bioconductor: limma | Projects | Ecosyste.ms: Papers

10.1016/j.isci.2021.102722

Stratification of patients with clear cell renal cell carcinoma to facilitate drug repositioning
Cited by: 8
Author(s): Xiangyu Li, Woonghee Kim, Kajetan Juszczak, Muhammad Arif, Yusuke Sato, Haruki Kume, Seishi Ogawa, Hasan Türkez, Jan Borén, Jens Nielsen, Mathias Uhlén, Cheng Cheng Zhang, Adil Mardinoğlu
Software Mentions: 3
Published: about 5 years ago

10.18632/oncotarget.6678

Genetic deletion of osteopontin in TRAMP mice skews prostate carcinogenesis from adenocarcinoma to aggressive human-like neuroendocrine cancers
Cited by: 8
Author(s): Giorgio Mauri, Elena Jachetti, Barbara Comuzzi, Matteo Dugo, Ivano Arioli, Silvia Miotti, Sabina Sangaletti, Emma Di Carlo, Claudio Tripodo, Mario P. Colombo
Software Mentions: 3
Published: over 10 years ago

10.18632/oncotarget.7262

miR-451a is underexpressed and targets AKT/mTOR pathway in papillary thyroid carcinoma
Cited by: 72
Author(s): Emanuela Minna, Paola Romeo, Matteo Dugo, Loris De Cecco, Katia Todoerti, Silvana Pilotti, Francesco Perrone, Ettore Seregni, Luca Agnelli, Antonino Neri, Angela Greco, Maria Grazia Borrello
Software Mentions: 3
Published: over 10 years ago

10.18632/oncotarget.8148

Challenges in detecting pre-malignant pancreatic lesions during acute pancreatitis using a serum microRNA assay: a study based on <i>KrasG12D</i> transgenic mice
Cited by: 8
Author(s): Xiafei Hong, Jie Zhang, Qiao Wu, Wenze Wang, Adam Yongxin Ye, Wei Song, Hongmei Dai, Xiaohong Wang, Fan Wu, Lei You, Wenming Wu, Yupei Zhao
Software Mentions: 3
Published: over 10 years ago

10.18632/oncotarget.8713

Integrative transcriptome analysis identifies deregulated microRNA-transcription factor networks in lung adenocarcinoma
Cited by: 43
Author(s): Naiara da Costa Cinegaglia, Sónia C. S. Andrade, Tomáš Tokár, Maísa Pinheiro, Fabio Severino, Rogério Antônio de Oliveira, Érica Nishida Hasimoto, Daniele Cristina Catâneo, Antônio José Maria Catâneo, Júlio Defaveri, Cleonilson Protásio de Souza, Márcia Maria Chiquitelli Marques, Robson Francisco Carvalho, Luiz Lehmann Coutinho, Jefferson Luiz Gross, Sílvia Regina Rogatto, Wan L. Lam, Igor Jurišica, Patrícia P. Reis
Software Mentions: 3
Published: over 10 years ago

10.18632/oncotarget.9037

Integrative analysis reveals clinical phenotypes and oncogenic potentials of long non-coding RNAs across 15 cancer types
Cited by: 16
Author(s): Zelin Wang, Bin Li, Stephen R. Piccolo, Xiaoqin Zhang, Junhao Li, Hui Zhou, Jianhua Yang, Liang‐Hu Qu
Software Mentions: 3
Published: over 10 years ago

10.18632/oncotarget.9982

Deregulation of polycomb repressor complex 1 modifier AUTS2 in T-cell leukemia
Cited by: 14
Author(s): Stefan Nagel, Claudia Pommerenke, Corinna Meyer, Maren Kaufmann, Hans G. Drexler, Roderick A.F. MacLeod
Software Mentions: 3
Published: over 10 years ago

10.18632/oncotarget.10002

Assessing the clinical utility of genomic expression data across human cancers
Cited by: 6
Author(s): Xiayu Xu, Lei Huang, Chun Hei Chan, Tao Yu, Runchen Miao, Chang Liu
Software Mentions: 3
Published: over 10 years ago

10.18632/oncotarget.11524

Subclones in B-lymphoma cell lines: isogenic models for the study of gene regulation
Cited by: 6
Author(s): Hilmar Quentmeier, Claudia Pommerenke, Ole Ammerpohl, Robert Geffers, Vivien Hauer, Roderick A.F. MacLeod, Stefan Nagel, Julia Romani, Emanuela Rosati, Anders Rosén, Cord C. Uphoff, Margarete Zaborski, Hans Drexler
Software Mentions: 3
Published: about 10 years ago

10.18632/oncotarget.12063

Unique long non-coding RNA expression signature in ETV6/RUNX1-driven B-cell precursor acute lymphoblastic leukemia
Cited by: 30
Author(s): Farzaneh Ghazavi, Barbara De Moerloose, Wouter Van Loocke, Annelynn Wallaert, Hetty Helsmoortel, Alina Ferster, Marleen Bâkkus, Geneviève Plat, Éric Delabesse, Anne Uyttebroeck, Filip Van Nieuwerburgh, Dieter Deforce, Nadine Van Roy, Frank Speleman, Yves Benoît, Tim Lammens, Pieter Van Vlierberghe
Software Mentions: 3
Published: about 10 years ago

10.18632/oncotarget.10578

Circulating exosomes potentiate tumor malignant properties in a mouse model of chronic sleep fragmentation
Cited by: 49
Author(s): Abdelnaby Khalyfa, Isaac Almendros, Alex Gileles‐Hillel, Mahzad Akbarpour, Wojciech Trzépizur, Babak Mokhlesi, Lei Huang, Jorge Andrade, Ramón Farré, David Gozal
Software Mentions: 3
Published: about 10 years ago

10.18632/oncotarget.14330

c-Jun-N-terminal phosphorylation regulates DNMT1 expression and genome wide methylation in gliomas
Cited by: 20
Author(s): Dieter Henrik Heiland, Roberto Ferrarese, Rainer Claus, Fangping Dai, Anie P. Masilamani, Eva Kling, Astrid Weyerbrock, Teresia Kling, Sven Nelander, Maria Stella Carro
Software Mentions: 3
Published: over 9 years ago

10.18632/oncotarget.13181

OTX015 (MK-8628), a novel BET inhibitor, exhibits antitumor activity in non-small cell and small cell lung cancer models harboring different oncogenic mutations
Cited by: 38
Author(s): María E. Riveiro, Lucile Astorgues‐Xerri, Ramiro Vàzquez, Roberta Frapolli, Ivo Kwee, Andrea Rinaldi, Elodie Odore, Keyvan Rezai, Mohamed Békradda, Giorgio Inghirami, Maurizio D’Incalci, Kay Noel, Esteban Cvitkovic, Éric Raymond, Francesco Bertoni
Software Mentions: 3
Published: almost 10 years ago

10.18632/oncotarget.12276

Improving needle biopsy accuracy in small renal mass using tumor-specific DNA methylation markers
Cited by: 15
Author(s): Sameer Chopra, Jie Liu, Mehrdad Alemozaffar, Peter W. Nichols, Manju Aron, Daniel J. Weisenberger, Clayton K. Collings, Sumeet Syan, Brian Hu, Mihir Desai, Monish Aron, Vinay Duddalwar, Inderbir S. Gill, Gangning Liang, Kimberly D. Siegmund
Software Mentions: 3
Published: almost 10 years ago

10.18632/oncotarget.16252

Niclosamide is a potential therapeutic for familial adenomatosis polyposis by disrupting Axin-GSK3 interaction
Cited by: 26
Author(s): Ahn Sk, Nam Hee Kim, Kyungro Lee, Yong Hoon, Ji Hye Yang, So Young, Eunae Sandra Cho, Yoonmi Lee, Jeong Ho Seok, Hyun Soo Cho, Yongseok Jeon, Young Su Yuk, Suebean Cho, Kyoung Tai No, Hyun Sil Kim, Ho Lee, Jiwon Choi, Jong In Yook
Software Mentions: 3
Published: over 9 years ago

10.18632/oncotarget.16688

Chromatin state dynamics during NK cell activation
Cited by: 17
Author(s): Yang Li, Jin Wang, Jie Yin, Xinhua Liu, Minghang Yu, Ting Li, Yanping Han, Xi Wang
Software Mentions: 3
Published: over 9 years ago

10.18632/oncotarget.16638

Overexpression of the transcription factor ATF3 with a regulatory molecular signature associates with the pathogenic development of colorectal cancer
Cited by: 25
Author(s): Feng Yan, Le Ying, Xiaofang Li, Bin Qiao, Qiaohong Meng, Liang Yu, Xiangliang Yuan, Shu Ting Ren, David W. Chan, Liyun Shi, Peihong Ni, Xuefeng Wang, Dakang Xu, Yiqun Hu
Software Mentions: 3
Published: over 9 years ago

10.1186/s12967-016-0913-x

Longitudinal study of DNA methylation during the first 5 years of life
Cited by: 29
Author(s): Rocío G. Urdinguio, María Isabel Torró, Gustavo F. Bayón, Julio Álvarez, Agustín F. Fernández, P. Redon, Mario F. Fraga, Empar Lurbe
Software Mentions: 3
Published: over 10 years ago

10.1186/s12967-021-02708-6

HELQ and EGR3 expression correlate with IGHV mutation status and prognosis in chronic lymphocytic leukemia
Cited by: 1
Author(s): Chao Guo, Ya-yue Gao, Qianqian Ju, Chunxia Zhang, Ming Gong, Zhenling Li
Software Mentions: 3
Published: over 5 years ago

10.1186/s12967-020-02366-0

Development and validation of a hypoxia-immune-based microenvironment gene signature for risk stratification in gastric cancer
Cited by: 59
Author(s): Yifan Liu, Jianhua Wu, Weiwei Huang, Shao‐Wen Weng, Baochun Wang, Yiming Chen, Hao Wang
Software Mentions: 3
Published: over 6 years ago

10.1186/s12967-016-0886-9

Serum microRNA-1233 is a specific biomarker for diagnosing acute pulmonary embolism
Cited by: 33
Author(s): Thorsten Kessler, Jeanette Erdmann, Baiba Vilne, Petra Bruse, Volkhard Kurowski, Patrick Diemert, Heribert Schunkert, Hendrik B. Sager
Software Mentions: 3
Published: over 10 years ago

10.1186/s12967-019-1954-8

EV-associated miRNAs from peritoneal lavage as potential diagnostic biomarkers in colorectal cancer
Cited by: 27
Author(s): Berta Roman‐Canal, Jordi Tarragona, Cristian P. Moiola, Sònia Gatius, Sarah Bonnin, Maria Ruiz‐Miró, José Enrique Sierra, M. Rufas, Esperanza González, José M. Porcel, Antonio Gil‐Moreno, Juan M Falcón-Pérez, Julia Ponomarenko, Xavier Matías‐Guiu, Eva Colás
Software Mentions: 3
Published: about 7 years ago

10.1186/s12967-018-1650-0

p53 modeling as a route to mesothelioma patients stratification and novel therapeutic identification
Cited by: 8
Author(s): Kun Tian, Emyr Bakker, Michelle Hussain, Alice Guazzelli, Hasen Alhebshi, Parisa Meysami, Constantinos Demonacos, Jean-Marc Schwartz, Luciano Mutti, Marija Krstic‐Demonacos
Software Mentions: 3
Published: almost 8 years ago

10.1186/s12967-019-1932-1

RETRACTED ARTICLE: Overexpression of microRNA-195-5p reduces cisplatin resistance and angiogenesis in ovarian cancer by inhibiting the PSAT1-dependent GSK3β/β-catenin signaling pathway
Cited by: 53
Author(s): Jun Dai, Rujia Wei, Peihai Zhang, Beihua Kong
Software Mentions: 3
Published: over 7 years ago

10.1186/s12967-021-02845-y

Identification of an immune classification for cervical cancer and integrative analysis of multiomics data
Cited by: 7
Author(s): Xintong Lyu, Guang Li, Qiao Qiao
Software Mentions: 3
Published: over 5 years ago

10.1155/2019/2841814

RNA-seq Reveals Dysregulation of Novel Melanocyte Genes upon Oxidative Stress: Implications in Vitiligo Pathogenesis
Cited by: 21
Author(s): Konduru S. Sastry, Haroon Naeem, Younes Mokrab, Aouatef Ismail Chouchane
Software Mentions: 3
Published: almost 7 years ago

10.1523/ENEURO.0226-19.2019

Mega-Analysis of Gene Expression in Mouse Models of Alzheimer’s Disease
Cited by: 6
Author(s): Beryl Zhuang, B. Ogan Mancarci, Lilah Toker, Paul Pavlidis
Software Mentions: 3
Published: almost 7 years ago

10.1523/ENEURO.0287-18.2018

Overweight Mice Show Coordinated Homeostatic and Hedonic Transcriptional Response across Brain
Cited by: 0
Author(s): Ilario De Toma, Ilona Grabowicz, Marta Fructuoso, Daniel Trujillano, Bartek Wilczyński, Mara Dierssen
Software Mentions: 3
Published: almost 8 years ago

10.3390/nu13082521

A Convergent Functional Genomics Analysis to Identify Biological Regulators Mediating Effects of Creatine Supplementation
Cited by: 5
Author(s): Diego A. Bonilla, Yurany Moreno, Eric S. Rawson, Diego A. Forero, Jeffrey R. Stout, Chad M. Kerksick, Michael D. Roberts, Richard B. Kreider
Software Mentions: 3
Published: about 5 years ago

10.3390/nu13051413

Individuals Diagnosed with Binge-Eating Disorder Have DNA Hypomethylated Sites in Genes of the Metabolic System: A Pilot Study
Cited by: 4
Author(s): Mariana Lizbeth Rodríguez-López, José Jaime Martínez‐Magaña, David Ruiz‐Ramos, Ana Rosa Sepúlveda García, Laura González, Carlos Alfonso Tóvilla-Zárate, Emmanuel Sarmiento, Isela Esther Juárez‐Rojop, Humberto Nicolini, Thelma Beatriz González‐Castro, Alma Delia Genis‐Mendoza
Software Mentions: 3
Published: over 5 years ago

10.3390/nu10040455

A Low Glycaemic Index Diet in Pregnancy Induces DNA Methylation Variation in Blood of Newborns: Results from the ROLO Randomised Controlled Trial
Cited by: 28
Author(s): Aisling A. Geraghty, Alexandra Sexton-Oates, Eileen C. O’Brien, Goiuri Alberdi, Peter Fransquet, Richard Saffery, Fionnuala M. McAuliffe
Software Mentions: 3
Published: over 8 years ago

10.1038/s41598-020-58923-6

The Golgi Glycoprotein MGAT4D is an Intrinsic Protector of Testicular Germ Cells From Mild Heat Stress
Cited by: 8
Author(s): Ayodélé Akintayo, Meng Liang, Boris Bartholdy, Frank Batista, Jennifer Aguilan, Jillian Prendergast, Afsana Sabrin, Subha Sundaram, Pamela Stanley
Software Mentions: 2
Published: over 6 years ago

10.1038/s41598-020-59186-x

Target prediction and validation of microRNAs expressed from FSHR and aromatase genes in human ovarian granulosa cells
Cited by: 16
Author(s): Ilmatar Rooda, Kati Hensen, Birgitta Kaselt, Sergo Kasvandik, Martin Pook, Ants Kurg, Andres Salumets, Agne Velthut-Meikas
Software Mentions: 2
Published: over 6 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

10.1038/s41598-020-59259-x

Downregulation of peripheral PTGS2/COX-2 in response to valproate treatment in patients with epilepsy
Cited by: 20
Author(s): Chitra Rawat, Rintu Kutum, Samiksha Kukal, Ankit Srivastava, Ujjwal Ranjan Dahiya, Suman Kushwaha, Sangeeta Sharma, Debasis Dash, Luciano Saso, Achal K. Srivastava, Ritushree Kukreti
Software Mentions: 2
Published: over 6 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

10.1186/s12916-020-01735-2

Considerations for target oxygen saturation in COVID-19 patients: are we under-shooting?
Cited by: 82
Author(s): Niraj Shenoy, Rebecca A. Luchtel, Perminder Gulani
Software Mentions: 2
Published: about 6 years ago

10.1186/s12935-020-01572-6

Integrated analysis of immune-related genes in endometrial carcinoma
Cited by: 9
Author(s): Yiru Wang, Yunduo Liu, Yue Guan, Hao Li, Yuan Liu, Mengjun Zhang, Ping Cui, Dan Kong, Xiuwei Chen, Hang Yin
Software Mentions: 2
Published: almost 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

10.1186/s12916-021-02044-y

Oral vitamin D supplementation induces transcriptomic changes in rectal mucosa that are linked to anti-tumour effects
Cited by: 6
Author(s): P G Vaughan-Shaw, Graeme R. Grimes, James P. Blackmur, Maria Timofeeva, Marion Walker, Li Yin Ooi, Victoria Svinti, Kevin Donnelly, Farhat V N Din, Susan M. Farrington, Malcolm Dunlop
Software Mentions: 2
Published: about 5 years ago

10.1038/s41598-020-60480-x

High WBP5 expression correlates with elevation of HOX genes levels and is associated with inferior survival in patients with acute myeloid leukaemia
Cited by: 8
Author(s): Carl Ward, Pierre Cauchy, Paloma García, Jonathan Frampton, Miguel A. Esteban, Giacomo Volpe
Software Mentions: 2
Published: over 6 years ago

10.1523/ENEURO.0313-19.2020

Registered Report: Transcriptional Analysis of Savings Memory Suggests Forgetting is Due to Retrieval Failure
Cited by: 0
Author(s): Tania Rosiles, Melissa Nguyen, Monica Duron, Annette Garcia, George Garcia, Hannah Gordon, Lorena Juarez, Irina Calin‐Jageman, Robert Calin-Jageman
Software Mentions: 2
Published: about 6 years ago

10.1016/j.placenta.2010.10.010

Genome-wide expression profile of first trimester villous and extravillous human trophoblast cells
Cited by: 114
Author(s): Richard Apps, Andrew Sharkey, Lucy Gardner, Victoria Male, Matthew Trotter, Nigel Miller, Robyn A. North, Sandra A. Founds, Ashley Moffett
Software Mentions: 2
Published: over 15 years ago

10.3389/fcell.2020.00649

Identification of a TLR-Induced Four-lncRNA Signature as a Novel Prognostic Biomarker in Esophageal Carcinoma
Cited by: 14
Author(s): Jing Liu, Han Li, Yanjie Chu, Ruiling Xu, Dekai Zhang, Xinhong Wang
Software Mentions: 2
Published: about 6 years ago

10.1186/s12935-021-01797-z

MicroRNA-1182 and let-7a exert synergistic inhibition on invasion, migration and autophagy of cholangiocarcinoma cells through down-regulation of NUAK1
Cited by: 16
Author(s): Xin Pan, Gang Wang, Baoming Wang
Software Mentions: 2
Published: over 5 years ago

10.1038/s41598-020-61016-z

Gene regulatory network analysis with drug sensitivity reveals synergistic effects of combinatory chemotherapy in gastric cancer
Cited by: 6
Author(s): Jeong Hoon Lee, Yu Rang Park, Min-A Jung, Sun Gyo Lim
Software Mentions: 2
Published: over 6 years ago

10.1038/s41598-020-61162-4

Identification of the key genes and pathways involved in the tumorigenesis and prognosis of kidney renal clear cell carcinoma
Cited by: 36
Author(s): Hao Cui, Hong‐Wei Shan, Michael Z. Miao, Zhiguo Jiang, Yuanyuan Meng, Ran Chen, Longzhen Zhang, Yong Liu
Software Mentions: 2
Published: over 6 years ago

10.1186/s12935-020-1140-3

Identification of molecular markers associated with the progression and prognosis of endometrial cancer: a bioinformatic study
Cited by: 12
Author(s): Jinhui Liu, Mingming Feng, Siyue Li, Song Nie, Hui Wang, Shan Wu, Jiangnan Qiu, Jie Zhang, Wenjun Cheng
Software Mentions: 2
Published: over 6 years ago

10.1038/s41598-020-61508-y

Hepamine - A Liver Disease Microarray Database, Visualization Platform and Data-Mining Resource
Cited by: 5
Author(s): Timo Itzel, M Neubauer, Matthias Ebert, Matthias Evert, Andreas Teufel
Software Mentions: 2
Published: over 6 years ago

10.1038/s41598-020-61638-3

Analysis of L-arginine:glycine amidinotransferase-, creatine- and homoarginine-dependent gene regulation in the murine heart
Cited by: 5
Author(s): Märit Jensen, Christian Müller, Chi‐un Choe, Edzard Schwedhelm, Tanja Zeller
Software Mentions: 2
Published: over 6 years ago

10.1038/s41598-020-61723-7

Evaluation of bile salt hydrolase inhibitor efficacy for modulating host bile profile and physiology using a chicken model system
Cited by: 9
Author(s): Wenjing Geng, Sarah L. Long, Yun‐Juan Chang, Arnold M. Saxton, Susan A. Joyce, Jun Lin
Software Mentions: 2
Published: over 6 years ago

10.18632/oncotarget.7396

Transcriptomic analysis of aggressive meningiomas identifies PTTG1 and LEPR as prognostic biomarkers independent of WHO grade
Cited by: 32
Author(s): Melissa Schmidt, Andreas Möck, Christine Jungk, Felix Sahm, Anna Theresa Ull, Rolf Warta, Katrin Lamszus, Konstantinos Gousias, Ralf Ketter, Saskia Roesch, Carmen Rapp, Sebastian Schefzyk, Steffi Urbschat, Bernd Lahrmann, Almuth F. Keßler, Mario Löhr, Christian Senft, Niels Grabe, David Reuß, Philipp Beckhove, Manfred Westphal, Andreas von Deimling, Andreas Unterberg, Matthias Simon, Christel Herold‐Mende
Software Mentions: 2
Published: over 10 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

10.1016/j.omtn.2018.05.003

Differential Co-expression and Regulatory Network Analysis Uncover the Relapse Factor and Mechanism of T Cell Acute Leukemia
Cited by: 18
Author(s): Mei Luo, Qiong Zhang, Mengxuan Xia, Feifei Hu, Zhaowu Ma, Zehua Chen, An‐Yuan Guo
Software Mentions: 2
Published: about 8 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

10.1016/j.omtm.2020.04.017

Novel Non-integrating DNA Nano-S/MAR Vectors Restore Gene Function in Isogenic Patient-Derived Pancreatic Tumor Models
Cited by: 15
Author(s): Matthias Bozza, Edward W. Green, Elisa Espinet, Alice De Roia, Corinna Klein, Vanessa Vogel, Rienk Offringa, James A. Williams, Martin R. Sprick, Richard P. Harbottle
Software Mentions: 2
Published: over 6 years ago

10.1186/s12967-020-02492-9

A hypoxia-related signature for clinically predicting diagnosis, prognosis and immune microenvironment of hepatocellular carcinoma patients
Cited by: 93
Author(s): Baohui Zhang, Bufu Tang, Jianyao Gao, Jiatong Li, Lingming Kong, Ling Qin
Software Mentions: 2
Published: about 6 years ago

10.1186/s12916-015-0489-y

RNY-derived small RNAs as a signature of coronary artery disease
Cited by: 32
Author(s): Emanuela Repetto, Laeticia Lichtenstein, Zoheir Hizir, Nedra Tekaya, Mohamed Benahmed, Jean‐Bernard Ruidavets, Laure‐Emmanuelle Zaragosi, Bertrand Fougère, Laura Bouchareychas, Annelise Genoux, Romain Lotte, Raymond Ruimy, Jean Ferrières, Pascal Barbry, Laurent O. Martinez, Michèle Trabucchi
Software Mentions: 2
Published: almost 11 years ago

10.1186/1471-2334-13-393

Vitamin B6 reduces hippocampal apoptosis in experimental pneumococcal meningitis
Cited by: 22
Author(s): Denise C. Zysset-Burri, Caroline L. Bellac, Stephen L. Leib, Matthias Wittwer
Software Mentions: 2
Published: about 13 years ago

10.1016/j.omtm.2020.06.008

Quantitative Hybrid Cardiac [18F]FDG-PET-MRI Images for Assessment of Cardiac Repair by Preconditioned Cardiosphere-Derived Cells
Cited by: 9
Author(s): Johannes Winkler, Dominika Lukovic, Julia Mester-Tonczar, Katrin Zlabinger, Alfred Gugerell, Noémi Pávó, András Jakab, Zsuzsanna Szankai, Denise Traxler, Cláudia Müller, Andreas Spannbauer, Martin Riesenhuber, Ena Hašimbegović, James Dawkins, Matthias Zimmermann, Hendrik Jan Ankersmit, Eduardo Marbán, Mariann Gyöngyösi
Software Mentions: 2
Published: about 6 years ago

10.1186/1755-8794-4-30

Identification of SERPINA1 as single marker for papillary thyroid carcinoma through microarray meta analysis and quantification of its discriminatory power in independent validation
Cited by: 41
Author(s): Klemens Vierlinger, Markus Mansfeld, Oskar Koperek, Christa Nöhammer, Klaus Kaserer, Friedrich Leisch
Software Mentions: 2
Published: over 15 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

10.1371/journal.pone.0203713

MicroRNAs and histone deacetylase inhibition-mediated protection against inflammatory β-cell damage
Cited by: 16
Author(s): Anna L. Vestergaard, Claus Heiner Bang-Berthelsen, Tina Fløyel, Jonathan Stahl, Lisa Christen, Farzaneh Taheri Sotudeh, Peter de Hemmer Horskjær, Klaus Stensgaard Frederiksen, Frida Greek Kofod, Christine Bruun, Lukas Adrian Berchtold, Joachim Størling, Romano Regazzi, Simranjeet Kaur, Flemming Pociot, Thomas Mandrup‐Poulsen
Software Mentions: 2
Published: almost 8 years ago

10.1038/s41598-020-64865-w

The early local and systemic Type I interferon responses to ultraviolet B light exposure are cGAS dependent
Cited by: 44
Author(s): Sladjana Skopelja-Gardner, Jie An, Joyce Tai, Lena Tanaka, Xizhang Sun, Payton Hermanson, Rebecca Baum, Masaoki Kawasumi, Richard Green, Michael Gale, Andrea Kalus, Victoria P. Werth, Keith B. Elkon
Software Mentions: 2
Published: over 6 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

10.15252/msb.20209506

Integrated regulatory models for inference of subtype‐specific susceptibilities in glioblastoma
Cited by: 3
Author(s): Yunpeng Liu, Ning Shi, Aviv Regev, Shan He, Michael T. Hemann
Software Mentions: 2
Published: about 6 years ago

10.3389/fphar.2020.575765

Regulatory Master Genes Identification and Drug Repositioning by Integrative mRNA-miRNA Network Analysis for Acute Type A Aortic Dissection
Cited by: 7
Author(s): Junjun Fang, Zongfu Pan, Hao Yu, Shuanying Yang, Xiaoping Hu, Xiaoyang Lu, Li Lü
Software Mentions: 2
Published: over 5 years ago

10.1038/s41598-020-65438-7

Nuclear Parkin Activates the ERRα Transcriptional Program and Drives Widespread Changes in Gene Expression Following Hypoxia
Cited by: 14
Author(s): Sarah E. Shires, Justin M. Quiles, Rita H. Najor, Leonardo J Leon, Melissa Q. Cortez, Mark A Lampert, Adam Mark, Åsa B. Gustafsson
Software Mentions: 2
Published: over 6 years ago

10.1186/1471-2334-10-10

Modulation of hepatic PPAR expression during Ft LVS LPS-induced protection from Francisella tularensis LVS infection
Cited by: 8
Author(s): Saroj Kant Mohapatra, Leah E. Cole, Clive Evans, Bruno W. S. Sobral, Josep Bassaganya‐Riera, Raquel Hontecillas, Stefanie N. Vogel, Oswald Crasta
Software Mentions: 2
Published: over 16 years ago

10.15252/msb.20178131

Quantifying compartment‐associated variations of protein abundance in proteomics data
Cited by: 10
Author(s): Luca Parca, Martin Beck, Peer Bork, Alessandro Ori
Software Mentions: 2
Published: about 8 years ago

10.3389/fphar.2021.693982

Resveratrol Alleviates Dextran Sulfate Sodium-Induced Acute Ulcerative Colitis in Mice by Mediating PI3K/Akt/VEGFA Pathway
Cited by: 12
Author(s): Fang Zhu, Jujia Zheng, Fang Xu, Yiyuan Xi, Jun Chen, Xiaorong Xu
Software Mentions: 2
Published: about 5 years ago

10.1186/s12935-021-01789-z

Construction of a competitive endogenous RNA network and analysis of potential regulatory axis targets in glioblastoma
Cited by: 5
Author(s): Kai Yu, Huan Yang, Qiao‐Li Lv, Li-chong Wang, Zilong Tan, Zhe Zhang, Yulong Ji, Qian-xia Lin, Junjun Chen, Wei He, Zhe Chen, Xiaoli Shen
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

10.14814/phy2.13871

A transcriptomics model of estrogen action in the ovine fetal hypothalamus: evidence for estrogenic effects of ICI 182,780
Cited by: 4
Author(s): María Belén Rabaglino, Maureen Keller‐Wood, Charles E. Wood
Software Mentions: 2
Published: about 8 years ago

10.3389/fgene.2021.707305

Systematic Analysis Identifies a Specific RNA-Binding Protein-Related Gene Model for Prognostication and Risk-Adjustment in HBV-Related Hepatocellular Carcinoma
Cited by: 8
Author(s): Maoshi Li, LIU Zhongwei, Jing Wang, Huimin Liu, Hongmei Gong, Shilian Li, Ming Jia, Qing Mao
Software Mentions: 2
Published: about 5 years ago

10.1186/s12864-019-6283-z

StressGenePred: a twin prediction model architecture for classifying the stress types of samples and discovering stress-related genes in arabidopsis
Cited by: 3
Author(s): Dong‐Won Kang, Hongryul Ahn, Sangseon Lee, Chai-Jin Lee, Jihye Hur, Wi Hoon Jung, Sun Kim
Software Mentions: 2
Published: almost 7 years ago

10.1186/s12935-019-0977-9

Inactivation of the Wnt/β-catenin signaling pathway underlies inhibitory role of microRNA-129-5p in epithelial–mesenchymal transition and angiogenesis of prostate cancer by targeting ZIC2
Cited by: 19
Author(s): Zhenming Jiang, Yuxi Zhang, Xi Chen, Pingeng Wu, Dong Chen
Software Mentions: 2
Published: almost 7 years ago

10.3389/fphar.2019.00385

DNMT Inhibitors Increase Methylation in the Cancer Genome
Cited by: 61
Author(s): Anil Giri, Tero Aittokallio
Software Mentions: 2
Published: over 7 years ago

10.1186/s12935-020-01488-1

Analyzing the lncRNA, miRNA, and mRNA-associated ceRNA networks to reveal potential prognostic biomarkers for glioblastoma multiforme
Cited by: 18
Author(s): Xiaolong Zhu, Lan Jiang, Hui Yang, Tianbing Chen, Xiang Wu, Kun Lv
Software Mentions: 2
Published: about 6 years ago

10.1186/s12935-021-02138-w

NCAPG promotes the progression of lung adenocarcinoma via the TGF-β signaling pathway
Cited by: 20
Author(s): Yun Wu, Ying Lin, Junfan Pan, Xunwei Tu, Yiquan Xu, Hongru Li, Yu‐Sheng Chen
Software Mentions: 2
Published: about 5 years ago

10.1186/s12935-020-1141-2

Depletion of histone methyltransferase KMT9 inhibits lung cancer cell proliferation by inducing non-apoptotic cell death
Cited by: 18
Author(s): Hannah Maria Baumert, Eric Metzger, Matthias Fahrner, Julie George, Roman K. Thomas, Oliver Schilling, Roland Schüle
Software Mentions: 2
Published: over 6 years ago

10.1186/s12920-021-00894-2

Integrated analysis of differentially expressed genes and construction of a competing endogenous RNA network in human Huntington neural progenitor cells
Cited by: 3
Author(s): Xiaoping Tan, Yang Liu, Taiming Zhang, Shuyan Cong
Software Mentions: 2
Published: over 5 years ago

10.1186/s12935-021-01824-z

Immune subtyping for pancreatic cancer with implication in clinical outcomes and improving immunotherapy
Cited by: 13
Author(s): Jing-Kai Liu, Qiaofei Liu, Xiang Zhang, Ming Cui, Tong Li, Yalu Zhang, Quan Liao
Software Mentions: 2
Published: over 5 years ago

10.15252/msb.20145120

Pathway connectivity and signaling coordination in the yeast stress‐activated signaling network
Cited by: 82
Author(s): Deborah Chasman, Yi-Hsuan Ho, David B. Berry, Corey M. Nemec, Matthew E. MacGilvray, James Hose, Anna E. Merrill, M Violet Lee, Jessica L. Will, Joshua J. Coon, Aseem Z. Ansari, Mark Craven, Audrey P. Gasch
Software Mentions: 2
Published: almost 12 years ago

10.1371/journal.pone.0121104

Lessons Learned from Whole Exome Sequencing in Multiplex Families Affected by a Complex Genetic Disorder, Intracranial Aneurysm
Cited by: 32
Author(s): Janice L. Farlow, Hai Lin, Laura Sauerbeck, Dongbing Lai, Daniel L. Koller, Elizabeth Pugh, Kurt N. Hetrick, Hua Ling, Rachel Kleinloog, Pieter van der Vlies, Patrick Deelen, Morris A. Swertz, Bon H. Verweij, Luca Regli, Gabriël J.E. Rinkel, Ynte M. Ruigrok, Kimberly F. Doheny, Yunlong Liu, Tatiana Foroud, Joseph P. Broderick, Daniel Woo, Brett M. Kissela, Dawn Kleindorfer, Alex Schneider, Mario Zuccarello, Andrew J. Ringer, Ranjan Deka, Robert D. Brown, John Huston, Irene Mesissner, David O. Wiebers, Adnan I. Qureshi, Peter A. Rasmussen, E. Sander Connolly, Ralph L. Sacco, Marc Malkaff, Troy D. Payner, Gary G. Ferguson, E. François Aldrich, Guy A. Rouleau, Craig S. Anderson, Edward Mee, Graeme J. Hankey, Neville W. Knuckey, Peter Reilly, John D. Laidlaw, Paul D’Urso, Jeffrey V. Rosenfeld, M. Morgan, Nicholas W.C. Dorsch, Michael Besser, H. Hunt Batjer, Marie-Claude Richard, Amin Kassam, Gary K. Steinberg, S. Claiborne Johnston, Nerissa Ko, Steven L. Giannotta, Neal F. Kassell, Bradford B. Worrall, Kenneth C. Lui, Aaron S. Dumont, David L. Tirschell, Anthony M. Kaufmann, Winfield S. Fisher, Khaled Aziz, Arthur L. Day, Rose Du, Christopher S. Ogilvy, Stephen B. Lewis, Kieran Murphy, Martin G. Radvany, Dheerah Gandhi, Lynda Lisabeth, Aditya S. Pandey, Lewis B. Morgenstern, Colin P. Derdeyn, Carl D. Langefeld, Joan E. Bailey-Wilson
Software Mentions: 2
Published: over 11 years ago

10.1186/s12935-018-0640-x

Identification of critical genes to predict recurrence and death in colon cancer: integrating gene expression and bioinformatics analysis
Cited by: 14
Author(s): Xuan Long, Zhigang Deng, Guoqiang Li, Ziwei Wang
Software Mentions: 2
Published: about 8 years ago

10.3389/fncel.2020.00191

MMP-14 (MT1-MMP) Is a Biomarker of Surgical Outcome and a Potential Mediator of Hearing Loss in Patients With Vestibular Schwannomas
Cited by: 13
Author(s): Yin Ren, Hiroshi Hyakusoku, Jessica E. Sagers, Lukas D. Landegger, D. Bradley Welling, Konstantina M. Stanković
Software Mentions: 2
Published: about 6 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

10.7150/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

10.1038/s41380-019-0449-6

Genome-wide methylation in alcohol use disorder subjects: implications for an epigenetic regulation of the cortico-limbic glucocorticoid receptors (NR3C1)
Cited by: 49
Author(s): Eleonora Gatta, Dennis R. Grayson, James Auta, Vikram Saudagar, Erbao Dong, Ying Chen, Harish R. Krishnan, Jenny Drnevich, Subhash C. Pandey, Alessandro Guidotti
Software Mentions: 2
Published: about 7 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

10.7150/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

10.1038/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

10.7150/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

10.3389/fphar.2019.00625

Losmapimod Protected Epileptic Rats From Hippocampal Neuron Damage Through Inhibition of the MAPK Pathway
Cited by: 6
Author(s): Min Li, Lexiang Cui, Xuebing Feng, Chao Wang, Yinmeng Zhang, Lijie Wang, Ying Ding, Teng Zhao
Software Mentions: 2
Published: over 7 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

10.1186/s12935-020-01331-7

Identification of methylation-driven genes related to the prognosis of papillary renal cell carcinoma: a study based on The Cancer Genome Atlas
Cited by: 13
Author(s): Zeyu Liu, Yuxiang Wan, Ming Yang, Xuewei Qi, Zhenzhen Dong, Jinchang Huang, Jingnan Xu
Software Mentions: 2
Published: over 6 years ago

10.3389/fgene.2019.01229

Characterization of Blood Surrogate Immune-Methylation Biomarkers for Immune Cell Infiltration in Chronic Inflammaging Disorders
Cited by: 8
Author(s): Ken Declerck, Wim Vanden Berghe
Software Mentions: 2
Published: almost 7 years ago

10.1038/s41380-018-0255-6

Integrative approach to sporadic Alzheimer’s disease: deficiency of TYROBP in cerebral Aβ amyloidosis mouse normalizes clinical phenotype and complement subnetwork molecular pathology without reducing Aβ burden
Cited by: 52
Author(s): Jean‐Vianney Haure‐Mirande, Minghui Wang, Mickaël Audrain, Tomas Fanutza, Soong Ho Kim, Szilvia Heja, Ben Readhead, Joel T. Dudley, Robert D. Blitzer, Eric E. Schadt, Bin Zhang, Sam Gandy, Michelle E. Ehrlich
Software Mentions: 2
Published: almost 8 years ago

Projects: bioconductor: limma

Science Score: 78/100

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Papers Mentioning limma 7,776