cran: gplots | Projects | Ecosyste.ms: Papers

10.3389/fmicb.2016.01727

Gradual Changes of Gut Microbiota in Weaned Miniature Piglets
Cited by: 123
Author(s): Jun Hu, Yangfan Nie, Jian Wei Chen, Yong Zhang, Zhi‐Chang Wang, Qi-Wen Fan, Xianghua Yan
Software Mentions: 5
Published: almost 10 years ago

10.7554/eLife.13546

Hyperosmotic stress memory in Arabidopsis is mediated by distinct epigenetically labile sites in the genome and is restricted in the male germline by DNA glycosylase activity
Cited by: 246
Author(s): Anjar Tri Wibowo, Claude Becker, G. Marconi, Julius Dürr, Jonathan Price, Jörg Hagmann, Ranjith Papareddy, Hadi Putra, Jorge Kageyama, Jörg Becker, Detlef Weigel, José Gutierrez-Marcos
Software Mentions: 5
Published: over 10 years ago

10.3389/fmicb.2017.00398

Transcriptomics Indicates Active and Passive Metronidazole Resistance Mechanisms in Three Seminal Giardia Lines
Cited by: 30
Author(s): Brendan R E Ansell, Louise Baker, Samantha J. Emery, Malcolm J. McConville, Staffan G. Svärd, Robin B. Gasser, Aaron R. Jex
Software Mentions: 5
Published: over 9 years ago

10.3389/fmicb.2018.01909

Intensified Pulse Rotations Buildup Pea Rhizosphere Pathogens in Cereal and Pulse Based Cropping Systems
Cited by: 25
Author(s): Yining Niu, Luke D. Bainard, William E. May, Zakir Hossain, Chantal Hamel, Yantai Gan
Software Mentions: 5
Published: about 8 years ago

10.1186/gm500

Analysis of epigenetic changes in survivors of preterm birth reveals the effect of gestational age and evidence for a long term legacy
Cited by: 105
Author(s): Mark N Cruickshank, Alicia Oshlack, Christiane Theda, Peter G Davis, David Martino, Penelope M. Sheehan, Yun Dai, Richard Saffery, Lex W. Doyle, Jeffrey M Craig
Software Mentions: 5
Published: almost 14 years ago

10.1371/journal.pone.0232456

Investigation of the human nasal microbiome in persons with long- and short-term exposure to methicillin-resistant Staphylococcus aureus and other bacteria from the pig farm environment
Cited by: 10
Author(s): Zohorul Islam, Thor Bech Johannesen, Berit Lilje, Tinna Ravnholt Urth, Anders Rhod Larsen, Øystein Angen, Jesper Larsen
Software Mentions: 5
Published: over 6 years ago

10.1128/mSystems.00130-17

Colonic Butyrate-Producing Communities in Humans: an Overview Using Omics Data
Cited by: 284
Author(s): Marius Vital, André Karch, Dietmar H. Pieper
Software Mentions: 5
Published: almost 9 years ago

10.3389/fmicb.2018.02457

Bacterial Abundance and Community Composition in Pond Water From Shrimp Aquaculture Systems With Different Stocking Densities
Cited by: 61
Author(s): Yustian Rovi Alfiansah, Christiane Hassenrück, Andreas Kunzmann, Arief Taslihan, Jens Harder, Astrid Gärdes
Software Mentions: 5
Published: almost 8 years ago

10.1371/journal.pone.0189159

Transcriptomic profiles in peripheral blood between women with unexplained recurrent implantation failure and recurrent miscarriage and the correlation with endometrium: A pilot study
Cited by: 11
Author(s): Jin Huang, Nana Jin, Hao Qin, Xiao Shi, Yingyu Liu, Wing-Ching Cheung, Chi Chiu Wang, Ting‐Fung Chan, Tin‐Chiu Li
Software Mentions: 5
Published: almost 9 years ago

10.3390/insects11090578

The Microbiome of Neotropical Water Striders and Its Potential Role in Codiversification
Cited by: 12
Author(s): Anakena M. Castillo, Kristin Saltonstall, Carlos F. Arias, Karina Chavarria, Luis A. Ramírez‐Camejo, Luis C. Mejía, Luis F. De León
Software Mentions: 5
Published: about 6 years ago

10.7554/eLife.62236

Identification of human glucocorticoid response markers using integrated multi-omic analysis from a randomized crossover trial
Cited by: 21
Author(s): Dimitrios Chantzichristos, Peder Svensson, Terence Garner, Camilla A M Glad, Brian R. Walker, Ragnhildur Bergthorsdottir, Oskar Ragnarsson, Penelope Trimpou, Roland H Stimson, Stina Willemoes Borresen, Ulla Feldt‐Rasmussen, Per‐Anders Jansson, Stanko Skrtic, Adam Stevens, Gudmundur Johannsson
Software Mentions: 5
Published: over 5 years ago

10.1038/s41598-021-82136-0

A high-throughput RNA-Seq approach to elucidate the transcriptional response of Piriformospora indica to high salt stress
Cited by: 13
Author(s): Nivedita, Abdul Rawoof, Nirala Ramchiary, M. Z. Abdin
Software Mentions: 5
Published: over 5 years ago

10.3389/fmicb.2018.02381

How Rainforest Conversion to Agricultural Systems in Sumatra (Indonesia) Affects Active Soil Bacterial Communities
Cited by: 33
Author(s): Dirk Hölscher, Dominik Schneider, Martin Engelhaupt, Melanie Heinemann, Stephan Christel, Marini Wijayanti, Anja Meryandini, Rolf Daniel
Software Mentions: 5
Published: almost 8 years ago

10.1038/s41598-020-72511-8

Burn resuscitation strategy influences the gut microbiota-liver axis in swine
Cited by: 11
Author(s): Wayne Muraoka, Jose C. Granados, Belinda I. Gómez, Susannah E. Nicholson, Kevin K. Chung, Jeffrey W. Shupp, James A. Bynum, Michael A. Dubick, David M. Burmeister
Software Mentions: 5
Published: about 6 years ago

10.1038/s41598-019-57108-0

Transcriptional analysis identifies potential biomarkers and molecular regulators in pneumonia and COPD exacerbation
Cited by: 15
Author(s): Wilhelm Bertrams, Kathrin Griss, Maria Han, Kerstin Seidel, Andreas Klemmer, Alexandra Sittka-Stark, Stefan Hippenstiel, Norbert Suttorp, Florian Finkernagel, Jochen Wilhelm, Timm Greulich, Claus Vogelmeier, Julio Vera, Bernd Schmeck
Software Mentions: 5
Published: over 6 years ago

10.3389/fimmu.2021.680435

An Eight-Gene Hypoxia Signature Predicts Survival in Pancreatic Cancer and Is Associated With an Immunosuppressed Tumor Microenvironment
Cited by: 24
Author(s): Raefa Abou Khouzam, R. Shyama Prasad Rao, Goutham Hassan Venkatesh, Nagwa Ahmed Zeinelabdin, Stéphanie Buart, Maxime Meylan, Manjunath Nimmakayalu, Stéphane Terry, Salem Chouaı̈b
Software Mentions: 5
Published: over 5 years ago

10.7554/eLife.49577

The Mars1 kinase confers photoprotection through signaling in the chloroplast unfolded protein response
Cited by: 40
Author(s): Karina Perlaza, Hannah Toutkoushian, Morgane Boone, Mable Lam, Masakazu Iwai, Martin C. Jonikas, Peter Walter, Silvia Ramundo
Software Mentions: 5
Published: almost 7 years ago

10.3389/fmicb.2017.00773

The 25–26 nt Small RNAs in Phytophthora parasitica Are Associated with Efficient Silencing of Homologous Endogenous Genes
Cited by: 28
Author(s): Jinbu Jia, Wenqin Lu, Chengcheng Zhong, Ran Zhou, Junjie Xu, Wei Liu, Xiuhong Gou, Qinhu Wang, Junliang Yin, Changwu Xu, Weixing Shan
Software Mentions: 5
Published: over 9 years ago

10.1371/journal.pone.0119002

Population Regulation in Magellanic Penguins: What Determines Changes in Colony Size?
Cited by: 31
Author(s): Luciana M. Pozzi, Pablo García Borboroglu, P. Dee Boersma, Miguel Pascual
Software Mentions: 5
Published: over 11 years ago

10.1038/s41598-021-84860-z

Characterisation, identification, clustering, and classification of disease
Cited by: 17
Author(s): Anthony J Webster, Kezia Gaitskell, Iain Turnbull, B J Cairns, Robert Clarke
Software Mentions: 5
Published: over 5 years ago

10.3389/fmicb.2018.02015

The RNA Complement of Outer Membrane Vesicles From Salmonella enterica Serovar Typhimurium Under Distinct Culture Conditions
Cited by: 46
Author(s): Antoine Malabirade, Janine Habier, Anna Heintz‐Buschart, Patrick May, Julien Godet, Rashi Halder, Alton Etheridge, David J. Galas, Paul Wilmes, Joëlle V. Fritz
Software Mentions: 5
Published: about 8 years ago

10.1371/journal.pone.0065267

Zinc Finger Nuclease Mediated Knockout of ADP-Dependent Glucokinase in Cancer Cell Lines: Effects on Cell Survival and Mitochondrial Oxidative Metabolism
Cited by: 14
Author(s): Susan Richter, Shona Morrison, Timothy Connor, Jiechuang Su, Cristin G. Print, Ron S. Ronimus, Sean L. McGee, William R. Wilson
Software Mentions: 5
Published: over 13 years ago

10.1038/s41598-020-60065-8

Functional omics analyses reveal only minor effects of microRNAs on human somatic stem cell differentiation
Cited by: 7
Author(s): Jessica Schira‐Heinen, A. Czapla, Marion Hendricks, Andreas Kloetgen, Wasco Wruck, James Adjaye, Gesine Kögler, Hans Müller, Kai Stühler, Hans‐Ingo Trompeter
Software Mentions: 5
Published: over 6 years ago

10.1186/s13059-017-1304-1

Abundant expression of somatic transposon-derived piRNAs throughout Tribolium castaneum embryogenesis
Cited by: 16
Author(s): Maria Ninova, Sam Griffiths-Jones, Matthew Ronshaugen
Software Mentions: 5
Published: about 9 years ago

10.1186/gb-2013-14-10-r112

Genome-wide analysis of condensin binding in Caenorhabditis elegans
Cited by: 74
Author(s): Anna-Lena Kranz, Chenyu Jiao, Lara Winterkorn, Sarah Elizabeth Albritton, Maxwell Kramer, Sevinç Ercan
Software Mentions: 5
Published: almost 14 years ago

10.1534/genetics.116.194688

Wheat Landrace Genome Diversity
Cited by: 67
Author(s): Luzie U. Wingen, Claire West, Michelle Leverington-Waite, Sarah Collier, Simon Orford, Richard Goram, Caiyun Yang, Julie King, Alexandra M. Allen, Amanda Burridge, Keith J. Edwards, Simon Griffiths
Software Mentions: 5
Published: over 9 years ago

10.21203/rs.3.rs-25643/v1

Identification of new drug treatments to combat COVID19: A signature-based approach using iLINCS
Cited by: 5
Author(s): Sinead M. O’Donovan, Hunter M. Eby, Nicholas Henkel, Justin Creeden, Ali Sajid Imami, Sophie Asah, Xiaolu Zhang, Xiaojun Wu, Rawan Alnafisah, R Travis Taylor, James Reigle, Alexander W. Thorman, Behrouz Shamsaei, Jarek Meller, Robert E. McCullumsmith
Software Mentions: 5
Published: over 6 years ago

10.1093/sleep/zsy186

Identifying and validating blood mRNA biomarkers for acute and chronic insufficient sleep in humans: a machine learning approach
Cited by: 30
Author(s): Emma Laing, Carla S. Möller-Levet, Derk‐Jan Dijk, Simon N. Archer
Software Mentions: 5
Published: about 8 years ago

10.3389/fmed.2017.00153

TruSeq-Based Gene Expression Analysis of Formalin-Fixed Paraffin-Embedded (FFPE) Cutaneous T-Cell Lymphoma Samples: Subgroup Analysis Results and Elucidation of Biases from FFPE Sample Processing on the TruSeq Platform
Cited by: 15
Author(s): Philippe Lefrançois, Michael T. Tetzlaff, Linda Moreau, Andrew Watters, Elena Netchiporouk, Nathalie Provost, Martin Gilbert, Xiao Ni, Denis Sasseville, Madeleine Duvic, Ivan V. Litvinov
Software Mentions: 5
Published: about 9 years ago

10.1038/s41598-020-66721-3

Cardiac transcriptional and metabolic changes following thoracotomy
Cited by: 0
Author(s): Markus Heckmann, Ashraf Yusuf Rangrez, Daniel Finke, Andreas Jungmann, Julia S. Kreußer, Alexandra Rosskopf, Nesrin Schmiedel, Hugo A. Katus, Norbert Frey, Oliver Müller
Software Mentions: 5
Published: over 6 years ago

10.1186/s12860-019-0199-y

Single cell RNA-Seq reveals pre-cDCs fate determined by transcription factor combinatorial dose
Cited by: 14
Author(s): MA Wei-hua, Jaeyop Lee, Daniel Backenroth, Yu Zhou, Erin C. Bush, Peter A. Sims, Kang Liu, Yufeng Shen
Software Mentions: 5
Published: over 7 years ago

10.1371/journal.pbio.2003962

Design of synthetic bacterial communities for predictable plant phenotypes
Cited by: 157
Author(s): Sur Herrera Paredes, Tianxiang Gao, Theresa F. Law, Omri M. Finkel, Tatiana S. Mucyn, Paulo José Pereira Lima Teixeira, Isaí Salas González, Meghan E. Feltcher, Matthew J. Powers, Elizabeth A. Shank, Corbin D. Jones, Vladimir Jojic, Jeffery L. Dangl, Gabriel Castrillo
Software Mentions: 5
Published: over 8 years ago

10.3390/cells9020323

Painting of Fourth and the X-Linked 1.688 Satellite in D. melanogaster Is Involved in Chromosome-Wide Gene Regulation
Cited by: 6
Author(s): Samaneh Ekhteraei-Tousi, Jacob Lewerentz, Jonas Larsson
Software Mentions: 5
Published: over 6 years ago

10.3390/cells10081971

PopulusPtERF85 Balances Xylem Cell Expansion and Secondary Cell Wall Formation in Hybrid Aspen
Cited by: 8
Author(s): Carolin Seyfferth, Bernard A. Wessels, Jorma Vahala, Jaakko Kangasjärvi, Nicolas Delhomme, Torgeir R. Hvidsten, Hannele Tuominen, Judith Lundberg‐Felten
Software Mentions: 5
Published: about 5 years ago

10.1186/s12866-021-02123-3

Long-term stability of the urogenital microbiota of asymptomatic European women
Cited by: 13
Author(s): Magdalena Ksiezarek, Svetlana Ugarčina Perović, Júlio César Rocha, Filipa Grosso, Luı́sa Peixe
Software Mentions: 5
Published: over 5 years ago

10.1016/j.celrep.2019.11.066

Molecular Basis for Autosomal-Dominant Renal Fanconi Syndrome Caused by HNF4A
Cited by: 28
Author(s): Valentina Marchesin, Albert Pérez-Martí, G. Le Meur, Roman Pichler, Kelli Grand, Enriko Klootwijk, Anne Kesselheim, Robert Kleta, Soeren S. Lienkamp, Matias Simons
Software Mentions: 5
Published: almost 7 years ago

10.1038/s41598-017-03489-z

Comparative genomics and transcriptomics of Escherichia coli isolates carrying virulence factors of both enteropathogenic and enterotoxigenic E. coli
Cited by: 38
Author(s): Tracy H. Hazen, Jane Michalski, Qingwei Luo, Amol C. Shetty, Sean C. Daugherty, James M. Fleckenstein, David A. Rasko
Software Mentions: 5
Published: over 9 years ago

10.1038/s41598-017-08010-0

Small secreted proteins from the necrotrophic conifer pathogen Heterobasidion annosum s.l. (HaSSPs) induce cell death in Nicotiana benthamiana
Cited by: 25
Author(s): Tommaso Raffaello, Fred O. Asiegbu
Software Mentions: 5
Published: about 9 years ago

10.1038/s41598-017-01767-4

Systems Immunology of Diabetes-Tuberculosis Comorbidity Reveals Signatures of Disease Complications
Cited by: 78
Author(s): César Augusto Prada-Medina, Kiyoshi F. Fukutani, Nathella Pavan Kumar, Leonardo Gil-Santana, Subash Babu, Flávio Lichtenstein, Kim West, Sivakumar Shanmugam, Pradeep A. Menon, Vijay Viswanathan, Bruno B. Andrade, Hidehiko Nakaya, Hardy Kornfeld
Software Mentions: 5
Published: over 9 years ago

10.1186/s13024-020-00405-4

Integrated analysis of the aging brain transcriptome and proteome in tauopathy
Cited by: 20
Author(s): Carl Grant Mangleburg, Timothy Wu, Hari Krishna Yalamanchili, Caiwei Guo, Yi-Cheng Hsieh, Duc Duong, Eric B. Dammer, Philip L. De Jager, Nicholas T. Seyfried, Zhandong Liu, Zhandong Liu
Software Mentions: 5
Published: about 6 years ago

10.1371/journal.pbio.3000091

Non-proteolytic ubiquitin modification of PPARγ by Smurf1 protects the liver from steatosis
Cited by: 16
Author(s): Kun Yan Zhu, Yi Tang, Xuan Xu, Hien Dang, Liu-Ya Tang, Xiang Wang, Xin Wei Wang, Ying E. Zhang
Software Mentions: 5
Published: almost 8 years ago

10.1016/j.stem.2015.04.004

Combined Single-Cell Functional and Gene Expression Analysis Resolves Heterogeneity within Stem Cell Populations
Cited by: 369
Author(s): Nicola K. Wilson, David G. Kent, Florian Buettner, Mona Shehata, Iain C. Macaulay, Fernando J. Calero-Nieto, Manuel Sánchez Castillo, Caroline A. Oedekoven, Evangelia Diamanti, Reiner Schulte, Chris P. Ponting, Thierry Voet, Carlos Caldas, John Stingl, Anthony Green, Fabian J. Theis, Berthold Göttgens
Software Mentions: 5
Published: over 11 years ago

10.1038/s41598-017-00223-7

Weaning age influences the severity of gastrointestinal microbiome shifts in dairy calves
Cited by: 78
Author(s): S. J. Meale, S. C. Li, Paula Azevedo, Hooman Derakhshani, T.J. DeVries, J.C. Plaizier, M.A. Steele, Ehsan Khafipour
Software Mentions: 5
Published: over 9 years ago

10.1186/s40168-018-0612-3

Design and application of a novel two-amplicon approach for defining eukaryotic microbiota
Cited by: 16
Author(s): Ana Popović, Céline Bourdon, Pauline W. Wang, David S. Guttman, Wieger Voskuijl, Michael E. Grigg, Robert Bandsma, John Parkinson
Software Mentions: 5
Published: almost 8 years ago

10.3390/molecules26061789

Needle Trap Device-GC-MS for Characterization of Lung Diseases Based on Breath VOC Profiles
Cited by: 14
Author(s): Fernanda Monedeiro, Maciej Monedeiro-Milanowski, Ileana-Andreea Raţiu, Beata Brożek, Tomasz Ligor, Bogusław Buszewski
Software Mentions: 5
Published: over 5 years ago

10.3390/molecules25214894

Study on Molecular Profiles of Staphylococcus aureus Strains: Spectrometric Approach
Cited by: 8
Author(s): Michał Złoch, Paweł Pomastowski, Ewelina Maślak, Fernanda Monedeiro
Software Mentions: 5
Published: almost 6 years ago

10.3390/plants10020267

Extensive Analysis of miRNA Trimming and Tailing Indicates that AGO1 Has a Complex Role in miRNA Turnover
Cited by: 5
Author(s): Axel J Giudicatti, Ariel Hernán Tomassi, Pablo Andrés Manavella, Agustín Lucas Arce
Software Mentions: 5
Published: over 5 years ago

10.1038/srep31587

Hepatic and serum lipid signatures specific to nonalcoholic steatohepatitis in murine models
Cited by: 33
Author(s): Franck Chiappini, Christophe Desterke, Justine Bertrand‐Michel, Catherine Guettier, François Le Naour
Software Mentions: 5
Published: about 10 years ago

10.1038/srep25668

Etiology matters – Genomic DNA Methylation Patterns in Three Rat Models of Acquired Epilepsy
Cited by: 76
Author(s): Konrad J. Dębski, Asla Pitkänen, Noora Puhakka, Anna Bot, Ishant Khurana, K N Harikrishnan, Mark Ziemann, Antony Kaspi, Assam El‐Osta, Katarzyna Łukasiuk, Katja Kobow
Software Mentions: 5
Published: over 10 years ago

10.1038/srep33813

Contrasting diets reveal metabolic plasticity in the tree-killing beetle, Anoplophora glabripennis (Cerambycidae: Lamiinae)
Cited by: 20
Author(s): Charles J. Mason, Erin D. Scully, Scott M. Geib, Kelli Hoover
Software Mentions: 5
Published: about 10 years ago

10.1186/s12920-020-00740-x

Integrative analyses of gene expression profile reveal potential crucial roles of mitotic cell cycle and microtubule cytoskeleton in pulmonary artery hypertension
Cited by: 15
Author(s): Jing Luo, Haiyan Li, Zhenwei Liu, Chenlu Li, Ruochen Wang, Jinxia Fang, Saisai Lu, Jing Guo, Xiongzhao Zhu, Xiaobing Wang
Software Mentions: 5
Published: over 6 years ago

10.1038/srep21557

Metabolic/Proteomic Signature Defines Two Glioblastoma Subtypes With Different Clinical Outcome
Cited by: 73
Author(s): Giovanna Marziali, Michele Signore, Mariachiara Buccarelli, Sveva Grande, Alessandra Palma, Mauro Biffoni, Antonella Rosi, Quintino Giorgio D’Alessandris, Maurizio Martini, Luigi Maria Larocca, Ruggero De Maria, Roberto Pallini, Lucia Ricci‐Vitiani
Software Mentions: 5
Published: over 10 years ago

10.1038/sdata.2019.7

The effect of 16S rRNA region choice on bacterial community metabarcoding results
Cited by: 222
Author(s): Yu. S. Bukin, Yuri P. Galachyants, И. В. Морозов, S. V. Bukin, А. S. Zakharenko, Т. I. Zemskaya
Software Mentions: 5
Published: over 7 years ago

10.3390/microorganisms9030606

Disproportionate CH4 Sink Strength from an Endemic, Sub-Alpine Australian Soil Microbial Community
Cited by: 1
Author(s): Marshall D. McDaniel, Marcela Hernández, Marc G. Dumont, Lachlan J. Ingram, Mark A. Adams
Software Mentions: 5
Published: over 5 years ago

10.1186/s12879-018-3127-4

“Tuberculosis in advanced HIV infection is associated with increased expression of IFNγ and its downstream targets”
Cited by: 18
Author(s): Sheetal Verma, Peicheng Du, Damalie Nakanjako, Sabine Hermans, Jessica Briggs, Lydia Nakiyingi, Jerrold J. Ellner, Yukari C. Manabe, Padmini Salgame
Software Mentions: 5
Published: over 8 years ago

10.1038/srep46156

Integrated host and viral transcriptome analyses reveal pathology and inflammatory response mechanisms to ALV-J injection in SPF chickens
Cited by: 18
Author(s): Xi Lan, Yan Wang, Kai Tian, Fei Ye, Huadong Yin, Xiaoling Zhao, Hengyong Xu, Yong Huang, Haibo Li, John Hsieh, Susan J. Lamont, Qing Zhu
Software Mentions: 5
Published: over 9 years ago

10.3390/plants10091870

The Arabinogalactan Protein Family of Centaurium erythraea Rafn
Cited by: 3
Author(s): Danijela M. Paunović, Katarina Ćuković, Milica Bogdanović, Slaðana Todorović, Milana Trifunović‐Momčilov, Angelina Subotić, Ana Simonović, Milan Dragićević
Software Mentions: 5
Published: about 5 years ago

10.1186/1471-2105-14-47

A survey of protein interaction data and multigenic inherited disorders
Cited by: 6
Author(s): Antonio M. Mora, Katerina Michalickova, Ian Donaldson
Software Mentions: 5
Published: over 13 years ago

10.3390/genes11050499

Unmasking Intra-Tumoral Heterogeneity and Clonal Evolution in NF1-MPNST
Cited by: 2
Author(s): Chang In Moon, William Tompkins, Yuxi Wang, Abigail Godec, Xiaochun Zhang, Patrik Pipkorn, Christopher A. Miller, Carina Dehner, Sonika Dahiya, Angela C. Hirbe
Software Mentions: 5
Published: over 6 years ago

10.3390/microorganisms9020347

Global Transcriptional Response of Methylorubrum extorquens to Formaldehyde Stress Expands the Role of EfgA and Is Distinct from Antibiotic Translational Inhibition
Cited by: 3
Author(s): Jannell V. Bazurto, Siavash Riazi, Simon D’Alton, Daniel E. Deatherage, Eric L. Bruger, Jeffrey E. Barrick, Christopher J. Marx
Software Mentions: 5
Published: over 5 years ago

10.3390/genes12020201

Ablation of SMUG1 Reduces Cell Viability and Increases UVC-Mediated Apoptosis in Hepatocarcinoma HepG2 Cells
Cited by: 1
Author(s): Mi-Jin An, Geun-Seup Shin, Hyun-Min Lee, Jung-Woong Kim
Software Mentions: 5
Published: over 5 years ago

10.3390/cancers13153764

Glioblastomas within the Subventricular Zone Are Region-Specific Enriched for Mesenchymal Transition Markers: An Intratumoral Gene Expression Analysis
Cited by: 5
Author(s): Diana J. Z. Dalemans, Sharon Berendsen, Kaspar Draaisma, Pierre A. Robe, Tom J. Snijders
Software Mentions: 5
Published: about 5 years ago

10.3390/genes12020264

Bisphenol A Exposure Changes the Transcriptomic and Proteomic Dynamics of Human Retinoblastoma Y79 Cells
Cited by: 7
Author(s): Chulhong Kim, Mi Jin Kim, Jin‐Hong Park, Jin-Ho Kim, Jiyoung Kim, Mi-Jin An, Geun-Seup Shin, Hyun-Min Lee, Jung-Woong Kim
Software Mentions: 5
Published: over 5 years ago

10.3390/microorganisms9071457

Indicative Marker Microbiome Structures Deduced from the Taxonomic Inventory of 67 Full-Scale Anaerobic Digesters of 49 Agricultural Biogas Plants
Cited by: 7
Author(s): Julia Hassa, Johanna Klang, Dirk Benndorf, Marcel Pohl, Benedikt Hülsemann, Torsten Mächtig, Mathias Effenberger, Alfred Pühler, Andreas Schlüter, Susanne Theuerl
Software Mentions: 5
Published: about 5 years ago

10.1186/s12864-015-2096-x

The distribution and impact of common copy-number variation in the genome of the domesticated apple, Malus x domestica Borkh
Cited by: 19
Author(s): James Boocock, David Chagné, Tony R. Merriman, Michael A. Black
Software Mentions: 5
Published: almost 11 years ago

10.1186/s12263-021-00692-6

Transcriptomic changes in peripheral blood mononuclear cells with weight loss: systematic literature review and primary data synthesis
Cited by: 7
Author(s): Kaitlin Day, Aimee L. Dordevic, Helen Truby, Melissa C. Southey, Susan L. Coort, Chiara Murgia
Software Mentions: 5
Published: about 5 years ago

10.3389/fpls.2018.00018

Genome-Wide Identification of Cyclic Nucleotide-Gated Ion Channel Gene Family in Wheat and Functional Analyses of TaCNGC14 and TaCNGC16
Cited by: 37
Author(s): Jia Guo, Md. Ashraful Islam, Haocheng Lin, Changan Ji, Yinghui Duan, Peng Liu, Qingdong Zeng, Brad Day, Zhensheng Kang, Jun Guo
Software Mentions: 5
Published: over 8 years ago

10.1186/s12864-016-2429-4

Genome-wide association mapping of partial resistance to Aphanomyces euteiches in pea
Cited by: 64
Author(s): Aurore Desgroux, Virginie Merot l'Anthoene, Martine Roux-Duparque, Jean-Philippe Rivière, Grégoire Aubert, Nadim Tayeh, Anne Moussart, P Mangin, Pierrick Vetel, Christophe Piriou, Rebecca J. McGee, Clarice J. Coyne, Judith Burstin, Alain Baranger, Maria Manzanares-Dauleux, Virginie Bourion, Marie‐Laure Pilet‐Nayel
Software Mentions: 5
Published: over 10 years ago

10.1186/s40168-021-01110-0

Prevotella copri increases fat accumulation in pigs fed with formula diets
Cited by: 70
Author(s): Congying Chen, Shouguo Fang, Hong Wei, Maozhang He, Hao Fu, Xinwei Xiong, Yunyan Zhou, Jingyuan Wu, Jun Gao, Hui Yang, Lusheng Huang
Software Mentions: 5
Published: about 5 years ago

10.1371/journal.pone.0023024

Temporal Retinal Nerve Fiber Loss in Patients with Spinocerebellar Ataxia Type 1
Cited by: 56
Author(s): Sarah Stricker, Timm Oberwahrenbrock, Hanna Zimmermann, Jan Schroeter, Matthias Endres, Alexander U. Brandt, Friedemann Paul
Software Mentions: 5
Published: about 15 years ago

10.3945/ajcn.116.139980

What’s normal? Oligosaccharide concentrations and profiles in milk produced by healthy women vary geographically ,
Cited by: 268
Author(s): Michelle K. McGuire, Courtney L. Meehan, Mark A. McGuire, Janet E. Williams, James E. Foster, Daniel Sellen, Elizabeth Kamau-Mbuthia, Egidioh W. Kamundia, Samwel Mbugua, Sophie E. Moore, Andrew M. Prentice, Linda J. Kvist, Gloria E. Otoo, Sarah L Brooker, William J. Price, Bahman Shafii, Caitlyn Placek, Kimberly A. Lackey, Bianca Robertson, Susana Manzano, Lorena Ruíz, Juan M. Rodríguez, Rossina G. Pareja, Lars Bode
Software Mentions: 5
Published: over 9 years ago

10.1186/s40168-017-0304-4

Huanglongbing impairs the rhizosphere-to-rhizoplane enrichment process of the citrus root-associated microbiome
Cited by: 145
Author(s): Yunzeng Zhang, Jin Xu, Nadia Riera, Tao Jin, Jinyun Li, Nian Wang
Software Mentions: 5
Published: about 9 years ago

10.1186/1471-2164-15-749

Metagenomics reveals that detoxification systems are underrepresented in marine bacterial communities
Cited by: 22
Author(s): Johan Bengtsson‐Palme, Magnus Alm Rosenblad, Mikael Molin, Anders Blomberg
Software Mentions: 5
Published: almost 13 years ago

10.1111/pbi.13236

Molecular insight into cotton leaf curl geminivirus disease resistance in cultivated cotton ( <i>Gossypium hirsutum</i> )
Cited by: 42
Author(s): Syed Shan-e-Ali Zaidi, Rubab Zahra Naqvi, Muhammad Asif, Susan R. Strickler, Sara Shakir, Muhammad Shafiq, Ayesha Khan, Imran Amin, Bharat Mishra, M. Shahid Mukhtar, Brian E. Scheffler, Jodi A. Scheffler, Lukas A. Mueller, Shahid Mansoor
Software Mentions: 5
Published: about 7 years ago

10.1371/journal.pone.0235066

Genomic epidemiology and carbon metabolism of Escherichia coli serogroup O145 reflect contrasting phylogenies
Cited by: 3
Author(s): Rose M. Collis, Patrick J. Biggs, Anne C. Midwinter, A. Springer Browne, David Wilkinson, Hamid Irshad, Nigel French, Gale Brightwell, Adrian L. Cookson
Software Mentions: 5
Published: over 6 years ago

10.1186/s12864-019-6179-y

Transcriptional variation and divergence of host-finding behaviour in Steinernema carpocapsae infective juveniles
Cited by: 5
Author(s): Neil D. Warnock, Deborah Cox, Ciaran J. McCoy, Robert Morris, Johnathan J. Dalzell
Software Mentions: 5
Published: almost 7 years ago

10.1186/1471-2164-14-853

Reprogramming of lysosomal gene expression by interleukin-4 and Stat6
Cited by: 18
Author(s): Louise M Brignull, Zsolt Czimmerer, Hafida Saidi, Bence Dániel, Izabel Vianna Villela, Nathan W. Bartlett, Sebastian L. Johnston, Lisiane B. Meira, László Nagy, Axel Nohturfft
Software Mentions: 5
Published: almost 13 years ago

10.3390/microorganisms8121977

Alteration of Bacterial Communities in Anterior Nares and Skin Sites of Patients Undergoing Arthroplasty Surgery: Analysis by 16S rRNA and Staphylococcal-Specific tuf Gene Sequencing
Cited by: 8
Author(s): Søren Iversen, Thor Bech Johannesen, Anna Cäcilia Ingham, Sofie Marie Edslev, Staffan Tevell, Emeli Månsson, Åsa Nilsdotter-Augustinsson, Bo Söderquist, Marc Stegger, Paal Skytt Andersen
Software Mentions: 5
Published: almost 6 years ago

10.1371/journal.pone.0222552

Systems biology analysis of publicly available transcriptomic data reveals a critical link between AKR1B10 gene expression, smoking and occurrence of lung cancer
Cited by: 8
Author(s): J Carlos Angulo, Eduardo R. Fukutani, Luís A. B. Cruz, María B. Arriaga, João Victor Lima, Bruno B. Andrade, Artur T. L. Queiroz, Kiyoshi F. Fukutani
Software Mentions: 5
Published: over 6 years ago

10.1186/s42523-021-00095-3

Evolution of rumen and oral microbiota in calves is influenced by age and time of weaning
Cited by: 19
Author(s): Nida Amin, Sarah Schwarzkopf, Asako Kinoshita, Johanna Tröscher-Mußotter, Sven Dänicke, Amélia Camarinha‐Silva, Korinna Huber, Jana Frahm, Jana Seifert
Software Mentions: 5
Published: over 5 years ago

10.3389/fpls.2021.695439

Genome-Wide Identification and Characterization of Small Peptides in Maize
Cited by: 15
Author(s): Yan Liang, Wanchao Zhu, Sijia Chen, Qidong Jia, Li Lin
Software Mentions: 5
Published: over 5 years ago

10.1186/s12864-015-2174-0

Extensive variation between tissues in allele specific expression in an outbred mammal
Cited by: 67
Author(s): Amanda J. Chamberlain, Christy J. Vander Jagt, Ben J. Hayes, Majid Khansefid, L. C. Marett, Catriona A. Millen, Thuy Thi Thu Nguyen, Michael E. Goddard
Software Mentions: 5
Published: almost 11 years ago

10.3389/fpls.2019.00963

Identification of a Dominant Chlorosis Phenotype Through a Forward Screen of the Triticum turgidum cv. Kronos TILLING Population
Cited by: 17
Author(s): Sophie A Harrington, Nicolás Cobo, Miroslava Karafiátová, Jaroslav Doležel, Philippa Borrill, Cristóbal Uauy
Software Mentions: 5
Published: about 7 years ago

10.3389/fpls.2020.00545

Spatiotemporal Modulation of Flavonoid Metabolism in Blueberries
Cited by: 38
Author(s): Catrin S. Günther, Andrew P. Dare, Tony K. McGhie, Cecilia Deng, Declan J. Lafferty, Blue Plunkett, Ella Grierson, Janice L. Turner, Laura Jaakola, Nick W. Albert, Richard V. Espley
Software Mentions: 5
Published: over 6 years ago

10.1038/sdata.2018.290

Transcriptome profiling of a beach-adapted wild legume for dissecting novel mechanisms of salinity tolerance
Cited by: 5
Author(s): Hengyou Zhang, Christine Zuelsdorf, Darin S. Penneys, Shoujin Fan, Janice Kofsky, Bao‐Hua Song
Software Mentions: 5
Published: almost 8 years ago

10.1186/s12864-018-4750-6

Signatures of host specialization and a recent transposable element burst in the dynamic one-speed genome of the fungal barley powdery mildew pathogen
Cited by: 124
Author(s): Lamprinos Frantzeskakis, Barbara Kracher, Stefan Kusch, Makoto Yoshikawa-Maekawa, Saskia Bauer, Carsten Pedersen, Pietro D. Spanu, Takaki Maekawa, Paul Schulze‐Lefert, Ralph Panstruga
Software Mentions: 5
Published: over 8 years ago

10.1371/journal.pone.0094162

Geographic Variation of Melanisation Patterns in a Hornet Species: Genetic Differences, Climatic Pressures or Aposematic Constraints?
Cited by: 39
Author(s): A. Perrard, Marcella Arca, Quentin Rome, Franck Müller, Jiang-Li Tan, Sanjaya Bista, Hari Nugroho, Raymond Baudoin, Michel Baylac, Jean François Silvain, James M. Carpenter, Claire Villemant
Software Mentions: 5
Published: over 12 years ago

10.1371/journal.pcbi.1005274

Tissue-Specificity of Gene Expression Diverges Slowly between Orthologs, and Rapidly between Paralogs
Cited by: 61
Author(s): Nadezda Kryuchkova-Mostacci, Marc Robinson‐Rechavi
Software Mentions: 5
Published: almost 10 years ago

10.3389/fphar.2018.00084

Proteomic Analysis of Combined Gemcitabine and Birinapant in Pancreatic Cancer Cells
Cited by: 15
Author(s): Xu Zhu, Xiaomeng Shen, Jun Qu, Robert M. Straubinger, William J. Jusko
Software Mentions: 5
Published: over 8 years ago

10.1038/s41598-017-14942-4

Genome-wide profiling of nardilysin target genes reveals its role in epigenetic regulation and cell cycle progression
Cited by: 6
Author(s): Yusuke Morita, Mikiko Ohno, Kiyoto Nishi, Yutaka Hiraoka, Sayaka Saijo, Shintaro Matsuda, Toru Kita, Takeshi Kimura, Eiichiro Nishi
Software Mentions: 5
Published: almost 9 years ago

10.3390/microorganisms8060875

Recovery of Vaginal Microbiota after Standard Treatment for Bacterial Vaginosis Infection: An Observational Study
Cited by: 16
Author(s): Liisa Lehtoranta, Ashley A. Hibberd, Jenni Reimari, Jouni Junnila, Nicolas Yeung, Johanna Maukonen, G. Crawford, Arthur C. Ouwehand
Software Mentions: 5
Published: over 6 years ago

10.3389/fonc.2019.01206

Exploration of the Transcriptional Landscape of ALPPS Reveals the Pathways of Accelerated Liver Regeneration
Cited by: 11
Author(s): Pieter Borger, Marcel Schneider, Lukas Frick, Magda Langiewicz, Maksim Sorokin, Anton Buzdin, Ekaterina Kachaylo, Rolf Graf, Bostjan Humar, Pierre‐Alain Clavien
Software Mentions: 5
Published: almost 7 years ago

10.3389/fpls.2016.01225

TALE-Like Effectors Are an Ancestral Feature of the Ralstonia solanacearum Species Complex and Converge in DNA Targeting Specificity
Cited by: 29
Author(s): Niklas Schandry, Orlando de Lange, Philippe Prior, Thomas Lahaye
Software Mentions: 5
Published: about 10 years ago

10.1186/s12864-017-3978-x

Succinyl-proteome profiling of Dendrobium officinale, an important traditional Chinese orchid herb, revealed involvement of succinylation in the glycolysis pathway
Cited by: 37
Author(s): Shi Feng, Kaili Jiao, Hong Guo, Min Jiang, Juan Hao, Huizhong Wang, Chenjia Shen
Software Mentions: 5
Published: about 9 years ago

10.1186/s12864-015-1546-9

Activation of defence pathways in Scots pine bark after feeding by pine weevil (Hylobius abietis)
Cited by: 31
Author(s): Andriy Kovalchuk, Tommaso Raffaello, Emad Jaber, Susanna Keriö, Rajendra P. Ghimire, W. Walter Lorenz, Jeffrey F. D. Dean, Jarmo K. Holopainen, Fred O. Asiegbu
Software Mentions: 5
Published: over 11 years ago

10.1371/journal.pone.0193417

Sex- and brain region-specific patterns of gene expression associated with socially-mediated puberty in a eusocial mammal
Cited by: 20
Author(s): Mariela Faykoo-Martinez, D. Ashley Monks, Iva B. Zovkic, Melissa M. Holmes
Software Mentions: 5
Published: over 8 years ago

10.3389/fmicb.2017.00101

Freshwater Recirculating Aquaculture System Operations Drive Biofilter Bacterial Community Shifts around a Stable Nitrifying Consortium of Ammonia-Oxidizing Archaea and Comammox Nitrospira
Cited by: 163
Author(s): Ryan P. Bartelme, Sandra L. McLellan, Ryan J. Newton
Software Mentions: 5
Published: over 9 years ago

10.7717/peerj.9205

Human milk microbiota associated with early colonization of the neonatal gut in Mexican newborns
Cited by: 27
Author(s): Karina Corona-Cervantes, Igrid García-González, Loan Edel Villalobos-Flores, Fernando Hernández-Quiroz, Alberto Piña-Escobedo, Carlos Hoyo‐Vadillo, Martín Noé Rangel-Calvillo, Jaime García‐Mena
Software Mentions: 5
Published: over 6 years ago

10.3389/fmicb.2019.01116

Dynamic Alterations in Yak Rumen Bacteria Community and Metabolome Characteristics in Response to Feed Type
Cited by: 116
Author(s): Chang Liu, Hao Wu, Shujie Liu, Shatuo Chai, Qingxiang Meng, Zhenming Zhou
Software Mentions: 5
Published: over 7 years ago

10.1371/journal.pone.0188842

Markers of epithelial-to-mesenchymal transition reflect tumor biology according to patient age and Gleason score in prostate cancer
Cited by: 31
Author(s): Dorota Jędroszka, Magdalena Orzechowska, R. Hamouz, Karolina Górniak, Andrzej K. Bednarek
Software Mentions: 5
Published: almost 9 years ago

Projects: cran: gplots

Enhanced Analysis

Science Score: 85/100

Bonuses:

Penalties:

Papers Mentioning gplots 2,122