author(s): Maja Maria Weißenfeld, Katja Goetz, Jost Steinhäuser
Software Mentions: 2
Published: about 3 years ago
10.1371/journal.pgen.1005962
Staphylococcus aureus Transcriptome Architecture: From Laboratory to Infection-Mimicking Conditions
Cited by: 147
Author(s): Ulrike Mäder, Pierre Nicolas, Maren Depke, Jan Pané‐Farré, Michel Débarbouillé, Magdalena M. van der Kooi-Pol, Cyprien Guérin, Sandra Dèrozier, Aurélia Hiron, Hanne Østergaard Jarmer, Aurélie Leduc, Stephan Michalik, Ewoud Reilman, Marc Schaffer, Frank Schmidt, Philippe Bessières, Philippe Naveilhan, Michael Hecker, Tarek Msadek, Uwe Völker, Jan Maarten van Dijl
Software Mentions: 2
Published: over 8 years ago
10.7554/eLife.12188
Inference of gene regulation functions from dynamic transcriptome data
Cited by: 13
Author(s): Patrick Hillenbrand, Kerstin Maier, Patrick Cramer, Ulrich Gerland
Software Mentions: 2
Published: about 8 years ago
10.1371/journal.pone.0027693
Atlantic Bluefin Tuna: A Novel Multistock Spatial Model for Assessing Population Biomass
Cited by: 96
Author(s): Nathan Taylor, Murdoch K. McAllister, Gareth L. Lawson, Tom Carruthers, Barbara A. Block
Software Mentions: 2
Published: almost 13 years ago
10.1038/s41598-017-09121-4
Genome-wide identification and expression analysis of E2 ubiquitin-conjugating enzymes in tomato
Cited by: 17
Author(s): Bhaskar Sharma, Tarun Kumar Bhatt
Software Mentions: 2
Published: over 7 years ago
10.1371/journal.pone.0115149
Computational Identification and Systematic Classification of Novel Cytochrome P450 Genes in Salvia miltiorrhiza
Cited by: 44
Author(s): Haimei Chen, Bin Wu, David R. Nelson, Kai Wu, Chang Liu
Software Mentions: 2
Published: almost 10 years ago
10.1371/journal.pone.0059357
Variability in the Insect and Plant Adhesins, Mad1 and Mad2, within the Fungal Genus Metarhizium Suggest Plant Adaptation as an Evolutionary Force
Cited by: 19
Author(s): Michael Wyrebek, Michael Bidochka
Software Mentions: 2
Published: over 11 years ago
10.1371/journal.pone.0137184
The LysE Superfamily of Transport Proteins Involved in Cell Physiology and Pathogenesis
Cited by: 24
Author(s): Brian V Tsu, Milton H. Saier
Software Mentions: 2
Published: about 9 years ago
10.1038/s41598-017-09199-w
Exploring dengue genome to construct a multi-epitope based subunit vaccine by utilizing immunoinformatics approach to battle against dengue infection
Cited by: 210
Author(s): Mudassar Ali, Rajan Kumar Pandey, Nazia Khatoon, Aruna Narula, Amit Mishra, Vijay Kumar Prajapati
Software Mentions: 2
Published: about 7 years ago
10.1371/journal.pgen.1000848
Genome-Wide Identification of Binding Sites Defines Distinct Functions for Caenorhabditis elegans PHA-4/FOXA in Development and Environmental Response
Cited by: 160
Author(s): Mingkang Zhong, Wei Niu, Zhi John Lu, Mihail Sarov, John I. Murray, Judith Janette, Debasish Raha, Karyn L. Sheaffer, Hugo Y. K. Lam, Elicia Preston, C. Slightham, LaDeana W. Hillier, Trisha Brock, Ashish Agarwal, Raymond K. Auerbach, Anthony A. Hyman, Mark Gerstein, Susan E. Mango, Stuart K. Kim, Robert H. Waterston, V Reinke, M Snyder
Software Mentions: 2
Published: almost 15 years ago
10.1371/journal.pone.0192851
Bioinformatic characterization of the Anoctamin Superfamily of Ca2+-activated ion channels and lipid scramblases
Cited by: 47
Author(s): Arturo Medrano-Soto, Gabriel Moreno‐Hagelsieb, Daniel F. McLaughlin, Zachary S. Ye, Kevin J. Hendargo, Milton H. Saier
Software Mentions: 2
Published: over 6 years ago
10.1371/journal.pgen.1006133
DLK-1, SEK-3 and PMK-3 Are Required for the Life Extension Induced by Mitochondrial Bioenergetic Disruption in C. elegans
Cited by: 52
Author(s): Erin Munkácsy, Maruf Khan, Rebecca Lane, Megan B. Borror, Jae H. Park, Alex Bokov, Alfred L. Fisher, Christopher D. Link, Shane L. Rea
Software Mentions: 2
Published: over 8 years ago
10.1371/journal.pone.0120400
Multigene Assessment of the Species Boundaries and Sexual Status of the Basidiomycetous Yeasts Cryptococcus flavescens and C. terrestris (Tremellales)
Cited by: 36
Author(s): Andrey Yurkov, Marco Alexandre Guerreiro, Latika Sharma, Cláudia Carvalho, Álvaro Fonseca
Software Mentions: 2
Published: over 9 years ago
10.1371/journal.pone.0148243
Gene Structures, Evolution and Transcriptional Profiling of the WRKY Gene Family in Castor Bean (Ricinus communis L.)
Cited by: 29
Author(s): Zhi Zou, Lei Yang, Danhua Wang, Qixing Huang, MO Yeyong, Guishui Xie
Software Mentions: 2
Published: almost 9 years ago
10.1186/1475-2859-9-100
Physiological responses to folate overproduction in Lactobacillus plantarum WCFS1
Cited by: 19
Author(s): Arno Wegkamp, Astrid E. Mars, Magda Faijes, Douwe Molenaar, Ric C. H. de Vos, Sebastian Klaus, Andrew D. Hanson, Willem M. de Vos, Eddy J. Smid
Software Mentions: 2
Published: almost 14 years ago
10.1038/s41598-017-15354-0
Novel Plasmodium antigens identified via genome-based antibody screen induce protection associated with polyfunctional T cell responses
Cited by: 14
Author(s): Sophie Schussek, Angela Trieu, Simon H. Apte, John Sidney, Alessandro Sette, Denise L. Doolan
Software Mentions: 2
Published: about 7 years ago
10.1371/journal.pone.0023934
Diversity in the Architecture of ATLs, a Family of Plant Ubiquitin-Ligases, Leads to Recognition and Targeting of Substrates in Different Cellular Environments
Cited by: 42
Author(s): Víctor Aguilar-Hernández, Laura Aguilar-Henonin, Plinio Guzmán
Software Mentions: 2
Published: about 13 years ago
10.1186/1475-2859-12-112
Transcriptome signatures of class I and III stress response deregulation in Lactobacillus plantarum reveal pleiotropic adaptation
Cited by: 18
Author(s): Hendrik W van Veen, Roger S. Bongers, Michiel Wels, Peter A. Bron, Michiel Kleerebezem
Software Mentions: 2
Published: about 11 years ago
10.1371/journal.pone.0089334
Carbohydrate Availability Regulates Virulence Gene Expression in Streptococcus suis
Cited by: 45
Author(s): Maria Laura Ferrando, Peter van Baarlen, Germano Orrù, Rosaria Piga, Roger S. Bongers, Michiel Wels, Astrid de Greeff, Hilde E. Smith, Jerry M. Wells
Software Mentions: 2
Published: over 10 years ago
10.1038/s41598-017-18629-8
Large-scale sill emplacement in Brazil as a trigger for the end-Triassic crisis
Cited by: 49
Author(s): Thea Hatlen Heimdal, Henrik Svensen, Jahandar Ramezani, Karthik Iyer, Egberto Pereira, R. F. Rodrigues, Morgan T. Jones, Sara Callegaro
Software Mentions: 2
Published: almost 7 years ago
10.1186/s12911-014-0124-4
Early telemedicine training and counselling after hospitalization in patients with severe chronic obstructive pulmonary disease: a feasibility study
Cited by: 32
Author(s): Lisbeth Kirstine Rosenbek Minet, Line Willads Hansen, Christian Bonde Pedersen, Ingrid Louise Titlestad, Jette Krøjgaard Christensen, Kristian Kidholm, Kathrine Rayce, Alison Bowes, Lilian Møllegård
Software Mentions: 2
Published: almost 10 years ago
10.1371/journal.pgen.0030075
Being Pathogenic, Plastic, and Sexual while Living with a Nearly Minimal Bacterial Genome
Cited by: 162
Author(s): Pascal Sirand‐Pugnet, Carole Lartigue, Marc S. Marenda, Daniel Jacob, Aurélien Barré, Valérie Barbe, Chantal Schenowitz, Sophie Mangenot, Arnaud Couloux, Béatrice Segurens, Antoine de Daruvar, Alain Blanchard, Christine Citti
Software Mentions: 2
Published: over 17 years ago
10.1371/journal.pone.0195023
Bacteriophage cocktail for biocontrol of Escherichia coli O157:H7: Stability and potential allergenicity study
Cited by: 51
Author(s): Karina Ramírez, Carmina Cazarez-Montoya, Héctor Samuel López-Moreno, Nohelia Castro‐del Campo
Software Mentions: 2
Published: over 6 years ago
10.1186/s12934-020-01301-8
Enhancement of bleomycin production in Streptomyces verticillus through global metabolic regulation of N-acetylglucosamine and assisted metabolic profiling analysis
Cited by: 14
Author(s): Hong Chen, Jiaqi Cui, Pan Wang, Xin Wang, Jianping Wen
Software Mentions: 2
Published: almost 5 years ago
10.1186/1471-2180-9-233
Topological analysis of a haloacid permease of a Burkholderi a sp. bacterium with a PhoA-LacZ reporter
Cited by: 11
Author(s): Yuk Man Tse, Manda Yu, Jwh Tsang
Software Mentions: 2
Published: about 15 years ago
10.1186/1471-2105-12-204
Tree edit distance for leaf-labelled trees on free leafset and its comparison with frequent subsplit dissimilarity and popular distance measures
Cited by: 6
Author(s): Jakub Koperwas, Krzysztof Walczak
Software Mentions: 2
Published: over 13 years ago
10.1186/1471-2180-11-125
SO2426 is a positive regulator of siderophore expression in Shewanella oneidensis MR-1
Cited by: 0
Author(s): Kristene L. Henne, Xiu‐Feng Wan, Wei Wei, Danielle Thompson
Software Mentions: 2
Published: almost 14 years ago
10.1371/journal.pone.0013935
The Arabidopsis ABA-Activated Kinase OST1 Phosphorylates the bZIP Transcription Factor ABF3 and Creates a 14-3-3 Binding Site Involved in Its Turnover
Cited by: 176
Author(s): Caroline Sirichandra, Marlène Davanture, Benjamin E. Turk, Michel Zivy, Benoı̂t Valot, Jeffrey Leung, Sylvain Merlot
Software Mentions: 2
Published: about 14 years ago
10.1186/1748-7188-7-31
Gene tree correction for reconciliation and species tree inference
Cited by: 18
Author(s): Krister M. Swenson, Andrea Doroftei, Nadia El-Mabrouk
Software Mentions: 2
Published: about 12 years ago
10.1371/journal.pone.0050171
Global Identification of Multiple OsGH9 Family Members and Their Involvement in Cellulose Crystallinity Modification in Rice
Cited by: 54
Author(s): Guosheng Xie, Bo Yang, Zhengdan Xu, Fengcheng Li, Kai Guo, Mingliang Zhang, Lingqiang Wang, Weihua Zou, Yanting Wang, Liangcai Peng
Software Mentions: 2
Published: almost 12 years ago
10.1038/s41598-019-42487-1
Single cell genomics yields a wide diversity of small planktonic protists across major ocean ecosystems
Cited by: 35
Author(s): Mike Sieracki, Nicole Poulton, Olivier Jaillon, Patrick Wincker, Colomban de Vargas, Laura Rubinat-Ripoll, Ramunas Stepanauskas, Ramiro Logares, Ramón Massana
Software Mentions: 2
Published: over 5 years ago
10.1371/journal.pone.0006473
A Novel Putative miRNA Target Enhancer Signal
Cited by: 8
Author(s): Thorsten Schmidt, Hans‐Werner Mewes, Volker Stümpflen
Software Mentions: 2
Published: over 15 years ago
10.1371/journal.pgen.1002155
Local Absence of Secondary Structure Permits Translation of mRNAs that Lack Ribosome-Binding Sites
Cited by: 110
Author(s): Lars B. Scharff, Liam Childs, Dirk Walther, Ralph Bock
Software Mentions: 2
Published: over 13 years ago
10.1371/journal.pone.0017121
Characterization of the Contradictory Chromatin Signatures at the 3′ Exons of Zinc Finger Genes
Cited by: 62
Author(s): Kimberly R. Blahnik, Lei Dou, Lorigail Echipare, Sushma Iyengar, Henriette O’Geen, Erica Sanchez, Yongjun Zhao, Marco A. Marra, Martin Hirst, J Costello, Ian F Korf, Peggy J. Farnham
Software Mentions: 2
Published: almost 14 years ago
10.1371/journal.pone.0121893
Genome-Wide Comparative Analysis Reveals Similar Types of NBS Genes in Hybrid Citrus sinensis Genome and Original Citrus clementine Genome and Provides New Insights into Non-TIR NBS Genes
Cited by: 9
Author(s): Yunsheng Wang, Lijuan Zhou, Dazhi Li, Liangying Dai, Amy Lawton‐Rauh, Pradip K. Srimani, Yongping Duan, Feng Luo
Software Mentions: 2
Published: over 9 years ago
10.1371/journal.pone.0167068
Iron-Regulated Phospholipase C Activity Contributes to the Cytolytic Activity and Virulence of Acinetobacter baumannii
Cited by: 51
Author(s): Steven E. Fiester, Brock A. Arivett, Robert E. Schmidt, Amber C. Beckett, Tomislav Ticak, Mary V. Carrier, R. K. Ghosh, Emily J. Ohneck, Maeva Metz, Marlo K. Sellin Jeffries, Luis A. Actis
Software Mentions: 2
Published: almost 8 years ago
10.1371/journal.pone.0182469
Genome-wide analysis of DUF221 domain-containing gene family in Oryza species and identification of its salinity stress-responsive members in rice
Cited by: 34
Author(s): Showkat Ahmad Ganie, Dipti Ranjan Pani, Tapan Kumar Mondal
Software Mentions: 2
Published: about 7 years ago
10.1371/journal.pone.0186084
Expression patterns and promoter analyses of aluminum-responsive NAC genes suggest a possible growth regulation of rice mediated by aluminum, hormones and NAC transcription factors
Cited by: 16
Author(s): Hugo Fernando Escobar-Sepúlveda, Libia Iris Trejo-Téllez, Soledad García Morales, Fernando Carlos Gómez-Meriño
Software Mentions: 2
Published: about 7 years ago
10.1038/s41598-019-45128-9
Comparative genomics of chytrid fungi reveal insights into the obligate biotrophic and pathogenic lifestyle of Synchytrium endobioticum
Cited by: 30
Author(s): Bart van de Vossenberg, Sven Warris, Hai D. T. Nguyen, M.P.E. van Gent-Pelzer, David L. Joly, H.C. van de Geest, P.J.M. Bonants, Donna S. Smith, C. André Lévesque, Theo A. J. van der Lee
Software Mentions: 2
Published: over 5 years ago
10.1371/journal.pone.0150227
Personality, Executive Control, and Neurobiological Characteristics Associated with Different Forms of Risky Driving
Cited by: 63
Author(s): Thomas G. Brown, Marie Claude Ouimet, Manal Eldeb, Jacques Tremblay, Evelyn Vingilis, Louise Nadeau, Jens C. Pruessner, Antoine Bechara
Software Mentions: 2
Published: over 8 years ago
10.1186/s12864-015-1696-9
Global analyses of TetR family transcriptional regulators in mycobacteria indicates conservation across species and diversity in regulated functions
Cited by: 42
Author(s): Ricardo Balhana, Ashima Singla, Mahmudul Hasan Sikder, Mike Withers, Sharon L. Kendall
Software Mentions: 2
Published: over 9 years ago
10.1016/j.meteno.2016.01.004
Promiscuous plasmid replication in thermophiles: Use of a novel hyperthermophilic replicon for genetic manipulation of Clostridium thermocellum at its optimum growth temperature
Cited by: 15
Author(s): Joseph Groom, Daehwan Chung, Daniel G. Olson, Lee R. Lynd, Adam M. Guss, Janet Westpheling
Software Mentions: 2
Published: almost 8 years ago
10.1371/journal.pone.0203218
In silico analysis of class I adenylate-forming enzymes reveals family and group-specific conservations
Cited by: 10
Author(s): Louis A. Clark, Danielle Leatherby, Elizabeth Krilich, Alexander J. Ropelewski, John Perozich
Software Mentions: 2
Published: about 6 years ago