bioconductor: DESeq2 | Projects | Ecosyste.ms: Papers

10.3389/fgene.2019.00488

An Inflammatory Landscape for Preoperative Neurologic Deficits in Glioblastoma
Cited by: 6
Author(s): Amal Katrib, Hyun-Hwan Jeong, Nina L. Fransen, Kristin S. Henzel, Jeremy A. Miller
Software Mentions: 2
Published: over 7 years ago

10.3389/fgene.2021.683959

Camk2a-Cre and Tshz3 Expression in Mouse Striatal Cholinergic Interneurons: Implications for Autism Spectrum Disorder
Cited by: 3
Author(s): Xavier Caubit, Elise Arbeille, Dorian Chabbert, Florence Desprez, Imane Messak, Ahmed Fatmi, Bianca Habermann, Paolo Gubellini, Laurent Fasano
Software Mentions: 2
Published: over 5 years ago

10.3389/fgene.2021.645401

Transcriptome Analysis of Selenium-Treated Porcine Alveolar Macrophages Against Lipopolysaccharide Infection
Cited by: 0
Author(s): Jiaxuan Liu, Xin-Yu Chao, Peng Chen, Yiding Wang, Tong-Jian Su, Meng Li, Ru-Yu Xu, Qiong Wu
Software Mentions: 2
Published: over 5 years ago

10.3389/fgene.2019.01236

IBI: Identification of Biomarker Genes in Individual Tumor Samples
Cited by: 2
Author(s): Jie Li, Dong Wang, Yadong Wang
Software Mentions: 2
Published: almost 7 years ago

10.3389/fgene.2016.00164

In Papyro Comparison of TMM (edgeR), RLE (DESeq2), and MRN Normalization Methods for a Simple Two-Conditions-Without-Replicates RNA-Seq Experimental Design
Cited by: 83
Author(s): Élie Maza
Software Mentions: 2
Published: about 10 years ago

10.3389/fgene.2019.00814

Transcriptome Sequencing Unravels Potential Biomarkers at Different Stages of Cerebral Ischemic Stroke
Cited by: 17
Author(s): Yuanheng Cai, Yufen Zhang, Xiao Ke, Yu Guo, Chengye Yao, Na Tang, Pei Pang, Gangcai Xie, Fang Li, Zhe Zhang, Jincheng Li, Yixian Fan, Ximiao He, Ruojian Wen, Lei Pei, Youming Lu
Software Mentions: 2
Published: about 7 years ago

10.3389/fgene.2020.00391

Development of an Early Prediction Model for Subarachnoid Hemorrhage With Genetic and Signaling Pathway Analysis
Cited by: 6
Author(s): Wanjing Lei, Han Zeng, Hua Feng, Xufang Ru, Qiang Li, Ming Xiao, Huiru Zheng, Yujie Chen, Le Zhang
Software Mentions: 2
Published: over 6 years ago

10.3389/fgene.2018.00034

The Circular RNA Profiles of Colorectal Tumor Metastatic Cells
Cited by: 37
Author(s): Weiqin Jiang, Xingchen Zhang, Qinjie Chu, Sen Lu, Linfu Zhou, Xianghua Lu, Chen Liu, Limin Mao, Chu-Yu Ye, Michael P. Timko, Longjiang Fan, Haixing Ju
Software Mentions: 2
Published: almost 9 years ago

10.3389/fgene.2019.01296

Integrated Hypothalamic Transcriptome Profiling Reveals the Reproductive Roles of mRNAs and miRNAs in Sheep
Cited by: 18
Author(s): Zhuangbiao Zhang, Jiao Tang, Ran Di, Qiuyue Liu, Xiangyu Wang, Shangquan Gan, Xiaosheng Zhang, Jinlong Zhang, Mingxing Chu, Wenping Hu
Software Mentions: 2
Published: almost 7 years ago

10.3389/fgene.2021.716236

Integrative Transcriptome-Wide Analyses Uncover Novel Risk-Associated MicroRNAs in Hormone-Dependent Cancers
Cited by: 3
Author(s): Dulari K. Jayarathna, Miguel E. Rentería, Adil Malik, Emilie Sauret, Jyotsna Batra, Neha S. Gandhi
Software Mentions: 2
Published: about 5 years ago

10.3389/fgene.2017.00183

Wnt/β-catenin Signaling Pathway Regulates Specific lncRNAs That Impact Dermal Fibroblasts and Skin Fibrosis
Cited by: 28
Author(s): Nathaniel K. Mullin, Nikhil V Mallipeddi, Emily Hamburg-Shields, Beatriz Ibarra, Ahmad M. Khalil, Radhika Atit
Software Mentions: 2
Published: almost 9 years ago

10.3389/fgene.2019.00756

Comprehensive Profiles of mRNAs and miRNAs Reveal Molecular Characteristics of Multiple Organ Physiologies and Development in Pigs
Cited by: 5
Author(s): Muya Chen, Yi Yao, Yalan Yang, Min Zhu, Yijie Tang, Siyuan Liu, Kui Li, Zhonglin Tang
Software Mentions: 2
Published: about 7 years ago

10.3389/fgene.2019.00891

Novel Y-Chromosome Long Non-Coding RNAs Expressed in Human Male CNS During Early Development
Cited by: 7
Author(s): Martin M. Johansson, Philipp Pottmeier, Pascalina Suciu, Tauseef Ahmad, Ammar Zaghlool, Jonatan Halvardson, Elisabeth Darj, Lars Feuk, Christiane Peuckert, Elena Jazin
Software Mentions: 2
Published: about 7 years ago

10.3389/fgene.2020.00830

Insights Into the Albinism Mechanism for Two Distinct Color Morphs of Northern Snakehead, Channa argus Through Histological and Transcriptome Analyses
Cited by: 2
Author(s): Aiguo Zhou, Shaolin Xie, Feng Yuan, Dan Sun, Shulin Liu, Zhuolin Sun, Mingzhi Li, Chaonan Zhang
Software Mentions: 2
Published: about 6 years ago

10.3389/fgene.2021.676464

A Combined RNA Signature Predicts Recurrence Risk of Stage I-IIIA Lung Squamous Cell Carcinoma
Cited by: 3
Author(s): Li Sun, Juan Li, Yongming Li, Xuemei Yang, Shujun Zhang, Xue Wang, Nan Wang, Kanghong Xu, Xinquan Jiang, Yi Zhang
Software Mentions: 2
Published: over 5 years ago

10.3389/fgene.2021.651298

Draft Genome Assembly and Transcriptome Dataset for European Turnip (Brassica rapa L. ssp. rapifera), ECD4 Carrying Clubroot Resistance
Cited by: 4
Author(s): Sin Gi Park, Eonji Noh, Su Ryun Choi, Boram Choi, In Gang Shin, Seung il Yoo, Dong Jin Lee, Shuaifei Ji, Hae Suk Kim, Yoon Jung Hwang, Jung Sun Kim, Jacqueline Batley, Yong Pyo Lim, David Edwards, Chang Pyo Hong
Software Mentions: 2
Published: over 5 years ago

10.3389/fgene.2018.00415

Overexpression of Chicken IRF7 Increased Viral Replication and Programmed Cell Death to the Avian Influenza Virus Infection Through TGF-Beta/FoxO Signaling Axis in DF-1
Cited by: 9
Author(s): T.H. Kim, Huaijun Zhou
Software Mentions: 2
Published: about 8 years ago

10.3389/fgene.2019.00097

Pan-Cancer Analysis of TCGA Data Revealed Promising Reference Genes for qPCR Normalization
Cited by: 34
Author(s): George S. Krasnov, Anna V. Kudryavtseva, Anastasiya V. Snezhkina, Valentina A. Lakunina, А. Д. Бениаминов, Nataliya V. Melnikova, Alexey A. Dmitriev
Software Mentions: 2
Published: over 7 years ago

10.3389/fgene.2020.595324

A Multi-Source Data Fusion Framework for Revealing the Regulatory Mechanism of Breast Cancer Immune Evasion
Cited by: 3
Author(s): Xia Chen, Yexiong Lin, Qiang Qu, Bin Ning, Haowen Chen, Liang Cai
Software Mentions: 2
Published: about 6 years ago

10.3389/fgene.2019.00035

Identification of Pre-symptomatic Gene Signatures That Predict Resilience to Cognitive Decline in the Genetically Diverse AD-BXD Model
Cited by: 20
Author(s): Sarah M. Neuner, Sarah Heuer, Jigang Zhang, Vivek M. Philip, Catherine C. Kaczorowski
Software Mentions: 2
Published: almost 8 years ago

10.3389/fgene.2020.552490

Plant miRNAs Reduce Cancer Cell Proliferation by Targeting MALAT1 and NEAT1: A Beneficial Cross-Kingdom Interaction
Cited by: 11
Author(s): Flaviana Marzano, Mariano Francesco Caratozzolo, Arianna Consiglio, Flavio Licciulli, Sabino Liuni, Elisabetta Sbisà, Domenica D’Elia, Apollonia Tullo, Domenico Catalano
Software Mentions: 2
Published: about 6 years ago

10.3389/fgene.2018.00165

The Effect of Centrifugal Force in Quantification of Colorectal Cancer-Related mRNA in Plasma Using Targeted Sequencing
Cited by: 11
Author(s): Vivian Weiwen Xue, Simon Siu Man Ng, Wing Wa Leung, Brigette Buig Yue, William C. Cho, Thomas Chi Chuen Au, Allen Chi Shing Yu, Hin Fung Tsang, Sze Chuen Cesar Wong
Software Mentions: 2
Published: over 8 years ago

10.3389/fgene.2021.672884

Transcriptome and Co-expression Network Analyses Reveal Differential Gene Expression and Pathways in Response to Severe Drought Stress in Peanut (Arachis hypogaea L.)
Cited by: 13
Author(s): Nannan Zhao, Shunli Cui, Xiukun Li, Bokuan Liu, Hongtao Deng, Yingru Liu, Mingyu Hou, Xinlei Yang, Guangqing Mu, Lifeng Liu
Software Mentions: 2
Published: over 5 years ago

10.3389/fgene.2019.01352

Identification of Novel Genes and Biological Pathways That Overlap in Infectious and Nonallergic Diseases of the Upper and Lower Airways Using Network Analyses
Cited by: 8
Author(s): Erin E. Baschal, Eric Stanley Larson, Tori C. Bootpetch Roberts, Shivani Pathak, Gretchen Frank, Elyse Handley, Jordyn Dinwiddie, Molly Moloney, Patricia J. Yoon, Samuel P. Gubbels, Melissa A. Scholes, Stephen P. Cass, Herman A. Jenkins, Daniel N. Frank, Ivana V. Yang, David A. Schwartz, Vijay R. Ramakrishnan, Regie Lyn P. Santos‐Cortez
Software Mentions: 2
Published: almost 7 years ago

10.3389/fimmu.2019.02873

Efficient and Robust NK-Cell Transduction With Baboon Envelope Pseudotyped Lentivector
Cited by: 78
Author(s): Aurélien Colamartino, William Lemieux, Panojot Bifsha, Simon Nicoletti, Nitin Chakravarti, Joaquín Sanz, H Roméro, Silvia Selleri, Kathie Béland, Mélanie Guiot, Camille Tremblay‐Laganière, Renée Dicaire, Luis B. Barreiro, Dean A. Lee, Els Verhoeyen, Élie Haddad
Software Mentions: 2
Published: almost 7 years ago

10.3389/fimmu.2019.00021

Smp38 MAP Kinase Regulation in Schistosoma mansoni: Roles in Survival, Oviposition, and Protection Against Oxidative Stress
Cited by: 18
Author(s): Lívia Avelar, Sandra Grossi Gava, Renata Heisler Neves, Mercedes Carolina Soares Silva, Neusa Araújo, Naiara Clemente Tavares, Assmaa El Khal, Ana Carolina Alves de Mattos, José Roberto Machado-Silva, Guilherme Oliveira, Marina Moraes Mourão
Software Mentions: 2
Published: almost 8 years ago

10.3389/fimmu.2021.697307

Naïve Regulatory T Cell Subset Is Altered in X-Linked Agammaglobulinemia
Cited by: 2
Author(s): Pavel V. Shelyakin, Ksenia R Lupyr, Evgeny S. Egorov, И.А. Кофиади, Dmitriy B. Staroverov, Sofya A. Kasatskaya, Valeriia V Kriukova, Irina A. Shagina, Ekaterina M. Merzlyak, Tatiana O Nakonechnaya, Elena A. Latysheva, Irina A. Manto, Musa Khaitov, Sergey Lukyanov, Dmitriy M. Chudakov, Olga V. Britanova
Software Mentions: 2
Published: about 5 years ago

10.3389/fimmu.2021.602122

Lymphatic Endothelial Cell Activation and Dendritic Cell Transmigration Is Modified by Genetic Deletion of Clever-1
Cited by: 20
Author(s): Sina Tadayon, Johannes Dunkel, Akiko Takeda, Dominik Eichin, Reetta Virtakoivu, Kati Elima, Sirpa Jalkanen, Maija Hollmén
Software Mentions: 2
Published: over 5 years ago

10.3389/fimmu.2021.708770

Transcriptional Profiling and Functional Analysis of N1/N2 Neutrophils Reveal an Immunomodulatory Effect of S100A9-Blockade on the Pro-Inflammatory N1 Subpopulation
Cited by: 21
Author(s): Andreea C. Mihaila, Letitia Ciortan, Razvan D. Macarie, Mihaela Vadana, Sergiu Cecoltan, Mihai Bogdan Preda, Ariana Hudiță, Ana-Maria Gan, Gabriel Jakobsson, Monica Pirvulescu, E. Magda Barbu, Șerban Mihai Bălănescu, Maya Simionescu, Alexandru Schiopu, Elena Butoi
Software Mentions: 2
Published: over 5 years ago

10.3389/fimmu.2021.671073

Cholesterol-Induced M4-Like Macrophages Recruit Neutrophils and Induce NETosis
Cited by: 10
Author(s): Ana C. Maretti-Mira, Lucy Golden–Mason, Matthew P. Salomon, Mariana J. Kaplan, Hugo R. Rosen
Software Mentions: 2
Published: over 5 years ago

10.3389/fimmu.2019.01640

Severe Heterotopic Ossification in the Skeletal Muscle and Endothelial Cells Recruitment to Chondrogenesis Are Enhanced by Monocyte/Macrophage Depletion
Cited by: 18
Author(s): Mario Tirone, Anna Giovenzana, Arianna Vallone, Paola Zordan, Martina Sormani, Pier Andrea Nicolosi, Raffaela Meneveri, C. Gigliotti, Antonello E. Spinelli, Renata Bocciardi, Roberto Ravazzolo, Ingrid Cifola, Silvia Brunelli
Software Mentions: 2
Published: over 7 years ago

10.3389/fimmu.2020.590459

A Network-Based Analysis Reveals the Mechanism Underlying Vitamin D in Suppressing Cytokine Storm and Virus in SARS-CoV-2 Infection
Cited by: 41
Author(s): Firoz Ahmed
Software Mentions: 2
Published: almost 6 years ago

10.3389/fimmu.2018.01424

An Interferon Signature Discriminates Pneumococcal From Staphylococcal Pneumonia
Cited by: 9
Author(s): Anja Strehlitz, Oliver Goldmann, Marina C. Pils, Frank Peßler, Eva Medina
Software Mentions: 2
Published: over 8 years ago

10.3389/fimmu.2021.683680

BHLHE40 Regulates IL-10 and IFN-γ Production in T Cells but Does Not Interfere With Human Type 1 Regulatory T Cell Differentiation
Cited by: 8
Author(s): Molly Javier Uyeda, Robert A Freeborn, Brandon Cieniewicz, Rosa Romano, Ping Pauline Chen, Jeffrey Mao-Hwa Liu, Benjamin Thomas, Esmond Lee, Alma-Martina Cepika, Rosa Bacchetta, Maria Grazia Roncarolo
Software Mentions: 2
Published: over 5 years ago

10.3389/fimmu.2021.691216

Subgingival Microbiome and Specialized Pro-Resolving Lipid Mediator Pathway Profiles Are Correlated in Periodontal Inflammation
Cited by: 12
Author(s): Chun‐Teh Lee, Ruoxing Li, Lisha Zhu, Gena D. Tribble, W. Jim Zheng, Brittney Ferguson, Krishna Rao Maddipati, Nikola Angelov, Thomas E. Van Dyke
Software Mentions: 2
Published: over 5 years ago

10.3389/fimmu.2018.01943

Xenogeneic Graft-Versus-Host Disease in Humanized NSG and NSG-HLA-A2/HHD Mice
Cited by: 53
Author(s): Grégory Ehx, Joan Somja, Hans-Jörg Warnatz, Caroline Ritacco, Muriel Hannon, Loïc Delens, Gilles Fransolet, Philippe Delvenne, Joséphine Muller, Yves Béguin, Hans Lehrach, Ludovic Belle, Stéphanie Humblet-Baron, Frédéric Baron
Software Mentions: 2
Published: about 8 years ago

10.3389/fimmu.2021.639572

3D Bioprinting Allows the Establishment of Long-Term 3D Culture Model for Chronic Lymphocytic Leukemia Cells
Cited by: 19
Author(s): Francesca Sbrana, Riccardo Pinos, Federica Barbaglio, Davide Ribezzi, Fiorella Scagnoli, Lydia Scarfò, Itedale Namro Redwan, Héctor Martínez, Silvia Farè, Paolo Ghia, Cristina Scielzo
Software Mentions: 2
Published: over 5 years ago

10.3389/fimmu.2019.01679

Early Transcriptional Signature in Dendritic Cells and the Induction of Protective T Cell Responses Upon Immunization With VLPs Containing TLR Ligands—A Role for CCL2
Cited by: 10
Author(s): Ariane Gomes, Mona O. Mohsen, Julius E. Mueller, Fabiana M. S. Leoratti, Gustavo Cabral-Miranda, Martin F. Bachmann
Software Mentions: 2
Published: over 7 years ago

10.3389/fimmu.2018.03053

Mesenchymal Stromal Cell-Derived Exosomes Affect mRNA Expression and Function of B-Lymphocytes
Cited by: 102
Author(s): Drirh Khare, Reuven Or, Igor B. Resnick, Claudine Barkatz, Osnat Almogi-Hazan, Batia Avni
Software Mentions: 2
Published: almost 8 years ago

10.3389/fimmu.2018.01996

Identification of Distinct Unmutated Chronic Lymphocytic Leukemia Subsets in Mice Based on Their T Cell Dependency
Cited by: 7
Author(s): Simar Pal Singh, Marjolein J. W. de Bruijn, Mariana P. de Almeida, Ruud W. J. Meijers, Lars Nitschke, Anton W. Langerak, Saravanan Y. Pillai, Ralph Stadhouders, Rudolf W. Hendriks
Software Mentions: 2
Published: about 8 years ago

10.3389/fimmu.2020.01398

Context-Dependent IL-1 mRNA-Destabilization by TTP Prevents Dysregulation of Immune Homeostasis Under Steady State Conditions
Cited by: 16
Author(s): Lucy Sneezum, Kevin Eislmayr, Helene Dworak, Vitaly Sedlyarov, Anita Le Heron, Florian Ebner, Ilse Fischer, Yoichiro Iwakura, Pavel Kovarik
Software Mentions: 2
Published: over 6 years ago

10.3389/fimmu.2019.01087

Systems Immunology Characterization of Novel Vaccine Formulations for Mycoplasma hyopneumoniae Bacterins
Cited by: 28
Author(s): Anneleen Matthijs, Gaël Auray, Virginie Jakob, Obdulio García-Nicolás, Roman Othmar Braun, Irene Keller, Rémy Bruggman, Bert Devriendt, Filip Boyen, Carlos A. Guzmán, Annelies Michiels, Freddy Haesebrouck, Nicolas Collin, Christophe Barnier-Quer, Dominiek Maes, Artur Summerfield
Software Mentions: 2
Published: over 7 years ago

10.3389/fimmu.2021.671239

Patients With Common Variable Immunodeficiency (CVID) Show Higher Gut Bacterial Diversity and Levels of Low-Abundance Genes Than the Healthy Housemates
Cited by: 12
Author(s): Juraj Bosák, Matej Lexa, Kristýna Fiedorová, Darshak Gadara, Lenka Micenková, Zdeněk Spáčil, Jiří Litzman, Tomáš Freiberger, David Šmajs
Software Mentions: 2
Published: over 5 years ago

10.3389/fimmu.2019.00975

Identification of Renal Long Non-coding RNA RP11-2B6.2 as a Positive Regulator of Type I Interferon Signaling Pathway in Lupus Nephritis
Cited by: 46
Author(s): Zhuojun Liao, Zhizhong Ye, Zhonghui Xue, Lingling Wu, Ye Ouyang, Chao Yao, Chaojie Cui, Ning Xu, Jianyang Ma, Guojun Hou, Jiehua Wang, Yao Meng, Zhihua Yin, Ya Liu, Jie Qian, Chunyan Zhang, Huihua Ding, Qiang Guo, Bo Qu, Nan Shen
Software Mentions: 2
Published: over 7 years ago

10.3389/fimmu.2018.00022

High-Resolution Mapping and Dynamics of the Transcriptome, Transcription Factors, and Transcription Co-Factor Networks in Classically and Alternatively Activated Macrophages
Cited by: 53
Author(s): Amitabh Das, Chul‐Su Yang, Sarder Arifuzzaman, Sojin Kim, Sun Young Kim, Kyoung Hwa Jung, Young Seek Lee, Young Gyu Chai
Software Mentions: 2
Published: almost 9 years ago

10.3389/fimmu.2019.01381

Dietary Resistant Potato Starch Alters Intestinal Microbial Communities and Their Metabolites, and Markers of Immune Regulation and Barrier Function in Swine
Cited by: 44
Author(s): Julian Trachsel, C. A. E. Briggs, Nicholas K. Gabler, Heather K. Allen, Crystal L. Loving
Software Mentions: 2
Published: over 7 years ago

10.3389/fimmu.2020.01429

High-Resolution Profiling of Innate Immune Responses by Porcine Dendritic Cell Subsets in vitro and in vivo
Cited by: 14
Author(s): Gaël Auray, Stephanie C. Talker, Irene Keller, Sylvie Python, Marlène Gerber, Matthias Liniger, Llilianne Ganges, Rémy Bruggmann, Nicolas Ruggli, Artur Summerfield
Software Mentions: 2
Published: over 6 years ago

10.3389/fimmu.2017.00876

Transcriptional Profiling of Midguts Prepared from Trypanosoma/T. congolense-Positive Glossina palpalis palpalis Collected from Two Distinct Cameroonian Foci: Coordinated Signatures of the Midguts’ Remodeling As T. congolense-Supportive Niches
Cited by: 9
Author(s): Jean Marc Tsagmo Ngoune, Flobert Njiokou, Béatrice Loriod, Ginette Irma Kame‐Ngasse, Nicolas Fernandez-Nunez, Claire Rioualen, Jacques van Helden, Anne Geiger
Software Mentions: 2
Published: over 9 years ago

10.3389/fimmu.2020.581111

A Population of Radio-Resistant Macrophages in the Deep Myenteric Plexus Contributes to Postoperative Ileus Via Toll-Like Receptor 3 Signaling
Cited by: 6
Author(s): Jana Enderes, Shilpashree Mallesh, Reiner Schneider, Kristof Johannes Hupa, Mariola Lysson, Bianca Schneiker, Kristian Händler, Balthasar Clemens Schlotmann, Patrick Günther, Joachim L. Schultze, Jörg C. Kalff, Sven Wehner
Software Mentions: 2
Published: almost 6 years ago

10.3389/fimmu.2021.679498

IFN-β Acts on Monocytes to Ameliorate CNS Autoimmunity by Inhibiting Proinflammatory Cross-Talk Between Monocytes and Th Cells
Cited by: 6
Author(s): Javad Rasouli, Giacomo Casella, Larissa Lumi Watanabe Ishikawa, Rodolfo Thomé, Alexandra Boehm, Adam Ertel, Carolina R. Melo‐Silva, Elisabeth R. Mari, Patrizia Porazzi, Weifeng Zhang, Dan Xiao, Luis J. Sigal, Paolo Fortina, Guang‐Xian Zhang, Abdolmohamad Rostami, Bogoljub Ćirić
Software Mentions: 2
Published: over 5 years ago

10.3389/fimmu.2021.632482

Altered Actinobacteria and Firmicutes Phylum Associated Epitopes in Patients With Parkinson’s Disease
Cited by: 18
Author(s): Zhuo Li, Gang Lü, Zhe Li, Bin Wu, En-Li Luo, Xinmin Qiu, Jianwen Guo, Zhangyong Xia, Chunye Zheng, Su Q, Yan Zeng, Wai Yee Chan, Xianwei Su, Qiaodi Cai, Yingqi Xu, Yingjun Chen, Mingbang Wang, Wai Sang Poon, Xiaodong Luo
Software Mentions: 2
Published: over 5 years ago

10.3389/fimmu.2019.01138

A β2-Integrin/MRTF-A/SRF Pathway Regulates Dendritic Cell Gene Expression, Adhesion, and Traction Force Generation
Cited by: 18
Author(s): Carla Guenther, Imrul Faisal, Liisa M. Uotila, Marc Llort Asens, Heidi Harjunpää, Terhi Savinko, Tiina Öhman, Sean Yao, Markus Moser, Stephan W. Morris, Sari Tojkander, Susanna C. Fagerholm
Software Mentions: 2
Published: over 7 years ago

10.3389/fimmu.2021.690069

CD8+ T Cells Involved in Metabolic Inflammation in Visceral Adipose Tissue and Liver of Transgenic Pigs
Cited by: 6
Author(s): Kaiyi Zhang, Tao Cong, Jianping Xu, Jinxue Ruan, Ji‐Han Xia, Wei Zhu, Leilei Xin, Huaqiong Ye, Ning Xie, Boce Xia, Chenxiao Li, Tianwen Wu, Yanfang Wang, Martine Schroyen, Xinhua Xiao, Jian‐Gao Fan, Shulin Yang
Software Mentions: 2
Published: over 5 years ago

10.3389/fimmu.2020.575764

Impact of Aging on the Phenotype of Invariant Natural Killer T Cells in Mouse Thymus
Cited by: 8
Author(s): Georgia Papadogianni, Inga Ravens, Oliver Dittrich–Breiholz, Günter Bernhardt, Hristo Georgiev
Software Mentions: 2
Published: about 6 years ago

10.3389/fimmu.2020.00486

Infant Alveolar Macrophages Are Unable to Effectively Contain Mycobacterium tuberculosis
Cited by: 15
Author(s): Anu Goenka, Ian Prise, Emma Connolly, Paulina Fernández-Soto, D. O. Morgan, Jennifer S. Cavet, John Grainger, Jaya Nichani, Peter D. Arkwright, Tracy Hussell
Software Mentions: 2
Published: over 6 years ago

10.3389/fimmu.2019.02928

Comparative Profiling of Metastatic 4T1- vs. Non-metastatic Py230-Based Mammary Tumors in an Intraductal Model for Triple-Negative Breast Cancer
Cited by: 24
Author(s): Jonas Steenbrugge, Niels Vander Elst, Kristel Demeyere, Olivier De Wever, Niek N. Sanders, Wim Van Den Broeck, Luc Dirix, Steven Van Laere, Evelyne Meyer
Software Mentions: 2
Published: almost 7 years ago

10.3389/fimmu.2018.00937

Deep Surveying of the Transcriptional and Alternative Splicing Signatures for Decidual CD8+ T Cells at the First Trimester of Human Healthy Pregnancy
Cited by: 16
Author(s): Weihong Zeng, Xinmei Liu, Zhicui Liu, Ying Zheng, Tiantian Yu, Shaliu Fu, Xiao Li, Jing Zhang, Siming Zhang, Xiaoling Ma, Xiao-Rui Liu, Xiaoli Qin, Asma Khanniche, Yan Zhang, Fu‐Ju Tian, Yi Lin
Software Mentions: 2
Published: over 8 years ago

10.3389/fimmu.2021.631353

Metabolic Reprogramming of GMP Grade Cord Tissue Derived Mesenchymal Stem Cells Enhances Their Suppressive Potential in GVHD
Cited by: 10
Author(s): Mayela Carolina Mendt, May Daher, Rafet Basar, Mayra Shanley, Bijender Kumar, Francesca Lim Wei Inng, Sunil Acharya, Hila Shaim, Natalie W. Fowlkes, Jamie Tran, Elif Gokdemir, Nadima Uprety, Ana Karen Núñez-Cortés, Emily L. Ensley, Thao Mai, Lucila Nassif Kerbauy, Luciana Melo-Garcia, Paul Lin, Yifei Shen, Vakul Mohanty, Jun Lu, Sufang Li, Vandana Nandivada, Jing Wang, Pinaki P. Banerjee, Francia Reyes-Silva, Enli Liu, Sonny Ang, April Gilbert, Ye Li, Xinhai Wan, Jun Gu, Ming Zhao, Natalia Baran, Luis Muniz-Feliciano, Jeffrey M. Wilson, Indreshpal Kaur, Mihai Gagea, Marina Konopleva, David Marín, Guilin Tang, Ken Chen, Richard E. Champlin, Katayoun Rezvani, Elizabeth J. Shpall
Software Mentions: 2
Published: over 5 years ago

10.3389/fimmu.2020.584048

Foxp3+ Regulatory T Cells Inhibit CCl4-Induced Liver Inflammation and Fibrosis by Regulating Tissue Cellular Immunity
Cited by: 20
Author(s): Yoshinobu Ikeno, Daiya Ohara, Yusuke Takeuchi, Hidenobu Watanabe, Gen Kondoh, Kojiro Taura, Shinji Üemoto, Keiji Hirota
Software Mentions: 2
Published: about 6 years ago

10.3389/fimmu.2021.661338

The mTOR Deficiency in Monocytic Myeloid-Derived Suppressor Cells Protects Mouse Cardiac Allografts by Inducing Allograft Tolerance
Cited by: 7
Author(s): Jiawei Li, Juntao Chen, Mingnan Zhang, Chao Zhang, Renyan Wu, Tianying Yang, Yue Qiu, Jingjing Liu, Tongyu Zhu, Yi Zhang, Ruiming Rong
Software Mentions: 2
Published: over 5 years ago

10.3389/fimmu.2019.00980

TLR3 Ligand PolyI:C Prevents Acute Pancreatitis Through the Interferon-β/Interferon-α/β Receptor Signaling Pathway in a Caerulein-Induced Pancreatitis Mouse Model
Cited by: 9
Author(s): Chenlu Huang, S Chen, T Zhang, Li D, Zhichuan Huang, Jian Huang, Yue Qin, Bingran Chen, Genhong Cheng, Mengtao Zhou
Software Mentions: 2
Published: over 7 years ago

10.3389/fimmu.2021.647873

A Systems Biology Approach Identifies B Cell Maturation Antigen (BCMA) as a Biomarker Reflecting Oral Vaccine Induced IgA Antibody Responses in Humans
Cited by: 4
Author(s): Lynda Mottram, Anna Lundgren, Ann‐Mari Svennerholm, Susannah Leach
Software Mentions: 2
Published: over 5 years ago

10.3389/fimmu.2020.00230

A Novel Microglia-Specific Transcriptional Signature Correlates With Behavioral Deficits in Neuropsychiatric Lupus
Cited by: 20
Author(s): Hadijat M. Makinde, Deborah R. Winter, Daniele Procissi, Elise V. Mike, Ariel Stock, Mary J. Kando, Gaurav Gadhvi, Steven Droho, Christina L. Bloomfield, Salina Dominguez, Maximilian G. Mayr, Jeremy A. Lavine, Chaim Putterman, Carla M. Cuda
Software Mentions: 2
Published: over 6 years ago

10.3389/fmicb.2018.03159

“Candidatus Thermonerobacter thiotrophicus,” A Non-phototrophic Member of the Bacteroidetes/Chlorobi With Dissimilatory Sulfur Metabolism in Hot Spring Mat Communities
Cited by: 47
Author(s): Vera Thiel, Amaya M. Garcia Costas, Nathaniel W. Fortney, Joval N. Martinez, Marcus Tank, Eric E. Roden, Eric S. Boyd, David M. Ward, Satoshi Hanada, Donald A. Bryant
Software Mentions: 2
Published: almost 8 years ago

10.3389/fmicb.2019.02625

Land Management and Microbial Seed Load Effect on Rhizosphere and Endosphere Bacterial Community Assembly in Wheat
Cited by: 17
Author(s): Vanessa Nessner Kavamura, Rebekah J. Robinson, Rifat Hayat, Ian M. Clark, David Hughes, Maike Rossmann, P. R. Hirsch, Rodrigo Mendes, Tim H. Mauchline
Software Mentions: 2
Published: about 7 years ago

10.3389/fmicb.2020.00306

Leucine-Rich Immune Factor APL1 Is Associated With Specific Modulation of Enteric Microbiome Taxa in the Asian Malaria Mosquito Anopheles stephensi
Cited by: 18
Author(s): Christian Mitri, Emmanuel Bischoff, Eugeni Belda, Stevenn Volant, Amine Ghozlane, Karin Eiglmeier, Inge Holm, Constentin Dieme, Emma Brito-Fravallo, Wamdaogo M. Guelbeogo, N’Falé Sagnon, Michelle M. Riehle, Kenneth D. Vernick
Software Mentions: 2
Published: over 6 years ago

10.3389/fmicb.2019.01102

Transcriptome Kinetics of Saccharomyces cerevisiae in Response to Viral Killer Toxin K1
Cited by: 5
Author(s): Stefanie Gier, Martín Simón, Karl Nordström, Salem Khalifa, Marcel H. Schulz, Manfred Schmitt, Frank Breinig
Software Mentions: 2
Published: over 7 years ago

10.3389/fmicb.2019.00924

An Integrated Systems Approach Unveils New Aspects of Microoxia-Mediated Regulation in Bradyrhizobium diazoefficiens
Cited by: 20
Author(s): Noemí Fernández, Juan J. Cabrera, Adithi R. Varadarajan, Stefanie Lutz, Raphael Ledermann, Bernd Roschitzki, Leo Eberl, Eulogio J. Bedmar, Hans‐Martin Fischer, Gabriella Pessi, Christian H. Ahrens, Socorro Mesa
Software Mentions: 2
Published: over 7 years ago

10.3389/fmicb.2021.727105

Genome-Wide Transcriptional Changes of Rhodosporidium kratochvilovae at Low Temperature
Cited by: 5
Author(s): Rui Guo, Manman He, Xiaoqing Zhang, Xiuling Ji, Yunlin Wei, Qilin Zhang, Qí Zhāng
Software Mentions: 2
Published: about 5 years ago

10.3389/fmicb.2017.01871

Phloroglucinol Degradation in the Rumen Promotes the Capture of Excess Hydrogen Generated from Methanogenesis Inhibition
Cited by: 32
Author(s): Gonzalo Martínez Fernández, Stuart E. Denman, Jane Cheung, Christopher S. McSweeney
Software Mentions: 2
Published: about 9 years ago

10.3389/fmicb.2018.00610

Gene Enrichment Analysis Reveals Major Regulators of Mycobacterium tuberculosis Gene Expression in Two Models of Antibiotic Tolerance
Cited by: 11
Author(s): William M. Matern, Dalin Rifat, Joel S. Bader, Petros C. Karakousis
Software Mentions: 2
Published: over 8 years ago

10.3389/fmicb.2016.01040

Microbial Community Responses to Increased Water and Organic Matter in the Arid Soils of the McMurdo Dry Valleys, Antarctica
Cited by: 43
Author(s): Heather N. Buelow, Ara S. Winter, David Van Horn, John E. Barrett, M. N. Gooseff, Egbert Schwartz, Cristina Takacs-Vesbach
Software Mentions: 2
Published: over 10 years ago

10.3389/fmicb.2018.03090

Listeria monocytogenes Relies on the Heme-Regulated Transporter hrtAB to Resist Heme Toxicity and Uses Heme as a Signal to Induce Transcription of lmo1634, Encoding Listeria Adhesion Protein
Cited by: 10
Author(s): Patrícia Teixeira Santos, Pernille Tholund Larsen, Pilar Menendez-Gil, Eva Maria Sternkopf Lillebæk, Birgitte H. Kallipolitis
Software Mentions: 2
Published: almost 8 years ago

10.3389/fmicb.2015.00469

Microbial community structure and function on sinking particles in the North Pacific Subtropical Gyre
Cited by: 122
Author(s): Kristina M. Fontanez, John M. Eppley, Ty Samo, David M. Karl, Edward F. DeLong
Software Mentions: 2
Published: over 11 years ago

10.3389/fmicb.2020.00880

Integrative Analysis of Differential lncRNA/mRNA Expression Profiling in Helicobacter pylori Infection-Associated Gastric Carcinogenesis
Cited by: 14
Author(s): Nianshuang Li, Yaobin Ouyang, Sihai Chen, Chao Peng, Cong He, Junbo Hong, Xiaoyu Yang, Yin Zhu, Nonghua Lü
Software Mentions: 2
Published: over 6 years ago

10.3389/fmicb.2019.02870

Salinity and Time Can Alter Epibacterial Communities of an Invasive Seaweed
Cited by: 23
Author(s): Mahasweta Saha, Robert Ferguson, Shawn Dove, Sven Künzel, Rafael Meichßner, Sven C. Neulinger, F. Petersen, Florian Weinberger
Software Mentions: 2
Published: almost 7 years ago

10.3389/fmicb.2020.573335

Riboflavin Biosynthesis and Overproduction by a Derivative of the Human Gut Commensal Bifidobacterium longum subsp. infantis ATCC 15697
Cited by: 14
Author(s): Ana Solopova, Francesca Bottacini, Elena Venturi Degli Esposti, Alberto Amaretti, Stefano Raimondi, Maddalena Rossi, Douwe van Sinderen
Software Mentions: 2
Published: about 6 years ago

10.3389/fmicb.2016.00536

Investigation of the Activity of the Microorganisms in a Reblochon-Style Cheese by Metatranscriptomic Analysis
Cited by: 46
Author(s): Christophe Monnet, Éric Dugat-Bony, Dominique Swennen, Jean-Marie Beckerich, Françoise Irlinger, Sébastien Fraud, Pascal Bonnarme
Software Mentions: 2
Published: over 10 years ago

10.3389/fmicb.2021.647933

Estimating the Time Since Deposition of Saliva Stains With a Targeted Bacterial DNA Approach: A Proof-of-Principle Study
Cited by: 16
Author(s): Celia Díez López, Manfred Kayser, Athina Vidaki
Software Mentions: 2
Published: over 5 years ago

10.3389/fmicb.2021.701265

Effects of Simulated Microgravity on the Physiology of Stenotrophomonas maltophilia and Multiomic Analysis
Cited by: 9
Author(s): Xiaolei Su, Yinghua Guo, Tingzheng Fang, Xuege Jiang, Dapeng Wang, Diangeng Li, Po Bai, Zhang Bin, Junfeng Wang, Changting Liu
Software Mentions: 2
Published: about 5 years ago

10.3389/fmicb.2019.02260

Fecal Microbiome Characteristics and the Resistome Associated With Acquisition of Multidrug-Resistant Organisms Among Elderly Subjects
Cited by: 10
Author(s): Rafael Araos, Thomas Battaglia, Juan A. Ugalde, Marcelo Rojas-Herrera, Martin J. Blaser, Erika M. C. D’Agata
Software Mentions: 2
Published: about 7 years ago

10.3389/fmicb.2020.02095

Metagenomics Reveal Correlations Between Microbial Organisms in Soils and the Health of Populus euphratica
Cited by: 4
Author(s): Yu Tuo, Zhibao Dong, Xiping Wang, Beibei Gao, Chunming Zhu, Fei Tuo
Software Mentions: 2
Published: about 6 years ago

10.3389/fmicb.2021.676693

SARS-CoV-2-Host Chimeric RNA-Sequencing Reads Do Not Necessarily Arise From Virus Integration Into the Host DNA
Cited by: 12
Author(s): Anastasiya Kazachenka, George Kassiotis
Software Mentions: 2
Published: over 5 years ago

10.3389/fmicb.2017.00385

Differences in Ureolytic Bacterial Composition between the Rumen Digesta and Rumen Wall Based on ureC Gene Classification
Cited by: 38
Author(s): Di Jin, Shengguo Zhao, Nan Zheng, Dengpan Bu, Yves Beckers, Stuart E. Denman, Christopher S. McSweeney, Jiaqi Wang
Software Mentions: 2
Published: over 9 years ago

10.3389/fmicb.2018.01492

Microbial Community Structure and Functional Potential Along a Hypersaline Gradient
Cited by: 30
Author(s): Jeffrey A. Kimbrel, Nicholas R. Ballor, Yu Wei Wu, Maude M. David, Terry C. Hazen, Blake A. Simmons, Steven W. Singer, Janet Jansson
Software Mentions: 2
Published: over 8 years ago

10.3389/fmicb.2020.00397

Binding of Phage-Encoded FlaGrab to Motile Campylobacter jejuni Flagella Inhibits Growth, Downregulates Energy Metabolism, and Requires Specific Flagellar Glycans
Cited by: 13
Author(s): Jessica Sacher, Asif Shajahan, James Butcher, Robert T. Patry, Annika Flint, David R. Hendrixson, Alain Stintzi, Parastoo Azadi, Christine M. Szymanski
Software Mentions: 2
Published: over 6 years ago

10.3389/fmicb.2019.00586

Sterol Regulatory Element-Binding Protein (Sre1) Promotes the Synthesis of Carotenoids and Sterols in Xanthophyllomyces dendrorhous
Cited by: 20
Author(s): María Soledad Gutiérrez, Sebastián Campusano, Ana María González, Melissa Gómez, Salvador Barahona, Dionisia Sepúlveda, Peter J. Espenshade, María Fernández‐Lobato, Marcelo Baeza, Víctor Cifuentes, Jennifer Alcaı́no
Software Mentions: 2
Published: over 7 years ago

10.3389/fmicb.2015.00764

Integrated inference and evaluation of host–fungi interaction networks
Cited by: 45
Author(s): Christian W. Remmele, Christian H. Luther, Johannes Balkenhol, Thomas Dandekar, Tobias Müller, Marcus Dittrich
Software Mentions: 2
Published: over 11 years ago

10.3389/fmicb.2016.01064

Characterization of Microbial Mat Microbiomes in the Modern Thrombolite Ecosystem of Lake Clifton, Western Australia Using Shotgun Metagenomics
Cited by: 30
Author(s): John G. Warden, Giorgio Casaburi, Christopher R. Omelon, Philip C. Bennett, Daniel O. Breecker, Jamie S. Foster
Software Mentions: 2
Published: over 10 years ago

10.3389/fmicb.2020.631444

PfAP2-G2 Is Associated to Production and Maturation of Gametocytes in Plasmodium falciparum via Regulating the Expression of PfMDV-1
Cited by: 12
Author(s): Yaozheng Xu, Dan Qiao, Yang Wen, Yifei Bi, Yuxi Chen, Zhenghui Huang, Liwang Cui, Jian Guo, Yaming Cao
Software Mentions: 2
Published: almost 6 years ago

10.3389/fmicb.2018.00882

Transcriptome Changes of Escherichia coli, Enterococcus faecalis, and Escherichia coli O157:H7 Laboratory Strains in Response to Photo-Degraded DOM
Cited by: 6
Author(s): Adelumola Oladeinde, Erin K. Lipp, Chiaying Chen, Richard W. Muirhead, Travis C. Glenn, Kyle DeMeo Cook, Marirosa Molina
Software Mentions: 2
Published: over 8 years ago

10.3389/fmicb.2019.02629

Transcriptomic Profile and Sexual Reproduction-Relevant Genes of Alexandrium minutum in Response to Nutritional Deficiency
Cited by: 12
Author(s): Fan Qiang Meng, Jun Song, Jin Zhou, Zhong Hua Cai
Software Mentions: 2
Published: almost 7 years ago

10.3389/fmicb.2021.664407

Bacterial and Fungal Gut Community Dynamics Over the First 5 Years of Life in Predominantly Rural Communities in Ghana
Cited by: 6
Author(s): Nelly Amenyogbe, Dennis Adu-Gyasi, Yeetey Enuameh, Kwaku Poku Asante, Dennis Gyasi Konadu, Seyram Kaali, David Dosoo, Pinaki Panigrahi, Tobias R. Kollmann, William W. Mohn, Seth Owusu‐Agyei
Software Mentions: 2
Published: over 5 years ago

10.3389/fmolb.2021.640779

CXCR2 May Serve as a Useful Index of Disease Activity in Interstitial Lung Disease Associated With Primary Sjögren’s Syndrome
Cited by: 0
Author(s): Xiaoyu Zhu, Saisai Lu, Lixia Zhu, Mengjiao Yu, Tingting Wei, Xiongzhao Zhu, Dan Chen, Chengshui Chen
Software Mentions: 2
Published: over 5 years ago

10.3389/fmolb.2020.568954

Identifying Pathways and Networks Associated With the SARS-CoV-2 Cell Receptor ACE2 Based on Gene Expression Profiles in Normal and SARS-CoV-2-Infected Human Tissues
Cited by: 17
Author(s): Qiushi Feng, Lin Li, Xiaosheng Wang
Software Mentions: 2
Published: about 6 years ago

10.3389/fmolb.2020.610845

Systematic Comparisons for Composition Profiles, Taxonomic Levels, and Machine Learning Methods for Microbiome-Based Disease Prediction
Cited by: 9
Author(s): Kuncheng Song, Fred A. Wright, Yi‐Hui Zhou
Software Mentions: 2
Published: almost 6 years ago

10.3389/fnmol.2017.00430

Evidence for a Pan-Neurodegenerative Disease Response in Huntington's and Parkinson's Disease Expression Profiles
Cited by: 26
Author(s): Adam Labadorf, Seung Hoan Choi, Richard H. Myers
Software Mentions: 2
Published: almost 9 years ago

10.3389/fnmol.2018.00126

RNA-Sequencing Reveals Unique Transcriptional Signatures of Running and Running-Independent Environmental Enrichment in the Adult Mouse Dentate Gyrus
Cited by: 17
Author(s): Catherine-Alexandra Grégoire, Stephanie Tobin, Brianna Goldenstein, Éric Samarut, Andréanne Leclerc, Anne Aumont, Pierre Drapeau, Stephanie Fulton, Karl J.L. Fernandes
Software Mentions: 2
Published: over 8 years ago

10.3389/fnmol.2021.659681

The Perils of Navigating Activity-Dependent Alternative Splicing of Neurexins
Cited by: 8
Author(s): Kifayathullah Liakath‐Ali, Thomas C. Südhof
Software Mentions: 2
Published: over 5 years ago

10.3389/fpls.2021.715767

Cold-Triggered Induction of ROS- and Raffinose Metabolism in Freezing-Sensitive Taproot Tissue of Sugar Beet
Cited by: 11
Author(s): Isabel Keller, Christina Müdsam, Cristina Martins Rodrigues, Dominik Kischka, Wolfgang Zierer, Uwe Sonnewald, Karsten Harms, Olaf Czarnecki, Karin Fiedler‐Wiechers, Wolfgang Koch, H. Ekkehard Neuhaus, Frank Ludewig, Benjamin Pommerrenig
Software Mentions: 2
Published: about 5 years ago

Projects: bioconductor: DESeq2

Enhanced Analysis

Science Score: 100/100

Bonuses:

Papers Mentioning DESeq2 9,583