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: cran: gplots

https://packages.ecosyste.ms/registries/cran.r-project.org/packages/gplots

Various R Programming Tools for Plotting Data
35 versions
Latest release: over 2 years ago
156 dependent packages
97,747 downloads last month

Papers Mentioning gplots 2,122

10.3389/fmicb.2020.01635
DNA-Binding and Transcription Activation by Unphosphorylated Response Regulator AgrR From Cupriavidus metallidurans Involved in Silver Resistance
Cited by: 11
Author(s): Muntasir Ali, Ann Provoost, Kristel Mijnendonckx, Rob Van Houdt, Daniël Charlier
Software Mentions: 2
Published: over 4 years ago
10.3389/fmicb.2019.02100
How Management Practices Within a Poultry House During Successive Flock Rotations Change the Structure of the Soil Microbiome
Cited by: 13
Author(s): Tawni L. Crippen, Cynthia L. Sheffield, Baneshwar Singh, J. A. Byrd, Ross C. Beier
Software Mentions: 2
Published: about 5 years ago
10.1186/1471-2164-11-369
Comparative genomics of the family Vibrionaceae reveals the wide distribution of genes encoding virulence-associated proteins
Cited by: 14
Author(s): Timothy Lilburn, Jianying Gu, Hong-Hong Cai, Yufeng Wang
Software Mentions: 2
Published: almost 15 years ago
10.1084/jem.20180801
Ezh2 inhibition in Kras-driven lung cancer amplifies inflammation and associated vulnerabilities
Cited by: 27
Author(s): Michela Serresi, Bjørn Siteur, Danielle Hulsman, Matthias Jürgen Schmitt, Cor Lieftink, Ben Morris, Matteo Cesaroni, Natalie Proost, Roderick L. Beijersbergen, Maarten van Lohuizen, Gaetano Gargiulo
Software Mentions: 2
Published: almost 6 years ago
10.3389/fmicb.2019.01474
Comparative Transcriptome Profiling of Gaeumannomyces graminis var. tritici in Wheat Roots in the Absence and Presence of Biocontrol Bacillus velezensis CC09
Cited by: 10
Author(s): Xingxing Kang, Yu Guo, Shuai Leng, Lei Xiao, Lanhua Wang, Yarong Xue, Changhong Liu
Software Mentions: 2
Published: over 5 years ago
10.3389/fmicb.2019.00011
Nasopharyngeal Microbiota in Children With Invasive Pneumococcal Disease: Identification of Bacteria With Potential Disease-Promoting and Protective Effects
Cited by: 28
Author(s): Anny Camelo-Castillo, Desirée Henares, Pedro Brotons, Antonio Galiana, Juan Carlos Rodrı́guez, Álex Mira, Carmen Muñoz-Almagro
Software Mentions: 2
Published: almost 6 years ago
10.3389/fmicb.2017.00202
Three Novel Species with Peptidoglycan Cell Walls form the New Genus Lacunisphaera gen. nov. in the Family Opitutaceae of the Verrucomicrobial Subdivision 4
Cited by: 69
Author(s): Patrick Rast, Ines Glöckner, Christian Boedeker, Olga Jeske, Sandra Wiegand, Richard Reinhardt, Peter Schümann, Manfred Rohde, Stefan Spring, Frank Oliver Glöckner, Christian Jogler, Mareike Jogler
Software Mentions: 2
Published: almost 8 years ago
10.3390/jof7010011
Botrytis cinerea Transcriptome during the Infection Process of the Bryophyte Physcomitrium patens and Angiosperms
Cited by: 11
Author(s): Guillermo Reboledo, Astrid Agorio, Lucía Vignale, Ramón Alberto Batista-García, Inés Ponce de León
Software Mentions: 2
Published: almost 4 years ago
10.3390/jof7030210
The Abundance and Diversity of Fungi in a Hypersaline Microbial Mat from Guerrero Negro, Baja California, México
Cited by: 9
Author(s): Paula Maza-Márquez, Michael D. Lee, Brad M. Bebout
Software Mentions: 2
Published: over 3 years ago
10.3389/fmicb.2017.02132
Ecogenomics and Taxonomy of Cyanobacteria Phylum
Cited by: 82
Author(s): Juline M. Walter, Felipe H. Coutinho, Bas E. Dutilh, Jean Swings, Fabiano L. Thompson, Cristiane C. Thompson
Software Mentions: 2
Published: about 7 years ago
10.3389/fmicb.2018.01462
Sewage Sludge Microbial Structures and Relations to Their Sources, Treatments, and Chemical Attributes
Cited by: 98
Author(s): Andréa M. A. Nascimento, Adijailton José de Souza, Pedro Avelino Maia de Andrade, Fernando Dini Andreote, Aline Renée Coscione, Fernando Carvalho Oliveira, Jussara Borges Regitano
Software Mentions: 2
Published: over 6 years ago
10.3389/fmicb.2018.00876
The Invasive Brazilian Pepper Tree (Schinus terebinthifolius) Is Colonized by a Root Microbiome Enriched With Alphaproteobacteria and Unclassified Spartobacteria
Cited by: 17
Author(s): Karim Dawkins, Nwadiuto Esiobu
Software Mentions: 2
Published: over 6 years ago
10.3389/fmicb.2015.01493
Recurrence and Frequency of Disturbance have Cumulative Effect on Methanotrophic Activity, Abundance, and Community Structure
Cited by: 30
Author(s): Adrian Ho, Erik van den Brink, Andreas Reim, Sascha Krause, Paul L. E. Bodelier
Software Mentions: 2
Published: almost 9 years ago
10.3389/fmicb.2020.01519
Fungal Endophyte Communities of Crucifer Crops Are Seasonally Dynamic and Structured by Plant Identity, Plant Tissue and Environmental Factors
Cited by: 10
Author(s): Junhui Chen, Komivi Senyo Akutse, Hafiz Sohaib Ahmed Saqib, Xiaolu Wu, Fei‐Ying Yang, Xiaofeng Xia, Liande Wang, Mark S. Goettel, Minsheng You, Geoff M. Gurr
Software Mentions: 2
Published: over 4 years ago
10.1186/s12864-016-2557-x
Transcriptional profiling of Klebsiella pneumoniae defines signatures for planktonic, sessile and biofilm-dispersed cells
Cited by: 46
Author(s): Cyril Guilhen, Nicolas Charbonnel, Nicolas Parisot, Nathalie Gueguen, Agnès Iltis, Christiane Forestier, Damien Balestrino
Software Mentions: 2
Published: over 8 years ago
10.3390/jof7090724
Molecular Insights into Defense Responses of Vietnamese Maize Varieties to Fusarium verticillioides Isolates
Cited by: 9
Author(s): Trang Minh Tran, Maarten Ameye, Sofie Landschoot, Frank Devlieghere, Sarah De Saeger, Mia Eeckhout, Kris Audenaert
Software Mentions: 2
Published: about 3 years ago
10.3389/fmicb.2016.00458
Coral-Associated Bacterial Diversity Is Conserved across Two Deep-Sea Anthothela Species
Cited by: 71
Author(s): Stephanie Lawler, Christina A. Kellogg, Rachel W. Clostio, Sandra Brooke, Steve W. Ross
Software Mentions: 2
Published: over 8 years ago
10.1186/1471-2164-15-488
Genome-wide mapping of miRNAs expressed in embryonic stem cells and pluripotent stem cells generated by different reprogramming strategies
Cited by: 21
Author(s): Bingjie Zhao, Dehua Yang, Jing Jiang, Jinsong Li, Chunsun Fan, Menggui Huang, Yi Fan, Yan Jin, Youxin Jin
Software Mentions: 2
Published: over 10 years ago
10.3389/fmicb.2020.01973
Monocyte and Macrophage-Mediated Pathology and Protective Immunity During Schistosomiasis
Cited by: 15
Author(s): Camila Oliveira Silva Souza, Luiz Gustavo Gardinassi, Vanderlei Rodrigues, Lúcia Helena Faccioli
Software Mentions: 2
Published: over 4 years ago
10.1186/s12864-016-3233-x
A novel phase variant of the cholera pathogen shows stress-adaptive cryptic transcriptomic signatures
Cited by: 2
Author(s): Bliss Lambert, Maheshi Dassanayake, Dong Ha Oh, Shana B. Garrett, Sang Yeol Lee, Gregg S. Pettis
Software Mentions: 2
Published: about 8 years ago
10.3389/fmicb.2019.00030
The Type IV Secretion System of ICEAfe1: Formation of a Conjugative Pilus in Acidithiobacillus ferrooxidans
Cited by: 11
Author(s): Rodrigo Flores-Ríos, Ana Moya-Beltrán, Claudia Pareja-Barrueto, Mauricio Arenas-Salinas, Sebastián Valenzuela, Omar Orellana, Raquel Quatrini
Software Mentions: 2
Published: almost 6 years ago
10.3389/fmicb.2018.01989
Metabolic Syndrome During Perinatal Period in Sows and the Link With Gut Microbiota and Metabolites
Cited by: 63
Author(s): Chuanshang Cheng, Hong Wei, Huichao Yu, Chong Xu, Siwen Jiang
Software Mentions: 2
Published: over 6 years ago
10.1186/s12864-019-6334-5
Seed interior microbiome of rice genotypes indigenous to three agroecosystems of Indo-Burma biodiversity hotspot
Cited by: 30
Author(s): Garima Raj, Mohammad Umar. Shadab, Sujata Deka, Manashi Das, Jilmil Baruah, Rupjyoti Bharali, Narayan Chandra Talukdar
Software Mentions: 2
Published: almost 5 years ago
10.1186/s12864-017-3698-2
Global analysis of protein lysine succinylation profiles in common wheat
Cited by: 44
Author(s): Yumei Zhang, Guangyuan Wang, Limin Song, Mu Peng, Wang Shu, Wenxing Liang, Qingsong Lin
Software Mentions: 2
Published: over 7 years ago
10.1186/s12864-017-3813-4
Uncovering the transcriptomic and epigenomic landscape of nicotinic receptor genes in non-neuronal tissues
Cited by: 12
Author(s): Bo Zhang, Pamela A. F. Madden, Junchen Gu, Xiaoyun Xing, Savita Sankar, Jennifer A. Karlow, Kristen L. Kroll, Ting Wang
Software Mentions: 2
Published: over 7 years ago
10.1186/s12864-016-3413-8
Cecal MicroRNAome response to Salmonella enterica serovar Enteritidis infection in White Leghorn Layer
Cited by: 25
Author(s): Guixian Wu, Yukai Qi, Xiaoyi Liu, Ning Yang, Guiyun Xu, Liying Liu, Xianyao Li
Software Mentions: 2
Published: almost 8 years ago
10.3389/fmicb.2020.580081
Complete Genome Sequence of Enterobacter roggenkampii ED5, a Nitrogen Fixing Plant Growth Promoting Endophytic Bacterium With Biocontrol and Stress Tolerance Properties, Isolated From Sugarcane Root
Cited by: 53
Author(s): Dao-Jun Guo, Rajesh Kumar Singh, Pratiksha Singh, Dong-Ping Li, Anjney Sharma, Yong‐Xiu Xing, Xiu–Peng Song, Li‐Tao Yang, Yang–Rui Li
Software Mentions: 2
Published: about 4 years ago
10.1111/acel.12472
Mitochondrial‐targeted catalase is good for the old mouse proteome, but not for the young: ‘reverse’ antagonistic pleiotropy?
Cited by: 31
Author(s): Nathan Basisty, Dao Fu Dai, Arni Gagnidze, Lemuel Gitari, Jeanne Fredrickson, Yvonne Maina, Richard P. Beyer, Mary J. Emond, Edward J. Hsieh, Michael J. MacCoss, George M. Martin, Peter S. Rabinovitch
Software Mentions: 2
Published: over 8 years ago
10.3389/fmicb.2015.01519
Bacterial Diversity in Submarine Groundwater along the Coasts of the Yellow Sea
Cited by: 17
Author(s): Qi Ye, Jianan Liu, Jinzhou Du, Jing Zhang
Software Mentions: 2
Published: almost 9 years ago
10.1186/s12864-016-3308-8
A transcriptome-based model of central memory CD4 T cell death in HIV infection
Cited by: 11
Author(s): Gustavo Olvera-García, Tania Aguilar-García, Fany Gutiérrez-Jasso, Iván Imaz-Rosshandler, Claudia Rangel‐Escareño, Lorena Orozco, Irma Aguilar-Delfín, Joel Armando Vázquez-Pérez, Joaquı́n Zúñiga, Santiago Pérez-Patrigeón, Enrique Espinosa
Software Mentions: 2
Published: about 8 years ago
10.3389/fmicb.2018.00655
Acacia Changes Microbial Indicators and Increases C and N in Soil Organic Fractions in Intercropped Eucalyptus Plantations
Cited by: 44
Author(s): Arthur Prudêncio de Araújo Pereira, Maurício Rumenos Guidetti Zagatto, Carolina Braga Brandani, Denise de Lourdes Colombo Mescolotti, Simone Raposo Cotta, José Leonardo de Moraes Gonçalves, Elke Jurandy Bran Nogueira Cardoso
Software Mentions: 2
Published: over 6 years ago
10.3389/fmicb.2017.02658
Quantitative Proteomic Analysis of Four Developmental Stages of Saprolegnia parasitica
Cited by: 17
Author(s): Vaibhav Srivastava, Svetlana Rezinciuc, Vincent Bulone
Software Mentions: 2
Published: almost 7 years ago
10.3389/fmicb.2020.02081
Cross-Stress Adaptation in a Piezophilic and Hyperthermophilic Archaeon From Deep Sea Hydrothermal Vent
Cited by: 9
Author(s): Weishu Zhao, Xiao‐Pan Ma, Xiaoxia Liu, Huahua Jian, Yu Zhang, Xiang Xiao
Software Mentions: 2
Published: about 4 years ago
10.1186/s12864-017-4366-2
Comparative transcriptome and proteome profiling of two Citrus sinensis cultivars during fruit development and ripening
Cited by: 38
Author(s): Jianhui Wang, Jianjun Li, Keling Chen, Hongwen Li, Jian He, Bin Guan, Li He
Software Mentions: 2
Published: almost 7 years ago
10.1186/s12711-016-0200-6
Comparing the transcriptomes of embryos from domesticated and wild Atlantic salmon (Salmo salar L.) stocks and examining factors that influence heritability of gene expression
Cited by: 18
Author(s): Beatrix Bicskei, John B. Taggart, Kevin A. Glover, James E. Bron
Software Mentions: 2
Published: over 8 years ago
10.1155/2016/2895303
Differential Gene Expression during Larval Metamorphic Development in the Pearl Oyster,<i>Pinctada fucata</i>, Based on Transcriptome Analysis
Cited by: 8
Author(s): Haimei Li, Bo Zhang, Guiju Huang, Bao-Suo Liu, Sigang Fan, Dongling Zhang, Dahui Yu
Software Mentions: 2
Published: almost 9 years ago
10.1186/gb-2010-11-3-r35
Conserved developmental transcriptomes in evolutionarily divergent species
Cited by: 162
Author(s): Anup Parikh, Edward Roshan Miranda, Mariko Katoh-Kurasawa, Danny Fuller, Gregor Rot, Lan Žagar, Tomaž Curk, Richard Sucgang, Rui Chen, Blaž Zupan, William F. Loomis, Adam Kuspa, Gad Shaulsky
Software Mentions: 2
Published: almost 15 years ago
10.1155/2019/9520642
<i>DREB</i> Genes from Common Bean (<i>Phaseolus vulgaris</i> L.) Show Broad to Specific Abiotic Stress Responses and Distinct Levels of Nucleotide Diversity
Cited by: 16
Author(s): Enéas Ricardo Konzen, Gustavo Henrique Recchia, Fernanda Cassieri, Danielle Gregório Gomes Caldas, Jorge C. Berny Mier y Teran, Paul Gepts, Siu Mui Tsai
Software Mentions: 2
Published: over 5 years ago
10.1186/s13059-016-1032-y
Full-length autonomous transposable elements are preferentially targeted by expression-dependent forms of RNA-directed DNA methylation
Cited by: 108
Author(s): Kaushik Panda, Lexiang Ji, Drexel A. Neumann, Josquin Daron, Robert J. Schmitz, R. Keith Slotkin
Software Mentions: 2
Published: over 8 years ago
10.1186/s12864-015-1897-2
cis-regulatory analysis of the Drosophila pdm locus reveals a diversity of neural enhancers
Cited by: 13
Author(s): Jeffrey Ross, A. Kuzin, Theodore M. Brody, Ward F. Odenwald
Software Mentions: 2
Published: about 9 years ago
10.1186/s12864-020-07025-8
Leishmania infection induces a limited differential gene expression in the sand fly midgut
Cited by: 11
Author(s): Iliano V. Coutinho-Abreu, Tiago D. Serafim, Claudio Meneses, Shaden Kamhawi, Fabiano Oliveira, Jesús G. Valenzuela
Software Mentions: 2
Published: about 4 years ago
10.1186/s12864-020-6543-y
Transcriptional profiling and physiological roles of Aedes aegypti spermathecal-related genes
Cited by: 16
Author(s): Tales Vicari Pascini, Marcelo Ramalho-Ortigão, José M. C. Ribeiro, Marcelo Jacobs-­Lorena, Gustavo Ferreira Martins
Software Mentions: 2
Published: almost 5 years ago
10.1186/s13073-015-0169-8
A bioinformatic framework for immune repertoire diversity profiling enables detection of immunological status
Cited by: 146
Author(s): Victor Greiff, Pooja Bhat, Skylar C. Cook, Ulrike Menzel, Wenjing Kang, Sai T. Reddy
Software Mentions: 2
Published: over 9 years ago
10.1186/s13073-017-0418-0
Genetic pleiotropy between age-related macular degeneration and 16 complex diseases and traits
Cited by: 50
Author(s): Felix Graßmann, Christina Kiel, Martina E. Zimmermann, Florian Kronenberg, Veronika Grassmann, Klaus Stark, Iris M. Heid, Bernhard H. F. Weber
Software Mentions: 2
Published: over 7 years ago
10.1186/s12864-015-1708-9
Metabolomic and transcriptomic insights into how cotton fiber transitions to secondary wall synthesis, represses lignification, and prolongs elongation
Cited by: 69
Author(s): John R. Tuttle, Gyoungju Nah, Mary V. Duke, Danny Alexander, Xueying Guan, Qingxin Song, Z. Jeffrey Chen, Brian E. Scheffler, Candace H. Haigler
Software Mentions: 2
Published: over 9 years ago
10.3390/ijerph16101805
The Effects of Pavement Types on Soil Bacterial Communities across Different Depths
Cited by: 8
Author(s): Weiwei Yu, Yinhong Hu, Bowen Cui, Yuanyuan Chen, Xiaoke Wang
Software Mentions: 2
Published: over 5 years ago
10.1186/1471-2164-13-564
Divergence of the SigB regulon and pathogenesis of the Bacillus cereus sensu lato group
Cited by: 16
Author(s): Edgar J. Scott, David W. Dyer
Software Mentions: 2
Published: about 12 years ago
10.3390/nu11122839
Hormonal Therapy Resistance and Breast Cancer: Involvement of Adipocytes and Leptin
Cited by: 21
Author(s): Laëtitia Delort, Laurianne Bougaret, Juliette Cholet, Marion Vermerie, Hermine Billard, Caroline Decombat, Céline Bourgne, Marc Berger, Charles Dumontet, Florence Caldefie‐Chezet
Software Mentions: 2
Published: about 5 years ago
10.1111/tan.14127
The <scp>HLA</scp> diversity of the Anthony Nolan register
Cited by: 10
Author(s): Gayle Leen, Jeremy E. Stein, James T. Robinson, H. Maldonado Torres, S. G. E. Marsh
Software Mentions: 2
Published: about 4 years ago
10.1186/1471-2164-12-130
In depth analysis of genes and pathways of the mammary gland involved in the pathogenesis of bovine Escherichia coli- mastitis
Cited by: 88
Author(s): Bart Buitenhuis, Christine M. Røntved, Stefan McKinnon Edwards, K.L. Ingvartsen, Peter Sørensen
Software Mentions: 2
Published: over 13 years ago
10.3390/ijerph17197137
Markers Specific to Bacteroides fragilis Group Bacteria as Indicators of Anthropogenic Pollution of Surface Waters
Cited by: 6
Author(s): Sebastian Niestępski, Monika Harnisz, Ewa Korzeniewska, Adriana Osińska
Software Mentions: 2
Published: about 4 years ago
10.3390/ijerph17197081
Assessing the Beneficial Effects of the Immunomodulatory Glycan LNFPIII on Gut Microbiota and Health in a Mouse Model of Gulf War Illness
Cited by: 11
Author(s): Ryan S. Mote, Jessica M. Carpenter, Rachel L. Dockman, Andrew J. Steinberger, Garret Suen, Thomas Norberg, Donald A. Harn, John J. Wagner, Nikolay M. Filipov
Software Mentions: 2
Published: about 4 years ago
10.3390/ijerph18020563
The Prevalence of Virulent and Multidrug-Resistant Enterococci in River Water and in Treated and Untreated Municipal and Hospital Wastewater
Cited by: 17
Author(s): Anna Gotkowska-Płachta
Software Mentions: 2
Published: almost 4 years ago
10.1002/hbm.24964
Impact of <i>b</i>‐value on estimates of apparent fibre density
Cited by: 58
Author(s): Sila Genc, Chantal M. W. Tax, Erika P. Raven, Maxime Chamberland, Greg D. Parker, Derek K. Jones
Software Mentions: 2
Published: over 4 years ago
10.1186/s12864-015-1686-y
The human cardiac and skeletal muscle proteomes defined by transcriptomics and antibody-based profiling
Cited by: 54
Author(s): Cecilia Lindskog, Jerker Linné, Linn Fagerberg, Björn M. Hallström, Carl Johan Sundberg, Maléne E. Lindholm, Mikael Huss, Caroline Kampf, Howard Choi, David A. Liem, Peipei Ping, Leif Väremo, Adil Mardinoğlu, Jens Nielsen, Erik Larsson, Fredrik Pontén, Mathias Uhlén
Software Mentions: 2
Published: over 9 years ago
10.1155/2020/4832189
Linking Complement C3 and B Cells in Nasal Polyposis
Cited by: 3
Author(s): Ulrike Werner, Axel Künstner, Maren Drenckhan, Ralph Pries, Karl‐Ludwig Bruchhage, Hauke Busch, Claus Bachert, Barbara Wollenberg
Software Mentions: 2
Published: over 4 years ago
10.3390/insects11090593
Bacteria Belonging to Pseudomonas typographi sp. nov. from the Bark Beetle Ips typographus Have Genomic Potential to Aid in the Host Ecology
Cited by: 23
Author(s): Ezequiel Peral-Aranega, Zaki Saati‐Santamaría, Miroslav Kolařík, Raúl Rivas, Paula García‐Fraile
Software Mentions: 2
Published: about 4 years ago
10.1186/s12864-019-6274-0
Comparative genomics of eight Lactobacillus buchneri strains isolated from food spoilage
Cited by: 10
Author(s): Matthew A. Nethery, Emily DeCrescenzo Henriksen, Katheryne V. Daughtry, Suzanne D. Johanningsmeier, Rodolphe Barrangou
Software Mentions: 2
Published: about 5 years ago
10.1038/onc.2016.164
MicroRNA-101 regulated transcriptional modulator SUB1 plays a role in prostate cancer
Cited by: 56
Author(s): Balabhadrapatruni V. S. K. Chakravarthi, Moloy T. Goswami, Satya S. Pathi, Alyncia D. Robinson, Marcin Cieślik, Darshan S. Chandrashekar, Sumit Agarwal, Javed Siddiqui, Stephanie Daignault, Shannon Carskadon, Xiaojun Jing, Arul M. Chinnaiyan, Lakshmi P. Kunju, Nallasivam Palanisamy, Sooryanarayana Varambally
Software Mentions: 2
Published: over 8 years ago
10.1186/s40104-020-00511-9
Time-restricted feeding downregulates cholesterol biosynthesis program via RORγ-mediated chromatin modification in porcine liver organoids
Cited by: 10
Author(s): Kexin Zhang, Hao Li, Zimeng Xin, Yanwei Li, Xiaolong Wang, Yun Hu, Haoyu Liu, Demin Cai
Software Mentions: 2
Published: about 4 years ago
10.1186/s12864-020-06999-9
Mining and evolution analysis of lateral organ boundaries domain (LBD) genes in Chinese white pear (Pyrus bretschneideri)
Cited by: 14
Author(s): Bobo Song, Zikai Tang, Xiaolong Li, Jiaming Li, Mingyue Zhang, Kunkun Zhao, Hainan Liu, Shaoling Zhang, Jun Wu
Software Mentions: 2
Published: about 4 years ago
10.3390/jcdd8040045
Transcriptome Analysis Reveals Differential Gene Expression between the Closing Ductus Arteriosus and the Patent Ductus Arteriosus in Humans
Cited by: 5
Author(s): Junichi Saito, Tomoyuki Kojima, Shota Tanifuji, Yuko Kato, Shuntaro Oka, Yukio Ichikawa, Etsuko Miyagi, Tsuyoshi Tachibana, Toshihide Asou, Utako Yokoyama
Software Mentions: 2
Published: over 3 years ago
10.1242/jcs.245043
Automated 3D light-sheet screening with high spatiotemporal resolution reveals mitotic phenotypes
Cited by: 20
Author(s): Björn Eismann, Teresa G Krieger, Jürgen Beneke, Ruben Bulkescher, Lukas Adam, Holger Erfle, Carl Herrmann, Roland Eils, Christian Conrad
Software Mentions: 2
Published: almost 5 years ago
10.3390/jcm8122029
A Novel Saliva-Based miRNA Signature for Colorectal Cancer Diagnosis
Cited by: 45
Author(s): Óscar Rapado‐González, Blanca Majem, Ana Álvarez-Castro, Roberto Díaz‐Peña, Alicia Abalo, Leticia Suárez‐Cabrera, Antonio Gil‐Moreno, Anna Santamaría, Rafael López‐López, Laura Muinelo‐Romay, María Mercedes Suárez‐Cunqueiro
Software Mentions: 2
Published: about 5 years ago
10.3390/jcm10050931
SARS-CoV-2 Is a Culprit for Some, but Not All Acute Ischemic Strokes: A Report from the Multinational COVID-19 Stroke Study Group
Cited by: 16
Author(s): Shima Shahjouei, Michelle Anyaehie, Eric Koza, Georgios Tsivgoulis, Soheil Naderi, Ashkan Mowla, Venkatesh Avula, Alireza Vafaei Sadr, Durgesh Chaudhary, Ghasem Farahmand, Christoph J. Griessenauer, Mahmoud Reza Azarpazhooh, Debdipto Misra, Li Jiang, Vida Abedi, Ramin Zand
Software Mentions: 2
Published: over 3 years ago
10.1186/1471-2164-15-311
Microbiota diversity and gene expression dynamics in human oral biofilms
Cited by: 132
Author(s): Alfonso Benı́tez-Páez, Pedro Belda-Ferre, Áurea Simón-Soro, Álex Mira
Software Mentions: 2
Published: almost 11 years ago
10.1093/jxb/erw179
Tissue-specific laser microdissection of the<i>Brassica napus</i>funiculus improves gene discovery and spatial identification of biological processes
Cited by: 19
Author(s): Ainsley Chan, Deirdre Khan, Ian J. Girard, Michael G. Becker, Jenna L. Millar, David Sytnik, Mark F. Belmonte
Software Mentions: 2
Published: over 8 years ago
10.1093/jxb/eraa021
Moderate water stress in rice induces rhizosheath formation associated with abscisic acid and auxin responses
Cited by: 30
Author(s): Yingjiao Zhang, Huan Du, Yao Gui, Feiyun Xu, Jianping Liu, Jianhua Zhang, Weifeng Xu
Software Mentions: 2
Published: almost 5 years ago
10.1093/jxb/eraa568
Protein phosphatase NtPP2C2b and MAP kinase NtMPK4 act in concert to modulate nicotine biosynthesis
Cited by: 10
Author(s): Xiaoyu Liu, Sanjay K. Singh, Barunava Patra, Yongliang Liu, Bing‐Wu Wang, Jinsheng Wang, Sitakanta Pattanaik, Ling Yuan
Software Mentions: 2
Published: almost 4 years ago
10.1371/journal.ppat.1004079
Exposure-Dependent Control of Malaria-Induced Inflammation in Children
Cited by: 135
Author(s): Sílvia Portugal, Jacqueline Moebius, Jeff Skinner, Safiatou Doumbo, Didier Doumtabé, Younoussou Koné, Seydou Dia, Kishore Kanakabandi, Daniel E. Sturdevant, Kimmo Virtaneva, Stephen F. Porcella, Shanping Li, Ogobara K. Doumbo, Kassoum Kayentao, Aissata Ongoïba, Boubacar Traoré, Peter D. Crompton
Software Mentions: 2
Published: over 10 years ago
10.1371/journal.ppat.1006576
Malaria-induced interferon-γ drives the expansion of Tbethi atypical memory B cells
Cited by: 122
Author(s): Nyamekye Obeng-Adjei, Sílvia Portugal, Prasida Holla, Shanping Li, Hyung Sun Sohn, Abhijit A. Ambegaonkar, Jeff Skinner, Georgina Bowyer, Ogobara K. Doumbo, Boubacar Traoré, Susan K. Pierce, Peter D. Crompton
Software Mentions: 2
Published: about 7 years ago
10.1371/journal.ppat.1007420
Differential induction of interferon stimulated genes between type I and type III interferons is independent of interferon receptor abundance
Cited by: 89
Author(s): Kalliopi Pervolaraki, Soheil Rastgou Talemi, Dorothee Albrecht, Felix Bormann, Connor Bamford, Juan L. Mendoza, K. Christopher García, John McLauchlan, Thomas Höfer, Megan L. Stanifer, Steeve Boulant
Software Mentions: 2
Published: almost 6 years ago
10.1371/journal.ppat.1007990
Caspase-11-dependent IL-1α release boosts Th17 immunity against Paracoccidioides brasiliensis
Cited by: 18
Author(s): Natália Ketelut-Carneiro, Camila Oliveira Silva Souza, Luciana Benevides, Luiz Gustavo Gardinassi, Maria Cláudia Silva, Lucas Tavares, Dario S. Zamboni, João Silva
Software Mentions: 2
Published: over 5 years ago
10.1038/s41388-021-01732-6
Proteasome 26S subunit, non-ATPases 1 (PSMD1) and 3 (PSMD3), play an oncogenic role in chronic myeloid leukemia by stabilizing nuclear factor-kappa B
Cited by: 20
Author(s): Alfonso E. Bencomo‐Alvarez, Andres J. Rubio, Idaly M. Olivas, Mayra A. Gonzalez, Rebecca Ellwood, Carme Ripoll Fiol, Christopher A. Eide, Joshua J. Lara, Christian Barreto‐Vargas, Luis F Jave-Suárez, Georgios Nteliopoulos, Alistair Reid, Dragana Milojković, Brian J. Druker, Jane F. Apperley, Jamshid S. Khorashad, Anna M. Eiring
Software Mentions: 2
Published: over 3 years ago
10.1371/journal.ppat.1009149
Predicting the animal hosts of coronaviruses from compositional biases of spike protein and whole genome sequences through machine learning
Cited by: 14
Author(s): Liam Brierley, Anna Fowler
Software Mentions: 2
Published: over 3 years ago
10.1098/rspb.2018.2929
Genomic signatures of G-protein-coupled receptor expansions reveal functional transitions in the evolution of cephalopod signal transduction
Cited by: 9
Author(s): Elena A. Ritschard, Robert R. Fitak, Oleg Simakov, Sönke Johnsen
Software Mentions: 2
Published: almost 6 years ago
10.1007/s13238-018-0572-1
Dgcr8 deletion in the primitive heart uncovered novel microRNA regulating the balance of cardiac-vascular gene program
Cited by: 10
Author(s): Xi Chen, Lin Wang, Rujin Huang, Hui Qiu, Peizhe Wang, Da‐Ren Wu, Yonglin Zhu, Ming Jia, Yangming Wang, Jianbin Wang, Jie Na
Software Mentions: 2
Published: over 6 years ago
10.3390/proteomes4030021
Understanding the Remodelling of Cell Walls during Brachypodium distachyon Grain Development through a Sub-Cellular Quantitative Proteomic Approach
Cited by: 15
Author(s): Mathilde Francin-Allami, Virginie Lollier, Marija Pavlović, Hélène San Clemente, Hélène Rogniaux, Élisabeth Jamet, Fabienne Guillon, Colette Larré
Software Mentions: 2
Published: over 8 years ago
10.1186/1471-2164-12-526
Variation in chromosome copy number influences the virulence of Cryptococcus neoformans and occurs in isolates from AIDS patients
Cited by: 66
Author(s): Guanggan Hu, Joyce Wang, Jaehyuk Choi, Won Hee Jung, Iris Liu, Anastasia P. Litvintseva, Tihana Bicanic, Rajeev Aurora, Thomas G. Mitchell, John R. Perfect, James W. Kronstad
Software Mentions: 2
Published: about 13 years ago
10.1089/rej.2018.2077
The Plasma NAD<sup>+</sup>Metabolome Is Dysregulated in “Normal” Aging
Cited by: 114
Author(s): James P. Clement, Matthew Wai Kin Wong, Anne Poljak, Perminder S. Sachdev, Nady Braidy
Software Mentions: 2
Published: over 5 years ago
10.1186/s12931-018-0861-5
Transforming growth factor beta1 targets estrogen receptor signaling in bronchial epithelial cells
Cited by: 29
Author(s): L. Cody Smith, Santiago Moreno, Lauren Robertson, Sarah Robinson, Kristal Gant, Andrew J. Bryant, Tara Sabo‐Attwood
Software Mentions: 2
Published: about 6 years ago
10.1186/s12931-020-1317-2
Cigarette smoke and electronic cigarettes differentially activate bronchial epithelial cells
Cited by: 33
Author(s): Christian Herr, Κωνσταντίνος Τσίτουρας, Julia Niederstraßer, Christina Backes, Christoph Beißwenger, Lü Dong, Loïc Guillot, Andreas Keller, Robert Bals
Software Mentions: 2
Published: over 4 years ago
10.1186/s12977-014-0101-0
Preexisting compensatory amino acids compromise fitness costs of a HIV-1 T cell escape mutation
Cited by: 11
Author(s): Donglai Liu, Tao Zuo, Bhavna Hora, Hongshuo Song, Wei Kong, Xianghui Yu, Nilu Goonetilleke, Tanmoy Bhattacharya, Alan S. Perelson, Barton F. Haynes, Andrew J. McMichael, Feng Gao
Software Mentions: 2
Published: about 10 years ago
10.1186/s12864-015-1659-1
Six host-range restricted poxviruses from three genera induce distinct gene expression profiles in an in vivo mouse model
Cited by: 12
Author(s): Kristy Offerman, Armin Deffur, Olivia Carulei, Robert J. Wilkinson, Nicola Douglass, Anna‐Lise Williamson
Software Mentions: 2
Published: over 9 years ago
10.1186/1471-2164-13-441
Transcriptomic and metabolomic profiling of chicken adipose tissue in response to insulin neutralization and fasting
Cited by: 87
Author(s): Bo Ji, Ben Ernest, Jessica Gooding, Suchita Das, Arnold M. Saxton, Jean Simon, Joëlle Dupont, Sonia Métayer-Coustard, Shawn R. Campagna, Brynn H. Voy
Software Mentions: 2
Published: about 12 years ago
10.1038/srep09103
Tissue- and time-dependent transcription in Ixodes ricinus salivary glands and midguts when blood feeding on the vertebrate host
Cited by: 87
Author(s): Michail Kotsyfakis, Alexandra Schwarz, Jan Erhart, José M. C. Ribeiro
Software Mentions: 2
Published: over 9 years ago
10.1038/srep10189
Variation in koala microbiomes within and between individuals: effect of body region and captivity status
Cited by: 72
Author(s): Niccolò Alfano, Alexandre Courtiol, Hanna Vielgrader, Peter Timms, Alfred L. Roca, Alex D. Greenwood
Software Mentions: 2
Published: over 9 years ago
10.1038/srep13098
Characterisation of peripheral blood mononuclear cell microRNA in hepatitis B-related acute-on-chronic liver failure
Cited by: 21
Author(s): Wenchao Ding, Jiaojiao Xin, Liangliang Jiang, Qian Zhou, Tianzhou Wu, Dongyan Shi, Biaoyang Lin, Lanjuan Li, Jun Li
Software Mentions: 2
Published: over 9 years ago
10.7554/eLife.23203
Simultaneous measurement of chromatin accessibility, DNA methylation, and nucleosome phasing in single cells
Cited by: 171
Author(s): Sebastian Pott
Software Mentions: 2
Published: over 7 years ago
10.1038/srep17551
Transcriptomes reveal the genetic mechanisms underlying ionic regulatory adaptations to salt in the crab-eating frog
Cited by: 14
Author(s): Yong Shao, Lijun Wang, Li Zhong, Mingsheng Hong, Hong‐Man Chen, Robert W. Murphy, Dong‐Dong Wu, Yaping Zhang, Jing Che
Software Mentions: 2
Published: almost 9 years ago
10.1038/srep19926
Quantitative Analysis of Global Proteome and Lysine Acetylome Reveal the Differential Impacts of VPA and SAHA on HL60 Cells
Cited by: 30
Author(s): Xiaoyu Zhu, Xin Liu, Zhongyi Cheng, Jun Zhu, Lei Xu, Fengsong Wang, Wulin Qi, Jiawei Yan, Ning Liu, Zimin Sun, Huilan Liu, Xiaojun Peng, Yingchan Hao, Zheng Nan, Qiulian Wu
Software Mentions: 2
Published: almost 9 years ago
10.1038/srep21764
Succinyl-proteome profiling of a high taxol containing hybrid Taxus species (Taxus × media) revealed involvement of succinylation in multiple metabolic pathways
Cited by: 31
Author(s): Chenjia Shen, Jie Xue, Tao Sun, Hong Guo, Lei Zhang, Yijun Meng, Huizhong Wang
Software Mentions: 2
Published: almost 9 years ago
10.1038/srep22637
Age-associated metabolic dysregulation in bone marrow-derived macrophages stimulated with lipopolysaccharide
Cited by: 28
Author(s): Fan Fei, Keith M. Lee, Brian E. McCarry, Dawn M. E. Bowdish
Software Mentions: 2
Published: over 8 years ago
10.7554/eLife.42989
Haplotypes spanning centromeric regions reveal persistence of large blocks of archaic DNA
Cited by: 46
Author(s): Sasha A. Langley, Karen H. Miga, Gary H. Karpen, Charles H. Langley
Software Mentions: 2
Published: over 5 years ago
10.1186/1471-230X-13-131
Association of gut microbiota with post-operative clinical course in Crohn’s disease
Cited by: 88
Author(s): Neelendu Dey, David Soergel, Susanna Repo, Steven E. Brenner
Software Mentions: 2
Published: over 11 years ago
10.1186/1471-230X-14-55
DNA methylation subgroups and the CpG island methylator phenotype in gastric cancer: a comprehensive profiling approach
Cited by: 34
Author(s): Marie Loh, Natalia Liem, Aparna Vaithilingam, Pei Li Lim, Nur Sabrina Sapari, Eiram Elahi, Zuan Yu Mok, Chee Leong Cheng, Benedict Yan, Brendan Pang, Manuel Salto-Tellez, Wei Peng Yong, Barry Iacopetta, Richie Soong
Software Mentions: 2
Published: over 10 years ago
10.1038/srep26852
Genome-wide differential expression of genes and small RNAs in testis of two different porcine breeds and at two different ages
Cited by: 24
Author(s): Li Yao, Jialian Li, Fang Cui, Liang Shi, Jinyun Tan, Yan Xiong, Bin Fan, Changchun Li
Software Mentions: 2
Published: over 8 years ago
10.1038/srep29313
Proteome-wide analysis of lysine acetylation in the plant pathogen Botrytis cinerea
Cited by: 38
Author(s): Binna Lv, Qiwen Yang, Delong Li, Wenxing Liang, Limin Song
Software Mentions: 2
Published: over 8 years ago
10.1038/srep31576
First Comprehensive Proteome Analyses of Lysine Acetylation and Succinylation in Seedling Leaves of Brachypodium distachyon L.
Cited by: 60
Author(s): Shoumin Zhen, Xiong Deng, Jian Wang, Guijie Zhu, Hui Cao, Linlin Yuan, Yueming Yan
Software Mentions: 2
Published: over 8 years ago
10.1038/srep33102
Pentoxifylline ameliorates non-alcoholic fatty liver disease in hyperglycaemic and dyslipidaemic mice by upregulating fatty acid β-oxidation
Cited by: 23
Author(s): Jia-Hung Ye, Jung Chao, Mau‐Song Chang, Wen-Huang Peng, Hao-Yuan Cheng, Jiunn‐Wang Liao, Li-Heng Pao
Software Mentions: 2
Published: about 8 years ago