bioconductor: limma | Projects | Ecosyste.ms: Papers

10.3389/fpls.2019.01323

Transcriptome Analysis of the Hierarchical Response of Histone Deacetylase Proteins That Respond in an Antagonistic Manner to Salinity Stress
Cited by: 13
Author(s): Minoru Ueda, Atsushi Matsui, S. Watanabe, Makoto Kobayashi, Kazuki Saito, Maho Tanaka, Junko Ishida, Miyako Kusano, Mitsunori Seo, Motoaki Seki
Software Mentions: 2
Published: almost 7 years ago

10.3389/fpls.2016.00326

Influence of Light and Temperature on Gene Expression Leading to Accumulation of Specific Flavonol Glycosides and Hydroxycinnamic Acid Derivatives in Kale (Brassica oleracea var. sabellica)
Cited by: 46
Author(s): Susanne Neugart, Angelika Krumbein, Rita Zrenner
Software Mentions: 2
Published: over 10 years ago

10.3389/fpls.2016.01055

Phytochrome and Ethylene Signaling Integration in Arabidopsis Occurs via the Transcriptional Regulation of Genes Co-targeted by PIFs and EIN3
Cited by: 22
Author(s): Jinkil Jeong, Keunhwa Kim, Mi Eon Kim, Hye Gi Kim, Gwi Suk Heo, Ohkmae Kim Park, Youn‐Il Park, Giltsu Choi, Eunkyoo Oh
Software Mentions: 2
Published: about 10 years ago

10.3389/fpls.2019.00192

Transcriptome Profiling and Genome-Wide Association Studies Reveal GSTs and Other Defense Genes Involved in Multiple Signaling Pathways Induced by Herbicide Safener in Grain Sorghum
Cited by: 23
Author(s): You Soon Baek, Loren V. Goodrich, Patrick J. Brown, Brandon T. James, Stephen P. Moose, Kris N. Lambert, Dean E. Riechers
Software Mentions: 2
Published: over 7 years ago

10.3389/fpls.2014.00046

Role of callose synthases in transfer cell wall development in tocopherol deficient Arabidopsis mutants
Cited by: 31
Author(s): Hiroshi Maéda, Wan Song, Tammy L. Sage, Dean DellaPenna
Software Mentions: 2
Published: over 12 years ago

10.3389/fpls.2021.679047

Trajectories of Homoeolog-Specific Expression in Allotetraploid Tragopogon castellanus Populations of Independent Origins
Cited by: 1
Author(s): J. Lucas Boatwright, Cheng‐Ting Yeh, Heng-Cheng Hu, Alfonso Susanna, Douglas E. Soltis, Pamela S. Soltis, Patrick S. Schnable, W. Brad Barbazuk
Software Mentions: 2
Published: about 5 years ago

10.3389/fpls.2017.01093

Abscisic Acid Is a Major Regulator of Grape Berry Ripening Onset: New Insights into ABA Signaling Network
Cited by: 106
Author(s): S. Pilati, Giorgia Bagagli, Paolo Sonego, Marco Moretto, D. Brazzale, Giulia Castorina, Laura Simoni, Chiara Tonelli, Graziano Guella, Kristof Engelen, Massimo Galbiati, C. Moser
Software Mentions: 2
Published: about 9 years ago

10.3389/fpls.2016.00925

A De Novo-Assembly Based Data Analysis Pipeline for Plant Obligate Parasite Metatranscriptomic Studies
Cited by: 7
Author(s): Li Guo, Kelly S. Allen, Greg Deiulio, Yong Zhang, Angela M. Madeiras, Robert L. Wick, Lijun Ma
Software Mentions: 2
Published: about 10 years ago

10.3389/fpls.2017.00632

Differences in Flower Transcriptome between Grapevine Clones Are Related to Their Cluster Compactness, Fruitfulness, and Berry Size
Cited by: 28
Author(s): Jérôme Grimplet, Javier Tello, Natalia Laguna, Javier Ibáñez
Software Mentions: 2
Published: over 9 years ago

10.3389/fpls.2015.00308

Minimal evidence for consistent changes in maize DNA methylation patterns following environmental stress
Cited by: 75
Author(s): Steven R. Eichten, Nathan M. Springer
Software Mentions: 2
Published: over 11 years ago

10.3389/fpls.2015.01260

Microarray Meta-Analysis Focused on the Response of Genes Involved in Redox Homeostasis to Diverse Abiotic Stresses in Rice
Cited by: 20
Author(s): Joao Braga de Abreu Neto, Michael Frei
Software Mentions: 2
Published: over 10 years ago

10.3389/fnsys.2017.00075

Gene Network Construction from Microarray Data Identifies a Key Network Module and Several Candidate Hub Genes in Age-Associated Spatial Learning Impairment
Cited by: 7
Author(s): Raihan K. Uddin, Shiva M. Singh
Software Mentions: 2
Published: almost 9 years ago

10.1534/g3.111.001115

Correlation of Global MicroRNA Expression With Basal Cell Carcinoma Subtype
Cited by: 35
Author(s): Christopher Heffelfinger, Zhengqing Ouyang, Anna Engberg, David J. Leffell, Allison Hanlon, Patricia B. Gordon, Wei Zheng, Hongyu Zhao, M Snyder, Allen E. Bale
Software Mentions: 2
Published: over 14 years ago

10.1534/g3.113.008029

Genome-Wide Gene Expression Effects of Sex Chromosome Imprinting inDrosophila
Cited by: 26
Author(s): Bernardo Lemos, Alan T. Branco, Pan Jiang, Daniel L. Hartl, Colin D. Meiklejohn
Software Mentions: 2
Published: over 12 years ago

10.1534/g3.117.040089

Comparative Transcriptomics of Malaria Mosquito Testes: Function, Evolution, and Linkage
Cited by: 8
Author(s): Bryan J. Cassone, Raissa G. G. Kay, Matthew P. Daugherty, Bradley J. White
Software Mentions: 2
Published: over 9 years ago

10.1534/g3.117.043828

Unique Allelic eQTL Clusters in Human MHC Haplotypes
Cited by: 19
Author(s): Tze Hau Lam, Meixin Shen, Matthew Zirui Tay, Ee Chee Ren
Software Mentions: 2
Published: about 9 years ago

10.1534/g3.119.400430

Combining Transcriptomics and Proteomics Reveals Potential Post-transcriptional Control of Gene Expression After Light Exposure in Metarhizium acridum
Cited by: 14
Author(s): Guilherme Thomaz Pereira Brancini, Márcia E. S. Ferreira, Drauzio E.N. Rangel, Gilberto Úbida Leite Braga
Software Mentions: 2
Published: about 7 years ago

10.1534/g3.119.400469

Investigating the Influence of Glycerol on the Utilization of Glucose in Yarrowia lipolytica Using RNA-Seq-Based Transcriptomics
Cited by: 11
Author(s): Patrice Lubuta, Mhairi Workman, Eduard J. Kerkhoven, Christopher Workman
Software Mentions: 2
Published: almost 7 years ago

10.1534/g3.120.401718

The Utility of Resolving Asthma Molecular Signatures Using Tissue-Specific Transcriptome Data
Cited by: 11
Author(s): Debajyoti Ghosh, Lili Ding, Jonathan A. Bernstein, Tesfaye B. Mersha
Software Mentions: 2
Published: almost 6 years ago

10.1093/g3journal/jkab077

Highly effective proximate labeling in Drosophila
Cited by: 21
Author(s): Bo Zhang, Yuanbing Zhang, Ji‐Long Liu
Software Mentions: 2
Published: over 5 years ago

10.1007/s10120-018-0859-1

E-cadherin-deficient cells have synthetic lethal vulnerabilities in plasma membrane organisation, dynamics and function
Cited by: 25
Author(s): Tanis Godwin, S. Thomas Kelly, Tom P. Brew, Nicola Bougen-Zhukov, Andrew Single, Augustine Chen, Cassie E. Stylianou, Lawrence D. Harris, Sophie K. Currie, Bryony J. Telford, Henry Beetham, Gary B. Evans, Michael A. Black, Parry Guilford
Software Mentions: 2
Published: about 8 years ago

10.1172/jci.insight.140598

Dysregulation of tryptophan catabolism at the host-skin microbiota interface in hidradenitis suppurativa
Cited by: 28
Author(s): Laure Guenin-Macé, Jean-David Morel, Jean‐Marc Doisne, Angèle Schiavo, Lysiane Boulet, Véronique Mayau, Pedro Gonçalves, Sabine Duchatelet, Alain Hovnanian, Vincent Bondet, Darragh Duffy, Marie‐Noëlle Ungeheuer, M. Delage, Aude Nassif, James P. Di Santo, Caroline Demangel
Software Mentions: 2
Published: almost 6 years ago

10.1172/jci.insight.140785

Neonatal hyperoxia inhibits proliferation and survival of atrial cardiomyocytes by suppressing fatty acid synthesis
Cited by: 15
Author(s): Ethan D. Cohen, Min Yee, George A. Porter, Erin E Ritzer, Andrew McDavid, Paul S. Brookes, Gloria S. Pryhuber, Michael A. O’Reilly
Software Mentions: 2
Published: over 5 years ago

10.1007/s13253-015-0226-1

Detecting Differentially Expressed Genes with RNA-seq Data Using Backward Selection to Account for the Effects of Relevant Covariates
Cited by: 6
Author(s): Yet Nguyen, Dan Nettleton, Haibo Li, Christopher K. Tuggle
Software Mentions: 2
Published: almost 11 years ago

10.1016/j.jaut.2018.07.002

Gene expression profiling identifies distinct molecular signatures in thrombotic and obstetric antiphospholipid syndrome
Cited by: 20
Author(s): Vera M. Ripoll, Francesca Pregnolato, Simona Mazza, Caterina Bodio, Claudia Grossi, Thomas McDonnell, Charis Pericleous, Pier Luigi Meroni, David Isenberg, Anisur Rahman, Ian Giles
Software Mentions: 2
Published: about 8 years ago

10.1074/jbc.M114.621607

RNA Toxicity and Missplicing in the Common Eye Disease Fuchs Endothelial Corneal Dystrophy
Cited by: 100
Author(s): Jintang Du, Ross A. Aleff, Elisabetta Soragni, Krishna R. Kalari, Jinfu Nie, Xiaojia Tang, Jaime Davila, Jean-Pierre A. Kocher, Sanjay V. Patel, Joel M. Gottesfeld, Keith H. Baratz, Eric D. Wieben
Software Mentions: 2
Published: over 11 years ago

10.1074/jbc.M116.768283

NADPH oxidase 1 supports proliferation of colon cancer cells by modulating reactive oxygen species-dependent signal transduction
Cited by: 66
Author(s): Ágnes Juhász, Susan Markel, Shikha Gaur, Han Liu, Jiamo Lu, Guojian Jiang, Xiwei Wu, Smitha Antony, Yongzhong Wu, Giovanni Melillo, Jennifer L. Meitzler, Diana C. Haines, Donna Butcher, Krishnendu Roy, James H. Doroshow
Software Mentions: 2
Published: over 9 years ago

10.1186/s40709-020-00116-3

A potential prognostic model based on miRNA expression profile in The Cancer Genome Atlas for bladder cancer patients
Cited by: 3
Author(s): Yan Liu, Dong Zhu, Hong Xing, Yi Hou, Yan Sun
Software Mentions: 2
Published: over 6 years ago

10.1186/s12929-018-0459-8

Identification of target genes in cardiomyopathy with fibrosis and cardiac remodeling
Cited by: 41
Author(s): Jinqiu Zhao, Tiewei Lv, Junjun Quan, Weian Zhao, Song Jing, Zhuolin Li, Han Lv, Wei Huang, Longke Ran
Software Mentions: 2
Published: about 8 years ago

10.1002/jcsm.12706

Transcriptomic meta‐analysis of disuse muscle atrophy vs. resistance exercise‐induced hypertrophy in young and older humans
Cited by: 14
Author(s): Colleen S. Deane, Craig R. G. Willis, Bethan E. Phillips, Philip J. Atherton, Lorna W. Harries, Ryan M. Ames, Nathaniel J. Szewczyk, Timothy Etheridge
Software Mentions: 2
Published: over 5 years ago

10.7150/jca.35223

Three novel hub genes and their clinical significance in clear cell renal cell carcinoma
Cited by: 12
Author(s): He Xiao, Ping Chen, Guang Zeng, Dongmei Xu, Xinghuan Wang, Xinhua Zhang
Software Mentions: 2
Published: over 7 years ago

10.7150/jca.35854

Combining Bioinformatics and Experiments to Identify and Verify Key Genes with Prognostic Values in Endometrial Carcinoma
Cited by: 25
Author(s): Wenchao Zhang, Lingling Gao, Caixia Wang, Shuang Wang, Di Sun, Xiao Li, Miao Liu, Yue Qi, Juanjuan Liu, Bei Lin
Software Mentions: 2
Published: over 6 years ago

10.7150/jca.38173

Weighted gene co-expression network analysis identifies CCNA2 as a treatment target of prostate cancer through inhibiting cell cycle
Cited by: 22
Author(s): Rui Yang, Yanwei Du, Lei Wang, Zhiyuan Chen, Xiuheng Liu
Software Mentions: 2
Published: over 6 years ago

10.7150/jca.40010

Prognostic Value of ANXA8 in Gastric Carcinoma
Cited by: 8
Author(s): Li X, Fang Hou, Young-Woo Jin, Qing‐Yuan Sun
Software Mentions: 2
Published: over 6 years ago

10.7150/jca.40750

MiR-891a-5p as a prognostic marker and therapeutic target for hormone receptor-positive breast cancer
Cited by: 16
Author(s): Zhiqiang Zhang, Xu Lu, Lijie He, Jin Wang, Xiaonan Shi, Zhi Li, Shuping Shi, Kezuo Hou, Yuee Teng, Xiujuan Qu
Software Mentions: 2
Published: over 6 years ago

10.7150/jca.46328

Development and validation of a DNA repair gene signature for prognosis prediction in Colon Cancer
Cited by: 9
Author(s): Xin Wang, Cong Tan, Min Ye, Xu Wang, Wei-Hung Weng, Meng Zhang, Shujuan Ni, Lei Wang, Dan Huang, Zhaohui Huang, Ming Xu, Weiqi Sheng
Software Mentions: 2
Published: over 6 years ago

10.7150/jca.48245

Identification of Seven Cell Cycle-Related Genes with Unfavorable Prognosis and Construction of their TF-miRNA-mRNA regulatory network in Breast Cancer
Cited by: 14
Author(s): Zhipeng Hong, Qinglan Wang, Chengye Hong, Meimei Liu, Pengqin Qiu, Ronggui Lin, Xiaolan Lin, Fangfang Chen, Qiuhuang Li, Lingling Liu, Chuan Wang, Debo Chen
Software Mentions: 2
Published: over 5 years ago

10.7150/jca.51264

Multiple microarray analyses identify key genes associated with the development of Non-Small Cell Lung Cancer from Chronic Obstructive Pulmonary Disease
Cited by: 13
Author(s): Lemeng Zhang, Jianhua Chen, Hua Yang, Changqie Pan, Haitao Li, Yuanming Luo, Tianli Cheng
Software Mentions: 2
Published: over 5 years ago

10.7150/jca.51147

MiR-573 suppresses cell proliferation, migration and invasion via regulation of E2F3 in pancreatic cancer
Cited by: 6
Author(s): Pengcheng Zhou, Peng Gao, Hongsong Fan, Xiaohui Lin, Yao Lu, Yao Wang, Mingyan Zhu, Xiaoxuan Fan, Zhiwei Wang, Zhang Ye-wei, Lei Wang
Software Mentions: 2
Published: over 5 years ago

10.7150/jca.56730

SLC34A2 Up-regulation And SLC4A4 Down-regulation Correlates With Invasion, Metastasis, And The MAPK Signaling Pathway In Papillary Thyroid Carcinomas
Cited by: 3
Author(s): Fengyan Huang, Haitao Wang, Juan Xiao, Chunchun Shao, Yong Zhou, Cong Wang, Maosong Gong, Jingfu Sun, Liqun Shan, Zhanyu Hao, Lihua Wang, Shuo Ding, Zhengping Yu, Jianing Liu, Hongying Jia
Software Mentions: 2
Published: over 5 years ago

10.7150/jca.58768

Use of bioinformatic database analysis and specimen verification to identify novel biomarkers predicting gastric cancer metastasis
Cited by: 6
Author(s): Weimin Wang, Ke Min, Gaoyang Chen, Hui Zhang, Jianliang Deng, Mengying Lv, Zhihong Cao
Software Mentions: 2
Published: over 5 years ago

10.7150/jca.56419

Overexpression of Nicotinamide N-methyltransferase mainly covers stroma of colorectal cancer and correlates with unfavorable survival by its product 1-MNA
Cited by: 5
Author(s): Jun Yang, Qingchao Tong, Ying Zhang, Shuiqiao Yuan, Yinghong Gao, Ke Deng, Yanzhong Wang, Jie Lü, Xinyou Xie, Zhe Zhang, Jun Zhang
Software Mentions: 2
Published: over 5 years ago

10.1083/jcb.201512012

Transcriptional determinants of tolerogenic and immunogenic states during dendritic cell maturation
Cited by: 73
Author(s): Bryan Vander Lugt, Jeremy Riddell, Aly A. Khan, Jason A. Hackney, Justin Lesch, Jason DeVoss, Matthew T. Weirauch, Harinder Singh, Ira Mellman
Software Mentions: 2
Published: over 9 years ago

10.1111/jcmm.14100

Transcriptome analysis of differentially expressed genes and pathways associated with mitoxantrone treatment prostate cancer
Cited by: 7
Author(s): Sanqiang Li, Ruifang Li, Yu Ma, Cong Zhang, Tao Huang, Sha Zhu
Software Mentions: 2
Published: over 7 years ago

10.1111/jcmm.14386

Long non‐coding RNA NR2F1‐AS1 promoted proliferation and migration yet suppressed apoptosis of thyroid cancer cells through regulating miRNA‐338‐3p/CCND1 axis
Cited by: 48
Author(s): Feng Guo, Qingfeng Fu, Yang Wang, Guoqing Sui
Software Mentions: 2
Published: about 7 years ago

10.1111/jcmm.14856

STAT1 and its related molecules as potential biomarkers in Mycobacterium tuberculosis infection
Cited by: 41
Author(s): Xing‐hao Yi, Bo Zhang, Yurong Fu, Zhengjun Yi
Software Mentions: 2
Published: over 6 years ago

10.1111/jcmm.15098

Development and validation of hub genes for lymph node metastasis in patients with prostate cancer
Cited by: 16
Author(s): Ning Xu, Shao‐Hao Chen, Tingting Lin, Hai Cai, Zhi‐Bin Ke, Ru‐Nan Dong, Peng Huang, Xiaodong Li, Ye‐Hui Chen, Qing‐Shui Zheng
Software Mentions: 2
Published: over 6 years ago

10.1111/jcmm.15317

microRNA‐128‐3p overexpression inhibits breast cancer stem cell characteristics through suppression of Wnt signalling pathway by down‐regulating NEK2
Cited by: 29
Author(s): Yuanwen Chen, Nian Wu, Lei Liu, Dong Huang, Xinao Liu
Software Mentions: 2
Published: over 6 years ago

10.1111/jcmm.15429

Bioinformatics analysis of the biological changes involved in the osteogenic differentiation of human mesenchymal stem cells
Cited by: 16
Author(s): Tao Fan, Rongmei Qu, Qinghe Yu, Bing Sun, Xin Jiang, Yuchao Yang, Xiaolan Huang, Zhaoxi Zhou, Jun Ouyang, Shizhen Zhang, Jingxing Dai
Software Mentions: 2
Published: over 6 years ago

10.1111/jcmm.15285

Construction of a ceRNA coregulatory network and screening of hub biomarkers for salt‐sensitive hypertension
Cited by: 8
Author(s): Ling Zhang, Qin Han, Zheng Liu, Wei Peng, Han Cao, Chunyue Guo, Yanyan Sun, Christine Pao, Yu Tao Xiang
Software Mentions: 2
Published: over 6 years ago

10.1111/jcmm.15588

Development and validation of a novel 15‐CpG‐based signature for predicting prognosis in triple‐negative breast cancer
Cited by: 4
Author(s): Yang Peng, Lin Shui, Jian Xie, Shengchun Liu
Software Mentions: 2
Published: about 6 years ago

10.1111/jcmm.15625

CXXC finger protein 4 inhibits the CDK18‐ERK1/2 axis to suppress the immune escape of gastric cancer cells with involvement of ELK1/MIR100HG pathway
Cited by: 20
Author(s): Ping Li, Dongfang Ge, Pengfei Li, Fangyong Hu, Junfeng Chu, Xiaojun Chen, Wenbo Song, Ali Wang, Xiang Gu
Software Mentions: 2
Published: about 6 years ago

10.1111/jcmm.15852

EPDR1 correlates with immune cell infiltration in hepatocellular carcinoma and can be used as a prognostic biomarker
Cited by: 11
Author(s): Ruochan Chen, Yiya Zhang
Software Mentions: 2
Published: about 6 years ago

10.1111/jcmm.15972

Role of miR‐218‐GREM1 axis in epithelial‐mesenchymal transition of oral squamous cell carcinoma: An in vivo and vitro study based on microarray data
Cited by: 7
Author(s): Yanpeng Wang, Yifeng Jiang, Long Chen
Software Mentions: 2
Published: almost 6 years ago

10.1038/s41598-017-16070-5

Hypomethylation of HOXA4 promoter is common in Silver-Russell syndrome and growth restriction and associates with stature in healthy children
Cited by: 11
Author(s): Mari Muurinen, Katariina Hannula-Jouppi, Lovisa E. Reinius, Cilla Söderhäll, Simon Kebede Merid, Anna Bergström, Erik Melén, Göran Pershagen, Marita Lipsanen‐Nyman, Dario Greco, Juha Kere
Software Mentions: 2
Published: almost 9 years ago

10.1038/s41598-017-16201-y

Cartilage intermediate layer protein 1 (CILP1): A novel mediator of cardiac extracellular matrix remodelling
Cited by: 34
Author(s): Frans A. van Nieuwenhoven, Chantal Munts, Roel C Op't Veld, Arantxa González, Javier Dı́ez, Stéphane Heymans, Blanche Schroen, Marc van Bilsen
Software Mentions: 2
Published: almost 9 years ago

10.1038/s41598-017-16627-4

A flexible ontology for inference of emergent whole cell function from relationships between subcellular processes
Cited by: 24
Author(s): Jens Hansen, David Meretzky, Simeneh Woldesenbet, Gustavo Stolovitzky, Ravi Iyengar
Software Mentions: 2
Published: almost 9 years ago

10.1038/s41598-017-18308-8

A central role for PI3K-AKT signaling pathway in linking SAMHD1-deficiency to the type I interferon signature
Cited by: 26
Author(s): Changhoon Oh, Jeongmin Ryoo, Kiwon Park, Baek Kim, Michele B. Daly, DongYeon Cho, Kwangseog Ahn
Software Mentions: 2
Published: over 8 years ago

10.1038/s41598-017-18370-2

ModuleDiscoverer: Identification of regulatory modules in protein-protein interaction networks
Cited by: 53
Author(s): Sebastian Vlaic, Theresia Conrad, Christian Tokarski-Schnelle, Mika Gustafsson, Uta Dahmen, Reinhard Guthke, Stefan Schuster
Software Mentions: 2
Published: over 8 years ago

10.1038/s41598-018-23772-x

Association between DNA methylation in cord blood and maternal smoking: The Hokkaido Study on Environment and Children’s Health
Cited by: 34
Author(s): Kunio Miyake, Akio Kawaguchi, Ryuichi Miura, Sachiko Kobayashi, Nguyen Quoc Vuong Tran, Sumitaka Kobayashi, Chihiro Miyashita, Atsuko Araki, Takeo Kubota, Zentaro Yamagata, Reiko Kishi
Software Mentions: 2
Published: over 8 years ago

10.1038/s41598-018-24256-8

Proteomic profiling of human cancer pseudopodia for the identification of anti-metastatic drug candidates
Cited by: 7
Author(s): Sunkyu Choi, Aditya Bhagwat, Rasha Al Mismar, Neha Goswami, Hisham Ben Hamidane, Lu Sun, Johannes Graumann
Software Mentions: 2
Published: over 8 years ago

10.1038/s41598-018-24232-2

Translational study identifies XPF and MUS81 as predictive biomarkers for oxaliplatin-based peri-operative chemotherapy in patients with esophageal adenocarcinoma
Cited by: 8
Author(s): Thomas P. MacGregor, R Carter, Richard Gillies, John M. Findlay, Christiana Kartsonaki, Francesc Castro-Giner, Natasha Sahgal, L M Wang, Runjan Chetty, Nicholas Maynard, Jean‐Baptiste Cazier, Francesca M. Buffa, Peter J. McHugh, Ian Tomlinson, Mark R. Middleton, Ricky A. Sharma
Software Mentions: 2
Published: over 8 years ago

10.1038/s41598-018-23505-0

Proteomic analysis of plasma extracellular vesicles reveals mitochondrial stress upon HTLV-1 infection
Cited by: 22
Author(s): Patricia Jeannin, Thibault Chaze, Quentin Giai Gianetto, Mariette Matondo, Olivier Gout, Antoine Gessain, Philippe V. Afonso
Software Mentions: 2
Published: over 8 years ago

10.1038/s41598-018-27306-3

Transcriptomic and neurochemical analysis of the stellate ganglia in mice highlights sex differences
Cited by: 13
Author(s): Richard Bayles, Antoinette Olivas, Quin E. Denfeld, William R. Woodward, Suzanne S. Fei, Lina Gao, Beth A. Habecker
Software Mentions: 2
Published: over 8 years ago

10.1038/s41598-018-27646-0

Independent regulation of Plasmodium falciparum rif gene promoters
Cited by: 5
Author(s): Rosana Beatriz Duque Araujo, Tatiane Macedo Silva, Charlotte Kaiser, Gabriela Fernandes Leite, Diego Peres Alonso, Paulo Eduardo Martins Ribolla, Gerd Wunderlich
Software Mentions: 2
Published: about 8 years ago

10.1038/s41598-018-28286-0

Liver clear cell foci and viral infection are associated with non-cirrhotic, non-fibrolamellar hepatocellular carcinoma in young patients from South America
Cited by: 7
Author(s): Luis Cano, Juan Pablo Cerapio, Eloy Ruíz, Agnès Marchio, Bruno Turlin, Sandro Casavilca, Luis Taxa, Guillaume Marti, Eric Deharo, Pascal Pineau, Stéphane Bertani
Software Mentions: 2
Published: about 8 years ago

10.1038/s41598-018-29462-y

Genetic regulation of disease risk and endometrial gene expression highlights potential target genes for endometriosis and polycystic ovarian syndrome
Cited by: 42
Author(s): Jenny N. Fung, Sally Mortlock, Jane E. Girling, Sarah J. Holdsworth-Carson, Wan Tinn Teh, Zhihong Zhu, Samuel W. Lukowski, Brett McKinnon, Allan F. McRae, Jian Yang, Martin Healey, Joseph E. Powell, Peter A. W. Rogers, Grant W. Montgomery
Software Mentions: 2
Published: about 8 years ago

10.1038/s41598-018-29763-2

Establishing normal metabolism and differentiation in hepatocellular carcinoma cells by culturing in adult human serum
Cited by: 19
Author(s): Renske D.M. Steenbergen, Martin Oti, Rob ter Horst, Wilson Tat, Christopher J. Neufeldt, Alexandr Belovodskiy, Tiing Tiing Chua, Woo Jung Cho, Michael Joyce, Bas E. Dutilh, D. Lorne Tyrrell
Software Mentions: 2
Published: about 8 years ago

10.1038/s41598-018-30463-0

Comparative transcriptomic profiling of peripheral efferent and afferent nerve fibres at different developmental stages in mice
Cited by: 1
Author(s): Hongkui Wang, Youlang Zhou, Cong Ma, Li Zhang, Xiaosong Gu, Xin Tang
Software Mentions: 2
Published: about 8 years ago

10.1038/s41598-018-29848-y

3D microfluidic in vitro model and bioinformatics integration to study the effects of Spatholobi Caulis tannin in cervical cancer
Cited by: 12
Author(s): Nijia Wang, Jiayi Wang, Xin-He Meng, Yong-Rui Bao, Shuai Wang, Tianjiao Li
Software Mentions: 2
Published: about 8 years ago

10.1038/s41598-018-30602-7

Cigarette smoke exposure decreases CFLAR expression in the bronchial epithelium, augmenting susceptibility for lung epithelial cell death and DAMP release
Cited by: 30
Author(s): Alen Faiz, Irene H. Heijink, Cornelis J Vermeulen, Victor Guryev, Maarten van den Berge, Martijn C. Nawijn, Simon D. Pouwels
Software Mentions: 2
Published: about 8 years ago

10.1038/s41598-018-32818-z

Meta-analysis of data from spaceflight transcriptome experiments does not support the idea of a common bacterial “spaceflight response”
Cited by: 15
Author(s): Michael D. Morrison, Wayne L. Nicholson
Software Mentions: 2
Published: almost 8 years ago

10.1038/s41598-018-33140-4

Transcriptomic responses of Serratia liquefaciens cells grown under simulated Martian conditions of low temperature, low pressure, and CO2-enriched anoxic atmosphere
Cited by: 10
Author(s): Patricia Fajardo-Cavazos, Michael D. Morrison, Kathleen M. Miller, Andrew C. Schuerger, Wayne L. Nicholson
Software Mentions: 2
Published: almost 8 years ago

10.1038/s41598-018-33985-9

Gene expression dataset for whole cochlea of Macaca fascicularis
Cited by: 5
Author(s): Hideki Mutai, Fuyuki Miya, Hiroaki Shibata, Yasuhiro Yasutomi, Tatsuhiko Tsunoda, Tatsuo Matsunaga
Software Mentions: 2
Published: almost 8 years ago

10.1038/s41598-018-35789-3

Systematic Analysis and Biomarker Study for Alzheimer’s Disease
Cited by: 46
Author(s): Xinzhong Li, Haiyan Wang, Jintao Long, G. Pan, Taigang He, Oleg Anichtchik, Robert Belshaw, Diego Albani, Paul Edison, Elaine K. Green, James A. Scott
Software Mentions: 2
Published: almost 8 years ago

10.1038/s41598-018-36328-w

Systems Biology Approach to Identify Novel Genomic Determinants for Pancreatic Cancer Pathogenesis
Cited by: 6
Author(s): Indu Khatri, Koelina Ganguly, Sunandini Sharma, Joseph Carmicheal, Sukwinder Kaur, Surinder K. Batra, Manoj Bhasin
Software Mentions: 2
Published: over 7 years ago

10.1038/s41598-018-36649-w

Targeted expression profiling by RNA-Seq improves detection of cellular dynamics during pregnancy and identifies a role for T cells in term parturition
Cited by: 41
Author(s): Adi L. Tarca, Roberto Romero, Zhonghui Xu, Nardhy Gómez-López, Offer Erez, Chaur‐Dong Hsu, Sonia S. Hassan, Vincent J. Carey
Software Mentions: 2
Published: over 7 years ago

10.1038/s41598-018-37776-0

Bacterial communities associated to Chilean altiplanic native plants from the Andean grasslands soils
Cited by: 25
Author(s): Beatriz Fernández-Gómez, Jonathan Maldonado, Dinka Mandaković, Alexis Gaete, Rodrigo A. Gutiérrez, Alejandro Maass, Verónica Cambiazo, Maurício González
Software Mentions: 2
Published: over 7 years ago

10.1038/s41598-019-40886-y

Loss of Neogenin1 in human colorectal carcinoma cells causes a partial EMT and wound-healing response
Cited by: 12
Author(s): Vishal Chaturvedi, Alexandre Fournier‐Level, Helen Cooper, Michael J. Murray
Software Mentions: 2
Published: over 7 years ago

10.1038/s41598-019-42530-1

Proteins that physically interact with the phosphatase Cdc14 in Candida albicans have diverse roles in the cell cycle
Cited by: 17
Author(s): Iliyana N. Kaneva, Ian Sudbery, Mark J. Dickman, Peter E. Sudbery
Software Mentions: 2
Published: over 7 years ago

10.1038/s41598-019-43700-x

Heparin Differentially Impacts Gene Expression of Stromal Cells from Various Tissues
Cited by: 16
Author(s): Sandra Laner-Plamberger, Michaela Oeller, Rodolphe Poupardin, Linda Krisch, Sarah Hochmann, Ravi Kr Kalathur, Karin Pachler, Christina Kreutzer, Gerrit Erdmann, Eva Rohde, Dirk Strunk, Katharina Schallmoser
Software Mentions: 2
Published: over 7 years ago

10.1038/s41598-019-44865-1

Overexpression of miRNA-25-3p inhibits Notch1 signaling and TGF-β-induced collagen expression in hepatic stellate cells
Cited by: 21
Author(s): Berit Genz, Miranda A. Coleman, Katharine M. Irvine, Jamie R. Kutasovic, Mariska Miranda, Francis D. Gratte, Janina E.E. Tirnitz–Parker, John K. Olynyk, Diego A. Calvopina, Anna Weis, Nicole Cloonan, Harley Robinson, Michelle M. Hill, Fares Al-Ejeh, Grant A. Ramm
Software Mentions: 2
Published: over 7 years ago

10.1038/s41598-021-91951-4

Photoperiodically driven transcriptome-wide changes in the hypothalamus reveal transcriptional differences between physiologically contrasting seasonal life-history states in migratory songbirds
Cited by: 5
Author(s): Aakansha Sharma, Subhajit Das, Sayantan Sur, Jyoti Tiwari, Khushboo Chaturvedi, Neha Agarwal, Shalie Malik, Sangeeta Rani, Vinod Kumar
Software Mentions: 2
Published: over 5 years ago

10.1038/s41598-021-92772-1

MCT4 is induced by metastasis-enhancing pathogenic mitochondrial NADH dehydrogenase gene mutations and can be a therapeutic target
Cited by: 8
Author(s): Keizo Takenaga, Nobuko Koshikawa, Masumi Akimoto, Yasutoshi Tatsumi, Jason Lin, Makiko Itami, Hiroki Nagase
Software Mentions: 2
Published: about 5 years ago

10.1038/s41598-021-93246-0

Exosomal hsa_circRNA_104484 and hsa_circRNA_104670 may serve as potential novel biomarkers and therapeutic targets for sepsis
Cited by: 21
Author(s): Chang Tian, Jiaying Liu, Xin Di, Shan Cong, Min Zhao, Ke Wang
Software Mentions: 2
Published: about 5 years ago

10.1038/s41598-021-93498-w

New candidate blood biomarkers potentially associated with white matter hyperintensities progression
Cited by: 2
Author(s): Joan Jiménez-Baladó, Jesús Pizarro, Iolanda Riba‐Llena, Anna Peñalba, Júlia Faura, Elena Palà, Joan Montaner, Mar Hernández-Guillamón, Pilar Delgado
Software Mentions: 2
Published: about 5 years ago

10.1038/s41598-021-94314-1

Extracellular NLRP3 inflammasome particles are internalized by human coronary artery smooth muscle cells and induce pro-atherogenic effects
Cited by: 7
Author(s): Susanne Gaul, Karen Marie Schaeffer, Lena Opitz, Christina Maeder, Alexander Kögel, Luisa Uhlmann, Hermann Kalwa, Ulf Wagner, Jan Haas, Amirhossein Behzadi, Pablo Pelegrı́n, Jes‐Niels Boeckel, Ulrich Laufs
Software Mentions: 2
Published: about 5 years ago

10.1038/s41598-021-95289-9

Intratumour heterogeneity in microRNAs expression regulates glioblastoma metabolism
Cited by: 6
Author(s): Huda Alfardus, Maria Estevez-Cebrero, Jonathan Rowlinson, Amna Aboalmaaly, Anbarasu Lourdusamy, Salah Abdelrazig, Catharine A. Ortori, Richard G. Grundy, Dong-Hyun Kim, Alan McIntyre, Stuart Smith
Software Mentions: 2
Published: about 5 years ago

10.1038/s41598-021-96003-5

Ketogenesis controls mitochondrial gene expression and rescues mitochondrial bioenergetics after cervical spinal cord injury in rats
Cited by: 16
Author(s): Oscar Seira, Kathleen L. Kolehmainen, Jie Liu, Femke Streijger, Anne Haegert, Stéphane LeBihan, Robert Boushel, Wolfram Tetzlaff
Software Mentions: 2
Published: about 5 years ago

10.1038/s41598-021-95313-y

k-core genes underpin structural features of breast cancer
Cited by: 13
Author(s): Rodrigo Dorantes-Gilardi, Diana García-Cortés, Enrique Hernández‐Lemus, Jesús Espinal-Enríquez
Software Mentions: 2
Published: about 5 years ago

10.1038/s41598-021-96642-8

Impact of severe hypoglycemia on the heat shock and related protein response
Cited by: 8
Author(s): Alexander S. Atkin, Abu Saleh Md Moin, Manjula Nandakumar, Ahmed Al‐Qaissi, Thozhukat Sathyapalan, Stephen L. Atkin, Alexandra E. Butler
Software Mentions: 2
Published: about 5 years ago

10.1038/s41598-021-96778-7

Raspberry ketone diet supplement reduces attraction of sterile male Queensland fruit fly to cuelure by altering expression of chemoreceptor genes
Cited by: 2
Author(s): Mohammed Abul Monjur Khan, Nandan P. Deshpande, Lucas A. Shuttleworth, Terry Osborne, Damian Collins, Marc R. Wilkins, Geoff M. Gurr, Olivia L. Reynolds
Software Mentions: 2
Published: about 5 years ago

10.1038/s41598-021-98536-1

Dissection of the bone marrow microenvironment in hairy cell leukaemia identifies prognostic tumour and immune related biomarkers
Cited by: 6
Author(s): Rachel Koldej, Ashvind Prabahran, Chin Wee Tan, Ashley P Ng, Melissa J. Davis, David Ritchie
Software Mentions: 2
Published: almost 5 years ago

10.1126/science.aau4732

Effects of microbiota-directed foods in gnotobiotic animals and undernourished children
Cited by: 263
Author(s): Jeanette L. Gehrig, Siddarth Venkatesh, Hung-Sheng Chang, Matthew C. Hibberd, Vanderlene L. Kung, Jiye Cheng, Robert Y. Chen, Sathish Subramanian, Carrie A. Cowardin, Martin Meier, David O’Donnell, Michael Talcott, Larry D. Spears, Clay F. Semenkovich, Bernard Henrissat, Richard J. Giannone, Robert L. Hettich, Olga Ilkayeva, Michael J. Muehlbauer, Christopher B. Newgard, Christopher Sawyer, Richard D. Head, Dmitry A. Rodionov, Aleksandr A. Arzamasov, Semen A. Leyn, Andrei L. Osterman, Iqbal Hossain, M Munirul Islam, Nuzhat Choudhury, Shafiqul Alam Sarker, Sayeeda Huq, Imteaz Mahmud, Ishita Mostafa, Mustafa Mahfuz, Michael J. Barratt, Tahmeed Ahmed, Jeffrey I. Gordon
Software Mentions: 2
Published: about 7 years ago

10.1186/s13287-017-0602-6

Global gene expression profiling and senescence biomarker analysis of hESC exposed to H2O2 induced non-cytotoxic oxidative stress
Cited by: 7
Author(s): M. Barandalla, Hui Shi, Hui Xiao, Silvia Colleoni, Cesare Galli, Píetro Lió, Matthew Trotter, Giovanna Lazzari
Software Mentions: 2
Published: about 9 years ago

10.1186/s13287-019-1235-8

microRNA-301b-3p downregulation underlies a novel inhibitory role of long non-coding RNA MBNL1-AS1 in non-small cell lung cancer
Cited by: 34
Author(s): Peng Li, Wei Xing, Jinliang Xu, Dandan Yuan, Guanghui Liang, Baoxing Liu, MA Hollywood
Software Mentions: 2
Published: over 7 years ago

10.1186/s13287-019-1475-7

Acute myeloid leukemia cells secrete microRNA-4532-containing exosomes to mediate normal hematopoiesis in hematopoietic stem cells by activating the LDOC1-dependent STAT3 signaling pathway
Cited by: 25
Author(s): Chen Zhao, Feng Du, Yang Zhao, Shanshan Wang, Ling Qi
Software Mentions: 2
Published: almost 7 years ago

10.1186/s13287-020-1580-7

Exosomal microRNA-144 from bone marrow-derived mesenchymal stem cells inhibits the progression of non-small cell lung cancer by targeting CCNE1 and CCNE2
Cited by: 41
Author(s): Yuan Liu, Dalin Zhang, Linlin Li, Xin Tian, Yuwei Zhao, Rui Ma, Jie Du
Software Mentions: 2
Published: over 6 years ago

10.1186/s13287-020-01980-5

Investigation of de novo mutations in a schizophrenia case-parent trio by induced pluripotent stem cell-based in vitro disease modeling: convergence of schizophrenia- and autism-related cellular phenotypes
Cited by: 11
Author(s): Edit Hathy, Eszter Szabó, Nóra Varga, Zsuzsa Erdei, Csongor Tordai, Boróka Czehlár, Máté Baradits, Bálint Jezsó, Júlia Koller, László Nagy, Mária Judit Molnár, László Homolya, Zsófia Nemoda, Ágota Apáti, János Réthelyi
Software Mentions: 2
Published: almost 6 years ago

10.1007/s12015-017-9790-9

Gene Network Analysis of Interstitial Macrophages After Treatment with Induced Pluripotent Stem Cells Secretome (iPSC-cm) in the Bleomycin Injured Rat Lung
Cited by: 13
Author(s): Luca Tamò, Cédric Simillion, Youssef Hibaoui, Anis Féki, Mathias Gugger, Antje Prasse, B Jäger, Torsten Goldmann, Thomas Geiser, Amiq Gazdhar
Software Mentions: 2
Published: almost 9 years ago

Projects: bioconductor: limma

Science Score: 78/100

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Papers Mentioning limma 7,776