A Computational Approach to Identifying Gene-microRNA Modules in Cancer

MicroRNA-152 and -181a participate in human dermal fibroblasts senescence acting on cell adhesion and remodeling of the extra-cellular matrix

(2016) Mara Mancini et al.   Aging-US

Activation of Multiple ERBB Family Receptors Mediates Glioblastoma Cancer Stem-like Cell Resistance to EGFR-Targeted Inhibition

(2015) Paul A. Clark et al.   NEOPLASIA

A potential anti-tumor herbal medicine, Corilagin, inhibits ovarian cancer cell growth through blocking the TGF-β signaling pathways

(2013) Luoqi Jia et al.   BMC Complementary and Alternative Medicine

miRTarBase update 2014: an information resource for experimentally validated miRNA-target interactions

(2013) Sheng-Da Hsu et al.   NUCLEIC ACIDS RESEARCH

Large Scale Comparison of Gene Expression Levels by Microarrays and RNAseq Using TCGA Data

(2013) Yan Guo et al.   PLoS One

miR-199a-5p Is Upregulated during Fibrogenic Response to Tissue Injury and Mediates TGFbeta-Induced Lung Fibroblast Activation by Targeting Caveolin-1

(2013) Christian Lacks Lino Cardenas et al.   PLoS Genetics

Lewis y Regulate Cell Cycle Related Factors in Ovarian Carcinoma Cell RMG-I in Vitro via ERK and Akt Signaling Pathways

(2012) Dawo Liu et al.   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

Context-specific microRNA analysis: identification of functional microRNAs and their mRNA targets

(2012) Noa Bossel Ben-Moshe et al.   NUCLEIC ACIDS RESEARCH

Discovery of multi-dimensional modules by integrative analysis of cancer genomic data

(2012) Shihua Zhang et al.   NUCLEIC ACIDS RESEARCH

MicroRNA-34a Inhibits the Proliferation and Metastasis of Osteosarcoma Cells Both In Vitro and In Vivo

(2012) Kang Yan et al.   PLoS One

Tumour Suppressive Function and Modulation of Programmed Cell Death 4 (PDCD4) in Ovarian Cancer

(2012) Na Wei et al.   PLoS One

Downregulation of Mir-31, Mir-155, and Mir-564 in Chronic Myeloid Leukemia Cells

(2012) Oshrat Hershkovitz Rokah et al.   PLoS One

Regulation of MicroRNA-155 in Atherosclerotic Inflammatory Responses by Targeting MAP3K10

(2012) Jianhua Zhu et al.   PLoS One

miR-21 and miR-214 Are Consistently Modulated during Renal Injury in Rodent Models

(2011) Laura Denby et al.   AMERICAN JOURNAL OF PATHOLOGY

A novel computational framework for simultaneous integration of multiple types of genomic data to identify microRNA-gene regulatory modules

(2011) Shihua Zhang et al.   BIOINFORMATICS

Tumor Suppressor miR-22 Determines p53-Dependent Cellular Fate through Post-transcriptional Regulation of p21

(2011) N. Tsuchiya et al.   CANCER RESEARCH

MiR-34, SIRT1, and p53: The feedback loop

(2011) Munekazu Yamakuchi et al.   CELL CYCLE

De novo discovery of mutated driver pathways in cancer

(2011) F. Vandin et al.   GENOME RESEARCH

Hepatitis C Virus Infection and Hepatic Stellate Cell Activation Downregulate miR-29: miR-29 Overexpression Reduces Hepatitis C Viral Abundance in Culture

(2011) Sarmistha Bandyopadhyay et al.   JOURNAL OF INFECTIOUS DISEASES

Cells of origin in cancer

(2011) Jane E. Visvader   NATURE

Integrated genomic analyses of ovarian carcinoma

(2011) D. Bell et al.   NATURE

KEGG for integration and interpretation of large-scale molecular data sets

(2011) M. Kanehisa et al.   NUCLEIC ACIDS RESEARCH

Differential Expressions of Adhesive Molecules and Proteases Define Mechanisms of Ovarian Tumor Cell Matrix Penetration/Invasion

(2011) Youngjoo Kwon et al.   PLoS One

Tumor suppressor p53 meets microRNAs

(2011) Z. Feng et al.   Journal of Molecular Cell Biology

Capture of MicroRNA–Bound mRNAs Identifies the Tumor Suppressor miR-34a as a Regulator of Growth Factor Signaling

(2011) Ashish Lal et al.   PLoS Genetics

ChEA: transcription factor regulation inferred from integrating genome-wide ChIP-X experiments

(2010) Alexander Lachmann et al.   BIOINFORMATICS

TGFβ modulates PTEN expression independently of SMAD signaling for growth proliferation in colon cancer cells

(2010) Jimmy Y.C. Chow et al.   CANCER BIOLOGY & THERAPY

Integrated Genomic Analysis Identifies Clinically Relevant Subtypes of Glioblastoma Characterized by Abnormalities in PDGFRA, IDH1, EGFR, and NF1

(2010) Roel G.W. Verhaak et al.   CANCER CELL

Regulation of ErbB receptor signalling in cancer cells by microRNA

(2010) Andrew Barker et al.   CURRENT OPINION IN PHARMACOLOGY

Glioma oncoprotein Bcl2L12 inhibits the p53 tumor suppressor

(2010) A. H. Stegh et al.   GENES & DEVELOPMENT

MiR-125b targets BCL3 and suppresses ovarian cancer proliferation

(2010) Yi Guan et al.   INTERNATIONAL JOURNAL OF CANCER

Downregulation of miR-21 inhibits EGFR pathway and suppresses the growth of human glioblastoma cells independent of PTEN status

(2010) Xuan Zhou et al.   LABORATORY INVESTIGATION

Expander: from expression microarrays to networks and functions

(2010) Igor Ulitsky et al.   Nature Protocols

CCDB: a curated database of genes involved in cervix cancer

(2010) S. M. Agarwal et al.   NUCLEIC ACIDS RESEARCH

DDPC: Dragon Database of Genes associated with Prostate Cancer

(2010) M. Maqungo et al.   NUCLEIC ACIDS RESEARCH

MicroRNA-target pairs in human renal epithelial cells treated with transforming growth factor β1: a novel role of miR-382

(2010) Alison J. Kriegel et al.   NUCLEIC ACIDS RESEARCH

Module Network Inference from a Cancer Gene Expression Data Set Identifies MicroRNA Regulated Modules

(2010) Eric Bonnet et al.   PLoS One

miR-22 Forms a Regulatory Loop in PTEN/AKT Pathway and Modulates Signaling Kinetics

(2010) Nadav Bar et al.   PLoS One

Computational identification of hepatitis C virus associated microRNA-mRNA regulatory modules in human livers

(2009) Xinxia Peng et al.   BMC GENOMICS

Cdc7 Kinase Is a Predictor of Survival and a Novel Therapeutic Target in Epithelial Ovarian Carcinoma

(2009) A. A. Kulkarni et al.   CLINICAL CANCER RESEARCH

The transcriptional network for mesenchymal transformation of brain tumours

(2009) Maria Stella Carro et al.   NATURE

Causes and consequences of microRNA dysregulation in cancer

(2009) Carlo M. Croce   NATURE REVIEWS GENETICS

Microrna-221 and Microrna-222 Modulate Differentiation and Maturation of Skeletal Muscle Cells

(2009) Beatrice Cardinali et al.   PLoS One

Computational analysis of microRNA profiles and their target genes suggests significant involvement in breast cancer antiestrogen resistance

(2008) Fuxiao Xin et al.   BIOINFORMATICS

Finding microRNA regulatory modules in human genome using rule induction

(2008) Dang Tran et al.   BMC BIOINFORMATICS

MicroRNA Expression Profiling in Human Ovarian Cancer: miR-214 Induces Cell Survival and Cisplatin Resistance by Targeting PTEN

(2008) H. Yang et al.   CANCER RESEARCH

S1P induced changes in epithelial ovarian cancer proteolysis, invasion, and attachment are mediated by Gi and Rac

(2008) Kathleen M. Devine et al.   GYNECOLOGIC ONCOLOGY

Comprehensive genomic characterization defines human glioblastoma genes and core pathways

(2008) Roger McLendon et al.   NATURE

Database for exploration of functional context of genes implicated in ovarian cancer

(2008) M. Kaur et al.   NUCLEIC ACIDS RESEARCH

An Analysis of Human MicroRNA and Disease Associations

(2008) Ming Lu et al.   PLoS One

Nonnegative Matrix Factorization: An Analytical and Interpretive Tool in Computational Biology

(2008) Karthik Devarajan   PLoS Computational Biology