10.3389/fonc.2020.593601

A Novel mRNA-miRNA Regulatory Sub-Network Associated With Prognosis of Metastatic Clear Cell Renal Cell Carcinoma
Cited by: 3
Author(s): Tianyu Yang, Xiangshui Miao, Zhanxiang Bai, Jian Tu, Shanshan Shen, Hui Niu, Wei Xia, Juan Wang, Yongsheng Zhang
Software Mentions: 2
Published: over 5 years ago

10.1186/s13059-015-0630-4

Denoising perturbation signatures reveal an actionable AKT-signaling gene module underlying a poor clinical outcome in endocrine-treated ER+ breast cancer
Cited by: 5
Author(s): Andrew E. Teschendorff, Linlin Li, Zhen Yang
Software Mentions: 2
Published: over 11 years ago

10.3389/fonc.2020.01142

Identification of 9-Core Immune-Related Genes in Bladder Urothelial Carcinoma Prognosis
Cited by: 14
Author(s): Na Lei, Yu Bai, Yu Sun, Zhuo Wang, Wei Wang, Yuan Lin, Chenghai Zhao
Software Mentions: 2
Published: about 6 years ago

10.1016/j.omtn.2020.10.043

Endometrial cell-derived small extracellular vesicle miR-100-5p promotes functions of trophoblast during embryo implantation
Cited by: 26
Author(s): Qiang Tan, Shuang Shi, Jingjie Liang, Dingren Cao, Shaoyu Wang, Zhengguang Wang
Software Mentions: 2
Published: over 5 years ago

10.3389/fonc.2021.697949

N6-Methylandenosine-Related lncRNAs in Tumor Microenvironment Are Potential Prognostic Biomarkers in Colon Cancer
Cited by: 13
Author(s): Hongliang Zhang, Lei Zhao, Songyan Li, Jing Wang, Cong Feng, Tanshi Li, Xiaohui Du
Software Mentions: 2
Published: over 5 years ago

10.3390/ijms22179218

Sodium Iodate-Induced Degeneration Results in Local Complement Changes and Inflammatory Processes in Murine Retina
Cited by: 19
Author(s): Anne Enzbrenner, Rahel Zulliger, Josef Biber, Ana Maria Quintela Pousa, Nicole Schäfer, Corinne Stucki, Nicolas Giroud, Marco Berrera, Elöd Körtvely, Roland Schmucki, Laura Badi, Antje Grosche, Diana Pauly, Volker Enzmann
Software Mentions: 2
Published: about 5 years ago

10.7150/thno.48247

MED13L integrates Mediator-regulated epigenetic control into lung cancer radiosensitivity
Cited by: 17
Author(s): Nasha Zhang, Ying Song, Yeyang Xu, Jiandong Liu, Yue Shen, Lixin Zhou, Jinming Yu, Ming Yang
Software Mentions: 2
Published: over 6 years ago

10.1186/s13059-015-0782-2

Response to Zhou and Robinson
Cited by: 0
Author(s): Doron Betel, Nicholas D. Socci, Raya Khanin, Christopher E. Mason, Franck Rapaport
Software Mentions: 2
Published: almost 11 years ago

10.3389/fonc.2020.01225

Denatonium as a Bitter Taste Receptor Agonist Modifies Transcriptomic Profile and Functions of Acute Myeloid Leukemia Cells
Cited by: 12
Author(s): Valentina Salvestrini, Marilena Ciciarello, Valentina Pensato, Giorgia Simonetti, Maria Antonella Laginestra, Samantha Bruno, Massimiliano Pazzaglia, Elena De Marchi, Dorian Forte, Stefania Orecchioni, Giovanni Martinelli, Francesco Bertolini, Simón Méndez-Ferrer, Elena Adinolfi, Francesco Di Virgilio, Michèle Cavo, Antonio Curti
Software Mentions: 2
Published: about 6 years ago

10.1016/j.omtn.2018.11.017

Posttranscriptional Regulation of 14q32 MicroRNAs by the CIRBP and HADHB during Vascular Regeneration after Ischemia
Cited by: 21
Author(s): Angela Downie Ruiz Velasco, S. Welten, Eveline A. C. Goossens, Paul H.A. Quax, Juri Rappsilber, Gracjan Michlewski, A. Yaël Nossent
Software Mentions: 2
Published: over 7 years ago

10.1016/j.omtn.2019.12.036

Silencing lncRNA AGAP2-AS1 Upregulates miR-195-5p to Repress Migration and Invasion of EC Cells via the Decrease of FOSL1 Expression
Cited by: 35
Author(s): Shuxin Shen, Ké Li, Ying Liu, Xianben Liu, Baoxing Liu, Yue Ba, Wei Xing
Software Mentions: 2
Published: over 6 years ago

10.3389/fonc.2021.691115

Transcription Factors and Methylation Drive Prognostic miRNA Dysregulation in Hepatocellular Carcinoma
Cited by: 6
Author(s): Si Qin, Jieyun Xu, Yunmeng Yi, Sizhu Jiang, Jin Park, Xinyi Xia, Fei Ma
Software Mentions: 2
Published: about 5 years ago

10.1155/2018/9416515

Bioinformatics Analysis Reveals Most Prominent Gene Candidates to Distinguish Colorectal Adenoma from Adenocarcinoma
Cited by: 25
Author(s): Nina Hauptman, Emanuela Boštjančič, Margareta Žlajpah, Branislava Ranković, Nina Zidar
Software Mentions: 2
Published: about 8 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

10.3390/biomedicines9091136

Small Extracellular Vesicle Enrichment of a Retrotransposon-Derived Double-Stranded RNA: A Means to Avoid Autoinflammation?
Cited by: 2
Author(s): Marilou H. Barrios, Alexandra L. Garnham, Andrew D Foers, Lesley Cheng, Seth L. Masters, Ken C Pang
Software Mentions: 2
Published: about 5 years ago

10.3390/ijms22179111

Sclerostin Depletion Induces Inflammation in the Bone Marrow of Mice
Cited by: 5
Author(s): Cristine Donham, Betsabel Chicana, Alexander G. Robling, Asmaa H. Mohamed, Sonny R. Elizaldi, Michael Chi, Brian M. Freeman, Alberto J. Millan, Deepa K. Murugesh, Nicholas R. Hum, Aimy Sebastian, Gabriela G. Loots, Jennifer O. Manilay
Software Mentions: 2
Published: about 5 years ago

10.1111/1759-7714.13411

Exosome miR‐27a‐3p secreted from adipocytes targets ICOS to promote antitumor immunity in lung adenocarcinoma
Cited by: 13
Author(s): Xuehan Fan, Jingya Wang, Tingting Qin, Yujia Zhang, Wenting Liu, Kaiting Jiang, Dingzhi Huang
Software Mentions: 2
Published: over 6 years ago

10.1186/s12974-021-02228-6

Global gene expression and chromatin accessibility of the peripheral nervous system in animal models of persistent pain
Cited by: 6
Author(s): K Stephens, Weiqiang Zhou, Zachary Renfro, Zhicheng Ji, Hong Ji, Yun Guan, Sean D. Taverna
Software Mentions: 2
Published: about 5 years ago

10.3390/ijms21072573

Sublethal Radiation Affects Antigen Processing and Presentation Genes to Enhance Immunogenicity of Cancer Cells
Cited by: 8
Author(s): Achamaporn Punnanitinont, Eric Kannisto, Junko Matsuzaki, Kunle Odunsi, Sai Yendamuri, Anurag Singh, Santosh K. Patnaik
Software Mentions: 2
Published: over 6 years ago

10.1155/2021/5520710

Application of Genetic Algorithm-Based Support Vector Machine in Identification of Gene Expression Signatures for Psoriasis Classification: A Hybrid Model
Cited by: 9
Author(s): Leili Tapak, Saeid Afshar, Mahlagha Afrasiabi, Mohammad Kazem Ghasemi, Pedram Alirezaei
Software Mentions: 2
Published: about 5 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

10.1089/ten.tec.2016.0329

Spheroid Coculture of Hematopoietic Stem/Progenitor Cells and Monolayer Expanded Mesenchymal Stem/Stromal Cells in Polydimethylsiloxane Microwells Modestly Improves<i>In Vitro</i>Hematopoietic Stem/Progenitor Cell Expansion
Cited by: 42
Author(s): Kathryn Futrega, Kerry Atkinson, William B. Lott, Michael Doran
Software Mentions: 2
Published: over 9 years ago

10.1186/s13059-016-1066-1

Critical evaluation of the Illumina MethylationEPIC BeadChip microarray for whole-genome DNA methylation profiling
Cited by: 827
Author(s): Ruth Pidsley, Elena Zotenko, Timothy J. Peters, Mitchell G. Lawrence, Gail P. Risbridger, Peter L. Molloy, Susan Van Djik, Beverly S. Mühlhäusler, Clare Stirzaker, Susan J. Clark
Software Mentions: 2
Published: almost 10 years ago

10.1039/c7tx00152e

Comparative effects of a candidate modified-risk tobacco product Aerosol and cigarette smoke on human organotypic small airway cultures: a systems toxicology approach
Cited by: 18
Author(s): Anita Iskandar, Yannick Martinez, Florian Martin, Walter K. Schlage, Patrice Leroy, Alain Sewer, Laura Ortega Torres, Shoaib Majeed, Céline Merg, Keyur Trivedi, Emmanuel Guedj, Stefan Frentzel, Carole Mathis, Nikolai V. Ivanov, Manuel C. Peitsch, Julia Hoeng
Software Mentions: 2
Published: over 9 years ago

10.1186/s13059-016-1084-z

Integrative analysis of genetic data sets reveals a shared innate immune component in autism spectrum disorder and its co-morbidities
Cited by: 43
Author(s): Sumaiya Nazeen, Nathan Palmer, Bonnie Berger, Isaac S. Kohane
Software Mentions: 2
Published: almost 10 years ago

10.3390/toxins9040124

Patterns of Gene Expression in Western Corn Rootworm (Diabrotica virgifera virgifera) Neonates, Challenged with Cry34Ab1, Cry35Ab1 and Cry34/35Ab1, Based on Next-Generation Sequencing
Cited by: 14
Author(s): Haichuan Wang, Seong‐il Eyun, Kanika Arora, Sek Yee Tan, Premchand Gandra, Etsuko N. Moriyama, Chitvan Khajuria, Jessica Jurzenski, Huarong Li, Maia Donahue, Kenneth E. Narva, Blair D. Siegfried
Software Mentions: 2
Published: over 9 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

10.3390/toxins12030203

Molecular Mechanism of Aflatoxin-Induced Hepatocellular Carcinoma Derived from a Bioinformatics Analysis
Cited by: 14
Author(s): Peirong Cai, Hao Zheng, Jinjin She, Na Feng, Hui Zou, Jianhong Gu, Yan Yuan, Zongping Liu, Zongping Liu, Jianchun Bian
Software Mentions: 2
Published: over 6 years ago

10.3389/fonc.2019.01011

Integrated Network Analysis Reveals FOXM1 and MYBL2 as Key Regulators of Cell Proliferation in Non-small Cell Lung Cancer
Cited by: 32
Author(s): Firoz Ahmed
Software Mentions: 2
Published: almost 7 years ago

10.1371/journal.pone.0039570

Assessing Numerical Dependence in Gene Expression Summaries with the Jackknife Expression Difference
Cited by: 3
Author(s): John R. Stevens, Gabriel Nicholas
Software Mentions: 2
Published: about 14 years ago

10.1186/s13054-019-2401-1

PO2 oscillations induce lung injury and inflammation
Cited by: 6
Author(s): Stefan Boehme, Erik K. Hartmann, Thomas Tripp, Serge C. Thal, Matthias David, Dietmar Abraham, James E. Baumgardner, Klaus Markstaller, Klaus Ulrich Klein
Software Mentions: 2
Published: over 7 years ago

10.3390/ijms21239029

An Automated Functional Annotation Pipeline That Rapidly Prioritizes Clinically Relevant Genes for Autism Spectrum Disorder
Cited by: 1
Author(s): Olivia J. Veatch, Merlin G. Butler, Sarah H. Elsea, Beth A. Malow, James S. Sutcliffe, Jason H. Moore
Software Mentions: 2
Published: almost 6 years ago

10.3390/toxins13020097

A Transcriptomic Approach to the Recruitment of Venom Proteins in a Marine Annelid
Cited by: 6
Author(s): Ana P. Rodrigo, Ana Rita Grosso, Pedro V. Baptista, Alexandra R. Fernandes, Pedro M. Costa
Software Mentions: 2
Published: over 5 years ago

10.1016/j.csbj.2018.06.002

In Silico Prediction of Large-Scale Microbial Production Performance: Constraints for Getting Proper Data-Driven Models
Cited by: 13
Author(s): Julia Zieringer, Ralf Takors
Software Mentions: 2
Published: over 8 years ago

10.1371/journal.pone.0066513

Behavioural and Brain Gene Expression Profiling in Pigs during Tail Biting Outbreaks – Evidence of a Tail Biting Resistant Phenotype
Cited by: 27
Author(s): Emma Brunberg, Per Jensen, Anders Isaksson, Linda J. Keeling
Software Mentions: 2
Published: over 13 years ago

10.1016/j.dib.2020.106064

Tandem mass tagged dataset used to characterize muscle-specific proteome changes in beef during early postmortem period
Cited by: 2
Author(s): Chaoyu Zhai, B. A. Djimsa, Kitty Brown, Jessica E. Prenni, D. R. Woerner, K. E. Belk, Mahesh N. Nair
Software Mentions: 2
Published: almost 6 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

10.1038/tp.2013.54

CD4+ but not CD8+ T cells revert the impaired emotional behavior of immunocompromised RAG-1-deficient mice
Cited by: 73
Author(s): Lorenza Rattazzi, Giuseppa Piras, M. Ono, Robert M. J. Deacon, Carmine Pariante, Fulvio D’Acquisto
Software Mentions: 2
Published: about 13 years ago

10.1186/s13059-017-1331-y

The human lncRNA LINC-PINT inhibits tumor cell invasion through a highly conserved sequence element
Cited by: 153
Author(s): Oskar Marín-Béjar, Aina Maria Mas, Jovanna González, Dannys Martínez, Alejandro Athie, Xabier Morales, Mikel Galduroz, Ivan Raimondi, E Grossi, Shuling Guo, Ana Rouzaut, Igor Ulitsky, Maite Huarte
Software Mentions: 2
Published: almost 9 years ago

10.1371/journal.pone.0053780

Parallel Analysis of mRNA and microRNA Microarray Profiles to Explore Functional Regulatory Patterns in Polycystic Kidney Disease: Using PKD/Mhm Rat Model
Cited by: 55
Author(s): Harsh Dweep, Carsten Sticht, Asawari Kharkar, Priyanka Pandey, Norbert Gretz
Software Mentions: 2
Published: over 13 years ago

10.1016/j.dib.2015.08.024

Gene regulation by long purine tracks in brain related diseases
Cited by: 3
Author(s): Himanshu Narayan Singh, Moganty R. Rajeswari
Software Mentions: 2
Published: almost 11 years ago

10.1186/s13059-017-1366-0

Systems-epigenomics inference of transcription factor activity implicates aryl-hydrocarbon-receptor inactivation as a key event in lung cancer development
Cited by: 34
Author(s): Yuting Chen, Martin Widschwendter, Andrew E. Teschendorff
Software Mentions: 2
Published: almost 9 years ago

10.3389/fgene.2019.00023

Identification of Important Effector Proteins in the FOXJ1 Transcriptional Network Associated With Ciliogenesis and Ciliary Function
Cited by: 23
Author(s): Ishita Mukherjee, Sudipto Roy, Saikat Chakrabarti
Software Mentions: 2
Published: over 7 years ago

10.1186/s13059-018-1442-0

MICMIC: identification of DNA methylation of distal regulatory regions with causal effects on tumorigenesis
Cited by: 20
Author(s): Yin Tong, Jie Sun, Chi Fat Wong, Qianjin Kang, Beibei Ru, Ching Ngar Wong, Alexander C.L. Chan, Suet Yi Leung, Jiangwen Zhang
Software Mentions: 2
Published: over 8 years ago

10.1016/j.dib.2020.106570

RNA sequencing data from osteochondroprogenitor populations in synovial joints of mice during murine model of rheumatoid arthritis
Cited by: 2
Author(s): Nina Batorek-Lukač, Vedran Katavić, Alan Šućur, Maša Filipović, Danka Grčević, Nataša Kovačić
Software Mentions: 2
Published: almost 6 years ago

10.1016/j.dib.2016.10.026

Data on quantification of signaling pathways activated by KIT and PDGFRA mutants
Cited by: 2
Author(s): Christelle Bahlawane, Martine Schmitz, Elisabeth Letellier, Karthik Arumugam, Nathalie Nicot, Petr V. Nazarov, Serge Haan
Software Mentions: 2
Published: almost 10 years ago

10.3389/fonc.2020.556084

LINC01315 Impairs microRNA-211-Dependent DLG3 Downregulation to Inhibit the Development of Oral Squamous Cell Carcinoma
Cited by: 11
Author(s): Fu-Bo Chen, Peng Wu, Rong Zhou, Qixiang Yang, Xu Zhang, Raorao Wang, Shengcai Qi, Xi Yang
Software Mentions: 2
Published: almost 6 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

10.2196/18387

Personal Health Information Inference Using Machine Learning on RNA Expression Data from Patients With Cancer: Algorithm Validation Study
Cited by: 4
Author(s): Solbi Kweon, Jeong Hoon Lee, Younghee Lee, Yu Rang Park
Software Mentions: 2
Published: about 6 years ago

10.3389/fonc.2020.541410

LINC00494 Promotes Ovarian Cancer Development and Progression by Modulating NFκB1 and FBXO32
Cited by: 6
Author(s): Shu Yang, He Zhang, Jinqiu Li, Yanhong Shan
Software Mentions: 2
Published: over 5 years ago

10.1038/srep23002

Effects of Systemically Administered Hydrocortisone on the Human Immunome
Cited by: 113
Author(s): Matthew J. Olnes, Yuri Kotliarov, Angélique Biancotto, Foo Cheung, Jinguo Chen, Rongye Shi, Huizhi Zhou, Ena Wang, John S. Tsang, Robert B. Nussenblatt
Software Mentions: 2
Published: over 10 years ago

10.1155/2020/4737969

RNA-Seq-Based Breast Cancer Subtypes Classification Using Machine Learning Approaches
Cited by: 12
Author(s): Zhezhou Yu, Zhuo Wang, Xiangchun Yu, Zhe Zhang
Software Mentions: 2
Published: almost 6 years ago

10.1016/j.devcel.2018.08.011

Stem Cell Intrinsic Hexosamine Metabolism Regulates Intestinal Adaptation to Nutrient Content
Cited by: 32
Author(s): Jaakko Mattila, Krista Kokki, Ville Hietakangas, Michael Boutros
Software Mentions: 2
Published: almost 8 years ago

10.3389/fgene.2014.00131

Identification of potential therapeutic targets in a model of neuropathic pain
Cited by: 13
Author(s): Hemalatha B. Raju, Zoë A. Englander, Enrico Capobianco, Nicholas F. Tsinoremas, Jessica K. Lerch
Software Mentions: 2
Published: over 12 years ago

10.1038/s42003-020-0795-6

An isothermal shift assay for proteome scale drug-target identification
Cited by: 38
Author(s): Kerri A. Ball, Kristofor Webb, S. J. Coleman, Kira A. Cozzolino, Jeremy Jacobsen, Kevin R. Jones, Michael H. B. Stowell, William M. Old
Software Mentions: 2
Published: over 6 years ago

10.1016/j.devcel.2019.05.032

Id1 Stabilizes Epiblast Identity by Sensing Delays in Nodal Activation and Adjusting the Timing of Differentiation
Cited by: 11
Author(s): Mattias Malaguti, Rosa Portero Migueles, Guillaume Blin, Chia–Yi Lin, Sally Lowell
Software Mentions: 2
Published: about 7 years ago

10.1038/s42003-020-01274-9

The genetic framework of shoot regeneration in Arabidopsis comprises master regulators and conditional fine-tuning factors
Cited by: 28
Author(s): Robin Lardon, Erik Wijnker, Joost J. B. Keurentjes, Danny Geelen
Software Mentions: 2
Published: almost 6 years ago

10.1038/srep24141

Implication of Long noncoding RNAs in the endothelial cell response to hypoxia revealed by RNA-sequencing
Cited by: 113
Author(s): Christine Voellenkle, José Manuel García-Manteiga, Simona Pedrotti, Alessandra Perfetti, Ilario De Toma, D. Da Silva, Biagina Maimone, Simona Greco, Pasquale Fasanaro, Pasquale Creo, Germana Zaccagnini, Carlo Gaetano, Fabio Martelli
Software Mentions: 2
Published: over 10 years ago

10.1242/dev.163808

Regulation and function of H3K36 di-methylation by the trithorax-group protein complex AMC
Cited by: 34
Author(s): Sigrun Schmähling, Arno Meiler, Yoonjung Lee, Arif Mohammed, Katja Finkl, Katharina Tauscher, Lars Israel, Marc Wirth, Julia Philippou‐Massier, Helmut Blum, Bianca Habermann, Axel Imhof, Ji-Joon Song, Jürg Müller
Software Mentions: 2
Published: over 8 years ago

10.1038/s42003-021-02279-8

Deletion of the diabetes candidate gene Slc16a13 in mice attenuates diet-induced ectopic lipid accumulation and insulin resistance
Cited by: 6
Author(s): Tina Schumann, Jörg König, Christian von Loeffelholz, Daniel F. Vatner, Rachel J. Perry, Michel Bernier, Jason Chami, Christine Henke, Anica Kurzbach, Nermeen N. El-Agroudy, Diana M. Willmes, Dominik Pesta, Rafael de Cabo, John Sullivan, Eric J. Simon, Gerald I. Shulman, Bradford S. Hamilton, Andreas L. Birkenfeld
Software Mentions: 2
Published: about 5 years ago

10.1371/journal.pone.0243992

CYP450 core involvement in multiple resistance strains of Aedes aegypti from French Guiana highlighted by proteomics, molecular and biochemical studies
Cited by: 18
Author(s): Yanouk Epelboin, Lanjiao Wang, Quentin Giai Gianetto, Valérie Choumet, Pascal Gaborit, Jean Issaly, Amandine Guidez, Thibaut Douché, Thibault Chaze, Mariette Matondo, Isabelle Dusfour
Software Mentions: 2
Published: over 5 years ago

10.1038/tp.2013.111

Genome-wide DNA methylation analysis of human brain tissue from schizophrenia patients
Cited by: 261
Author(s): Leesa Wockner, Ernest P. Noble, Bruce R. Lawford, Ross McD. Young, C. Phillip Morris, Vicki Whitehall, Joanne Voisey
Software Mentions: 2
Published: over 12 years ago

10.1371/journal.pone.0227295

Targeted transcriptomic study of the implication of central metabolic pathways in mannosylerythritol lipids biosynthesis in Pseudozyma antarctica T-34
Cited by: 6
Author(s): Keisuke Wada, Hideaki Koike, Tatsuya Fujii, Tomotake Morita
Software Mentions: 2
Published: over 6 years ago

10.3389/fgene.2020.605767

The Construction and Analysis of Tumor-Infiltrating Immune Cells and ceRNA Networks in Bladder Cancer
Cited by: 9
Author(s): Aimin Jiang, Na Liu, Shengjie Bai, Jingjing Wang, Huan Gao, Xiaoqiang Zheng, Xiao Fu, Mengdi Ren, Xiaoni Zhang, Tao Tian, Zhiping Ruan, Yu Yao, Xuan Liang
Software Mentions: 2
Published: over 5 years ago

10.3390/ijms21249706

Distinct Preflowering Drought Tolerance Strategies of Sorghum bicolor Genotype RTx430 Revealed by Subcellular Protein Profiling
Cited by: 9
Author(s): Aaron J. Ogden, Shadan Abdali, Kristin Engbrecht, Mowei Zhou, Pubudu Handakumbura
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.0007316

Insights into the Molecular Basis of L-Form Formation and Survival in Escherichia coli
Cited by: 57
Author(s): William A. Glover, Yanqin Yang, Yingying Zhang
Software Mentions: 2
Published: almost 17 years ago

10.1371/journal.pone.0007743

An Integrated Analysis of Molecular Acclimation to High Light in the Marine Diatom Phaeodactylum tricornutum
Cited by: 216
Author(s): Marianne Nymark, Kristin Collier Valle, Tore Brembu, Kasper Hancke, Per Winge, Kjersti Andresen, Geir Johnsen, Atle M. Bones
Software Mentions: 2
Published: almost 17 years ago

10.1371/journal.pone.0148351

Transcriptional Analysis of T Cells Resident in Human Skin
Cited by: 27
Author(s): Jane Li, Moshe Olshansky, Francis R. Carbone, Z. Joel
Software Mentions: 2
Published: over 10 years ago

10.1007/s00125-018-4699-7

Human fetoplacental arterial and venous endothelial cells are differentially programmed by gestational diabetes mellitus, resulting in cell-specific barrier function changes
Cited by: 31
Author(s): Silvija Cvitic, Boris Novakovic, Lavinia Gordon, Christine M Ulz, Magdalena Mühlberger, Francisca Díaz-Pérez, Jihoon E. Joo, Vendula Švendová, Michael G. Schimek, Slave Trajanoski, Richard Saffery, Gernot Desoyé, Ursula Hiden
Software Mentions: 2
Published: about 8 years ago

10.1007/s00125-017-4497-7

DNA methylation markers associated with type 2 diabetes, fasting glucose and HbA1c levels: a systematic review and replication in a case–control sample of the Lifelines study
Cited by: 99
Author(s): Eliza Walaszczyk, Mirjam Luijten, Annemieke M.W. Spijkerman, Marc Jan Bonder, Helen L. Lutgers, Harold Snieder, Bruce H. R. Wolffenbuttel, Jana V. van Vliet-Ostaptchouk
Software Mentions: 2
Published: almost 9 years ago

10.3390/ijms21114059

Long Non-Coding RNA HAND2-AS1 Acts as a Tumor Suppressor in High-Grade Serous Ovarian Carcinoma
Cited by: 16
Author(s): Priyanka Gokulnath, Tiziana de Cristofaro, Ichcha Manipur, Tina Di Palma, Amata Amy Soriano, Mario Rosario Guarracino, Mariastella Zannini
Software Mentions: 2
Published: over 6 years ago

10.1007/s00125-021-05558-5

Sitting less elicits metabolic responses similar to exercise and enhances insulin sensitivity in postmenopausal women
Cited by: 8
Author(s): Carlijn M. E. Remie, Georges E. Janssens, Lena Bilet, Michel van Weeghel, Bernard M. F. M. Duvivier, Vera H. W. de Wit, Niels J. Connell, Johanna A. Jörgensen, Bauke V. Schomakers, Vera B. Schrauwen‐Hinderling, Joris Hoeks, Matthijs K. C. Hesselink, Esther Phielix, Riekelt H. Houtkooper, Patrick Schrauwen
Software Mentions: 2
Published: about 5 years ago

10.1038/tp.2015.158

Transcriptomic and genetic studies identify NFAT5 as a candidate gene for cocaine dependence
Cited by: 16
Author(s): Noèlia Fernàndez‐Castillo, Judit Cabana‐Domínguez, Jordi Soriano, Cristina Sánchez-Mora, Carlos Roncero, Lara Grau-López, Elena Ros-Cucurull, Constanza Daigre, Marjolein M. J. Van Donkelaar, Barbara Franke, Miguel Casas, Marta Ribasés, Bru Cormand
Software Mentions: 2
Published: almost 11 years ago

10.1002/ctm2.520

Blood small extracellular vesicles derived miRNAs to differentiate pancreatic ductal adenocarcinoma from chronic pancreatitis
Cited by: 7
Author(s): Shiwei Guo, Hao Qin, Ke Liu, Huan Wang, Songling Bai, Shiyi Liu, Zhuo Shao, Yanan Zhang, Bin Song, Xiang Xu, Jing Shen, Peng Zeng, Xiaohan Shi, Hao Chen, Suizhi Gao, Jiajia Xu, Yaqi Pan, Lei Xiong, Fugen Li, Dadong Zhang, Xiao‐Dong Jiao, Gang Jin
Software Mentions: 2
Published: about 5 years ago

10.1002/ctm2.479

Long noncoding RNA IL6‐AS1 is highly expressed in chronic obstructive pulmonary disease and is associated with interleukin 6 by targeting miR‐149‐5p and early B‐cell factor 1
Cited by: 19
Author(s): Erkang Yi, Jiahuan Zhang, Mengning Zheng, Yi Zhang, Chunxiao Liang, Bin Hao, Hong Wang, Biting Lin, Jinding Pu, Zhiwei Lin, Peiyu Huang, Bing Li, Yumin Zhou, Pixin Ran
Software Mentions: 2
Published: about 5 years ago

10.1038/srep26822

Analysis of the dynamic co-expression network of heart regeneration in the zebrafish
Cited by: 27
Author(s): Sophie Rodius, Ganna Androsova, Lou Götz, Robin Liechti, Isaac Crespo, Susanne Merz, Petr V. Nazarov, Nigel Klein, Céline Jeanty, Juan Manuel González‐Rosa, Arnaud Muller, François Bernardin, Simone P. Niclou, Laurent Vallar, Nadia Mercader, Mark Ibberson, Ioannis Xénarios, Francisco Azuaje
Software Mentions: 2
Published: over 10 years ago

10.1371/journal.pone.0048385

Org 214007-0: A Novel Non-Steroidal Selective Glucocorticoid Receptor Modulator with Full Anti-Inflammatory Properties and Improved Therapeutic Index
Cited by: 28
Author(s): M.J.C. van Lierop, Wynand Alkema, Anke Laskewitz, R. Dijkema, Hans M. van der Maaden, Martin J. Smit, Ralf Plate, Paolo Conti, Christan G.J.M. Jans, Cornelis M. Timmers, C. A. A. Van Boeckel, Scott J. Lusher, Ross McGuire, René C. van Schaik, Jacob de Vlieg, Ruben Smeets, Claudia L. Hofstra, Annemieke M. H. Boots, Marcel van Duin, Benno Ingelse, W.G.E.J. Schoonen, Aldo Grefhorst, Theo H. van Dijk, Folkert Kuipers, Wim H.A. Dokter
Software Mentions: 2
Published: almost 14 years ago

10.1002/cti2.1131

Comparison of two human organoid models of lung and intestinal inflammation reveals Toll‐like receptor signalling activation and monocyte recruitment
Cited by: 24
Author(s): Shyam Sushama Jose, Marco De Zuani, Federico Tidu, Marcela Hortová-Kohoutková, Lucia Pazzagli, Giancarlo Forte, Roberta Spaccapelo, Teresa Zelante, Jan Frič
Software Mentions: 2
Published: over 6 years ago

10.1371/journal.pone.0049831

Molecular Pathways Involved in Prostate Carcinogenesis: Insights from Public Microarray Datasets
Cited by: 18
Author(s): Sarah C. Baetke, Michiel E. Adriaens, Renaud Seigneuric, Chris T. Evelo, Lars Eijssen
Software Mentions: 2
Published: almost 14 years ago

10.1155/2020/8847986

eRNAs and Superenhancer lncRNAs Are Functional in Human Prostate Cancer
Cited by: 11
Author(s): Xiaona Zhang, Panpan Pang, Min Jiang, Qunfa Cao, Huili Li, Yi Xu, Yao Li, Xue Chen, Jianyong Han
Software Mentions: 2
Published: almost 6 years ago

10.1155/2020/8852388

Identification of Key Genes of Prognostic Value in Clear Cell Renal Cell Carcinoma Microenvironment and a Risk Score Prognostic Model
Cited by: 1
Author(s): Enfa Zhao, Xiaofang Bai
Software Mentions: 2
Published: about 6 years ago

10.1155/2020/2053902

Prognostic Value of an m6A RNA Methylation Regulator-Based Signature in Patients with Hepatocellular Carcinoma
Cited by: 22
Author(s): Xiaomin Wu, Xiaojing Zhang, Leilei Tao, Xichao Dai, Ping Chen
Software Mentions: 2
Published: about 6 years ago

10.1155/2019/1724898

Feature Selection for Longitudinal Data by Using Sign Averages to Summarize Gene Expression Values over Time
Cited by: 3
Author(s): Suyan Tian, Chi Wang
Software Mentions: 2
Published: over 7 years ago

10.1038/srep28261

Fibroblasts profiling in scarring trachoma identifies IL-6 as a functional component of a fibroblast-macrophage pro-fibrotic and pro-inflammatory feedback loop
Cited by: 28
Author(s): Jenny Z. Kechagia, Daniel G. Ezra, Matthew J. Burton, Maryse Bailly
Software Mentions: 2
Published: about 10 years ago

10.1038/srep28415

The space of enzyme regulation in HeLa cells can be inferred from its intracellular metabolome
Cited by: 13
Author(s): Christian Diener, Felipe Muñoz-Gonzalez, Sergio Encarnación, Osbaldo Resendis‐Antonio
Software Mentions: 2
Published: about 10 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

10.1371/journal.pone.0196743

Dietary challenges differentially affect activity and sleep/wake behavior in mus musculus: Isolating independent associations with diet/energy balance and body weight
Cited by: 1
Author(s): Isaac J. Perron, Brendan T. Keenan, Karthikeyani Chellappa, Nicholas F. Lahens, Nicole L. Yohn, Keith R. Shockley, Allan I. Pack, Sigrid C. Veasey
Software Mentions: 2
Published: over 8 years ago

10.3390/ijms22020517

Identifying the miRNA Signature Association with Aging-Related Senescence in Glioblastoma
Cited by: 4
Author(s): Mutharasu Gnanavel, Akshaya Murugesan, Saravanan Konda Mani, Olli Yli‐Harja, Meenakshisundaram Kandhavelu
Software Mentions: 2
Published: over 5 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

10.3389/fonc.2021.730716

Identification of a Novel Ferroptosis-Related Gene Prognostic Signature in Bladder Cancer
Cited by: 25
Author(s): Jiale Sun, Wenchang Yue, Jiawei You, Xuedong Wei, Yuhua Huang, Zhixin Ling, Jianquan Hou
Software Mentions: 2
Published: about 5 years ago

10.1371/journal.pone.0177475

Peculiar Genes Selection: A new features selection method to improve classification performances in imbalanced data sets
Cited by: 6
Author(s): Federica Martina, Marco Beccuti, Gianfranco Balbo, Francesca Cordero
Software Mentions: 2
Published: about 9 years ago

10.1038/srep29604

Decreased expression of Calpain-9 predicts unfavorable prognosis in patients with gastric cancer
Cited by: 24
Author(s): Peike Peng, Weicheng Wu, Junjie Zhao, Shushu Song, Xuefei Wang, Dongwei Jia, Miaomiao Shao, Mingming Zhang, Lili Li, Lan Wang, Fangfang Duan, Ran Zhao, Caiting Yang, Hao Wu, Jie Zhang, Zhongliang Shen, Yuanyuan Ruan, Jianxin Gu
Software Mentions: 2
Published: about 10 years ago

10.1186/s13148-015-0064-6

Age-associated DNA methylation changes in immune genes, histone modifiers and chromatin remodeling factors within 5 years after birth in human blood leukocytes
Cited by: 66
Author(s): Nathalie Acevedo, Lovisa E. Reinius, Morana Vitezic, Vittorio Fortino, Cilla Söderhäll, Hanna Honkanen, Riitta Veijola, Olli Simell, Jorma Toppari, Jorma Ilonen, Mikael Knip, Annika Scheynius, Heikki Hyöty, Dario Greco, Juha Kere
Software Mentions: 2
Published: over 11 years ago

10.1155/2019/6581576

Identification of Potential Biomarkers in Glioblastoma through Bioinformatic Analysis and Evaluating Their Prognostic Value
Cited by: 41
Author(s): Yabo Zhou, Yang Li, Xiaoxi Zhang, Rui Chen, Xiuqiong Chen, Wilkin Tang, Mengxian Zhang
Software Mentions: 2
Published: over 7 years ago

10.3390/ijms22020801

DNA Methylation Levels in Mononuclear Leukocytes from the Mother and Her Child Are Associated with IgE Sensitization to Allergens in Early Life
Cited by: 17
Author(s): Nathalie Acevedo, Giovanni Scala, Simon Kebede Merid, Paolo Frumento, Sören Bruhn, Ann‐Catrin Andersson, Christoph Ogris, Matteo Bottai, Göran Pershagen, Gerard H. Koppelman, Erik Melén, Erik L. L. Sonnhammer, Johan Alm, Cilla Söderhäll, Juha Kere, Dario Greco, Annika Scheynius
Software Mentions: 2
Published: over 5 years ago

10.1038/srep30484

Fibroblast growth factor 21 reflects liver fat accumulation and dysregulation of signalling pathways in the liver of C57BL/6J mice
Cited by: 68
Author(s): Fenni Rusli, Joris Deelen, Evi Andriyani, Mark V. Boekschoten, Carolien Lute, Erik B. van den Akker, Michael Müller, Marian Beekman, Wilma T. Steegenga
Software Mentions: 2
Published: about 10 years ago

10.1155/2021/8863799

A Risk Score Model Based on Nine Differentially Methylated mRNAs for Predicting Prognosis of Patients with Clear Cell Renal Cell Carcinoma
Cited by: 2
Author(s): Jingmin Zhou, Guanghua Liu, Xingcheng Wu, Zhien Zhou, Jialin Li, Zhigang Ji
Software Mentions: 2
Published: over 5 years ago

10.1371/journal.pone.0127768

The Longitudinal Transcriptomic Response of the Substantia Nigra to Intrastriatal 6-Hydroxydopamine Reveals Significant Upregulation of Regeneration-Associated Genes
Cited by: 17
Author(s): Nicholas M. Kanaan, Timothy J. Collier, Allyson Cole-Strauss, Tessa Grabinski, Zachary R. Mattingly, Mary E. Winn, Kathy Steece‐Collier, Caryl E. Sortwell, Fredric P. Manfredsson, Jack W. Lipton
Software Mentions: 2
Published: over 11 years ago

10.1155/2020/2782101

MicroRNA-7 as a Potential Biomarker for Prognosis in Pancreatic Cancer
Cited by: 18
Author(s): Zhiqiang Ye, Changlin Zou, Hanbin Chen, Mier Jiang, Mingqing Zhu, Di Gu
Software Mentions: 2
Published: over 6 years ago