bioconductor: edgeR | Projects | Ecosyste.ms: Papers

10.3390/ijms19113412

Transcriptomic Analysis of Betula halophila in Response to Salt Stress
Cited by: 17
Author(s): Fenjuan Shao, Lisha Zhang, Iain W. Wilson, Deyou Qiu
Software Mentions: 1
Published: almost 8 years ago

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: about 6 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: about 5 years ago

10.3390/jcm10102110

Plasma Exosomal miRNA Levels after Radiotherapy Are Associated with Early Progression and Metastasis of Cervical Cancer: A Pilot Study
Cited by: 5
Author(s): Oyeon Cho, Do Wan Kim, J.Y. Cheong
Software Mentions: 1
Published: over 5 years ago

10.3390/jcm10112227

miRNAs and Genes Involved in the Interplay between Ocular Hypertension and Primary Open-Angle Glaucoma. Oxidative Stress, Inflammation, and Apoptosis Networks
Cited by: 16
Author(s): J. Raga-Cervera, José Miguel Bolarín, José María Millán, Manuel García-Medina, Laia Pedrola, Javier Abellán-Abenza, Mar Valero-Velló, Silvia M. Sanz-González, José Enrique O’Connor, David Galarreta, Elena Bendala-Tufanisco, Aloma Mayordomo-Febrer, María Dolores Pinazo-Durán, Vicente Zanón‐Moreno
Software Mentions: 1
Published: over 5 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

10.3390/ijms19123735

Comparative Transcriptome Analysis between a Resistant and a Susceptible Wild Tomato Accession in Response to Phytophthora parasitica
Cited by: 25
Author(s): Zunaira Afzal Naveed, Gul Shad Ali
Software Mentions: 1
Published: almost 8 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: about 6 years ago

10.1155/2017/4352450

The miRNA Expression Profile in Acute Myocardial Infarct Using Sheep Model with Left Ventricular Assist Device Unloading
Cited by: 4
Author(s): Xiaoqian Yan, Yu Gan, Haibo Chen, Guang-Mao Liu, Shengshou Hu, Jianye Zhou
Software Mentions: 1
Published: over 9 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

10.1186/1471-2164-13-524

SERE: Single-parameter quality control and sample comparison for RNA-Seq
Cited by: 113
Author(s): Stefan K Schulze, Rahul Kanwar, Meike Gölzenleuchter, Terry M. Therneau, Andreas S. Beutler
Software Mentions: 1
Published: almost 14 years ago

10.1093/jxb/ert428

Global and local perturbation of the tomato microRNA pathway by atrans-activatedDICER-LIKE 1mutant
Cited by: 26
Author(s): Michael Kravchik, Ramanjulu Sunkar, Subha Damodharan, Ran Stav, Matat Zohar, Tal Isaacson, Tzahi Arazi
Software Mentions: 1
Published: over 12 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: over 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: almost 6 years ago

10.3389/fimmu.2016.00670

Regulation of Marginal Zone B-Cell Differentiation by MicroRNA-146a
Cited by: 22
Author(s): Jennifer K. King, Nolan Ung, May Paing, Jorge R. Contreras, Michael O. Alberti, Thilini R. Fernando, Kelvin Zhang, Matteo Pellegrini, Dinesh S. Rao
Software Mentions: 1
Published: over 9 years ago

10.1093/jxb/erw131

Up-regulating the abscisic acid inactivation geneZmABA8ox1bcontributes to seed germination heterosis by promoting cell expansion
Cited by: 16
Author(s): Yangyang Li, Cheng Wang, Xinye Liu, Jian Song, Hongjian Li, Zhipeng Sui, Ming Zhang, S. S. Fang, Jinfang Chu, Mingming Xin, Chaojie Xie, Yirong Zhang, Qixin Sun, Zhongfu Ni
Software Mentions: 1
Published: over 10 years ago

10.1093/jxb/erw338

Genome-scale mRNA and small RNA transcriptomic insights into initiation of citrus apomixis
Cited by: 34
Author(s): Long Jiang, Liduan Zheng, Xiaomeng Wu, Yan-Ni Fang, Hui-Hui Jia, Zongzhou Xie, Xiuxin Deng, Wen‐Wu Guo
Software Mentions: 1
Published: almost 10 years ago

10.1155/2020/7871918

De novo Transcriptome Reveals Gene Changes in the Development of the Endosperm Chalazal Haustorium in Taxillus chinensis (DC.) Danser
Cited by: 8
Author(s): Shugen Wei, Lingyun Wan, Lili He, Ying Wei, Hairong Long, Xiaowen Ji, Jine Fu, Limei Pan
Software Mentions: 1
Published: over 6 years ago

10.3390/ijms20030539

Global Transcriptional Insights of Pollen-Pistil Interactions Commencing Self-Incompatibility and Fertilization in Tea [Camellia sinensis (L.) O. Kuntze]
Cited by: 29
Author(s): Romit Seth, Abhishek Bhandawat, Rajni Parmar, Pradeep Singh, Sanjay Kumar, Ram Kumar Sharma
Software Mentions: 1
Published: over 7 years ago

10.3390/ijms20040944

Insights into Body Size Evolution: A Comparative Transcriptome Study on Three Species of Asian Sisoridae Catfish
Cited by: 3
Author(s): Weixing Jiang, Yicheng Guo, Kuo-Pin Yang, Qiong Shi, Jing Yang
Software Mentions: 1
Published: over 7 years ago

10.1093/jxb/erx057

Non-coding RNA may be associated with cytoplasmic male sterility in Silene vulgaris
Cited by: 22
Author(s): James D. Stone, Pavla Koloušková, Daniel B. Sloan, Helena Štorchová
Software Mentions: 1
Published: over 9 years ago

10.3390/ijms20061411

Map-Based Cloning, Phylogenetic, and Microsynteny Analyses of ZmMs20 Gene Regulating Male Fertility in Maize
Cited by: 22
Author(s): Yan Bo Wang, Dongcheng Liu, Youhui Tian, Wu Shu, Xianghai An, Zhenying Dong, Simiao Zhang, Jianxi Bao, Ziwen Li, Jinping Li, Xiangyuan Wan
Software Mentions: 1
Published: over 7 years ago

10.3389/fimmu.2021.729776

The Molecular Mechanism of Multiple Organ Dysfunction and Targeted Intervention of COVID-19 Based on Time-Order Transcriptomic Analysis
Cited by: 15
Author(s): Miao Zou, Xiaoyun Su, Luoying Wang, Xingcheng Yi, Yue Qiu, Xirui Yin, Xuan Zhou, Xinhui Niu, Liuli Wang, Manman Su
Software Mentions: 1
Published: about 5 years ago

10.3389/fimmu.2021.688294

Macrophage Polarization Modulated by Porcine Circovirus Type 2 Facilitates Bacterial Coinfection
Cited by: 6
Author(s): Wen Zhang, Zhendong Fu, Hongyan Yin, Qin Han, Wenhui Fan, Fangkun Wang, Yue Shang
Software Mentions: 1
Published: about 5 years ago

10.1093/jxb/erw391

Photosynthesis in C3–C4intermediateMoricandiaspecies
Cited by: 52
Author(s): Urte Schlüter, Andrea Bräutigam, Udo Gowik, Michael Melzer, Pascal‐Antoine Christin, Samantha Kurz, Tabea Mettler‐Altmann, Andreas P.M. Weber
Software Mentions: 1
Published: almost 10 years ago

10.1155/2020/4830847

The ceRNA Network Has Potential Prognostic Value in Clear Cell Renal Cell Carcinoma: A Study Based on TCGA Database
Cited by: 3
Author(s): Haosheng Liu, Zhaowen Zhu, Jianxiong Fang, Tianqi Liu, Zhenhui Zhang, Chao Zhao, Xiao‐Yong Pu, Jiumin Liu
Software Mentions: 1
Published: about 6 years ago

10.3390/ijms20081906

Comparative Transcriptomic Studies on a Cadmium Hyperaccumulator Viola baoshanensis and Its Non-Tolerant Counterpart V. inconspicua
Cited by: 19
Author(s): Haoyue Shu, Jun Zhang, Fuye Liu, Chao Bian, Jie-Liang Liang, Jiaqi Liang, Weihe Liang, Zhiliang Caleb Lin, Wen‐Sheng Shu, Jintian Li, Qiong Shi, Bin Liao
Software Mentions: 1
Published: over 7 years ago

10.1093/jxb/erw343

C3cotyledons are followed by C4leaves: intra-individual transcriptome analysis ofSalsola soda(Chenopodiaceae)
Cited by: 19
Author(s): Maximilian Lauterbach, Kumari Billakurthi, Gudrun Kadereit, Martha Ludwig, Peter Westhoff, Udo Gowik
Software Mentions: 1
Published: almost 10 years ago

10.3389/fimmu.2021.703632

A Biological Circuit Involving Mef2c, Mef2d, and Hdac9 Controls the Immunosuppressive Functions of CD4+Foxp3+ T-Regulatory Cells
Cited by: 4
Author(s): Eros Di Giorgio, Liqing Wang, Yan Xiong, Lanette M Christensen, Tatiana Akimova, Rongxiang Han, Arabinda Samanta, Matteo Trevisanut, Claudio Brancolini, Ulf H. Beier, Wayne W. Hancock
Software Mentions: 1
Published: about 5 years ago

10.3389/fimmu.2020.02191

Human Chondrocyte Activation by Toxins From Premolis semirufa, an Amazon Rainforest Moth Caterpillar: Identifying an Osteoarthritis Signature
Cited by: 4
Author(s): Isadora Maria Villas-Boas, Giselle Pidde, Flávio Lichtenstein, Ana Tung Ching Ching, Inácio L.M. Junqueira-de-Azevedo, Carlos DeOcesano-Pereira, Carlos Eduardo Madureira Trufen, Ana Marisa Chudzinski‐Tavassi, Kátia L.P. Morais, Denise V. Tambourgi
Software Mentions: 1
Published: almost 6 years ago

10.3390/ijms20092349

An Integrated Analysis of the Rice Transcriptome and Metabolome Reveals Differential Regulation of Carbon and Nitrogen Metabolism in Response to Nitrogen Availability
Cited by: 66
Author(s): Xin Wei, Lina Zhang, Wenzhong Zhang, Jiping Gao, Jun Yi, Xiaoxi Zhen, Ziang Li, Zhao Ying, Chengcheng Peng, Chen Zhao
Software Mentions: 1
Published: over 7 years ago

10.3390/ijms20092360

OsbZIP81, A Homologue of Arabidopsis VIP1, May Positively Regulate JA Levels by Directly Targetting the Genes in JA Signaling and Metabolism Pathway in Rice
Cited by: 22
Author(s): Defang Liu, Shaopeng Shi, Hao Zhang, Wentao Xiong, Meizhong Luo
Software Mentions: 1
Published: over 7 years ago

10.1093/jxb/ery077

GCN5 contributes to stem cuticular wax biosynthesis by histone acetylation of CER3 in Arabidopsis
Cited by: 34
Author(s): Tianya Wang, Jiewen Xing, Xinye Liu, Yingyin Yao, Zhaorong Hu, Huiru Peng, Mingming Xin, Dao‐Xiu Zhou, Yirong Zhang, Zhongfu Ni
Software Mentions: 1
Published: over 8 years ago

10.1093/jxb/ery189

Differential response to heat stress in outer and inner onion bulb scales
Cited by: 13
Author(s): Ortal Galsurker, Adi Doron‐Faigenboim, Paula Teper‐Bamnolker, Avinoam Daus, Amnon Lers, Dani Eshel
Software Mentions: 1
Published: over 8 years ago

10.1093/jxb/erz533

ATBS1-INTERACTING FACTOR 2 negatively regulates dark- and brassinosteroid-induced leaf senescence through interactions with INDUCER OF CBF EXPRESSION 1
Cited by: 19
Author(s): Yonggyun Kim, Park Min Su, Shin Dm, Giang Pham, Yong-Jin Jeong, Kim Sh
Software Mentions: 1
Published: almost 7 years ago

10.3389/fimmu.2020.01064

Different Exosomal microRNA Profile in Aquaporin-4 Antibody Positive Neuromyelitis Optica Spectrum Disorders
Cited by: 7
Author(s): Chen Chen, Yunting Wu, Miaochang Li, Chun-Ping Chu, Yipeng Zhao, Xiaobo Sun, Yuge Wang, Chunxin Liu, Haotian Wu, Xiaonan Zhong, Allan G. Kermode, Lisheng Peng
Software Mentions: 1
Published: over 6 years ago

10.1186/s12864-019-5517-4

Gene regulation of Sclerotinia sclerotiorum during infection of Glycine max: on the road to pathogenesis
Cited by: 33
Author(s): Nathaniel M. Westrick, Ashish Ranjan, Sachin Jain, C. R. Grau, Damon Smith, Mehdi Kabbage
Software Mentions: 1
Published: over 7 years ago

10.3389/fimmu.2021.722500

Transcriptional Changes in Pulmonary Phagocyte Subsets Dictate the Outcome Following Interaction With The Fungal Pathogen Cryptococcus neoformans
Cited by: 4
Author(s): Ashlee Hawkins, Brenden F. Determann, Benjamin N. Nelson, Karen L. Wozniak
Software Mentions: 1
Published: almost 5 years ago

10.1093/jxb/eraa221

Responses of mature symbiotic nodules to the whole-plant systemic nitrogen signaling
Cited by: 17
Author(s): Ilana Lambert, Marjorie Pervent, Antoine Le Quéré, Gilles Clément, Marc Tauzin, Dany Séverac, Claire Benezech, Pascal Tillard, Marie‐Laure Martin‐Magniette, Stefano Colella, Marc Lepetit
Software Mentions: 1
Published: over 6 years ago

10.1093/jxb/eraa581

Restriction of cytosolic sucrose hydrolysis profoundly alters development, metabolism, and gene expression in Arabidopsis roots
Cited by: 12
Author(s): Cristina Pignocchi, Alexander Ivakov, Regina Feil, Martin Trick, Marilyn J. Pike, Trevor L. Wang, John E. Lunn, Alison M. Smith
Software Mentions: 1
Published: over 5 years ago

10.1371/journal.ppat.1002470

Production of Virus-Derived Ping-Pong-Dependent piRNA-like Small RNAs in the Mosquito Soma
Cited by: 281
Author(s): Elaine M. Morazzani, Michael R. Wiley, Marta G. Murreddu, Zach N. Adelman, K.M. Myles
Software Mentions: 1
Published: over 14 years ago

10.1371/journal.ppat.1003186

Epstein - Barr Virus Transforming Protein LMP-1 Alters B Cells Gene Expression by Promoting Accumulation of the Oncoprotein ΔNp73α
Cited by: 19
Author(s): Rosita Accardi, Ikbal Fathallah, Henri Gruffat, Giuseppe Mariggiò, Florence Le Calvez-Kelm, Catherine Voegele, Birke Bartosch, Héctor Hernandez-Vargas, James McKay, Bakary S. Sylla, Évelyne Manet, Massimo Tommasino
Software Mentions: 1
Published: over 13 years ago

10.3389/fgene.2021.698983

Comparative Transcriptomic Analysis Reveals the Immunosuppressive Targets of Mesalazine in Dextran Sulfate Sodium-Induced Ulcerative Colitis
Cited by: 1
Author(s): Rong Li, Lin Cheng, Qi Wang, Liming Zhou
Software Mentions: 1
Published: about 5 years ago

10.1155/2020/9502560

The YTH Domain Family of N6-Methyladenosine “Readers” in the Diagnosis and Prognosis of Colonic Adenocarcinoma
Cited by: 17
Author(s): Dian Xu, Jun Shao, Huan Song, Jianming Wang
Software Mentions: 1
Published: over 6 years ago

10.1186/s12864-019-5522-7

Insights from transcriptome profiling on the non-photosynthetic and stomatal signaling response of maize carbonic anhydrase mutants to low CO2
Cited by: 9
Author(s): Allison R. Kolbe, Anthony J. Studer, Omar E. Cornejo, Asaph B. Cousins
Software Mentions: 1
Published: over 7 years ago

10.1155/2021/5597135

A New Lectin from Auricularia auricula Inhibited the Proliferation of Lung Cancer Cells and Improved Pulmonary Flora
Cited by: 2
Author(s): Zhendong Liu, Liang Li, Bei Xue, Dandan Zhao, Yanlong Zhang, Xiufeng Yan
Software Mentions: 1
Published: about 5 years ago

10.1371/journal.ppat.1004443

Expression Profiling during Arabidopsis/Downy Mildew Interaction Reveals a Highly-Expressed Effector That Attenuates Responses to Salicylic Acid
Cited by: 85
Author(s): Shuji Asai, Ghanasyam Rallapalli, Sophie J. M. Piquerez, Marie‐Cécile Caillaud, Oliver J. Furzer, Naveed Ishaque, Lennart Wirthmueller, Georgina Fabro, Ken Shirasu, Jonathan D. G. Jones
Software Mentions: 1
Published: almost 12 years ago

10.1186/1471-2164-13-285

Transcriptome analysis of the honey bee fungal pathogen, Ascosphaera apis: implications for host pathogenesis
Cited by: 32
Author(s): Robert S. Cornman, Anna Bennett, K. Daniel Murray, Jay D. Evans, Christine G. Elsik, Kate Aronstein
Software Mentions: 1
Published: about 14 years ago

10.1371/journal.ppat.1004994

IFNγ and IL-12 Restrict Th2 Responses during Helminth/Plasmodium Co-Infection and Promote IFNγ from Th2 Cells
Cited by: 41
Author(s): Stephanie M. Coomes, Victoria S. Pelly, Yashaswini Kannan, Isobel Okoye, Stephanie Czieso, Lewis J. Entwistle, Jimena Perez-Lloret, Nikolay P. Nikolov, Alexandre J. Potocnik, Judit Bíró, Jean Langhorne, Mark S. Wilson
Software Mentions: 1
Published: about 11 years ago

10.1371/journal.ppat.1005160

The Borrelia burgdorferi RelA/SpoT Homolog and Stringent Response Regulate Survival in the Tick Vector and Global Gene Expression during Starvation
Cited by: 76
Author(s): Dan Drecktrah, Meghan Lybecker, Niko Popitsch, Philipp Rescheneder, Laura S. Hall, D. Scott Samuels
Software Mentions: 1
Published: almost 11 years ago

10.3389/fgene.2021.635599

Comparative Small RNA Profiling and Functional Exploration on Wheat With High- and Low-Cadmium Accumulation
Cited by: 6
Author(s): Yuqing Liu, Xudong Wang, Leyi Yuan, Yuxiang Liu, Tong Shen, Yunhua Zhang
Software Mentions: 1
Published: over 5 years ago

10.1155/2021/8875971

High FAM189B Expression and Its Prognostic Value in Patients with Gastric Cancer
Cited by: 3
Author(s): Changliang Wu, Quan-Xiao Tan, Dan Liŭ, Jun-E Jiang, Ting Lu, Zu-Mei Huang, Yingjie Su
Software Mentions: 1
Published: over 5 years ago

10.3389/fgene.2021.667877

Leveraging Methylation Alterations to Discover Potential Causal Genes Associated With the Survival Risk of Cervical Cancer in TCGA Through a Two-Stage Inference Approach
Cited by: 7
Author(s): Jinhui Zhang, Haojie Lu, Shuo Zhang, Ting Wang, Huashuo Zhao, Fengjun Guan, Ping Zeng
Software Mentions: 1
Published: over 5 years ago

10.3390/ijms20143582

In Silico Analysis of Gene Expression Change Associated with Copy Number of Enhancers in Pancreatic Adenocarcinoma
Cited by: 12
Author(s): Rajesh Kumar, Sumeet Patiyal, Vinod Kumar, Gandharva Nagpal, Gajendra P. S. Raghava
Software Mentions: 1
Published: about 7 years ago

10.1371/journal.ppat.1005697

The WOPR Protein Ros1 Is a Master Regulator of Sporogenesis and Late Effector Gene Expression in the Maize Pathogen Ustilago maydis
Cited by: 63
Author(s): Marie Tollot, Assmann Daniela, Christian Becker, Janine Altmüller, Julien Y. Dutheil, Carl‐Eric Wegner, Regine Kahmann
Software Mentions: 1
Published: about 10 years ago

10.3389/fgene.2020.617872

Transcriptome Analyses Identify an RNA Binding Protein Related Prognostic Model for Clear Cell Renal Cell Carcinoma
Cited by: 8
Author(s): Yue Wu, Wa Xian, Huan Feng, Bintao Hu, Bo Liu, Yang Luan, Yajun Ruan, Xiaohui Liu, Zhuo Liu, Shaogang Wang, Jihong Liu, Tao Wang
Software Mentions: 1
Published: over 5 years ago

10.1186/1471-2164-15-492

Comparative transcriptomics of the model mushroom Coprinopsis cinerea reveals tissue-specific armories and a conserved circuitry for sexual development
Cited by: 63
Author(s): David Fernando Plaza, Chi Feng Lin, Niels Sebastiaan Johannes van der Velden, Markus Aebi, Markus Künzler
Software Mentions: 1
Published: about 12 years ago

10.1371/journal.ppat.1006097

Gene Expression and Silencing Studies in Phytophthora infestans Reveal Infection-Specific Nutrient Transporters and a Role for the Nitrate Reductase Pathway in Plant Pathogenesis
Cited by: 40
Author(s): Melania Abrahamian, Audrey M. V. Ah‐Fong, Carol Davis, Kalina Andreeva, Howard S. Judelson
Software Mentions: 1
Published: over 9 years ago

10.1098/rsob.140024

Sex-biased expression of microRNAs inDrosophila melanogaster
Cited by: 38
Author(s): A. De Marco
Software Mentions: 1
Published: over 12 years ago

10.3389/fgene.2021.607238

The TP53-Related Signature Predicts Immune Cell Infiltration, Therapeutic Response, and Prognosis in Patients With Esophageal Carcinoma
Cited by: 7
Author(s): Hongpan Zhang, Zheng Huang, Yangguang Song, Zhihao Yang, Qi Shi, Kaige Wang, Zhiyu Zhang, Zheng Lv, Xiaobin Cui, Feng Li
Software Mentions: 1
Published: about 5 years ago

10.3389/fgene.2021.674856

LncRNA SOX2-OT/miR-30d-5p/PDK1 Regulates PD-L1 Checkpoint Through the mTOR Signaling Pathway to Promote Non-small Cell Lung Cancer Progression and Immune Escape
Cited by: 14
Author(s): Zhoumiao Chen, Zhao Chun-hua, Shaohua Xu, Qiang Zhang
Software Mentions: 1
Published: about 5 years ago

10.3390/ijms20174117

Transcriptome Profiling Provides Insight into the Genes in Carotenoid Biosynthesis during the Mesocarp and Seed Developmental Stages of Avocado (Persea americana)
Cited by: 17
Author(s): Yu Ge, Zhihao Cheng, Xiongyuan Si, Wei Ma, Lin Tan, Xiaoping Zang, Bin Wu, Zining Xu, Nan Wang, Zhaoxi Zhou, Xiao Lin, Xiangshu Dong, Rulin Zhan
Software Mentions: 1
Published: about 7 years ago

10.3390/ijms20194933

Transforming Growth Factor-β1 Selectively Recruits microRNAs to the RNA-Induced Silencing Complex and Degrades CFTR mRNA under Permissive Conditions in Human Bronchial Epithelial Cells
Cited by: 13
Author(s): Nilay Mitash, Fangping Mu, Joshua E Donovan, Michael M. Myerburg, Sarangarajan Ranganathan, Catherine M. Greene, Agnieszka Swiatecka‐Urban
Software Mentions: 1
Published: almost 7 years ago

10.1371/journal.ppat.1006847

Comparative transcriptomics reveals CrebA as a novel regulator of infection tolerance in D. melanogaster
Cited by: 100
Author(s): Katia Troha, Joo Hyun Im, Jonathan Revah, Brian P. Lazzaro, Nicolas Buchon
Software Mentions: 1
Published: over 8 years ago

10.1186/s12864-017-3664-z

Medium term water deficit elicits distinct transcriptome responses in Eucalyptus species of contrasting environmental origin
Cited by: 16
Author(s): Antanas Spokevicius, Josquin Tibbits, Philippe Rigault, Marc-Alexandre Nolin, Caroline Müller, Andrew Merchant
Software Mentions: 1
Published: over 9 years ago

10.1371/journal.ppat.1007221

An EBNA3C-deleted Epstein-Barr virus (EBV) mutant causes B-cell lymphomas with delayed onset in a cord blood-humanized mouse model
Cited by: 20
Author(s): James C. Romero-Masters, Makoto Ohashi, Reza Djavadian, Mark R. Eichelberg, Mitchell Hayes, Jillian A. Bristol, Shidong Ma, Erik A. Ranheim, Jenny E. Gumperz, Eric Johannsen, Shannon C. Kenney
Software Mentions: 1
Published: about 8 years ago

10.1371/journal.ppat.1007388

Zinc-dependent substrate-level phosphorylation powers Salmonella growth under nitrosative stress of the innate host response
Cited by: 20
Author(s): Liam F. Fitzsimmons, Lin Liu, Steffen Porwollik, Sangeeta Chakraborty, Prerak Desai, Timothy Tapscott, Calvin A. Henard, Michael McClelland, Andrés Vázquez‐Torres
Software Mentions: 1
Published: almost 8 years ago

10.3390/ijms20205172

Novel Pituitary Actions of Epidermal Growth Factor: Receptor Specificity and Signal Transduction for UTS1, EGR1, and MMP13 Regulation by EGF
Cited by: 5
Author(s): Qiongyao Hu, Shaohua Xu, Ya Cheng, Jingyi Jia, Lingling Zhou, Guangfu Hu
Software Mentions: 1
Published: almost 7 years ago

10.3390/ijms20205069

Renal Artery Stenosis Alters Gene Expression in Swine Scattered Tubular-Like Cells
Cited by: 7
Author(s): Arash Aghajani Nargesi, Xiang Yang Zhu, Yuanhang Liu, Hui Tang, Kyra L. Jordan, Lilach O. Lerman, Alfonso Eirin
Software Mentions: 1
Published: almost 7 years ago

10.3389/fgene.2020.00273

HSD17B4, ACAA1, and PXMP4 in Peroxisome Pathway Are Down-Regulated and Have Clinical Significance in Non-small Cell Lung Cancer
Cited by: 12
Author(s): Xiuzhi Zhang, Hongmei Yang, Jinzhong Zhang, Fenglan Gao, Liping Dai
Software Mentions: 1
Published: over 6 years ago

10.1155/2017/2503847

Fish Oil Feeding Modulates the Expression of Hepatic MicroRNAs in a Western-Style Diet-Induced Nonalcoholic Fatty Liver Disease Rat Model
Cited by: 11
Author(s): Hualin Wang, Yang Shao, Fahu Yuan, Na Li, Hongyu Zhang, Chaodong Wu, Zhiguo Liu
Software Mentions: 1
Published: over 9 years ago

10.1155/2020/7340312

Pediococcus acidilactici P25 Protected Caenorhabditis elegans against Enterotoxigenic Escherichia coli K88 Infection and Transcriptomic Analysis of Its Potential Mechanisms
Cited by: 9
Author(s): Keqin Tan, Dun Deng, Xianyong Ma, Yiyan Cui, Zhonghuan Tian
Software Mentions: 1
Published: over 6 years ago

10.3389/fgene.2019.00409

Dynamic Transcriptome Analysis Reveals Potential Long Non-coding RNAs Governing Postnatal Pineal Development in Pig
Cited by: 8
Author(s): Yalan Yang, Rong Zhou, Wentong Li, Ying Liu, Yanmin Zhang, Ai Hong, Hua Li, Kui Li
Software Mentions: 1
Published: over 7 years ago

10.3389/fgene.2016.00191

Epigenetic DNA Methylation Profiling with MSRE: A Quantitative NGS Approach Using a Parkinson's Disease Test Case
Cited by: 9
Author(s): Adam G. Marsh, Matthew T. Cottrell, Morton F. Goldman
Software Mentions: 1
Published: almost 10 years ago

10.3390/ijms20235893

An Integrated Analysis of the Rice Transcriptome and Metabolome Reveals Root Growth Regulation Mechanisms in Response to Nitrogen Availability
Cited by: 39
Author(s): Xin Wei, Lina Zhang, Wenzhong Zhang, Jiping Gao, Jun Yi, Xiaoxi Zhen, Min Du, Yanze Zhao, Liqiang Chen
Software Mentions: 1
Published: almost 7 years ago

10.1155/2020/9426204

Effects of Cardiac Sympathetic Neurodegeneration and PPARγ Activation on Rhesus Macaque Whole Blood miRNA and mRNA Expression Profiles
Cited by: 1
Author(s): Jeanette M. Metzger, Mary S. Lopez, Jenna Kropp Schmidt, Megan E. Murphy, Raghu Vemuganti, Marina E. Emborg
Software Mentions: 1
Published: over 6 years ago

10.3389/fgene.2020.577000

Exploration of Sorafenib Influences on Gene Expression of Hepatocellular Carcinoma
Cited by: 0
Author(s): Huancheng Wang, Jia Liu
Software Mentions: 1
Published: almost 6 years ago

10.3389/fgene.2020.00809

Comparative microRNA Transcriptomes in Domestic Goats Reveal Acclimatization to High Altitude
Cited by: 6
Author(s): Siyuan Feng, Jideng Ma, Keren Long, Jinwei Zhang, Wanling Qiu, Yan Li, Long Jin, Xun Wang, Anan Jiang, Lingyan Liu, Weihang Xiao, Xuewei Li, Qianzi Tang, Mingzhou Li
Software Mentions: 1
Published: about 6 years ago

10.3389/fgene.2019.00083

Transcriptomic Analysis of High Fat Diet Fed Mouse Brain Cortex
Cited by: 27
Author(s): Gil-Sang Yoon, Kyung A Cho, Jeong Sup Song, Young‐Kook Kim
Software Mentions: 1
Published: over 7 years ago

10.1186/s12864-015-1731-x

Daytime soybean transcriptome fluctuations during water deficit stress
Cited by: 38
Author(s): Fabiana Aparecida Rodrigues, Renata Fuganti-Pagliarini, Juliana Marcolino-Gomes, Thiago Jonas Nakayama, Hugo Bruno Correa Molinari, Francisco Pereira Lobo, Frank G. Harmon, Alexandre Lima Nepomuceno
Software Mentions: 1
Published: about 11 years ago

10.1155/2019/6763596

Cross-platform Data Analysis Reveals a Generic Gene Expression Signature for Microsatellite Instability in Colorectal Cancer
Cited by: 8
Author(s): Anna Pačínková, Vlad Popovici
Software Mentions: 1
Published: over 7 years ago

10.1155/2020/3801748

Four Autophagy-Related lncRNAs Predict the Prognosis of HCC through Coexpression and ceRNA Mechanism
Cited by: 23
Author(s): Hao Wu, Tiantian Liu, Jianni Qi, Chengyong Qin, Qing Zhu
Software Mentions: 1
Published: almost 6 years ago

10.3390/ijms21010159

Transcriptome Response to Drought, Rehydration and Re-Dehydration in Potato
Cited by: 47
Author(s): Yongkun Chen, Canhui Li, Jing Yi, Yang Yu, Chunxia Lei, Ming Gong
Software Mentions: 1
Published: over 6 years ago

10.3389/fgene.2021.684349

Identification of a Novel Immune-Related CpG Methylation Signature to Predict Prognosis in Stage II/III Colorectal Cancer
Cited by: 3
Author(s): Feng Chen, Lijuan Pei, Siyao Liu, Yan Lin, Xinyin Han, Erhong Meng, Xintong Wang, Shuai Hong, Dongliang Wang, Feide Liu, Fei Yang, Guangda Wang
Software Mentions: 1
Published: about 5 years ago

10.1371/journal.ppat.1009030

A human secretome library screen reveals a role for Peptidoglycan Recognition Protein 1 in Lyme borreliosis
Cited by: 9
Author(s): Akash Gupta, Gunjan Arora, Connor Rosen, Zachary A. Kloos, Yongguo Cao, Jiří Černý, Andaleeb Sajid, Dieuwertje Hoornstra, Maryna Golovchenko, Nataliia Rudenko, Ulrike G. Munderloh, Joppe W. Hovius, Carmen J. Booth, Christine Jacobs‐Wagner, Noah W. Palm, Aaron M. Ring, Erol Fikrig
Software Mentions: 1
Published: almost 6 years ago

10.1155/2019/7505260

RNA-Sequencing and Bioinformatics Analysis of Long Noncoding RNAs and mRNAs in the Prefrontal Cortex of Mice Following Repeated Social Defeat Stress
Cited by: 4
Author(s): Xian Wang, Shaolei Ma, Mao Mao, Caijuan Li, Xiaofeng Shen, Shunqing Xu, Jianjun Yang
Software Mentions: 1
Published: over 7 years ago

10.3389/fgene.2020.00996

Characterization of Drought-Responsive Transcriptome During Seed Germination in Adzuki Bean (Vigna angularis L.) by PacBio SMRT and Illumina Sequencing
Cited by: 14
Author(s): Zhenzhen Zhu, Hongwei Chen, Kui Xie, Changyan Liu, Li Li, Liangjun Liu, Xuesong Han, Jiao Chen, Zhengjie Wan, Aihua Sha
Software Mentions: 1
Published: about 6 years ago

10.3389/fgene.2019.01334

Comparative Transcriptome Profiling of the Loaches Triplophysa bleekeri and Triplophysa rosa Reveals Potential Mechanisms of Eye Degeneration
Cited by: 7
Author(s): Qingyuan Zhao, Renyi Zhang, Yingqi Xiao, Ying-Feng Niu, Feng Shao, Yanping Li, Zhé Peng
Software Mentions: 1
Published: over 6 years ago

10.3390/ijms21010118

Comparative Proteomic Analysis Reveals the Regulatory Effects of H2S on Salt Tolerance of Mangrove Plant Kandelia obovata
Cited by: 36
Author(s): Yiling Liu, Zhijun Shen, Martín Simón, Huan Li, Dongna Ma, Xike Zhu
Software Mentions: 1
Published: over 6 years ago

10.3389/fgene.2021.629946

Feature Selection for Breast Cancer Classification by Integrating Somatic Mutation and Gene Expression
Cited by: 8
Author(s): Qin Jiang, Min Jin
Software Mentions: 1
Published: over 5 years ago

10.1155/2020/2671281

Identification and Analysis of Novel Biomarkers Involved in Chromophobe Renal Cell Carcinoma by Integrated Bioinformatics Analyses
Cited by: 2
Author(s): Wei Zhang, Yin Xu, Jinghan Zhang, Jun Wu
Software Mentions: 1
Published: over 6 years ago

10.3389/fgene.2020.00255

Context-Specific Coordinately Regulatory Network Prioritize Breast Cancer Genetic Risk Factors
Cited by: 2
Author(s): Shuyuan Wang, Wencan Wang, Weida Wang, Peng Xia, Lei Yu, Ye Lu, Xiaowen Chen, Chaohan Xu, Liu Hui
Software Mentions: 1
Published: over 6 years ago

10.3389/fgene.2020.00883

Progesterone Receptor Signaling Selectively Modulates Cytokine-Induced Global Gene Expression in Human Cervical Stromal Cells
Cited by: 2
Author(s): Douglas A. Kniss, Taryn Summerfield
Software Mentions: 1
Published: almost 6 years ago

10.1186/1471-2164-14-412

Comparative transcriptome analysis of obligately asexual and cyclically sexual rotifers reveals genes with putative functions in sexual reproduction, dormancy, and asexual egg production
Cited by: 29
Author(s): Sara J. Hanson, Claus‐Peter Stelzer, David Welch, John M. Logsdon
Software Mentions: 1
Published: about 13 years ago

10.3389/fgene.2020.00607

Bioinformatics Analysis Finds Immune Gene Markers Related to the Prognosis of Bladder Cancer
Cited by: 22
Author(s): Xingyu Chen, Y. Jin, Lian Gong, Dong He, YaXing Cheng, Mengqing Xiao, Yuxing Zhu, Zhanwang Wang, Ke Cao
Software Mentions: 1
Published: about 6 years ago

10.3389/fgene.2017.00193

Analysis of the Expression of Repetitive DNA Elements in Osteosarcoma
Cited by: 28
Author(s): Xuan Dung Ho, Nguyen Hoang, Le Huy Trinh, Ene Reimann, Ele Prans, Gea Kõks, Katre Maasalu, Van Quang Le, Văn Hiếu Nguyễn, Nghi T N Le, Phuong Phung, Aare Märtson, Freddy Lättekivi, Sulev Kõks
Software Mentions: 1
Published: almost 9 years ago

10.3389/fgene.2019.01308

Dynamic Transcriptomic Analysis of Breast Muscle Development From the Embryonic to Post-hatching Periods in Chickens
Cited by: 17
Author(s): Jie Liu, Qiuxia Lei, Fuwei Li, Yan Zhou, Jinbo Gao, Wei Liu, Haitang Han, Deliang Cao
Software Mentions: 1
Published: over 6 years ago

10.1371/journal.pgen.1002327

MicroRNA Expression and Regulation in Human, Chimpanzee, and Macaque Brains
Cited by: 112
Author(s): Hai Hu, Songlin Guo, Xi Jiang, Yanyan Zheng, Ning Fu, Xiaoyu Zhang, Corinna Menzel, Hongyu Liang, Hongyi Yang, Min Zhao, Rong Zeng, Wei Chen, Svante Pääbo, Philipp Khaitovich
Software Mentions: 1
Published: almost 15 years ago

10.1371/journal.pgen.1006422

Intron Lariat RNA Inhibits MicroRNA Biogenesis by Sequestering the Dicing Complex in Arabidopsis
Cited by: 68
Author(s): Ziwei Li, Shengpeng Wang, Cheng Junfeng, Chunxia Su, Zhong Songxiao, Qi Liu, Yuda Fang, Yao Yu, Hong Liu, Yun Zheng, Binglian Zheng
Software Mentions: 1
Published: almost 10 years ago

Projects: bioconductor: edgeR

Science Score: 100/100

Bonuses:

Papers Mentioning edgeR 6,568