bioconductor: DESeq2 | Projects | Ecosyste.ms: Papers

10.3389/fmicb.2021.557180

Distinct Changes Occur in the Human Breast Milk Microbiome Between Early and Established Lactation in Breastfeeding Guatemalan Mothers
Cited by: 21
Author(s): Emmanuel González, Nicholas J. B. Brereton, Chen Li, Lilian Lopez Leyva, Noel W. Solomons, Luis B. Agellon, Marilyn Scott, Kristine G. Koski
Software Mentions: 1
Published: almost 6 years ago

10.3389/fmicb.2021.628269

Burkholderiaceae Are Key Acetate Assimilators During Complete Denitrification in Acidic Cryoturbated Peat Circles of the Arctic Tundra
Cited by: 23
Author(s): Stefanie A. Hetz, Marcus A. Horn
Software Mentions: 1
Published: almost 6 years ago

10.3389/fmicb.2018.02251

Comparative Time-Scale Gene Expression Analysis Highlights the Infection Processes of Two Amoebophrya Strains
Cited by: 10
Author(s): Sarah Farhat, Isabelle Florent, Benjamin Noël, Ehsan Kayal, Corinne Da Silva, Estelle Bigeard, Adriana Alberti, Karine Labadie, Erwan Corre, Jean‐Marc Aury, Stéphane Rombauts, Patrick Wincker, Laure Guillou, Betina M. Porcel
Software Mentions: 1
Published: about 8 years ago

10.3389/fmicb.2018.01602

Genetically Obese Human Gut Microbiota Induces Liver Steatosis in Germ-Free Mice Fed on Normal Diet
Cited by: 36
Author(s): Ruirui Wang, Hui Li, Xin Yang, Xinhe Xue, Liman Deng, Jian Shen, Menghui Zhang, Liping Zhao, Chenhong Zhang
Software Mentions: 1
Published: over 8 years ago

10.1016/j.bbrep.2021.101038

Analysis of differentially expressed genes responsible for the suppressive effect of anisomycin on cell proliferation of DLD-1 cells
Cited by: 3
Author(s): Hironori Ushijima, Rina Monzaki, Mika Funakoshi
Software Mentions: 1
Published: about 5 years ago

10.1186/s12917-020-02395-3

Chromatin run-on sequencing analysis finds that ECM remodeling plays an important role in canine hemangiosarcoma pathogenesis
Cited by: 3
Author(s): Chinatsu Mukai, Eun‐Ju Choi, Kelly L. Sams, Elena Zu Klampen, Lynne J. Anguish, Brooke A. Marks, Edward J. Rice, Wen‐Zhao Zhong, Lauren A Choate, Shao Pei Chou, Yukinari Kato, Andrew D. Miller, Charles G. Danko, Scott A. Coonrod
Software Mentions: 1
Published: over 6 years ago

10.3389/fmicb.2019.02829

A Similar Secretome Disturbance as a Hallmark of Non-pathogenic Botrytis cinerea ATMT-Mutants?
Cited by: 15
Author(s): Amélie de Vallée, Pascal Bally, Christophe Bruel, Lucie Chandat, Mathias Choquer, Cindy Dieryckx, Jean-William Dupuy, Sophie Kaiser, Marie‐Pascale Latorse, Elise Loisel, Géraldine Mey, Georges Morgant, Christine Rascle, Julia Schumacher, Adeline Simon, Eytham Souibgui, Muriel Viaud, François Villalba, Nathalie Poussereau
Software Mentions: 1
Published: almost 7 years ago

10.3389/fmicb.2021.718487

Resource Allocation During the Transition to Diazotrophy in Klebsiella oxytoca
Cited by: 5
Author(s): Christopher Waite, Anya Lindström Battle, Mark H. Bennett, Matthew Carey, Chun K Hong, Ioly Kotta‐Loizou, Martin Buck, Julia Schumacher
Software Mentions: 1
Published: over 5 years ago

10.1186/s12917-021-02912-y

Involvement of the VEGF signaling pathway in immunosuppression and hypoxia stress: analysis of mRNA expression in lymphocytes mediating panting in Jersey cattle under heat stress
Cited by: 5
Author(s): Jian Wang, Yu‐Tao Xiang, Shisong Jiang, Hongchang Li, Flurin Caviezel, Suporn Katawatin, Monchai Duangjinda
Software Mentions: 1
Published: over 5 years ago

10.1186/s12894-021-00902-8

Isolation and characterization of urine microvesicles from prostate cancer patients: different approaches, different visions
Cited by: 5
Author(s): María García-Flores, Christian M. Sánchez-López, Marta Ramírez-Calvo, Antonio Fernández-Serra, Antonio Marcilla, José Antonio Löpez‐Guerrero
Software Mentions: 1
Published: about 5 years ago

10.3389/fmicb.2020.556064

Transcriptomic and Phenotypic Analysis of a spoIIE Mutant in Clostridium beijerinckii
Cited by: 7
Author(s): Mamou Diallo, Nicolas Kint, Marc Monot, Florent Collas, Isabelle Martin‐Verstraete, John van der Oost, S.W.M. Kengen, Ana M. López-Contreras
Software Mentions: 1
Published: about 6 years ago

10.3389/fmicb.2018.02558

Mechanistic Insights Into the Cross-Feeding of Ruminococcus gnavus and Ruminococcus bromii on Host and Dietary Carbohydrates
Cited by: 99
Author(s): Emmanuelle H. Crost, Gwénaëlle Le Gall, Jenny A. Laverde-Gomez, Indrani Mukhopadhya, Harry J. Flint, Nathalie Juge
Software Mentions: 1
Published: about 8 years ago

10.1038/s41598-018-19236-x

Transcriptome profiling during mangrove viviparity in response to abscisic acid
Cited by: 13
Author(s): Liang Hong, Wenyue Su, Yuanye Zhang, Congting Ye, Yingjia Shen, Qingshun Quinn Li
Software Mentions: 1
Published: almost 9 years ago

10.3389/fmicb.2018.03201

Early Response of Sulfolobus acidocaldarius to Nutrient Limitation
Cited by: 18
Author(s): Lisa Franziska Bischof, M. Florencia Haurat, Lena Hoffmann, Andreas Albersmeier, Jacqueline Wolf, Astrid Neu, Trong Khoa Pham, Stefan P. Albaum, Tobias Jakobi, Stefan Schouten, Meina Neumann‐Schaal, Phillip C. Wright, Jörn Kalinowski, Bettina Siebers, Sonja Albers
Software Mentions: 1
Published: almost 8 years ago

10.3389/fmicb.2020.01617

Diversity of Cellulase-Producing Filamentous Fungi From Tibet and Transcriptomic Analysis of a Superior Cellulase Producer Trichoderma harzianum LZ117
Cited by: 18
Author(s): Jiaxiang Li, Fei Zhang, Dan-Dan Jiang, Jun Li, Feng-Lou Wang, Zhang Zhang, Wei Wang, Xin‐Qing Zhao
Software Mentions: 1
Published: over 6 years ago

10.1186/s12937-018-0381-7

Role of whole grains versus fruits and vegetables in reducing subclinical inflammation and promoting gastrointestinal health in individuals affected by overweight and obesity: a randomized controlled trial
Cited by: 67
Author(s): Julianne C. Kopf, Mallory J. Suhr, Jennifer Clarke, Seong‐il Eyun, Jean-Jack M. Riethoven, Amanda E. Ramer‐Tait, Devin J. Rose
Software Mentions: 1
Published: over 8 years ago

10.1038/s41598-018-20661-1

Genome-scale analysis of Methicillin-resistant Staphylococcus aureus USA300 reveals a tradeoff between pathogenesis and drug resistance
Cited by: 27
Author(s): Donghui Choe, Richard Szubin, Samira Dahesh, Suhyung Cho, Victor Nizet, Jaehyung Kim, Byung-Kwan Cho
Software Mentions: 1
Published: almost 9 years ago

10.1038/s41598-018-20744-z

Transcriptomic changes in the pre-implantation uterus highlight histotrophic nutrition of the developing marsupial embryo
Cited by: 20
Author(s): Camilla M. Whittington, Denis O’Meally, Melanie K. Laird, Katherine Belov, Michael B. Thompson, Bronwyn M. McAllan
Software Mentions: 1
Published: almost 9 years ago

10.3389/fmicb.2020.00151

The Epipeptide YydF Intrinsically Triggers the Cell Envelope Stress Response of Bacillus subtilis and Causes Severe Membrane Perturbations
Cited by: 26
Author(s): Philipp F. Popp, Alhosna Benjdia, Henrik Strahl, Olivier Berteau, Thorsten Mascher
Software Mentions: 1
Published: almost 7 years ago

10.1038/s41598-018-21490-y

Short-term acclimation in adults does not predict offspring acclimation potential to hypoxia
Cited by: 11
Author(s): Manuela Truebano, Oliver Tills, Michael T. Collins, Charlotte Clarke, Emma Shipsides, Charlotte Wheatley, John I. Spicer
Software Mentions: 1
Published: over 8 years ago

10.1186/s12918-018-0652-0

scdNet: a computational tool for single-cell differential network analysis
Cited by: 12
Author(s): Yi-Chang Chiu, Tzu Hung Hsiao, Li J. Wang, Yidong Chen, Yu Shao
Software Mentions: 1
Published: almost 8 years ago

10.1038/s41598-018-21377-y

Co-expression network analysis and cis-regulatory element enrichment determine putative functions and regulatory mechanisms of grapevine ATL E3 ubiquitin ligases
Cited by: 6
Author(s): D. Wong, Pietro Ariani, Simone D. Castellarin, Annalisa Polverari, Elodie Vandelle
Software Mentions: 1
Published: over 8 years ago

10.1038/s41598-018-21478-8

Oligomeric proanthocyanidins (OPCs) target cancer stem-like cells and suppress tumor organoid formation in colorectal cancer
Cited by: 52
Author(s): Shusuke Toden, Preethi Ravindranathan, Jin Gu, Jacob Cardenas, Madelaine Yuchang, Ajay Goel
Software Mentions: 1
Published: over 8 years ago

10.1186/s13104-021-05488-w

Blood transcriptome analysis of patients with uncomplicated bacterial infection and sepsis
Cited by: 10
Author(s): Velma Herwanto, Benjamin Tang, Ya Wang, Maryam Shojaei, Marek Nalos, Amith Shetty, Kevin Lai, Anthony S. McLean, Klaus Schughart
Software Mentions: 1
Published: over 5 years ago

10.3389/fmicb.2017.01811

Transcriptomic Analysis of the Adaptation of Listeria monocytogenes to Lagoon and Soil Matrices Associated with a Piggery Environment: Comparison of Expression Profiles
Cited by: 16
Author(s): Anne-Laure Vivant, Jérémy Desneux, Anne‐Marie Pourcher, Pascal Piveteau
Software Mentions: 1
Published: about 9 years ago

10.3389/fmicb.2017.02489

Physiological and Pathological Transcriptional Activation of Endogenous Retroelements Assessed by RNA-Sequencing of B Lymphocytes
Cited by: 29
Author(s): Jan Attig, George R. Young, Jonathan P. Stoye, George Kassiotis
Software Mentions: 1
Published: almost 9 years ago

10.3390/ijms221910697

Molecular and Metabolic Insights into Anthocyanin Biosynthesis for Leaf Color Change in Chokecherry (Padus virginiana)
Cited by: 23
Author(s): Xiang Li, Yán Li, Mingfei Zhao, Yingmo Hu, Fanjuan Meng, Xing Shun Song, Mulualem Tigabu, Vincent L. Chiang, Ronald R. Sederoff, Wenjun Ma, Xiyang Zhao
Software Mentions: 1
Published: about 5 years ago

10.3389/fmicb.2018.02190

Dosing Regimen of Enrofloxacin Impacts Intestinal Pharmacokinetics and the Fecal Microbiota in Steers
Cited by: 13
Author(s): Kaitlyn M. Ferguson, Megan E. Jacob, Casey M. Theriot, Benjamin J. Callahan, Timo Prange, Mark G. Papich, Derek M. Foster
Software Mentions: 1
Published: about 8 years ago

10.3389/fmicb.2017.00359

New Insights into the Anti-pathogenic Potential of Lactococcus garvieae against Staphylococcus aureus Based on RNA Sequencing Profiling
Cited by: 9
Author(s): Pierre Delpech, Étienne Rifa, Graham Ball, Sabine Nidelet, Emeric Dubois, Geneviève Gagné, Marie‐Christine Montel, Céline Delbès, Stéphanie Bornes
Software Mentions: 1
Published: over 9 years ago

10.1186/s13104-018-3732-8

Observations of extensive gene expression differences in the cerebellum and potential relevance to Alzheimer’s disease
Cited by: 10
Author(s): Sally Chappell, Tulsi Patel, Tamar Guetta-Baranés, Fei Sang, Paul T. Francis, Kevin Morgan, Keeley Brookes
Software Mentions: 1
Published: about 8 years ago

10.1038/s41598-018-22491-7

Influence of fecal collection conditions and 16S rRNA gene sequencing at two centers on human gut microbiota analysis
Cited by: 37
Author(s): Jocelyn Sietsma Penington, Megan A. S. Penno, Katrina Ngui, Nadim J. Ajami, Alexandra J. Roth‐Schulze, Stephen Wilcox, Esther Bandala‐Sanchez, John M. Wentworth, Simon C. Barry, Cheryl Y. Brown, Jennifer Couper, Joseph F. Petrosino, Anthony T. Papenfuss, Leonard C. Harrison
Software Mentions: 1
Published: over 8 years ago

10.3389/fmicb.2018.02488

Negative Control of RpoS Synthesis by the sRNA ReaL in Pseudomonas aeruginosa
Cited by: 16
Author(s): Hue Thi Nguyen, David Romero A., Fabian Amman, Theresa Sorger-Domenigg, Muralidhar Tata, Elisabeth Sonnleitner, Udo Bläsi
Software Mentions: 1
Published: about 8 years ago

10.3389/fmicb.2020.573857

Determining the Different Mechanisms Used by Pseudomonas Species to Cope With Minimal Inhibitory Concentrations of Zinc via Comparative Transcriptomic Analyses
Cited by: 4
Author(s): Lei Lei, Jiahui Chen, Weifang Liao, Pulin Liu
Software Mentions: 1
Published: almost 6 years ago

10.1186/s13104-018-3230-z

Transcriptomic response in Acropora muricata under acute temperature stress follows preconditioned seasonal temperature fluctuations
Cited by: 11
Author(s): Sonny T. M. Lee, Shashank Keshavmurthy, Silvia Fontana, Takuma Mezaki, Wen-Hua Chou, Chaolun Allen Chen
Software Mentions: 1
Published: almost 9 years ago

10.3389/fmicb.2020.00345

Deletion of S-Layer Associated Ig-Like Domain Protein Disrupts the Lactobacillus acidophilus Cell Surface
Cited by: 11
Author(s): Courtney Klotz, Yong Jun Goh, Sarah O’Flaherty, Brant R. Johnson, Rodolphe Barrangou
Software Mentions: 1
Published: over 6 years ago

10.1186/s13104-017-2950-9

Urine cell-free microRNA as biomarkers for transitional cell carcinoma
Cited by: 11
Author(s): Gil A Geva, Ilan Gielchinsky, Nina Aviv, Klaas E.A. Max, Ofer N. Gofrit, Devorah Gur‐Wahnon, Iddo Z. Ben‐Dov
Software Mentions: 1
Published: almost 9 years ago

10.3389/fnint.2019.00059

Acupuncture Treatment Reverses Retinal Gene Expression Induced by Optic Nerve Injury via RNA Sequencing Analysis
Cited by: 7
Author(s): Jie Chen, Li Zhang, Lanying Liu, Xueqin Yang, Fengzhi Wu, Xiulun Gan, Rong Zhang, Yinjia He, Qiuyi Lv, Haonan Fu, Ling Zhou, Jiaxi Zhang, Anming Liu, Xiaodong Liu, Linqing Miao
Software Mentions: 1
Published: about 7 years ago

10.1186/s12870-018-1250-4

Comparative analysis of alfalfa (Medicago sativa L.) leaf transcriptomes reveals genotype-specific salt tolerance mechanisms
Cited by: 72
Author(s): Yunting Lei, Yuxing Xu, Christian Hettenhausen, Chengkai Lu, Gary X. Shen, Cuiping Zhang, Jing Li, Juan Song, Honghui Lin, Jianqiang Wu
Software Mentions: 1
Published: over 8 years ago

10.3389/fnint.2017.00020

Region- and Cell-Specific Expression of Transmembrane Collagens in Mouse Brain
Cited by: 12
Author(s): Aboozar Monavarfeshani, Courtney N. Knill, Ubadah Sabbagh, Jianmin Su, Michael A. Fox
Software Mentions: 1
Published: about 9 years ago

10.3389/fnint.2020.568449

Effects of Retinal Transcription Regulation After GB20 Needling Treatment in Retina With Optic Neuritis
Cited by: 4
Author(s): Jie Chen, Li Zhang, Xiulun Gan, Rong Zhang, Yinjia He, Qiuyi Lv, Haonan Fu, Xiaodong Liu, Linqing Miao
Software Mentions: 1
Published: about 6 years ago

10.3389/fimmu.2019.02455

The Mithralog EC-7072 Induces Chronic Lymphocytic Leukemia Cell Death by Targeting Tonic B-Cell Receptor Signaling
Cited by: 4
Author(s): Seila Lorenzo‐Herrero, Christian Sordo‐Bahamonde, Gabriel Bretones, Ángel Ramírez Payer, Ana Pilar González-Rodríguez, Esther González-García, Jhudit Pérez-Escuredo, Mónica Villa-Álvarez, Luz-Elena Núñez, Francisco Morís, Segundo González, Alejandro López‐Soto
Software Mentions: 1
Published: about 7 years ago

10.1038/s41598-018-25879-7

Linking cervicovaginal immune signatures, HPV and microbiota composition in cervical carcinogenesis in non-Hispanic and Hispanic women
Cited by: 135
Author(s): Paweł Łaniewski, Dominique Barnes, Alison Goulder, Haiyan Cui, Denise J. Roe, Dana M. Chase, Melissa M. Herbst-Kralovetz
Software Mentions: 1
Published: over 8 years ago

10.3389/fimmu.2021.625928

The Dynamic Immune Response of Yellow Catfish (Pelteobagrus fulvidraco) Infected With Edwardsiella ictaluri Presenting the Inflammation Process
Cited by: 7
Author(s): Xu Zhou, Guirong Zhang, Wei Ji, Ze-Chao Shi, Xiao Ma, Zunlan Luo, Kai-Jian Wei
Software Mentions: 1
Published: over 5 years ago

10.1186/s12870-021-02973-z

RcTGA1 and glucosinolate biosynthesis pathway involvement in the defence of rose against the necrotrophic fungus Botrytis cinerea
Cited by: 7
Author(s): Penghua Gao, Hao Zhang, Huijun Yan, Qigang Wang, Bo Yan, Hongying Jian, Kaixue Tang, Xianqin Qiu
Software Mentions: 1
Published: over 5 years ago

10.3389/fimmu.2021.722735

Inhibition of Granuloma Triglyceride Synthesis Imparts Control of Mycobacterium tuberculosis Through Curtailed Inflammatory Responses
Cited by: 10
Author(s): Stanzin Dawa, Dilip Menon, Prakash Arumugam, Akash Kumar Bhaskar, Moumita Mondal, V. Pandu Ranga Rao, Sheetal Gandotra
Software Mentions: 1
Published: about 5 years ago

10.1038/s41598-018-21965-y

HDAC genes play distinct and redundant roles in Cryptococcus neoformans virulence
Cited by: 40
Author(s): Fabiana Brandão, Shannon K. Esher, Kyla S. Ost, Kaila M. Pianalto, Connie B. Nichols, Larissa Fernandes, Anamélia Lorenzetti Bocca, Márcio José Poças-Fonseca, J. Andrew Alspaugh
Software Mentions: 1
Published: over 8 years ago

10.1038/s41598-018-26420-6

Deltamethrin resistance in the salmon louse, Lepeophtheirus salmonis (Krøyer): Maternal inheritance and reduced apoptosis
Cited by: 14
Author(s): Marit Jørgensen Bakke, Celia Agustí, Jo C. Bruusgaard, Arvind Sundaram, Tor Einar Horsberg
Software Mentions: 1
Published: over 8 years ago

10.3389/fimmu.2021.646874

Robust Prediction of Immune Checkpoint Inhibition Therapy for Non-Small Cell Lung Cancer
Cited by: 6
Author(s): Jiehan Jiang, Jin Zheng, Yiqun Zhang, Ling Peng, Yue Zhang, Zhiruo Zhu, Yaohui Wang, De Tong, Yining Yang, Jianfei Wang, Yadong Yang, Kui Xiao
Software Mentions: 1
Published: over 5 years ago

10.1038/s41598-018-26651-7

RNA Sequencing Reveals Novel Transcripts from Sympathetic Stellate Ganglia During Cardiac Sympathetic Hyperactivity
Cited by: 12
Author(s): Emma N. Bardsley, Harvey Davis, Olujimi A. Ajijola, Keith J. Buckler, Jeffrey L. Ardell, Kalyanam Shivkumar, David J. Paterson
Software Mentions: 1
Published: over 8 years ago

10.3389/fimmu.2020.00930

Evidence for the Effect of Vaccination on Host-Pathogen Interactions in a Murine Model of Pulmonary Tuberculosis by Mycobacterium tuberculosis
Cited by: 7
Author(s): Zyanya Lucia Zatarain‐Barrón, Octavio Ramos‐Espinosa, Brenda Marquina‐Castillo, Jorge Barrios-Payán, Fernanda Cornejo‐Granados, Otoniel Maya, Gamaliel López-Leal, Camilo Molina-Romero, Richard Anthony, Adrián Ochoa‐Leyva, Inti A. De La Rosa-Velázquez, Rosa Rebollar-Vega, Robin M. Warren, Dulce Mata-Espinosa, Rogelio Hernández-Pando, Dick van Soolingen
Software Mentions: 1
Published: over 6 years ago

10.1038/s41598-018-27305-4

Transcriptome analysis highlights nuclear control of chloroplast development in the shoot apex
Cited by: 10
Author(s): Vijay Kumar Dalal, Shlomi Dagan, Gilgi Friedlander, Elinor Aviv‐Sharon, Ralph Bock, Dana Charuvi, Ziv Reich, Zach Adam
Software Mentions: 1
Published: over 8 years ago

10.1038/s41598-018-27307-2

A seven-lncRNA signature predicts overall survival in esophageal squamous cell carcinoma
Cited by: 55
Author(s): Yu Mao, Zhanzhao Fu, Yunjie Zhang, Dong Liu, Yanqiu Zhang, Qiang Zhang, Xin Li, Jia Liu
Software Mentions: 1
Published: over 8 years ago

10.3389/fimmu.2019.01148

Comprehensive Characterization of a Next-Generation Antiviral T-Cell Product and Feasibility for Application in Immunosuppressed Transplant Patients
Cited by: 8
Author(s): Leila Amini, Tino Vollmer, Désirée J. Wendering, Anke Jurisch, Sybille Landwehr-Kenzel, Natalie Otto, Karsten Jürchott, Hans‐Dieter Volk, Petra Reinke, Michael Schmueck-Henneresse
Software Mentions: 1
Published: over 7 years ago

10.3389/fimmu.2017.01834

Functionally Convergent B Cell Receptor Sequences in Transgenic Rats Expressing a Human B Cell Repertoire in Response to Tetanus Toxoid and Measles Antigens
Cited by: 14
Author(s): Jean-Philippe Bürckert, Anna Dubois, William J. Faison, Sophie Farinelle, Émilie Charpentier, Regina Sinner, Anke Wienecke-Baldacchino, Claude P. Muller
Software Mentions: 1
Published: almost 9 years ago

10.3389/fimmu.2018.01700

Effects of Anti-Integrin Treatment With Vedolizumab on Immune Pathways and Cytokines in Inflammatory Bowel Diseases
Cited by: 36
Author(s): Timo Räth, Ulrike Billmeier, Fulvia Ferrazzi, Michael Vieth, Arif B. Ekici, Markus F. Neurath, Raja Atreya
Software Mentions: 1
Published: over 8 years ago

10.1038/s41598-018-27086-w

Enteric bacteria boost defences against oxidative stress in Entamoeba histolytica
Cited by: 48
Author(s): Hugo Varet, Yana Shaulov, Odile Sismeiro, Meirav Trebicz-Geffen, Rachel Legendre, Jean‐Yves Coppée, Serge Ankri, Nancy Guillén
Software Mentions: 1
Published: over 8 years ago

10.1186/s12870-019-2124-0

Is geographical variation driving the transcriptomic responses to multiple stressors in the kelp Saccharina latissima?
Cited by: 12
Author(s): Cátia Monteiro, Huiru Li, Kai Bischof, Inka Bartsch, Klaus Valentin, Matthieu Le Corre, Jonas Collén, Lars Harms, Gernot Glöckner, S. Heinrich
Software Mentions: 1
Published: almost 7 years ago

10.3389/fimmu.2021.629281

Critical Role of Lkb1 in the Maintenance of Alveolar Macrophage Self-Renewal and Immune Homeostasis
Cited by: 4
Author(s): Qianqian Wang, Song Chen, Tengda Li, Qiongmei Yang, Jingru Liu, Tao Yuan, Meng Yuan, Jiadi Chen, Xiaoming Feng, Zhongchao Han, Mingxia Shi, Huifang Huang, Mingzhe Han, Erlie Jiang
Software Mentions: 1
Published: over 5 years ago

10.1128/AAC.00511-19

Mutations in <i>pmrB</i> Confer Cross-Resistance between the LptD Inhibitor POL7080 and Colistin in <i>Pseudomonas aeruginosa</i>
Cited by: 24
Author(s): Keith P. Romano, Thulasi Warrier, Bradley E. Poulsen, Phuong H. Nguyen, Alexander R. Loftis, Azin Saebi, Bradley L. Pentelute, Deborah T. Hung
Software Mentions: 1
Published: about 7 years ago

10.1186/s12870-020-02554-6

Integrated metabolomics and transcriptome analysis on flavonoid biosynthesis in safflower (Carthamus tinctorius L.) under MeJA treatment
Cited by: 42
Author(s): Chen Jiang, Jie Wang, Rui Wang, Bin Xian, Chaoxiang Ren, Qianqian Liu, Qinghua Wu, Jin Pei
Software Mentions: 1
Published: over 6 years ago

10.1038/s41598-018-28117-2

Angiogenin and Osteoprotegerin are type II muscle specific myokines protecting pancreatic beta-cells against proinflammatory cytokines
Cited by: 24
Author(s): Sabine Rütti, Rodolphe Dusaulcy, Jørn Bindslev Hansen, Cédric Howald, Emmanouil T. Dermitzakis, Bente Klarlund Pedersen, M. Pinget, Peter Plomgaard, Karim Bouzakri
Software Mentions: 1
Published: over 8 years ago

10.3389/fimmu.2020.580187

VISTA Re-programs Macrophage Biology Through the Combined Regulation of Tolerance and Anti-inflammatory Pathways
Cited by: 20
Author(s): Mohamed ElTanbouly, Evelien Schaafsma, Nicole C. Smits, Parth Shah, Chao Cheng, Christopher M. Burns, Bruce R. Blazar, Randolph J. Noelle, Rodwell Mabaera
Software Mentions: 1
Published: about 6 years ago

10.3389/fimmu.2021.668002

An Integrative Transcriptomic and Metabolomic Study Revealed That Melatonin Plays a Protective Role in Chronic Lung Inflammation by Reducing Necroptosis
Cited by: 17
Author(s): Kaimin Mao, Ping Luo, Geng Wang, Jing Xu, Yuhan Liao, Hua Zhong, Pei Ma, Qi Tan, Hui Xia, Limin Duan, Siwei Song, Danling Long, Yuqi Liu, Ting-Lin B. Yang, Yali Wu, Yang Jin
Software Mentions: 1
Published: over 5 years ago

10.1186/s12870-019-1652-y

Swift metabolite changes and leaf shedding are milestones in the acclimation process of grapevine under prolonged water stress
Cited by: 28
Author(s): Asfaw Degu, Uri Hochberg, D. Wong, Giorgio Alberti, Naftali Lazarovitch, Enrico Peterlunger, Simone D. Castellarin, José Carlos Herrera, Aaron Fait
Software Mentions: 1
Published: almost 8 years ago

10.1038/s41598-018-28795-y

VHL inactivation without hypoxia is sufficient to achieve genome hypermethylation
Cited by: 7
Author(s): Artemov Av, Nadezhda Zhigalova, Svetlana Zhenilo, Alexander Mazur, Egor Prokhortchouk
Software Mentions: 1
Published: over 8 years ago

10.3389/fimmu.2020.606268

Transcriptomic and Network Analysis of Minor Salivary Glands of Patients With Primary Sjögren’s Syndrome
Cited by: 18
Author(s): Akinsola Oyelakin, Erich Horeth, Eun Kyeung Song, Sang‐Won Min, Monika Che, Brandon Marzullo, Christopher J. Lessard, Astrid Rasmussen, Lida Radfar, R. Hal Scofield, David M. Lewis, Donald U. Stone, Kiely Grundahl, Scott S. De Rossi, Zoya B. Kurago, A. Darise Farris, Kathy L. Sivils, Satrajit Sinha, Jill M. Kramer, Rose Anne Romano
Software Mentions: 1
Published: almost 6 years ago

10.3389/fimmu.2017.00965

Mycobacterium bovis Bacillus Calmette–Guérin Alters Melanoma Microenvironment Favoring Antitumor T Cell Responses and Improving M2 Macrophage Function
Cited by: 31
Author(s): Ricardo Dante Lardone, Alfred A. Chan, Agnes F. Lee, Leland J. Foshag, Mark B. Faries, Peter A. Sieling, Delphine J. Lee
Software Mentions: 1
Published: over 9 years ago

10.7554/eLife.52168

Single cell analysis reveals human cytomegalovirus drives latently infected cells towards an anergic-like monocyte state
Cited by: 37
Author(s): Miri Shnayder, Aharon Nachshon, Batsheva Rozman, Biana Bernshtein, Michael Lavi, Noam Fein, Emma Poole, Selmir Avdic, Emily Blyth, David Gottlieb, Allison Abendroth, Barry Slobedman, John Sinclair, Noam Stern-Ginossar, Michal Schwartz
Software Mentions: 1
Published: almost 7 years ago

10.3389/fimmu.2021.673985

Hydrogen Peroxide Affects Growth of S. aureus Through Downregulation of Genes Involved in Pyrimidine Biosynthesis
Cited by: 9
Author(s): Hélène Buvelot, Myriam Roth, Vincent Jaquet, Andrey Lozkhin, Adriana Renzoni, Eve-Julie Bonetti, Nadia Gaïa, Floriane Laumay, Michéle Mollin, Marie‐José Stasia, Jacques Schrenzel, Patrice François, Karl‐Heinz Krause
Software Mentions: 1
Published: about 5 years ago

10.1186/s12870-018-1242-4

Identification of cold stress responsive microRNAs in two winter turnip rape (Brassica rapa L.) by high throughput sequencing
Cited by: 68
Author(s): Xiucun Zeng, XU Yao-zhao, Jinjin Jiang, Fenqin Zhang, Lan Ma, Dewei Wu, Youping Wang, Weizheng Sun
Software Mentions: 1
Published: over 8 years ago

10.3389/fimmu.2020.571650

Selective Stimulation of Duplicated Atlantic Salmon MHC Pathway Genes by Interferon-Gamma
Cited by: 3
Author(s): Unni Grimholt, Johanna H. Fosse, Arvind Sundaram
Software Mentions: 1
Published: about 6 years ago

10.3389/fimmu.2021.695242

PD-L1 Dysregulation in COVID-19 Patients
Cited by: 49
Author(s): Francesco Sabbatino, Valeria Conti, Gianluigi Franci, Carmine Sellitto, Valentina Manzo, Pasquale Pagliano, Emanuela De Bellis, Alfonso Masullo, Francesco Antonio Salzano, Alessandro Caputo, Ilaria Peluso, Pio Zeppa, Giosuè Scognamiglio, Giovanna Greco, Carla Zannella, Michele Ciccarelli, Claudia Cicala, Carmine Vecchione, Amelia Filippelli, Stefano Pepe
Software Mentions: 1
Published: over 5 years ago

10.1038/s41598-018-30122-4

Comprehensive profiling of transcriptional networks specific for lactogenic differentiation of HC11 mammary epithelial stem-like cells
Cited by: 13
Author(s): Trinadha Rao Sornapudi, Rakhee Nayak, Prashanth Kumar Guthikonda, Anil Kumar Pasupulati, Srinivas Kethavath, Vanita Uppada, Sukalpa Mondal, Sailu Yellaboina, Sreenivasulu Kurukuti
Software Mentions: 1
Published: over 8 years ago

10.3389/fimmu.2020.01246

Fifteen Years of Sm-p80-Based Vaccine Trials in Nonhuman Primates: Antibodies From Vaccinated Baboons Confer Protection in vivo and in vitro From Schistosoma mansoni and Identification of Putative Correlative Markers of Protection
Cited by: 17
Author(s): Weidong Zhang, Liu Le, Gufran Ahmad, Adebayo J. Molehin, Arif Jamal Siddiqui, Workineh Torben, Souvik Karmakar, Juan U. Rojo, Souad R. Sennoune, Samara Lazarus, Sabiha Khatoon, Jasmin Freeborn, Justin Sudduth, Ashraf F. Rezk, David Carey, Roman F. Wolf, James F. Papin, Ray Damian, Sean A. Gray, Florian Marks, Darrick Carter, Afzal A. Siddiqui
Software Mentions: 1
Published: over 6 years ago

10.1186/s12870-021-03121-3

Metabolome and transcriptome profiling provide insights into green apple peel reveals light- and UV-B-responsive pathway in anthocyanins accumulation
Cited by: 15
Author(s): Ruirui Ding, Xingkai Che, Zhen Shen, Yuanhu Zhang
Software Mentions: 1
Published: over 5 years ago

10.3389/fimmu.2020.00420

Postnatal Gut Immunity and Microbiota Development Is Minimally Affected by Prenatal Inflammation in Preterm Pigs
Cited by: 11
Author(s): Xiaoyu Pan, Zhenmin Du, Duc Ninh Nguyen, Wei Wei, Xinxin Yu, Fei Gao, Per Torp Sangild
Software Mentions: 1
Published: over 6 years ago

10.3389/fimmu.2021.659150

Immune Phenotyping of Patients With Acute Vogt-Koyanagi-Harada Syndrome Before and After Glucocorticoids Therapy
Cited by: 7
Author(s): Han Jiang, Zhaohui Li, Liping Yu, Ying Zhang, Li Zhou, Jing Wu, Jing Yuan, Mengyao Han, Tao Xu, Junwen He, Shan Wang, Chang Yu, Sha Pan, Min Wu, Hangyu Liu, Hongtao Zeng, Zhu Song, Qiangqiang Wang, Shen Qu, Junwei Zhang, Yafei Huang, Junyan Han
Software Mentions: 1
Published: over 5 years ago

10.1038/s41598-018-30783-1

Predictability and persistence of prebiotic dietary supplementation in a healthy human cohort
Cited by: 36
Author(s): Thomas Gurry, Sean M. Gibbons, Le Thanh Tu Nguyen, Sean M. Kearney, Ashwin N. Ananthakrishnan, Xiaofang Jiang, Claire Duvallet, Zain Kassam, Eric J. Alm
Software Mentions: 1
Published: about 8 years ago

10.1038/s41598-018-30839-2

Mutant KLF1 in Adult Anemic Nan Mice Leads to Profound Transcriptome Changes and Disordered Erythropoiesis
Cited by: 13
Author(s): Danitza Nébor, Joel H. Graber, Steven L. Ciciotte, Raymond F. Robledo, Julien Papoin, Emily Hartman, Kevin R. Gillinder, Andrew C. Perkins, James J. Bieker, Lionel Blanc, Luanne L. Peters
Software Mentions: 1
Published: about 8 years ago

10.3389/fimmu.2021.695491

Analysis of Gene Expression Profiles, Cytokines, and Bacterial Loads Relevant to Alcoholic Liver Disease Mice Infected With V. vulnificus
Cited by: 1
Author(s): Zihan Feng, Shiqing Li, Jiaxin Zhang, Bin Ni, Xin-Ru Bai, Jian-Hao Xu, Zhen-Bo Liu, Wenwen Xin, Lin Kang, Shan Gao, Jing Wang, Yanwei Li, Jiaxin Li, Yuan Yuan, Jinglin Wang
Software Mentions: 1
Published: about 5 years ago

10.3389/fimmu.2021.719189

G6pd-Deficient Mice Are Protected From Experimental Cerebral Malaria and Liver Injury by Suppressing Proinflammatory Response in the Early Stage of Plasmodium berghei Infection
Cited by: 2
Author(s): Haoan Yi, Weiyang Jiang, Fang Yang, Fan Li, Yirong Li, Wenjing Zhu, Qing Li, Syed Hassam Fakhar, Yaming Cao, Lan Luo, Wen Zhang, Yongshu He
Software Mentions: 1
Published: over 5 years ago

10.3389/fimmu.2020.609400

CCR8 Signaling via CCL1 Regulates Responses of Intestinal IFN-γ Producing Innate Lymphoid CelIs and Protects From Experimental Colitis
Cited by: 5
Author(s): Le Kang, Angelika Schmalzl, Tamara Leupold, Miguel Gonzalez-Acera, Raja Atreya, Markus F. Neurath, Christoph Becker, Stefan Wirtz
Software Mentions: 1
Published: almost 6 years ago

10.3389/fimmu.2019.01186

Cecal CircRNAs Are Associated With the Response to Salmonella Enterica Serovar Enteritidis Inoculation in the Chicken
Cited by: 10
Author(s): Lanhong Zheng, Liying Liu, Lili Lin, Hui Tang, Xinzhong Fan, Hai Lin, Xianyao Li
Software Mentions: 1
Published: over 7 years ago

10.3390/antib8040050

NR4A Expression by Human Marginal Zone B-Cells
Cited by: 8
Author(s): Kim Doyon-Laliberté, Josiane Chagnon-Choquet, Michelle Byrns, Matheus Aranguren, Meriam Memmi, Pavel Chrobák, John Stagg, Johanne Poudrier, Michel Roger
Software Mentions: 1
Published: about 7 years ago

10.1186/s12870-019-1998-1

Genome-wide analysis of AGO, DCL and RDR gene families reveals RNA-directed DNA methylation is involved in fruit abscission in Citrus sinensis
Cited by: 28
Author(s): Agustín Sabbione, Lucas D. Daurelio, Abelardo Carlos Vegetti, Manuel Talón, Francisco R. Tadeo, Marcela C. Dotto
Software Mentions: 1
Published: about 7 years ago

10.1038/s41598-018-32374-6

GWAS and eQTL analysis identifies a SNP associated with both residual feed intake and GFRA2 expression in beef cattle
Cited by: 38
Author(s): Marc G. Higgins, Claire Fitzsimons, Matthew McClure, Clare McKenna, Stephen Conroy, David A. Kenny, M. McGee, Sinéad M. Waters, Derek W. Morris
Software Mentions: 1
Published: about 8 years ago

10.14573/altex.1805301

A human population-based organotypic in vitro model for cardiotoxicity screening
Cited by: 34
Author(s): Fabian A. Grimm, Alexander D. Blanchette, John S. House, Kyle Ferguson, Nan‐Hung Hsieh, Chimeddulam Dalaijamts, Alec A Wright, Blake D. Anson, Fred A. Wright, Weihsueh A. Chiu, Ivan Rusyn
Software Mentions: 1
Published: almost 9 years ago

10.1038/s41598-018-32941-x

The imprinted gene Pw1/Peg3 regulates skeletal muscle growth, satellite cell metabolic state, and self-renewal
Cited by: 17
Author(s): Rosa Maria Correra, David Ollitrault, Mariana Valente, Alessia Mazzola, Bjorn T. Adalsteinsson, Anne C. Ferguson-Smith, Giovanna Marazzi, David Sassoon
Software Mentions: 1
Published: about 8 years ago

10.3389/fimmu.2020.587931

Characterization of miRNAs in Extracellular Vesicles Released From Atlantic Salmon Monocyte-Like and Macrophage-Like Cells
Cited by: 15
Author(s): Nicole C. Smith, Gabriel Wajnberg, Simi Chacko, Nardos Tesfaye Woldemariam, Jacynthe Lacroix, Nicolas Crapoulet, D. Craig Ayre, Stephen M. Lewis, Matthew L. Rise, Rune Andreassen, Sherri L. Christian
Software Mentions: 1
Published: about 6 years ago

10.7554/eLife.24771

Paternal nicotine exposure alters hepatic xenobiotic metabolism in offspring
Cited by: 48
Author(s): Markus Vallaster, Shweta Kukreja, Xin Yang Bing, Jennifer Ngolab, Rubing Zhao-Shea, Paul Gardner, Andrew R. Tapper, Oliver J. Rando
Software Mentions: 1
Published: almost 10 years ago

10.1038/s41598-018-33383-1

The Duality of the MAPK Signaling Pathway in the Control of Metabolic Processes and Cellulase Production in Trichoderma reesei
Cited by: 30
Author(s): Renato Graciano de Paula, Amanda Cristina Campos Antoniêto, Cláudia Batista Carraro, Douglas Christian Borges Lopes, Gabriela Félix Persinoti, Nalu Teixeira Aguiar Peres, Nilce Maria Martinez-Rossi, Rafael Silva‐Rocha, Roberto Nascimento Silva
Software Mentions: 1
Published: about 8 years ago

10.3389/fimmu.2018.02972

The Change of Teleost Skin Commensal Microbiota Is Associated With Skin Mucosal Transcriptomic Responses During Parasitic Infection by Ichthyophthirius multifillis
Cited by: 58
Author(s): Xiaoting Zhang, Li-Guo Ding, Yongyao Yu, Weijing Kong, Yaxing Yin, Zhenyu Huang, Xuezhen Zhang, Zhen Xu
Software Mentions: 1
Published: almost 8 years ago

10.3389/fimmu.2020.00914

Identification of Altered miRNAs in Cerumen of Dogs Affected by Otitis Externa
Cited by: 5
Author(s): Cristina Lecchi, Valentina Zamarian, Giorgia Borriello, Giorgio Galiero, G. Grilli, M. Caniatti, Elisa Silvia D'Urso, P. Roccabianca, Roberta Perego, Michela Minero, Sara Legnani, Raffaele Calogero, Maddalena Arigoni, Fabrizio Ceciliani
Software Mentions: 1
Published: over 6 years ago

10.1186/s12951-020-00621-6

Growth and elongation of axons through mechanical tension mediated by fluorescent-magnetic bifunctional Fe3O4·Rhodamine 6G@PDA superparticles
Cited by: 14
Author(s): Yang Wang, Binxi Li, Hao Xu, Shulin Du, Ting Liu, Jingyan Ren, Jiayi Zhang, Hao Zhang, Yi Liu, Laijin Lu
Software Mentions: 1
Published: over 6 years ago

10.3389/fgene.2020.571880

Construction of a High-Density Genetic Map and Identification of Quantitative Trait Loci for Nitrite Tolerance in the Pacific White Shrimp (Litopenaeus vannamei)
Cited by: 6
Author(s): Min Peng, Dingyuan Zeng, Weilin Zhu, Xiuli Chen, Chunling Yang, Qingyun Liu, Qiangyong Li, Huanling Wang, Hong Liu, Liang JingZhen, Yong Lin, Yang Zhao
Software Mentions: 1
Published: about 6 years ago

10.3389/fgene.2021.678673

Organ-Specific Transcriptome Analysis Identifies Candidate Genes Involved in the Stem Specialization of Bermudagrass (Cynodon dactylon L.)
Cited by: 4
Author(s): Si Chen, Xin Xu, Ziyan Ma, Jianxiu Liu, Bing Zhang
Software Mentions: 1
Published: over 5 years ago

10.3389/fgene.2021.706341

Integrated Analysis of Hepatic miRNA and mRNA Expression Profiles in the Spontaneous Reversal Process of Liver Fibrosis
Cited by: 2
Author(s): Yang Tai, Chong Zhao, Tian Lan, Linhao Zhang, Yang Xiao, Huan Tong, Rui Li, Chengwei Tang, Jinhang Gao
Software Mentions: 1
Published: over 5 years ago

10.1186/s12870-021-02899-6

Transcriptome and metabolome profiling provide insights into molecular mechanism of pseudostem elongation in banana
Cited by: 11
Author(s): Guiming Deng, Fangcheng Bi, Jing Liu, Wei He, Chunyu Li, Tingting Dong, Qiaosong Yang, Hongyuan Gao, Tongxin Dou, Xiaohong Zhong, Peng Miao, Ganjun Yi, Chunhua Hu, Ou Sheng
Software Mentions: 1
Published: over 5 years ago

10.1038/s41598-018-34637-8

Dysregulated gene expression predicts tumor aggressiveness in African-American prostate cancer patients
Cited by: 21
Author(s): Hamdy Ali, Pei-Yau Lung, Andrew B. Sholl, Shaimaa A. Gad, Juan J. Bustamante, Johng S. Rhim, Gagan Deep, Jinfeng Zhang, Zakaria Y. Abd Elmageed
Software Mentions: 1
Published: about 8 years ago

10.1186/s12870-020-02555-5

Heat-response patterns of the heat shock transcription factor family in advanced development stages of wheat (Triticum aestivum L.) and thermotolerance-regulation by TaHsfA2–10
Cited by: 18
Author(s): Xiulin Guo, Shuo Yuan, Huaning Zhang, Yuanyuan Zhang, Yujie Zhang, Guiyan Wang, Yaqing Li, Guoliang Li
Software Mentions: 1
Published: over 6 years ago

Projects: bioconductor: DESeq2

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Papers Mentioning DESeq2 9,583