bioconductor: limma | Projects | Ecosyste.ms: Papers

10.3390/biomedicines9060673

Context-Specific Osteogenic Potential of Mesenchymal Stem Cells
Cited by: 7
Author(s): Aleksandra Kostina, Arseniy Lobov, Daria Semenova, A. A. Kiselev, Polina Klausen, Anna Malashicheva
Software Mentions: 1
Published: about 5 years ago

10.3390/biomedicines9020131

Role of Kallikrein 7 in Body Weight and Fat Mass Regulation
Cited by: 5
Author(s): Anne Kunath, Juliane Weiner, Kerstin Krause, Maren Rehders, Anastasija Pejkovska, Martin Gericke, Martin L. Biniossek, Sebastian Dommel, Matthias Kern, Aleix Ribas‐Latre, Oliver Schilling, Klaudia Brix, Michael Stümvoll, Nora Klöting, John T. Heiker, Matthias Blüher
Software Mentions: 1
Published: over 5 years ago

10.3390/biomedicines9081073

Treatment with PCSK9 Inhibitors in Patients with Familial Hypercholesterolemia Lowers Plasma Levels of Platelet-Activating Factor and Its Precursors: A Combined Metabolomic and Lipidomic Approach
Cited by: 8
Author(s): Alessandro Di Minno, Roberta Clara Orsini, Mattia Chiesa, Viviana Cavalca, Ilenia Calcaterra, Maria Tripaldella, Andrea Anesi, Susanna Fiorelli, Sonia Eligini, Gualtiero I. Colombo, Elena Tremoli, Benedetta Porro, Matteo Nicola Dario Di Minno
Software Mentions: 1
Published: almost 5 years ago

10.3390/biomedicines9080882

Predicting Agents That Can Overcome 5-FU Resistance in Colorectal Cancers via Pharmacogenomic Analysis
Cited by: 5
Author(s): Tsui-Chin Huang, Kuan-Chieh Peng, Tai Chih Kuo, Li-Chun Lin, Bai-Chia Liu, Shu-Ping Ye, Chien-Chou Chu, Shih Min Hsia, Ho‐Myung Chang
Software Mentions: 1
Published: about 5 years ago

10.3390/biomedicines8080233

In-Vitro Identification and In-Vivo Confirmation of DNA Methylation Biomarkers for Urothelial Cancer
Cited by: 1
Author(s): Christof Köhler, Michael Walter, Kerstin Lang, Sabine Plöttner, Florian Roghmann, Joachim Noldus, Andrea Tannapfel, Yu Chun Tam, Heiko U. Käfferlein, Thomas Brüning
Software Mentions: 1
Published: about 6 years ago

10.3390/biomedicines9030321

Characterization of Differentially Expressed Circulating miRNAs in Metabolically Healthy versus Unhealthy Obesity
Cited by: 6
Author(s): Susana Rovira‐Llopis, Rubén Díaz‐Rúa, Carmen Grau-Del Valle, Francesca Iannantuoni, Zaida Abad-Jiménez, Neus Bosch-Sierra, Joaquín Panadero-Romero, Víctor M. Víctor, Milagros Rocha, Carlos Morillas, Celia Bañuls
Software Mentions: 1
Published: over 5 years ago

10.3390/biom11020159

Transcriptome Analysis Reveals Altered Inflammatory Pathway in an Inducible Glial Cell Model of Myotonic Dystrophy Type 1
Cited by: 12
Author(s): Cuauhtli N Azotla-Vilchis, Daniel Sánchez-Celis, Luis E Agonizantes-Juárez, Rocío Suárez-Sánchez, José Manuel Hernández-Hernández, Jorge Peña, Karla Vázquez-Santillan, Norberto Leyva‐García, Arturo Ortega, Vilma Maldonado, Claudia Rangel, Jonathan J. Magaña, Bulmaro Cisneros, Óscar Hernández-Hernández
Software Mentions: 1
Published: over 5 years ago

10.3390/biom10040661

Discovering the RNA-Binding Proteome of Plant Leaves with an Improved RNA Interactome Capture Method
Cited by: 53
Author(s): Marcel Bach‐Pages, Felix Homma, Jiorgos Kourelis, Farnusch Kaschani, Shabaz Mohammed, Markus Kaiser, Renier A. L. van der Hoorn, Alfredo Castelló, Gail M. Preston
Software Mentions: 1
Published: over 6 years ago

10.3390/biom9020037

Integrative Analyses of Genes Associated with Subcutaneous Insulin Resistance
Cited by: 13
Author(s): Manoj Kumar Pujar, Basavaraj Vastrad, Chanabasayya Vastrad
Software Mentions: 1
Published: over 7 years ago

10.3390/biom10081120

Aberrant Membrane Composition and Biophysical Properties Impair Erythrocyte Morphology and Functionality in Elliptocytosis
Cited by: 8
Author(s): Hélène Pollet, Anne‐Sophie Cloos, Amaury Stommen, Juliette Vanderroost, Louise Conrard, Adrien Paquot, Marine Ghodsi, Mélanie Carquin, Catherine Léonard, Manuel Guthmann, Maxime Lingurski, Christiane Vermylen, Theodore Killian, Laurent Gatto, Mark H. Rider, Sébastien Pyr dit Ruys, Didier Vertommen, Miikka Vikkula, Pascal Brouillard, Patrick Van Der Smissen, Giulio G. Muccioli, Donatienne Tyteca
Software Mentions: 1
Published: about 6 years ago

10.3390/biom10010113

The Ovarian Transcriptome of Reproductively Aged Multiparous Mice: Candidate Genes for Ovarian Cancer Protection
Cited by: 3
Author(s): Ulises Urzúa, Carlos Chacón, Maximiliano Norambuena, Luis Lizama, Sebastián Sarmiento, Esther Asaki, John Powell, Sandra Ampuero
Software Mentions: 1
Published: over 6 years ago

10.1002/cam4.190

Bronchial airway gene expression in smokers with lung or head and neck cancer
Cited by: 12
Author(s): Eric Van Dyck, Petr V. Nazarov, Arnaud Muller, Nathalie Nicot, Manon Bosseler, Sandrine Pierson, Kris Van Moer, Valérie Palissot, Céline Mascaux, U. Knolle, Vincent Ninane, Romain Nati, Roy M. Bremnes, Laurent Vallar, Guy Berchem, Marc Schlesser
Software Mentions: 1
Published: over 12 years ago

10.1002/cam4.2492

Risk stratification for lung adenocarcinoma on EGFR and TP53 mutation status, chemotherapy, and PD‐L1 immunotherapy
Cited by: 8
Author(s): Chih‐Hsun Wu, Ming‐Jing Hwang
Software Mentions: 1
Published: about 7 years ago

10.1002/cam4.1710

Overexpression of KIF20A confers malignant phenotype of lung adenocarcinoma by promoting cell proliferation and inhibiting apoptosis
Cited by: 52
Author(s): Xia Zhao, Leilei Zhou, Xiaoyou Li, Jie Ni, Ping Chen, Rong Ma, Jianzhong Wu, Jifeng Feng
Software Mentions: 1
Published: about 8 years ago

10.1002/cam4.4033

Regional and racial disparity in proximal gastric cancer survival outcomes 1996–2016: Results from SEER and China National Cancer Center database
Cited by: 10
Author(s): Lulu Zhao, Penghui Niu, Dongbing Zhao, Yingtai Chen
Software Mentions: 1
Published: about 5 years ago

10.1002/cam4.1180

A comprehensive genome-wide analysis of long noncoding RNA expression profile in hepatocellular carcinoma
Cited by: 81
Author(s): Hongxia Cui, Yunxing Zhang, Qiu‐Jie Zhang, Wen-Ming Chen, Haibo Zhao, Jun Liang
Software Mentions: 1
Published: almost 9 years ago

10.1002/cam4.2171

An integrated analysis reveals the oncogenic function of lncRNA LINC00511 in human ovarian cancer
Cited by: 22
Author(s): Jing Wang, Yongju Tian, Hui Zheng, Yan Ding, Xiuli Wang
Software Mentions: 1
Published: over 7 years ago

10.1002/cam4.3183

miR‐18a activates Wnt pathway in ER‐positive breast cancer and is associated with poor prognosis
Cited by: 18
Author(s): Madhumathy G. Nair, Jyothi S Prabhu, Aruna Korlimarla, Savitha Rajarajan, Parameswaran Hari, Roma Kaul, A. Alexander, Rohini Raghavan, B S Srinath, T.S. Sridhar
Software Mentions: 1
Published: about 6 years ago

10.1002/cam4.4142

An aberrant DNA methylation signature for predicting the prognosis of head and neck squamous cell carcinoma
Cited by: 2
Author(s): Dayang Chen, Mengmeng Wang, Ying Guo, Wei Wu, Xiang Ji, Xiaowei Dou, Huamei Tang, Zhi‐Hong Zong, Xiuming Zhang, Dan Xiong
Software Mentions: 1
Published: about 5 years ago

10.1002/cam4.1484

Analysis of potential genes and pathways associated with the colorectal normal mucosa-adenoma-carcinoma sequence
Cited by: 27
Author(s): Zhiyuan Wu, Zhen Liu, Weiting Ge, Jiawei Shou, Lixin You, Hongming Pan, Weidong Han
Software Mentions: 1
Published: over 8 years ago

10.1155/2021/3925136

Decreased Spp1 Expression in Acute Myocardial Infarction after Ischemia and Reperfusion Injury
Cited by: 4
Author(s): Ling Li, Jianghua Huang, Zongkai Zhao, Zheng Wen, Kang Li, Tiangang Ma, Lisui Zhang, Junmeng Zheng, Shi Liang
Software Mentions: 1
Published: about 5 years ago

10.1155/2019/8645840

The Expression Profile of MicroRNAs in Small and Large Abdominal Aortic Aneurysms
Cited by: 13
Author(s): Václava Černá, Pavel Ostašov, Pavel Pitule, Jiří Moláček, Vladislav Třeška, Martin Pešta
Software Mentions: 1
Published: over 6 years ago

10.1186/s12933-016-0353-1

Insulin resistance, endothelial function, angiogenic factors and clinical outcome in non-diabetic patients with chest pain without myocardial perfusion defects
Cited by: 19
Author(s): Helena U. Westergren, Sara Svedlund, Remi A. Momo, Juuso Blomster, Karin Wåhlander, Erika Rehnström, Peter J. Greasley, Regina Fritsche‐Danielson, Jan Oscarsson, Li‐Ming Gan
Software Mentions: 1
Published: over 10 years ago

10.1186/1475-2840-11-15

Global gene expression profiling displays a network of dysregulated genes in non-atherosclerotic arterial tissue from patients with type 2 diabetes
Cited by: 30
Author(s): Vibe Skov, Steen Knudsen, Malene Olesen, Morten Hartvig Hansen, Lars Melholt Rasmussen
Software Mentions: 1
Published: over 14 years ago

10.1155/2019/8490707

Identification of Differentially Expressed Genes and Signaling Pathways in Acute Myocardial Infarction Based on Integrated Bioinformatics Analysis
Cited by: 31
Author(s): Da-qiu Chen, Xiuying Kong, Xuwei Shen, Maozhi Huang, J. P. Zheng, Jing Sun, Shuai Xu
Software Mentions: 1
Published: about 7 years ago

10.1155/2020/1615826

MFGE8, ALB, APOB, APOE, SAA1, A2M, and C3 as Novel Biomarkers for Stress Cardiomyopathy
Cited by: 8
Author(s): Xiaoyu Pan, Zai-Wei Zhang
Software Mentions: 1
Published: about 6 years ago

10.1155/2020/1230513

Six-Gene Signature Associated with Immune Cells in the Progression of Atherosclerosis Discovered by Comprehensive Bioinformatics Analyses
Cited by: 20
Author(s): Bin Zhao, Dan Wang, Yanling Liu, Xiaohong Zhang, Weiping Zheng, Jinling Wang, Ting Su, Linshan Duan, Yan Wang, Yuehua Zhang, Yilin Zhao
Software Mentions: 1
Published: about 6 years ago

10.1038/leu.2016.187

Citrullination of histone H3 drives IL-6 production by bone marrow mesenchymal stem cells in MGUS and multiple myeloma
Cited by: 37
Author(s): Gavin McNee, Katherine L. Eales, Wenbin Wei, D. R. Williams, Angelique Barkhuizen, David B. Bartlett, Sarah Essex, Seetharam Anandram, Andrew Filer, Paul Moss, Guy Pratt, Supratik Basu, Clare C. Davies, Daniel A. Tennant
Software Mentions: 1
Published: about 10 years ago

10.1038/leu.2013.362

Epimutations mimic genomic mutations of DNMT3A in acute myeloid leukemia
Cited by: 45
Author(s): Edgar Jost, Qiong Lin, Carola I. Weidner, Stefan Wilop, Melanie Hoffmann, Thomas Walenda, Mirle Schemionek, Oliver Herrmann, Martin Zenke, Tim H. Brümmendorf, Steffen Koschmieder, Wolfgang Wagner
Software Mentions: 1
Published: over 12 years ago

10.3390/life11040320

Long Noncoding RNA NEAT1 as a Potential Candidate Biomarker for Prostate Cancer
Cited by: 6
Author(s): Diana Nițușcă, Anca Marcu, Alis Dema, Loredana Bălăcescu, Ovidiu Bălăcescu, Răzvan Bardan, A. Cumpanas, Ioan Ovidiu Sîrbu, Bogdan Petruţ, Edward Șeclăman, Cătălin Marian
Software Mentions: 1
Published: over 5 years ago

10.3390/life10100248

Novel Methylation Patterns Predict Outcome in Uveal Melanoma
Cited by: 4
Author(s): Sarah Tadhg Ferrier, Julia V. Burnier
Software Mentions: 1
Published: almost 6 years ago

10.26508/lsa.202101034

High levels of TFAM repress mammalian mitochondrial DNA transcription in vivo
Cited by: 29
Author(s): Nina A. Bonekamp, Min Jiang, Elisa Motori, Rodolfo Garcia Villegas, Camilla Koolmeister, Ilian Atanassov, Andrea Mesaros, Chan Bae Park, Nils‐Göran Larsson
Software Mentions: 1
Published: almost 5 years ago

10.26508/lsa.201800153

Variants of<i>DNMT3A</i>cause transcript-specific DNA methylation patterns and affect hematopoiesis
Cited by: 16
Author(s): Tanja Božić, Joana Frobel, Annamarija Raić, Fabio Ticconi, Chao-Chung Kuo, Stefanie Heilmann‐Heimbach, Tamme W. Goecke, Martin Zenke, Edgar Jost, Ivan G. Costa, Wolfgang Wagner
Software Mentions: 1
Published: over 7 years ago

10.1186/s12944-015-0072-8

Eicosapentaenoic and docosahexaenoic acid-enriched high fat diet delays the development of fatty liver in mice
Cited by: 25
Author(s): Nikulkumar Soni, Intawat Nookaew, Ann‐Sofie Sandberg, Britt G. Gabrielsson
Software Mentions: 1
Published: about 11 years ago

10.1186/s12944-019-1131-3

Potential molecular mechanism of ACE gene at different time points in STEMI patients based on genome-wide microarray dataset
Cited by: 3
Author(s): Yao-Zong Guan, Rui-Xing Yin, Peng-Fei Zheng, Guo-Xiong Deng, Chunxiao Liu, Bi-Liu Wei
Software Mentions: 1
Published: almost 7 years ago

10.1186/1476-511X-12-126

The effect of simvastatin on lipid droplets accumulation in human embryonic kidney cells and pancreatic cancer cells
Cited by: 27
Author(s): Helena Gbelcová, Martin Švéda, Lucia Laubertová, Ivan Varga, Libor Vı́tek, Michal Kolář, Hynek Strnad, Jaroslav Zelenka, Daniel Böhmer, Tomáš Ruml
Software Mentions: 1
Published: almost 13 years ago

10.1186/s12936-017-2099-y

Malaria vectors in the Democratic Republic of the Congo: the mechanisms that confer insecticide resistance in Anopheles gambiae and Anopheles funestus
Cited by: 36
Author(s): Luisa Nardini, Richard H. Hunt, Yael Dahan-Moss, Nanette Christie, Riann Christian, Maureen Coetzee, Lizette L. Koekemoer
Software Mentions: 1
Published: almost 9 years ago

10.1007/s00335-018-9750-y

Of mice and men: the host response to influenza virus infection
Cited by: 16
Author(s): Heike Kollmus, Carolin Pilzner, Sarah R. Leist, Mark T. Heise, Robert Geffers, Klaus Schughart
Software Mentions: 1
Published: about 8 years ago

10.3390/md19020052

Marine Seagrass Extract of Thalassia testudinum Suppresses Colorectal Tumor Growth, Motility and Angiogenesis by Autophagic Stress and Immunogenic Cell Death Pathways
Cited by: 11
Author(s): Ivones Hernández-Balmaseda, Idania Rodeiro Guerra, Ken Declerck, José Alfredo Herrera Isidrón, Claudina Pérez-Novo, Guy Van Camp, Olivier De Wever, Kethia González, Mayrel Labrada, Adriana Carr, Geovanni Dantas-Cassali, Diego Carlos dos Reis, Liván Delgado-Roche, Roberto Rafael Nuñez, René Delgado Hernández, Miguel D. Fernández, Miriam T. Paz-Lopes, Wim Vanden Berghe
Software Mentions: 1
Published: over 5 years ago

10.1016/j.mad.2019.111177

Ageing-associated changes in the expression of lncRNAs in human tissues reflect a transcriptional modulation in ageing pathways
Cited by: 23
Author(s): Saara Marttila, Kasit Chatsirisupachai, Daniel H. Palmer, João Pedro de Magalhães
Software Mentions: 1
Published: over 6 years ago

10.1155/2013/437123

Stimulation of MMP-1 and CCL2 by NAMPT in PDL Cells
Cited by: 33
Author(s): Marjan Nokhbehsaim, Sigrun Eick, Andressa Vilas Boas Nogueira, Per Hoffmann, Stefan Herms, Holger Fröhlich, Søren Jepsen, Andreas Jäger, Joni Augusto Cirelli, James Deschner
Software Mentions: 1
Published: over 13 years ago

10.1155/2015/737310

Role of Calprotectin as a Modulator of the IL27-Mediated Proinflammatory Effect on Endothelial Cells
Cited by: 12
Author(s): Susann Antonia Dorosz, Aurélien Ginolhac, Thilo Kähne, Michael Naumann, Thomas Sauter, Alexandre Salsmann, Jean-Luc Bueb
Software Mentions: 1
Published: over 11 years ago

10.3390/medicina55090564

Biomarker Potential of Plasma MicroRNA-150-5p in Prostate Cancer
Cited by: 19
Author(s): Ionuț Andrei Păunescu, Răzvan Bardan, Anca Marcu, Diana Nițușcă, Alis Dema, Șerban Negru, Ovidiu Bălăcescu, Loredana Bălăcescu, A. Cumpanas, Ioan Ovidiu Sîrbu, Bogdan Petruţ, Edward Șeclăman, Cătălin Marian
Software Mentions: 1
Published: almost 7 years ago

10.1097/MD.0000000000014074

Identification of key regulators of pancreatic ductal adenocarcinoma using bioinformatics analysis of microarray data
Cited by: 5
Author(s): Nan Li, Xin Zhao, Shengyi You
Software Mentions: 1
Published: over 7 years ago

10.1097/MD.0000000000018815

Expression of SREBP2 and cholesterol metabolism related genes in TCGA glioma cohorts
Cited by: 6
Author(s): Dali Li, Shenglan Li, Allen Z Xue, Laura A. Smith Callahan, Ying Liu
Software Mentions: 1
Published: over 6 years ago

10.1097/MD.0000000000027058

Exploration of immune-related cells and ceRNA in squamous cell lung cancer
Cited by: 0
Author(s): Lijun Wang, Hao Wang, Ke Xu, Yehong Xu, Yong Wang, Wei Song, Zhihong Zhang
Software Mentions: 1
Published: almost 5 years ago

10.1007/s12032-021-01470-5

Identification BCL6 and miR-30 family associating with Ibrutinib resistance in activated B-cell-like diffuse large B-cell lymphoma
Cited by: 5
Author(s): Jiazheng Li, Yan Huang, Yun Zhang, Junping Wen, Yanxin Chen, Lingyan Wang, Peifang Jiang, Jianda Hu
Software Mentions: 1
Published: over 5 years ago

10.3390/membranes11090674

Bioinformatic Analysis of ABCA1 Gene Expression in Smoking and Chronic Obstructive Pulmonary Disease
Cited by: 4
Author(s): Stanislav Kotlyarov, Anna Kotlyarova
Software Mentions: 1
Published: almost 5 years ago

10.3390/metabo11040195

Metabolic Signature of Arrhythmogenic Cardiomyopathy
Cited by: 5
Author(s): Chiara Volani, Johannes Michael Rainer, Vinicius Veri Hernandes, Viviana Meraviglia, Peter P. Pramstaller, Sigurdur Smarason, Giulio Pompilio, Michela Casella, Elena Sommariva, Giuseppe Paglia, Alessandra Rossini
Software Mentions: 1
Published: over 5 years ago

10.3390/metabo10070268

Metabolic Signatures of Tumor Responses to Doxorubicin Elucidated by Metabolic Profiling in Ovo
Cited by: 17
Author(s): Iman W Achkar, Sara Abdul Kader, Shaima S. Dib, Kulsoom Junejo, Salha Bujassoum Al‐Bader, Shahina Hayat, Aditya Bhagwat, Xavier Rousset, Yan Wang, Jean Viallet, Karsten Suhre, Anna Halama
Software Mentions: 1
Published: about 6 years ago

10.3390/metabo11080481

Autophagy Deficiency by Atg4B Loss Leads to Metabolomic Alterations in Mice
Cited by: 4
Author(s): Gemma G. Martínez-García, Raúl Fernández Pérez, Álvaro F. Fernández, Sylvère Durand, Guido Kroemer, Guillermo Mariño
Software Mentions: 1
Published: about 5 years ago

10.1007/s11306-016-1084-8

Integration of targeted metabolomics and transcriptomics identifies deregulation of phosphatidylcholine metabolism in Huntington’s disease peripheral blood samples
Cited by: 40
Author(s): Anastasios Mastrokolias, René Pool, Eleni Mina, Kristina Hettne, Erik van Duijn, Roos C. van der Mast, Gert-Jan van Ommen, Peter A.C. ’t Hoen, Cornelia Prehn, Jerzy Adamski, Willeke van Roon-Mom
Software Mentions: 1
Published: about 10 years ago

10.3390/microarrays3040263

Expression Comparison of Oil Biosynthesis Genes in Oil Palm Mesocarp Tissue Using Custom Array
Cited by: 12
Author(s): Yick Ching Wong, Qi Bin Kwong, Heng Leng Lee, Chuang Kee Ong, Sean Mayes, Fook Tim Chew, David R. Appleton, Harikrishna Kulaveerasingam
Software Mentions: 1
Published: almost 12 years ago

10.3390/microarrays5020010

Stromal Activation by Tumor Cells: An in Vitro Study in Breast Cancer
Cited by: 5
Author(s): Giuseppe Merlino, Patrizia Miodini, Biagio Paolini, Maria Luisa Carcangiu, Massimiliano Gennaro, Matteo Dugo, Maria Grazia Daidone, Vera Cappelletti
Software Mentions: 1
Published: over 10 years ago

10.3390/v13061018

COVID-19 Severity Potentially Modulated by Cardiovascular-Disease-Associated Immune Dysregulation
Cited by: 6
Author(s): Abby C Lee, Grant Castaneda, Wei Tse Li, Chengyu Chen, Neil Shende, Jaideep Chakladar, Pam R. Taub, Eric Y. Chang, Weg M. Ongkeko
Software Mentions: 1
Published: about 5 years ago

10.12688/wellcomeopenres.15405.2

Functional and proteomic analysis of a full thickness filaggrin-deficient skin organoid model
Cited by: 11
Author(s): Martina S. Elias, S. Wright, William V. Nicholson, Kimberley Morrison, Alan R. Prescott, Sara ten Have, Phillip D. Whitfield, Angus I. Lamond, Sara J. Brown
Software Mentions: 1
Published: over 6 years ago

10.1186/1477-7819-10-264

MSH2 and CXCR4 involvement in malignant VIPoma
Cited by: 11
Author(s): Sven Müller, Susan Kupka, Ingmar Königsrainer, Hinnak Northoff, Karl Sotlar, C.‐Thomas Bock, Reinhard Kandolf, Frank Traub, Alfred Königsrainer, Derek Zieker
Software Mentions: 1
Published: over 13 years ago

10.1186/s12957-016-0997-z

Microarray data analysis to identify crucial genes regulated by CEBPB in human SNB19 glioma cells
Cited by: 14
Author(s): Chenghua Du, Pan Pan, Yan Jiang, Qiuli Zhang, Jinsuo Bao, Chang Liu
Software Mentions: 1
Published: almost 10 years ago

10.1186/s12957-021-02329-9

A novel prognostic model based on epithelial-mesenchymal transition-related genes predicts patient survival in gastric cancer
Cited by: 8
Author(s): Wanting Song, Yi Bai, Jia‐Lin Zhu, Fanxin Zeng, Chunmeng Yang, Beibei Hu, Mingjun Sun, Chenyan Li, Siyun Peng, Moye Chen, Xiaodi Sun
Software Mentions: 1
Published: about 5 years ago

10.1186/s12957-021-02360-w

Identification of latent biomarkers in connection with progression and prognosis in oral cancer by comprehensive bioinformatics analysis
Cited by: 12
Author(s): Abdusemer Reyimu, Ying Chen, Xudong Song, Wubi Zhou, Jingjing Dai, Feng Jiang
Software Mentions: 1
Published: about 5 years ago

10.1186/s12957-021-02335-x

Identification and verification of HCAR3 and INSL5 as new potential therapeutic targets of colorectal cancer
Cited by: 16
Author(s): Xuan Yang, Wangao Wei, Shuxin Tan, Lina Guo, Songlin Qiao, Biao Yao, Zi Wang
Software Mentions: 1
Published: almost 5 years ago

10.1097/j.pain.0000000000002033

Sex-dependent role of microglia in disulfide high mobility group box 1 protein-mediated mechanical hypersensitivity
Cited by: 32
Author(s): Nilesh M. Agalave, Resti Rudjito, Alex Bersellini Farinotti, Payam Emami Khoonsari, Katalin Sándor, Yuki Nomura, Thomas A. Szabo-Pardi, Carlos Morado Urbina, Vinko Palada, Theodore J. Price, Helena Erlandsson Harris, Michael D. Burton, Kim Kultima, Camilla I. Svensson
Software Mentions: 1
Published: about 6 years ago

10.1186/s13071-018-2822-8

The mosquito adulticidal Chromobacterium sp. Panama causes transgenerational impacts on fitness parameters and elicits xenobiotic gene responses
Cited by: 9
Author(s): Sarah M. Short, Sarah van Tol, Barry D. Smith, Yuemei Dong, George Dimopoulos
Software Mentions: 1
Published: over 8 years ago

10.1186/s13071-015-0844-z

Profiling of differentially expressed genes in sheep T lymphocytes response to an artificial primary Haemonchus contortus infection
Cited by: 9
Author(s): Yi Yang, Qianjin Zhou, Xue-Qiu Chen, Bowen Yan, Xing Guo, Hongli Zhang, Aifang Du
Software Mentions: 1
Published: over 11 years ago

10.1186/s13071-019-3672-8

Differential gene expression, including Sjfs800, in Schistosoma japonicum females at pre-pairing, initial pairing and oviposition
Cited by: 5
Author(s): Fengchun Liu, Han‐Fei Ding, Jiaming Tian, Congyu Zhou, Fei Yang, Wei Shao, Yinan Du, Xin Hou, Chao Ren, Jijia Shen
Software Mentions: 1
Published: almost 7 years ago

10.1155/2018/1590465

Microarray Analysis of the Molecular Mechanism Involved in Parkinson’s Disease
Cited by: 13
Author(s): Cheng Tan, Xiaoyang Liu, Jiajun Chen
Software Mentions: 1
Published: over 8 years ago

10.1186/s12989-016-0160-6

Copper oxide nanoparticle toxicity profiling using untargeted metabolomics
Cited by: 54
Author(s): Matthew Boyles, Christina Ranninger, Roland Reischl, Marc Rurik, Richard Tessadri, Oliver Kohlbacher, Albert Duschl, Christian G. Huber
Software Mentions: 1
Published: over 10 years ago

10.3390/pathogens9010069

Staphylococcus saprophyticus Proteomic Analyses Elucidate Differences in the Protein Repertories among Clinical Strains Related to Virulence and Persistence
Cited by: 6
Author(s): Karla Christina Sousa Silva, Lana O’Hara Souza Silva, Guilherme Algusto Alves Silva, Clayton Luiz Borges, Evandro Novaes, Juliano D. Paccez, Wagner Fontes, Márcia Giambiagi-deMarval, Célia Maria de Almeida Soares, Juliana Alves Parente-Rocha
Software Mentions: 1
Published: over 6 years ago

10.3389/pore.2021.581542

Tumor Inhibitory Effect of Long Non-coding RNA LOC100505817 on Gastric Cancer
Cited by: 1
Author(s): Lei Zheng, Liying Kang, Yan Cheng, Jun-Li Cao, Lijie Liu, Hongmei Xu, Lian Gao
Software Mentions: 1
Published: about 5 years ago

10.3389/pore.2021.596899

Identification of DNA-Repair-Related Five-Gene Signature to Predict Prognosis in Patients with Esophageal Cancer
Cited by: 7
Author(s): Lin Wang, Xueping Li, Liang Zhao, Longyang Jiang, Xinyue Song, Aoshuang Qi, Ting Chen, Mingyi Ju, Baohui Hu, Minjie Wei, Miao He, Lin Zhao
Software Mentions: 1
Published: over 5 years ago

10.3389/pore.2021.609620

Wnt3a/β-Catenin/CBP Activation in the Progression of Cervical Intraepithelial Neoplasia
Cited by: 1
Author(s): Dingqing Feng, Jie Lin, Wenhui Wang, Keqin Yan, Huaping Liang, Jing Liang, Huan Yu, Bin Ling
Software Mentions: 1
Published: over 5 years ago

10.7717/peerj.2839

Transcriptomic response of maize primary roots to low temperatures at seedling emergence
Cited by: 15
Author(s): Mauro Di Fenza, Bridget Hogg, Jim Grant, Susanne Barth
Software Mentions: 1
Published: over 9 years ago

10.7717/peerj.10830

The methylation level of TFAP2A is a potential diagnostic biomarker for retinoblastoma: an analytical validation study
Cited by: 4
Author(s): Qi Zeng, Sha Wang, Jia Tan, Lu Chen, Jinwei Wang
Software Mentions: 1
Published: over 5 years ago

10.7717/peerj.9086

Identification of key genes associated with progression and prognosis for lung squamous cell carcinoma
Cited by: 10
Author(s): Xu Ma, Hongyi Ren, Ruoyu Peng, Yi Li, Liang Ming
Software Mentions: 1
Published: over 6 years ago

10.7717/peerj.6375

Identification of special key genes for alcohol-related hepatocellular carcinoma through bioinformatic analysis
Cited by: 16
Author(s): Xiuzhi Zhang, Chunyan Kang, Ningning Li, Xiaoli Liu, Jinzhong Zhang, Fenglan Gao, Liping Dai
Software Mentions: 1
Published: over 7 years ago

10.7717/peerj.6645

Identification of key genes, pathways and potential therapeutic agents for liver fibrosis using an integrated bioinformatics analysis
Cited by: 24
Author(s): Zhu Zhan, Yuhe Chen, Yuanqin Duan, Lin Li, Kenley Mew, Peng Hu, Hong Ren, Mingli Peng
Software Mentions: 1
Published: over 7 years ago

10.7717/peerj.8096

Bioinformatic analysis identifies potentially key differentially expressed genes in oncogenesis and progression of clear cell renal cell carcinoma
Cited by: 12
Author(s): Haiping Zhang, Jian Zou, Ying Yin, Bo Zhang, Yaling Hu, Jingjing Wang, Hui‐Jun Mu
Software Mentions: 1
Published: over 6 years ago

10.7717/peerj.11375

Mining TCGA database for gene expression in ovarian serous cystadenocarcinoma microenvironment
Cited by: 5
Author(s): Youzheng Xu, Yixin Xu, Chun Wang, Baoguo Xia, Qingling Mu, Shaohong Luan, Jun Fan
Software Mentions: 1
Published: over 5 years ago

10.7717/peerj.2470

Integrated analysis of ischemic stroke datasets revealed sex and age difference in anti-stroke targets
Cited by: 22
Author(s): Wen‐Xing Li, Shao‐Xing Dai, Qian Wang, Yicheng Guo, Yi Hong, Junrong Zheng, Jia‐Qian Liu, Dahai Liu, Gong‐Hua Li, Jing‐Fei Huang
Software Mentions: 1
Published: almost 10 years ago

10.7717/peerj.6495

Integrated bioinformatics analysis of As, Au, Cd, Pb and Cu heavy metal responsive marker genes through <i>Arabidopsis thaliana</i> GEO datasets
Cited by: 14
Author(s): Chao Niu, Min Jiang, Na Li, Ji Cao, Meifang Hou, Di-An Ni
Software Mentions: 1
Published: over 7 years ago

10.7717/peerj.8021

Identification of key genes and long non-coding RNA associated ceRNA networks in hepatocellular carcinoma
Cited by: 15
Author(s): Jun Li, Wenli Li, Jian Zhang, Zhu Ma, Xiaoyan Wu, Lian Tang
Software Mentions: 1
Published: almost 7 years ago

10.7717/peerj.7831

Identification of a five-miRNA signature predicting survival in cutaneous melanoma cancer patients
Cited by: 18
Author(s): Tao Lu, Shuang Chen, Le Qu, Yunlin Wang, Hong‐Duo Chen, Chundi He
Software Mentions: 1
Published: almost 7 years ago

10.7717/peerj.9530

Analysis of prognostic genes in the tumor microenvironment of lung adenocarcinoma
Cited by: 19
Author(s): Zhanyu Xu, Mengli Zhao, Wenjie Chen, Kun Li, Fanglu Qin, Weiwei Xiang, Yu Sun, Jiangbo Wei, Liqiang Yuan, Shikang Li, Sheng-hua Lin
Software Mentions: 1
Published: about 6 years ago

10.7717/peerj.9120

Identifying hub genes of papillary thyroid carcinoma in the TCGA and GEO database using bioinformatics analysis
Cited by: 15
Author(s): Ying Wang, Xiaolian Zhang, Huilin Leng, Yin Wang, Weizhong Zeng, Congling Zhang
Software Mentions: 1
Published: about 6 years ago

10.7717/peerj.5363

Profile and clinical implication of circular RNAs in human papillary thyroid carcinoma
Cited by: 22
Author(s): Huihui Ren, Zhelong Liu, Siyue Liu, Xinrong Zhou, Hong Wang, Jinchao Xu, Daowen Wang, Gang Yuan
Software Mentions: 1
Published: about 8 years ago

10.1371/journal.pcbi.1002531

Viral Perturbations of Host Networks Reflect Disease Etiology
Cited by: 99
Author(s): Natali Gulbahce, Han Yan, Amélie Dricot, Megha Padi, Danielle Byrdsong, Rachel Franchi, Deok-Sun Lee, Orit Rozenblatt-Rosen, Jessica C. Mar, Michael A. Calderwood, Amy Baldwin, Bo Zhao, S. Balaji, Pascal Braun, Nicolas Simonis, Kyung-Won Huh, Karin Hellner, Miranda Grace, Alyce A. Chen, Renee Rubio, Jarrod A. Marto, Nicholas A. Christakis, Elliott Kieff, Frederick P. Roth, Jennifer Roecklein‐Canfield, James A. DeCaprio, Michael E. Cusick, John Quackenbush, David E. Hill, Karl Münger, Marc Vidal, Albert‐László Barabási
Software Mentions: 1
Published: about 14 years ago

10.1371/journal.pcbi.1003851

A Novel Model to Combine Clinical and Pathway-Based Transcriptomic Information for the Prognosis Prediction of Breast Cancer
Cited by: 70
Author(s): Sijia Huang, Cameron Yee, Travers Ching, Herbert Yu, Lana X. Garmire
Software Mentions: 1
Published: almost 12 years ago

10.1371/journal.pcbi.1007771

Bayesian integrative analysis of epigenomic and transcriptomic data identifies Alzheimer's disease candidate genes and networks
Cited by: 8
Author(s): Hans-Ulrich Klein, Martin Schäfer, David A. Bennett, Holger Schwender, Philip L. De Jager
Software Mentions: 1
Published: over 6 years ago

10.1371/journal.pcbi.1003572

Contribution of Network Connectivity in Determining the Relationship between Gene Expression and Metabolite Concentration Changes
Cited by: 62
Author(s): Aleksej Zelezniak, Steven D. Sheridan, Kiran Raosaheb Patil
Software Mentions: 1
Published: over 12 years ago

10.1371/journal.pcbi.1007197

Modeling cross-regulatory influences on monolignol transcripts and proteins under single and combinatorial gene knockdowns in Populus trichocarpa
Cited by: 9
Author(s): Megan L. Matthews, Jack Wang, Ronald R. Sederoff, Vincent L. Chiang, Cranos M. Williams
Software Mentions: 1
Published: over 6 years ago

10.1371/journal.pcbi.1002486

Microarray Analysis of LTR Retrotransposon Silencing Identifies Hdac1 as a Regulator of Retrotransposon Expression in Mouse Embryonic Stem Cells
Cited by: 57
Author(s): Judith Reichmann, James H Crichton, M Madej, Mary Taggart, Philippe Gautier, José L. García‐Pérez, Richard R. Meehan, Ian R. Adams
Software Mentions: 1
Published: over 14 years ago

10.1371/journal.pcbi.1004199

Modelling Circulating Tumour Cells for Personalised Survival Prediction in Metastatic Breast Cancer
Cited by: 14
Author(s): Gianluca Ascolani, Annalisa Occhipinti, Píetro Lió
Software Mentions: 1
Published: over 11 years ago

10.1371/journal.pgen.1007072

A mutation in the viral sensor 2’-5’-oligoadenylate synthetase 2 causes failure of lactation
Cited by: 15
Author(s): Samantha Oakes, David Gallego‐Ortega, Prudence M. Stanford, Simon Junankar, Wendy W.Y. Au, Zoya Kikhtyak, Anita von Korff, C. Marcelo Sergio, Andrew M. K. Law, Lesley Castillo, Stephanie L. Allerdice, Alex Young, Catherine Piggin, Belinda Whittle, Edward M. Bertram, Matthew J. Naylor, Daniel Roden, Jesse Donovan, Alexei Korennykh, Christopher C. Goodnow, Moira K O'Bryan, Christopher J. Ormandy
Software Mentions: 1
Published: almost 9 years ago

10.1371/journal.pgen.1000687

The Euchromatic and Heterochromatic Landscapes Are Shaped by Antagonizing Effects of Transcription on H2A.Z Deposition
Cited by: 119
Author(s): Sara Hardy, Pierre-Étienne Jacques, Nicolas Gévry, Audrey Forest, Marie-Ève Fortin, Liette Laflamme, Luc Gaudreau, François Robert
Software Mentions: 1
Published: almost 17 years ago

10.1371/journal.pgen.1006752

The co-existence of transcriptional activator and transcriptional repressor MEF2 complexes influences tumor aggressiveness
Cited by: 38
Author(s): Eros Di Giorgio, Elisa Franforte, Sebastiano Cefalù, Sabrina Rossi, Angelo Paolo Dei Tos, Monica Brenca, Maurizio Polano, Roberta Maestro, Harikrishnareddy Paluvai, Raffaella Picco, Claudio Brancolini
Software Mentions: 1
Published: over 9 years ago

10.1371/journal.pgen.1005334

Epigenetic Aging Signatures Are Coherently Modified in Cancer
Cited by: 94
Author(s): Qiong Lin, Wolfgang Wagner
Software Mentions: 1
Published: about 11 years ago

10.1371/journal.pgen.1008600

The coordinate actions of calcineurin and Hog1 mediate the stress response through multiple nodes of the cell cycle network
Cited by: 10
Author(s): Cassandra M. Leech, Mackenzie J. Flynn, Heather E. Arsenault, Jianhong Ou, Haibo Li, Lihua Julie Zhu, Jennifer A. Benanti
Software Mentions: 1
Published: over 6 years ago

10.1371/journal.pgen.1005232

Cell Cycle Control by the Master Regulator CtrA in Sinorhizobium meliloti
Cited by: 88
Author(s): Francesco Pini, Nicole J. De Nisco, Lorenzo Ferri, Jon Penterman, Antonella Fioravanti, Matteo Brilli, Alessio Mengoni, Marco Bazzicalupo, Patrick H. Viollier, Graham C. Walker, Emanuele G. Biondi
Software Mentions: 1
Published: over 11 years ago

10.1371/journal.pgen.1001120

Genetic Deletion of the Desmosomal Component Desmoplakin Promotes Tumor Microinvasion in a Mouse Model of Pancreatic Neuroendocrine Carcinogenesis
Cited by: 50
Author(s): Matthew G. H. Chun, Douglas Hanahan
Software Mentions: 1
Published: almost 16 years ago

10.1371/journal.pgen.1000982

Arabidopsis thaliana Chromosome 4 Replicates in Two Phases That Correlate with Chromatin State
Cited by: 68
Author(s): Tae Jin Lee, Pete E. Pascuzzi, Sharon B. Settlage, Randall W. Shultz, Miloš Tanurdžić, Pablo D. Rabinowicz, Margit Menges, Ping Zheng, Dorrie Main, James A. H. Murray, Bryon Sosinski, George C. Allen, Robert A. Martienssen, Linda Hanley‐Bowdoin, Matthew Vaughn, William F. Thompson
Software Mentions: 1
Published: about 16 years ago

Projects: bioconductor: limma

Science Score: 78/100

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Papers Mentioning limma 7,776