bioconductor: edgeR | Projects | Ecosyste.ms: Papers

10.3389/fphar.2020.584450

IQGAP3 Overexpression Correlates With Poor Prognosis and Radiation Therapy Resistance in Breast Cancer
Cited by: 10
Author(s): Xin Hua, Zhi‐Qing Long, Lanwei Guo, Wen Wen, Xin Huang, Wen Zhang
Software Mentions: 1
Published: almost 6 years ago

10.1186/s13059-015-0632-2

The Fasciola hepatica genome: gene duplication and polymorphism reveals adaptation to the host environment and the capacity for rapid evolution
Cited by: 212
Author(s): Krystyna Cwiklinski, John P. Dalton, Philippe J. Dufresne, James La Course, Diana Williams, Jane E. Hodgkinson, Steve Paterson
Software Mentions: 1
Published: over 11 years ago

10.3389/fonc.2019.01348

7-lncRNA Assessment Model for Monitoring and Prognosis of Breast Cancer Patients: Based on Cox Regression and Co-expression Analysis
Cited by: 32
Author(s): Huayao Li, Chundi Gao, Lijuan Liu, Jing Zhuang, Jing Yang, Cun Liu, Chao Zhou, Fubin Feng
Software Mentions: 1
Published: almost 7 years ago

10.3389/fimmu.2020.594243

Effects of In Vivo Gluten Challenge on PBMC Gene Expression Profiles in Diet Treated Celiac Disease
Cited by: 4
Author(s): Dawit A. Yohannes, Andrea de Kauwe, Katri Kaukinen, Kalle Kurppa, Markku Mäki, Robert P. Anderson, Sten Linnarsson, Dario Greco, Päivi Saavalainen
Software Mentions: 1
Published: almost 6 years ago

10.3389/fmicb.2018.00752

Infection by a Giant Virus (AaV) Induces Widespread Physiological Reprogramming in Aureococcus anophagefferens CCMP1984 – A Harmful Bloom Algae
Cited by: 30
Author(s): Mohammad Moniruzzaman, Eric R. Gann, Steven W. Wilhelm
Software Mentions: 1
Published: over 8 years ago

10.3389/fonc.2017.00135

Ror2 Signaling and Its Relevance in Breast Cancer Progression
Cited by: 38
Author(s): Michaela Bayerlová, Kerstin Menck, Florian Klemm, Alexander Wolff, Tobias Pukrop, Claudia R. Binder, Tim Beißbarth, Annalen Bleckmann
Software Mentions: 1
Published: over 9 years ago

10.3389/fonc.2019.00448

Integrated Bioinformatic Analysis of a Competing Endogenous RNA Network Reveals a Prognostic Signature in Endometrial Cancer
Cited by: 20
Author(s): Leilei Xia, Ye Wang, Meng Qi, Xiaoling Su, Jizi Shen, Jing Wang, Haiwei He, Biwei Wen, Caihong Zhang, Man Xu
Software Mentions: 1
Published: over 7 years ago

10.3389/fimmu.2019.02394

IFN-Lambda 3 Mediates Antiviral Protection Against Porcine Epidemic Diarrhea Virus by Inducing a Distinct Antiviral Transcript Profile in Porcine Intestinal Epithelia
Cited by: 35
Author(s): Liang Li, Mei Xue, Fang Fu, Liang Yin, Li Feng, Pinghuang Liu
Software Mentions: 1
Published: about 7 years ago

10.3389/fonc.2021.587548

A 15-Gene Signature and Prognostic Nomogram for Predicting Overall Survival in Non-Distant Metastatic Oral Tongue Squamous Cell Carcinoma
Cited by: 3
Author(s): Muyuan Liu, Litian Tong, Bin Liang, Xuhong Song, Lingzhu Xie, Hanwei Peng, Dongyang Huang
Software Mentions: 1
Published: over 5 years ago

10.1186/s13059-015-0780-4

The first whole genome and transcriptome of the cinereous vulture reveals adaptation in the gastric and immune defense systems and possible convergent evolution between the Old and New World vultures
Cited by: 37
Author(s): Oksung Chung, Shil Jin, Yun Sung Cho, Jeongheui Lim, Hyunho Kim, Sungwoong Jho, Hak-Min Kim, JeHoon Jun, Hye-Jin Lee, Alvin Chon, Junsu Ko, Jeremy S. Edwards, Jessica A. Weber, Kyudong Han, Stephen J. O’Brien, Andrea Manica, Jong Bhak, Woon Kee Paek
Software Mentions: 1
Published: about 11 years ago

10.1186/s13059-015-0813-z

Erratum to: Comprehensive evaluation of differential gene expression analysis methods for RNA-seq data
Cited by: 11
Author(s): Franck Rapaport, Raya Khanin, Yupu Liang, Mono Pirun, Azra Krek, Paul Zumbo, Christopher E. Mason, Nicholas D. Socci, Doron Betel
Software Mentions: 1
Published: almost 11 years ago

10.3389/fonc.2021.687208

LINC00346 Sponges miR-30c-2-3p to Promote the Development of Lung Adenocarcinoma by Targeting MYBL2 and Regulating CELL CYCLE Signaling Pathway
Cited by: 10
Author(s): Qinying Xu, Zuo-Feng Xu, Kai Zhu, Jinlan Lin, Bo Ye
Software Mentions: 1
Published: about 5 years ago

10.3389/fonc.2021.699625

Circular RNA hsa_circ_0007507 May Serve as a Biomarker for the Diagnosis and Prognosis of Gastric Cancer
Cited by: 5
Author(s): Weiwei Zhang, Ming Zheng, Shan Kong, Xian Li, Shuting Meng, Xudong Wang, Feng Wang, Chenxue Tang, Shaoqing Ju
Software Mentions: 1
Published: about 5 years ago

10.3389/fimmu.2018.01372

CD19+CD24hiCD38hi B Cells Are Expanded in Juvenile Dermatomyositis and Exhibit a Pro-Inflammatory Phenotype After Activation Through Toll-Like Receptor 7 and Interferon-α
Cited by: 60
Author(s): Christopher Piper, Meredyth G Ll Wilkinson, Claire T. Deakin, G. Otto, S Dowle, Chantal L. Duurland, Stuart Adams, Emiliano Marasco, Elizabeth C. Rosser, Anna Radziszewska, Rita Carsetti, Yiannis Ioannou, Philip L. Beales, Daniel Kelberman, David Isenberg, Claudia Mauri, Kiran Nistala, Lucy R. Wedderburn
Software Mentions: 1
Published: over 8 years ago

10.3389/fonc.2021.736620

A Phase II Trial of Adjuvant Durvalumab Following Trimodality Therapy for Locally Advanced Esophageal and Gastroesophageal Junction Adenocarcinoma: A Big Ten Cancer Research Consortium Study
Cited by: 20
Author(s): Hirva Mamdani, Bryan J. Schneider, Susan M. Perkins, Heather N. Burney, Pashtoon Murtaza Kasi, Laith Abushahin, Thomas J. Birdas, Kenneth A. Kesler, Tracy M. Watkins, Sunil Badve, Milan Radovich, Shadia I. Jalal
Software Mentions: 1
Published: about 5 years ago

10.3389/fonc.2020.581985

Bioinformatic Analysis Identifies Potential Key Genes in the Pathogenesis of Melanoma
Cited by: 9
Author(s): Yanjie Han, Xinxin Li, Jiliang Yan, Chunyan Ma, Xin Wang, Hong Pan, Xiaoli Zheng, Zhen Zhang, Biao Gao, Xin‐Ying Ji
Software Mentions: 1
Published: about 6 years ago

10.3389/fonc.2021.626858

Genome-Wide Analyses of Prognostic and Therapeutic Alternative Splicing Signatures in Bladder Urothelial Carcinoma
Cited by: 1
Author(s): Zhongru Fan, Zhe Zhang, Chiyuan Piao, Zhuona Liu, Ze‐Shu Wang, Chuize Kong
Software Mentions: 1
Published: over 5 years ago

10.3389/fonc.2020.00850

CircCSPP1 Functions as a ceRNA to Promote Colorectal Carcinoma Cell EMT and Liver Metastasis by Upregulating COL1A1
Cited by: 19
Author(s): Qingyuan Wang, Li Shi, Kui Shi, Bo Yuan, Gang Cao, Chenchen Kong, Jun Fu, Zhongsong Man, Xu Li, Xuanfeng Zhang, Yifei Feng, Xinglu Jiang, Xinhui Zhang, Jun Yan, Xiaohu Wu, Yueming Sun
Software Mentions: 1
Published: over 6 years ago

10.3389/fmicb.2018.01565

Comparative Transcriptomics of Cold Growth and Adaptive Features of a Eury- and Steno-Psychrophile
Cited by: 31
Author(s): Isabelle Raymond-Bouchard, Julien Tremblay, Ianina Altshuler, Charles W. Greer, Lyle G. Whyte
Software Mentions: 1
Published: over 8 years ago

10.3389/fmicb.2018.02418

Transcriptome Analysis of a Spray Drying-Resistant Subpopulation Reveals a Zinc-Dependent Mechanism for Robustness in L. lactis SK11
Cited by: 7
Author(s): Annereinou Dijkstra, Marjo Starrenburg, Tilman Todt, Sacha A. F. T. van Hijum, Jeroen Hugenholtz, Peter A. Bron
Software Mentions: 1
Published: about 8 years ago

10.3389/fmicb.2018.00877

Genome-Wide Comparative Functional Analyses Reveal Adaptations of Salmonella sv. Newport to a Plant Colonization Lifestyle
Cited by: 16
Author(s): Marcos H. de Moraes, Emanuel Becerra Soto, Isaí Salas González, Prerak Desai, Chu Wu, Steffen Porwollik, Michael McClelland, Max Teplitski
Software Mentions: 1
Published: over 8 years ago

10.3389/fmicb.2020.563139

tpo3 and dur3, Aspergillus fumigatus Plasma Membrane Regulators of Polyamines, Regulate Polyamine Homeostasis and Susceptibility to Itraconazole
Cited by: 6
Author(s): Mingcong Chen, Guowei Zhong, Sha Wang, Jun Zhu, Lei Tang, Lei Li
Software Mentions: 1
Published: almost 6 years ago

10.3389/fmicb.2020.00460

Investigating the Role of FlhF Identifies Novel Interactions With Genes Involved in Flagellar Synthesis in Campylobacter jejuni
Cited by: 11
Author(s): Xiaofei Li, Fangzhe Ren, Guoqiang Cai, Pingyu Huang, Qinwen Chai, Ozan Gundogdu, Xinan Jiao, Jinlin Huang
Software Mentions: 1
Published: over 6 years ago

10.3389/fmicb.2020.01264

Yeast Assimilable Nitrogen Concentrations Influence Yeast Gene Expression and Hydrogen Sulfide Production During Cider Fermentation
Cited by: 10
Author(s): Yangbo Song, Patrick A. Gibney, Lailiang Cheng, Shuwen Liu, Gregory M. Peck
Software Mentions: 1
Published: over 6 years ago

10.3389/fmicb.2016.01465

Exploratory Investigation of Bacteroides fragilis Transcriptional Response during In vitro Exposure to Subinhibitory Concentration of Metronidazole
Cited by: 7
Author(s): Michele Cristine Ribeiro de Freitas, Juliana Alves Resende, Alessandra Barbosa Ferreira-Machado, Guadalupe del Rosario Quispe Saji, Ana Tereza Ribeiro de Vasconcelos, Vânia Lúcia da Silva, Marisa Fabiana Nicolás, Cláudio Galuppo Diniz
Software Mentions: 1
Published: about 10 years ago

10.3389/fmicb.2019.01873

Hydrogen Oxidation Influences Glycogen Accumulation in a Verrucomicrobial Methanotroph
Cited by: 12
Author(s): Carlo R. Carere, Ben McDonald, Hanna Peach, Chris Greening, Daniel J. Gapes, Christophe Collet, Matthew B. Stott
Software Mentions: 1
Published: about 7 years ago

10.3389/fmicb.2014.00430

Wolbachia is not all about sex: male-feminizing Wolbachia alters the leafhopper Zyginidia pullula transcriptome in a mainly sex-independent manner
Cited by: 12
Author(s): Hosseinali Asgharian, Peter L. Chang, Peter John Mazzoglio, Ilaria Negri
Software Mentions: 1
Published: about 12 years ago

10.3389/fmicb.2018.01765

Comparative Transcriptomic Analysis of Streptococcus thermophilus TH1436 and TH1477 Showing Different Capability in the Use of Galactose
Cited by: 18
Author(s): Sabrina Giaretta, Laura Treu, Veronica Vendramin, Vinícius da Silva Duarte, Armin Tarrah, Stefano Campanaro, Viviana Corich
Software Mentions: 1
Published: about 8 years ago

10.3389/fmicb.2018.00859

Comparative Metatranscriptomics of Wheat Rhizosphere Microbiomes in Disease Suppressive and Non-suppressive Soils for Rhizoctonia solani AG8
Cited by: 62
Author(s): Helen L. Hayden, Keith W. Savin, Jenny Wadeson, Vadakattu V. S. R. Gupta, Pauline M. Mele
Software Mentions: 1
Published: over 8 years ago

10.3389/fmicb.2018.01643

Long-Term Land Use Affects Phosphorus Speciation and the Composition of Phosphorus Cycling Genes in Agricultural Soils
Cited by: 54
Author(s): Liu Jin, Barbara J. Cade-Menun, Jianjun Yang, Yongfeng Hu, Corey W. Liu, Julien Tremblay, Kerry LaForge, Michael P. Schellenberg, Chantal Hamel, Luke D. Bainard
Software Mentions: 1
Published: over 8 years ago

10.3389/fmicb.2019.00150

Deciphering the Antibacterial Mode of Action of Alpha-Mangostin on Staphylococcus epidermidis RP62A Through an Integrated Transcriptomic and Proteomic Approach
Cited by: 35
Author(s): Murugesan Sivaranjani, Katarzyna Leskinen, Chairmandurai Aravindraja, Päivi Saavalainen, Shunmugiah Karutha Pandian, Mikael Skurnik, Arumugam Veera Ravi
Software Mentions: 1
Published: over 7 years ago

10.3389/fmicb.2018.02308

Microbial Community and Metabolic Activity in Thiocyanate Degrading Low Temperature Microbial Fuel Cells
Cited by: 7
Author(s): Gaofeng Ni, Sebastian Canizales, Elias Broman, Domenico Simone, Viraja R. Palwai, Daniel Lundin, Margarita López-Fernández, Tom Sleutels, Mark Dopson
Software Mentions: 1
Published: about 8 years ago

10.3389/fmicb.2021.615893

Transcriptome Profiling Reveals a Novel Mechanism of Antiviral Immunity Upon Sacbrood Virus Infection in Honey Bee Larvae (Apis cerana)
Cited by: 10
Author(s): Yanjun Guo, Zhengyi Zhang, Mingsheng Zhuang, Liuhao Wang, Kai Li, Jun Yao, Huipeng Yang, Jiaxing Huang, Ya Hao, Ying Fan, Hira Mannan, Jie Wu, Yanping Chen, Jilian Li
Software Mentions: 1
Published: over 5 years ago

10.3389/fmicb.2018.00356

Comparative Genomics of the Baltic Sea Toxic Cyanobacteria Nodularia spumigena UHCC 0039 and Its Response to Varying Salinity
Cited by: 12
Author(s): Jonna Teikari, Songjun Hou, Matti Wahlsten, Wolfgang R. Hess, Kaarina Sivonen
Software Mentions: 1
Published: over 8 years ago

10.3389/fmicb.2017.00180

Critical Issues in Mycobiota Analysis
Cited by: 63
Author(s): Bettina Halwachs, Nandhitha Madhusudhan, Robert Krause, R. Henrik Nilsson, Christine Moissl-Eichinger, Christoph Högenauer, Gerhard G. Thallinger, Gregor Gorkiewicz
Software Mentions: 1
Published: over 9 years ago

10.3389/fmicb.2016.01545

New Genes Involved in Osmotic Stress Tolerance in Saccharomyces cerevisiae
Cited by: 18
Author(s): Ramón González, Pilar Morales, Jordi Tronchoni, Gustavo Cordero-Bueso, Enrico Vaudano, Manuel Quirós, Maïté Novo, Rafael Torres‐Pérez, Eva Valero
Software Mentions: 1
Published: about 10 years ago

10.3389/fmicb.2016.00078

Integrated Translatomics with Proteomics to Identify Novel Iron–Transporting Proteins in Streptococcus pneumoniae
Cited by: 31
Author(s): Xiao-Yan Yang, Kui He, Gaofei Du, Xiaohui Wu, Guangchuang Yu, Yunlong Pan, Gong Zhang, Xia Sun, Qing‐Yu He
Software Mentions: 1
Published: over 10 years ago

10.3389/fmicb.2021.651744

Growth on Formic Acid Is Dependent on Intracellular pH Homeostasis for the Thermoacidophilic Methanotroph Methylacidiphilum sp. RTK17.1
Cited by: 11
Author(s): Carlo R. Carere, Kiel Hards, Kathryn Wigley, Luke Carman, Karen M. Houghton, Gregory M. Cook, Matthew B. Stott
Software Mentions: 1
Published: over 5 years ago

10.3389/fmicb.2019.02452

Single-Cell RNA Sequencing of Plant-Associated Bacterial Communities
Cited by: 10
Author(s): Qin Ma, Heike Bücking, Jose L. Gonzalez-Hernandez, Senthil Subramanian
Software Mentions: 1
Published: about 7 years ago

10.3389/fmicb.2020.01096

ClpV3 of the H3-Type VI Secretion System (H3-T6SS) Affects Multiple Virulence Factors in Pseudomonas aeruginosa
Cited by: 14
Author(s): Yanqi Li, Lin Chen, Pansong Zhang, Anjali Y. Bhagirath, Kangmin Duan
Software Mentions: 1
Published: over 6 years ago

10.3389/fmicb.2017.01266

Long-Term Rock Phosphate Fertilization Impacts the Microbial Communities of Maize Rhizosphere
Cited by: 54
Author(s): Ubiana C. Silva, Julliane Dutra Medeiros, Laura Hora Rios Leite, Daniel Morais, Sara Cuadros-Orellana, Carlos A. S. Oliveira, U. G. de P. Lana, E. A. Gomes, Vera Lúcia dos Santos
Software Mentions: 1
Published: over 9 years ago

10.3389/fmicb.2016.00880

Genetic Manipulation of Competition for Nitrate between Heterotrophic Bacteria and Diatoms
Cited by: 41
Author(s): Rachel E. Diner, Sarah M. Schwenck, John P. McCrow, Hong Zheng, Andrew E. Allen
Software Mentions: 1
Published: over 10 years ago

10.3389/fmicb.2018.00299

Temporal Expression Dynamics of Plant Biomass-Degrading Enzymes by a Synthetic Bacterial Consortium Growing on Sugarcane Bagasse
Cited by: 22
Author(s): Diego Javier Jiménez, Maryam Chaib De Mares, Joana Falcão Salles
Software Mentions: 1
Published: over 8 years ago

10.3389/fmicb.2019.00848

Adaptation of the Human Gut Microbiota Metabolic Network During the First Year After Birth
Cited by: 11
Author(s): Alvaro Fuertes, Sergio Pérez-Burillo, Iñigo Apaolaza, Yvonne Vallès, M. Pilar Francino, José Ángel Rufián-Henares, Francisco J. Planes
Software Mentions: 1
Published: over 7 years ago

10.3389/fmicb.2019.02640

Diversity Distribution and Assembly Mechanisms of Planktonic and Benthic Microeukaryote Communities in Intertidal Zones of Southeast Fujian, China
Cited by: 20
Author(s): Jie Kong, Ying Wang, Alan Warren, Bangqin Huang, Ping Sun
Software Mentions: 1
Published: almost 7 years ago

10.3389/fmicb.2016.01279

Demethylase Inhibitor Fungicide Resistance in Pyrenophora teres f. sp. teres Associated with Target Site Modification and Inducible Overexpression of Cyp51
Cited by: 55
Author(s): Wesley J. Mair, Wei‐Wei Deng, Jonathan Mullins, Samuel West, Penghao Wang, Naghmeh Besharat, Simon R. Ellwood, Richard P. Oliver, Francisco J. López-Ruiz
Software Mentions: 1
Published: about 10 years ago

10.3390/genes12070985

CircVAMP3: A circRNA with a Role in Alveolar Rhabdomyosarcoma Cell Cycle Progression
Cited by: 8
Author(s): Francesca Maria Rossi, Alvaro Centrón-Broco, Dario Dattilo, Gaia Di Timoteo, Marco Guarnacci, Alessio Colantoni, Manuel Beltran Nebot, Irene Bozzoni
Software Mentions: 1
Published: over 5 years ago

10.3390/genes12060944

Expression of Wnt and TGF-Beta Pathway Components during Whole-Body Regeneration from Cell Aggregates in Demosponge Halisarca dujardinii
Cited by: 6
Author(s): Ilya Borisenko, Fyodor Bolshakov, Alexander Ereskovsky, Andrey Lavrov
Software Mentions: 1
Published: over 5 years ago

10.3390/genes12050618

Transcriptome Analysis Provides Insights into the Mechanism of Astaxanthin Enrichment in a Mutant of the Ridgetail White Prawn Exopalaemon carinicauda
Cited by: 7
Author(s): Yue Jin, Shihao Li, Yang Yu, Chengsong Zhang, Xiaojun Zhang, Fuhua Li
Software Mentions: 1
Published: over 5 years ago

10.3390/genes12040561

Genome-Wide Transcriptional Analysis and Functional Validation Linked a Cluster of Epsilon Glutathione S-Transferases with Insecticide Resistance in the Major Malaria Vector Anopheles funestus across Africa
Cited by: 15
Author(s): Mersimine F. M. Kouamo, Sulaiman S. Ibrahim, Jack Hearn, Jacob M. Riveron, Michael O. Kusimo, Magellan Tchouakui, Ebai Terence, Williams Tchapga, Murielle J. Wondji, Helen Irving, Thaddée Boudjeko, Fabrice Fekam Boyom, Charles S. Wondji
Software Mentions: 1
Published: over 5 years ago

10.3390/genes12030355

Decoding the Reproductive System of the Olive Fruit Fly, Bactrocera oleae
Cited by: 4
Author(s): Maria‐Eleni Gregoriou, Martin Reczko, Evdoxia G. Kakani, Konstantina T. Tsoumani, Kostas D. Mathiopoulos
Software Mentions: 1
Published: over 5 years ago

10.3390/genes12020154

Epigenetic Evolution of ACE2 and IL-6 Genes: Non-Canonical Interferon-Stimulated Genes Correlate to COVID-19 Susceptibility in Vertebrates
Cited by: 29
Author(s): Eric R. Sang, Yun Tian, Laura C. Miller, Yongming Sang
Software Mentions: 1
Published: almost 6 years ago

10.3390/genes12091437

Metformin Triggers Apoptosis and Induction of the G0/G1 Switch 2 Gene in Macrophages
Cited by: 5
Author(s): Xuming Hu, Huai‐Rong Luo, Chunfeng Dou, Xujing Chen, Yi Huang, Liping Wang, Song Xue, Zhen Sun, Shihao Chen, Qi Xu, Tuoyu Geng, Xin Zhao, Hengmi Cui
Software Mentions: 1
Published: about 5 years ago

10.3390/genes12010007

The Developmental Transcriptome of Bagworm, Metisa plana (Lepidoptera: Psychidae) and Insights into Chitin Biosynthesis Genes
Cited by: 4
Author(s): Nur Lina Rahmat, Anis Nadyra Zifruddin, Cik Mohd Rizuan Zainal Abidin, Nor Azlan Nor Muhammad, Mohd Rohaizat Hassan
Software Mentions: 1
Published: almost 6 years ago

10.3390/genes11121447

Transcriptional Differences for COVID-19 Disease Map Genes between Males and Females Indicate a Different Basal Immunophenotype Relevant to the Disease
Cited by: 15
Author(s): Tianyuan Liu, Leandro Balzano‐Nogueira, Ana Lleo, Ana Conesa
Software Mentions: 1
Published: almost 6 years ago

10.3390/genes11111306

Unraveling the Genome-Wide Impact of Recombinant Baculovirus Infection in Mammalian Cells for Gene Delivery
Cited by: 5
Author(s): Ha Youn Shin, Heung‐Jin Choi, Nahyun Kim, Nayoung Park, Hee-Sun Kim, Jaebum Kim, Young Bong Kim
Software Mentions: 1
Published: almost 6 years ago

10.1590/1678-4685-GMB-2018-0033

De novo transcriptome analysis of Tibetan medicinal plant Dysphania schraderiana
Cited by: 7
Author(s): Suhong Fu, Ming Lei, Zhang YongQun, Zhaomin Deng, Jing Shi, Doudou Hao
Software Mentions: 1
Published: over 7 years ago

10.3389/fpls.2017.00971

Transcriptome Analysis of Genes Associated with the Artemisinin Biosynthesis by Jasmonic Acid Treatment under the Light in Artemisia annua
Cited by: 49
Author(s): Xiaolong Hao, Yijun Zhong, Xueqing Fu, Zongyou Lv, Qian Shen, Tingxiang Yan, Shi Pu, Yong Ma, Ming‐Hui Chen, Xueying Lv, Zhangkuanyu Wu, Jingya Zhao, Xiaofen Sun, Ling Li, Kexuan Tang
Software Mentions: 1
Published: over 9 years ago

10.1590/1678-4685-GMB-2019-0377

Transcriptomic evidences of local thermal adaptation for the native fish Colossoma macropomum (Cuvier, 1818)
Cited by: 6
Author(s): Luciana Mara Fé-Gonçalves, José Deney Alves Araújo, Carlos dos Anjos dos Henrique Santos, Vera Maria Fonseca de Almeida-Val
Software Mentions: 1
Published: almost 7 years ago

10.3389/fmicb.2018.03266

Multi-Method Characterization of the Human Circulating Microbiome
Cited by: 103
Author(s): Emma Whittle, Martin O. Leonard, Rebecca D Harrison, Timothy W. Gant, Daniel Tonge
Software Mentions: 1
Published: almost 8 years ago

10.3389/fmicb.2015.01262

Identification of Genetic Modules Mediating the Jekyll and Hyde Interaction of Dinoroseobacter shibae with the Dinoflagellate Prorocentrum minimum
Cited by: 42
Author(s): Hui Wang, Jürgen Tomasch, Victoria Michael, Sabin Bhuju, Michael Jarek, Jörn Petersen, Irene Wagner‐Döbler
Software Mentions: 1
Published: almost 11 years ago

10.3389/fpls.2016.02031

Cellular and Molecular Changes Associated with Onion Skin Formation Suggest Involvement of Programmed Cell Death
Cited by: 15
Author(s): Ortal Galsurker, Adi Doron‐Faigenboim, Paula Teper‐Bamnolker, Avinoam Daus, Yael Fridman, Amnon Lers, Dani Eshel
Software Mentions: 1
Published: almost 10 years ago

10.3389/fmicb.2018.02569

Organic Particles: Heterogeneous Hubs for Microbial Interactions in Aquatic Ecosystems
Cited by: 39
Author(s): Mina Bižić-Ionescu, Danny Ionescu, Hans‐Peter Grossart
Software Mentions: 1
Published: about 8 years ago

10.3389/fpls.2021.687799

Assessing Dynamic Changes of Taste-Related Primary Metabolism During Ripening of Durian Pulp Using Metabolomic and Transcriptomic Analyses
Cited by: 13
Author(s): Lalida Sangpong, Gholamreza Khaksar, Pinnapat Pinsorn, Akira Oikawa, Ryosuke Sasaki, Alexander Erban, Mutsumi Watanabe, Karan Wangpaiboon, Takayuki Tohge, Joachim Kopka, Rainer Hoefgen, Kazuki Saito, Supaart Sirikantaramas
Software Mentions: 1
Published: over 5 years ago

10.1534/genetics.117.300103

Developmental Restriction of Retrotransposition Activated in Arabidopsis by Environmental Stress
Cited by: 21
Author(s): Hervé Gaubert, Diego H. Sánchez, Hajk-Georg Drost, Jerzy Paszkowski
Software Mentions: 1
Published: about 9 years ago

10.3389/fnins.2020.00848

Melatonin Enhances the Therapeutic Effect of Plasma Exosomes Against Cerebral Ischemia-Induced Pyroptosis Through the TLR4/NF-κB Pathway
Cited by: 56
Author(s): Kankai Wang, Junnan Ru, Hengli Zhang, Jiayu Chen, Xiao Yan Lin, Zhongxiao Lin, Ming‐Shien Wen, Lijie Huang, Haoqi Ni, Qichuan Zhuge, Shuxu Yang
Software Mentions: 1
Published: about 6 years ago

10.3389/fnmol.2017.00027

Rpph1 Upregulates CDC42 Expression and Promotes Hippocampal Neuron Dendritic Spine Formation by Competing with miR-330-5p
Cited by: 48
Author(s): Yifei Cai, Zheng Sun, Hui‐Zhen Jia, Hongxue Luo, Xiaoyang Ye, Qi Wu, Yi Xiong, Wei Zhang, Jun Wan
Software Mentions: 1
Published: over 9 years ago

10.3389/fnmol.2018.00410

Transcriptome Profiling of Layer 5 Intratelencephalic Projection Neurons From the Mature Mouse Motor Cortex
Cited by: 7
Author(s): Alison J Clare, Robert C. Day, Ruth M. Empson, Stephanie M. Hughes
Software Mentions: 1
Published: almost 8 years ago

10.3390/polym12040937

Performance of a Biodegradable Composite with Hydroxyapatite as a Scaffold in Pulp Tissue Repair
Cited by: 14
Author(s): Masakazu Okamoto, Shigeto Matsumoto, Ayato Sugiyama, Kei Kanie, Masakatsu Watanabe, Haozhang Huang, Muslim Ali, Yuki Ito, Jiro Miura, Yujiro Hirose, Koichiro Uto, Mitsuhiro Ebara, Ryuji Kato, Aika Yamawaki-Ogata, Yuji Narita, Shigetada Kawabata, Yusuke Takahashi, Mikako Hayashi
Software Mentions: 1
Published: over 6 years ago

10.1111/mpp.12938

RpoN1 and RpoN2 play different regulatory roles in virulence traits, flagellar biosynthesis, and basal metabolism in Xanthomonas campestris
Cited by: 16
Author(s): Kaihuai Li, Guichun Wu, Y.P. Liao, Quan Zeng, Haihong Wang, Fengquan Liu
Software Mentions: 1
Published: over 6 years ago

10.1098/rspb.2014.2519

Comparison of sister species identifies factors underpinning plastid compatibility in green sea slugs
Cited by: 39
Author(s): Jan de Vries, Christian Woehle, Gregor Christa, Heike Wägele, Aloysius G.M. Tielens, Peter Jahns, Sven B. Gould
Software Mentions: 1
Published: over 11 years ago

10.1098/rspb.2017.0360

Unravelling the relationship between the tsetse fly and its obligate symbiont Wigglesworthia : transcriptomic and metabolomic landscapes reveal highly integrated physiological networks
Cited by: 50
Author(s): Xiao‐Li Bing, Geoffrey M. Attardo, Aurélien Vigneron, Emre Aksoy, Francesca Scolari, Anna R. Malacrida, Brian L. Weiss, Serap Aksoy
Software Mentions: 1
Published: over 9 years ago

10.1098/rspb.2017.1393

Rapid functional and evolutionary changes follow gene duplication in yeast
Cited by: 26
Author(s): Samina Naseeb, Ryan M. Ames, Daniela Delneri, Simon C. Lovell
Software Mentions: 1
Published: about 9 years ago

10.3389/fmolb.2021.737472

Transcriptional Network Analysis Reveals the Role of miR-223-5p During Diabetic Corneal Epithelial Regeneration
Cited by: 4
Author(s): Yuan Zhang, Shengqian Dou, Xia Qi, Zhenzhen Zhang, Yujie Qiao, Yani Wang, Jin Xie, Hui Jiang, Bin Zhang, Qingjun Zhou, Qun Wang, Lixin Xie
Software Mentions: 1
Published: about 5 years ago

10.3389/fmolb.2021.682769

Novel Insights into the Potential Diagnostic Value of Circulating Exosomal IncRNA-Related Networks in Large Artery Atherosclerotic Stroke
Cited by: 4
Author(s): Shuai Zhang, Jing Wang, Mei Jie Qu, Kun Wang, Jun Ai, Pan Xu, Xiao Jun Zhu
Software Mentions: 1
Published: over 5 years ago

10.3389/fmolb.2017.00057

Deep Sequencing Transcriptome Analysis of Murine Wound Healing: Effects of a Multicomponent, Multitarget Natural Product Therapy-Tr14
Cited by: 34
Author(s): Georges St. Laurent, Bernd Seilheimer, Michael Tackett, Jianhua Zhou, Dmitry Shtokalo, Yuri Vyatkin, Maxim Ri, Ian Toma, Dan Jones, Timothy A. McCaffrey
Software Mentions: 1
Published: about 9 years ago

10.1515/med-2020-0237

Key pathways in prostate cancer with SPOP mutation identified by bioinformatic analysis
Cited by: 2
Author(s): Guanxiong Ding, Jian Sun, Lianhua Jiang, Peng Gao, Qing Zhou, Jianqing Wang, Shijun Tong
Software Mentions: 1
Published: almost 7 years ago

10.1002/1878-0261.12629

Exosome‐delivered circRNA promotes glycolysis to induce chemoresistance through the miR‐122‐PKM2 axis in colorectal cancer
Cited by: 305
Author(s): Xinyi Wang, Haiyang Zhang, Hao Yang, Ming Bai, Tao Ning, Ting Deng, Rui Li, Qian Fan, Kegan Zhu, Jialu Li, Zhan Yang, Guoguang Ying, Yi Ba
Software Mentions: 1
Published: almost 7 years ago

10.1515/med-2021-0276

Four long noncoding RNAs act as biomarkers in lung adenocarcinoma
Cited by: 3
Author(s): Zhihui Zhang, Liu Yang, Yujiang Li, Yingxi Wu, Xiang Li, Xu Wu
Software Mentions: 1
Published: almost 6 years ago

10.3389/fmolb.2021.587436

Comprehensive Analysis of Ferroptosis Regulators in Lung Adenocarcinomas Identifies Prognostic and Immunotherapy-Related Biomarkers
Cited by: 11
Author(s): Sijin Sun, Guo Wei, Fang Lv, Guochao Zhang, Juhong Wang, Renda Li, Fengwei Tan, Ning Li, Xue Qin, Yibo Gao, Shugeng Gao, Jie He
Software Mentions: 1
Published: over 5 years ago

10.1002/mnfr.201500050

Egg ovotransferrin‐derived ACE inhibitory peptide IRW increases ACE2 but decreases proinflammatory genes expression in mesenteric artery of spontaneously hypertensive rats
Cited by: 66
Author(s): Kaustav Majumder, Guanxiang Liang, Yanhong Chen, Leluo Guan, Sandra T. Davidge, Jianping Wu
Software Mentions: 1
Published: over 11 years ago

10.3389/fmolb.2018.00079

Systematic Analysis of Gene Expression Profiles Controlled by hnRNP Q and hnRNP R, Two Closely Related Human RNA Binding Proteins Implicated in mRNA Processing Mechanisms
Cited by: 10
Author(s): Sara Cappelli, Maurizio Romano, Emanuele Buratti
Software Mentions: 1
Published: about 8 years ago

10.3389/fimmu.2021.705253

Targeted Transcriptomics of Frog Virus 3 in Infected Frog Tissues Reveal Non-Coding Regulatory Elements and microRNAs in the Ranaviral Genome and Their Potential Interaction with Host Immune Response
Cited by: 5
Author(s): Yun Tian, Collins N. Khwatenge, Jiuyi Li, Francisco De Jesús Andino, Jacques Robert, Yongming Sang
Software Mentions: 1
Published: over 5 years ago

10.1080/15476286.2020.1727694

Transcriptional profiling of human macrophages during infection withBordetella pertussis
Cited by: 13
Author(s): Denisa Petráčková, Mariam R. Farman, Fabian Amman, Irena Linhartová, Ana Dienstbier, Dilip Kumar, Jakub Držmíšek, Ivo L. Hofacker, Marı́a Eugenia Rodrı́guez, Branislav Večerek
Software Mentions: 1
Published: over 6 years ago

10.3389/fimmu.2019.00265

Transcriptome Profiles of Human Visceral Adipocytes in Obesity and Colorectal Cancer Unravel the Effects of Body Mass Index and Polyunsaturated Fatty Acids on Genes and Biological Processes Related to Tumorigenesis
Cited by: 23
Author(s): Manuela Del Cornò, Antonella Baldassarre, Enrica Calura, Lucia Conti, Paolo Martini, Chiara Romualdi, Rosaria Varı́, Beatrice Scazzocchio, Massimo D’Archivio, Andrea Masotti, Sandra Gessani
Software Mentions: 1
Published: over 7 years ago

10.1098/rsos.180413

Identification and characterization of circular RNAs in Qinchuan cattle testis
Cited by: 40
Author(s): Yuan Gao, Mingli Wu, Yanhui Fan, Shipeng Li, Zhenyu Lai, Yongzhen Huang, Xianyong Lan, Chuzhao Lei, Hong Chen, Ruihua Dang
Software Mentions: 1
Published: over 8 years ago

10.1098/rsos.181869

Collembola interact with mycorrhizal fungi in modifying oak morphology, C and N incorporation and transcriptomics
Cited by: 12
Author(s): Marcel Graf, Markus Bönn, Lasse Feldhahn, Florence Kurth, Thorsten E. E. Grams, Sylvie Herrmann, Mika Tarkka, François Buscot, Stefan Scheu
Software Mentions: 1
Published: over 7 years ago

10.1007/s12035-020-02088-w

Large-Scale Analysis Reveals Gene Signature for Survival Prediction in Primary Glioblastoma
Cited by: 14
Author(s): Birbal Prasad, Yongji Tian, Xinzhong Li
Software Mentions: 1
Published: about 6 years ago

10.1098/rsos.192243

Global analysis of differentially expressed genes between two Japonica rice varieties induced by low temperature during the booting stage by RNA-Seq
Cited by: 9
Author(s): Zhenhua Guo, Lijun Cai, Chuanxue Liu, Chao Huang, Zhiqiang Chen, Guoqing Pan, Tao Guo
Software Mentions: 1
Published: over 6 years ago

10.1098/rsos.200637

Growth, physiological and transcriptomic analysis of the perennial ryegrassLolium perennein response to saline stress
Cited by: 6
Author(s): Haishun Xu, Shaodong Guo, Lin Zhu, Jin-Cheng Xing
Software Mentions: 1
Published: over 6 years ago

10.3389/fimmu.2014.00396

RNA-seq Transcriptional Profiling of Peripheral Blood Leukocytes from Cattle Infected with Mycobacterium bovis
Cited by: 48
Author(s): Kirsten E. McLoughlin, Nicolas C. Nalpas, Kévin Rue-Albrecht, John A. Browne, David A. Magee, Kate E. Killick, Stephen D. E. Park, Karsten Hokamp, Kieran G. Meade, Cliona O’Farrelly, Eamonn Gormley, Stephen V. Gordon, David E. MacHugh
Software Mentions: 1
Published: about 12 years ago

10.3389/fimmu.2020.01240

Neonatal Diet Impacts Circulatory miRNA Profile in a Porcine Model
Cited by: 4
Author(s): Laura E. Carr, Anne K. Bowlin, Ahmed A. Elolimy, Stephanie D. Byrum, Charity L. Washam, Christopher E. Randolph, Stewart L. MacLeod, Laxmi Yeruva
Software Mentions: 1
Published: over 6 years ago

10.1007/s12035-018-0884-4

A Regulatory Circuitry Between Gria2, miR-409, and miR-495 Is Affected by ALS FUS Mutation in ESC-Derived Motor Neurons
Cited by: 29
Author(s): Davide Capauto, Alessio Colantoni, Lei Lü, Tiziana Santini, Giovanna Peruzzi, Silvia Biscarini, Mariangela Morlando, Neil A. Shneider, Elisa Caffarelli, Pietro Laneve, Irene Bozzoni
Software Mentions: 1
Published: over 8 years ago

10.3389/fimmu.2020.01602

Systemic Sclerosis Perturbs the Architecture of the Immunome
Cited by: 10
Author(s): Bhairav Paleja, Andrea Low, Pavanish Kumar, Suzan Saidin, Ahmad Lajam, Sharifah Nur Hazirah, Camillus Chua, Lai Li Yun, Salvatore Albani
Software Mentions: 1
Published: about 6 years ago

10.1186/s12931-015-0228-0

The LIM-domain only protein 4 contributes to lung epithelial cell proliferation but is not essential for tumor progression
Cited by: 6
Author(s): Aliaksei Z. Holik, Caitlin E. Filby, Julie Pasquet, Kati Viitaniemi, John Ciciulla, Kate D. Sutherland, Marie Liesse Asselin-Labat
Software Mentions: 1
Published: over 11 years ago

10.1007/s12035-019-01789-1

Inflammatory Responses Induced by the Rupture of Intracranial Aneurysms Are Modulated by miRNAs
Cited by: 14
Author(s): Michał Korostyński, Rafał Morga, Marcin Piechota, Dżesika Hoinkis, Sławomir Gołda, Tomasz Dziedzic, Agnieszka Słowik, Marek Moskała, Joanna Pera
Software Mentions: 1
Published: about 7 years ago

10.3389/fimmu.2019.02888

Mycobacterium abscessus—Bronchial Epithelial Cells Cross-Talk Through Type I Interferon Signaling
Cited by: 15
Author(s): Chongxu Zhang, Huda Asif, Gregory E. Holt, Anthony J. Griswold, Michael Campos, P.A. Bejarano, Nevis Fregien, Mehdi Mirsaeidi
Software Mentions: 1
Published: almost 7 years ago

10.1186/s12931-020-01552-4

Bacteria and sputum inflammatory cell counts; a COPD cohort analysis
Cited by: 33
Author(s): Augusta Beech, Simon Lea, Umme Kolsum, Zhang Wang, Bruce E. Miller, Gavin C. Donaldson, Jadwiga A. Wedzicha, Christopher E. Brightling, Dave Singh
Software Mentions: 1
Published: almost 6 years ago

10.3389/fimmu.2020.592569

Helpless Priming Sends CD8+ T Cells on the Road to Exhaustion
Cited by: 23
Author(s): Julia Busselaar, Sun Tian, Hans van Eenennaam, Jannie Borst
Software Mentions: 1
Published: about 6 years ago

10.7554/eLife.40969

Chromatin mapping identifies BasR, a key regulator of bacteria-triggered production of fungal secondary metabolites
Cited by: 41
Author(s): Juliane Fischer, Sebastian Müller, Tina Netzker, Nils Jäger, Agnieszka Gacek‐Matthews, Kirstin Scherlach, Maria C. Stroe, María García‐Altares, Francesco Pezzini, Hanno Schoeler, Michael Reichelt, Jonathan Gershenzon, Mario K. C. Krespach, Ekaterina Shelest, Volker Schroeckh, Vito Valiante, Thorsten Heinzel, Christian Hertweck, Joseph Strauss, Axel A. Brakhage
Software Mentions: 1
Published: about 8 years ago

Projects: bioconductor: edgeR

Science Score: 100/100

Bonuses:

Papers Mentioning edgeR 6,568