4.8 Article

Computational analysis of target hub gene repression regulated by multiple and cooperative miRNAs

相关参考文献

注意:仅列出部分参考文献,下载原文获取全部文献信息。
Article Biochemistry & Molecular Biology

The IntAct molecular interaction database in 2012

Samuel Kerrien et al.

NUCLEIC ACIDS RESEARCH (2012)

Article Computer Science, Interdisciplinary Applications

miRWalk - Database: Prediction of possible miRNA binding sites by walking the genes of three genomes

Harsh Dweep et al.

JOURNAL OF BIOMEDICAL INFORMATICS (2011)

Review Cell Biology

Mitotic catastrophe: a mechanism for avoiding genomic instability

Ilio Vitale et al.

NATURE REVIEWS MOLECULAR CELL BIOLOGY (2011)

Article Biochemistry & Molecular Biology

miRTarBase: a database curates experimentally validated microRNA-target interactions

Sheng-Da Hsu et al.

NUCLEIC ACIDS RESEARCH (2011)

Article Biochemistry & Molecular Biology

The STRING database in 2011: functional interaction networks of proteins, globally integrated and scored

Damian Szklarczyk et al.

NUCLEIC ACIDS RESEARCH (2011)

Article Biochemical Research Methods

The Role of Incoherent MicroRNA-Mediated Feedforward Loops in Noise Buffering

Matteo Osella et al.

PLOS COMPUTATIONAL BIOLOGY (2011)

Article Biochemical Research Methods

PuTmiR: A database for extracting neighboring transcription factors of human microRNAs

Sanghamitra Bandyopadhyay et al.

BMC BIOINFORMATICS (2010)

Article Mathematical & Computational Biology

Dynamical modeling of microRNA action on the protein translation process

Andrei Zinovyev et al.

BMC SYSTEMS BIOLOGY (2010)

Article Mathematical & Computational Biology

An iterative identification procedure for dynamic modeling of biochemical networks

Eva Balsa-Canto et al.

BMC SYSTEMS BIOLOGY (2010)

Article Biochemistry & Molecular Biology

Dynamical effects of epigenetic silencing of 14-3-3 sigma expression

Julio Vera et al.

MOLECULAR BIOSYSTEMS (2010)

Article Biochemistry & Molecular Biology

Investigating dynamics of inhibitory and feedback loops in ERK signalling using power-law models

Julio Vera et al.

MOLECULAR BIOSYSTEMS (2010)

Article Biochemistry & Molecular Biology

MicroRNA assassins: factors that regulate the disappearance of miRNAs

Zoya S. Kai et al.

NATURE STRUCTURAL & MOLECULAR BIOLOGY (2010)

Article Biochemistry & Molecular Biology

miRGen 2.0: a database of microRNA genomic information and regulation

Panagiotis Alexiou et al.

NUCLEIC ACIDS RESEARCH (2010)

Article Biochemistry & Molecular Biology

TransmiR: a transcription factor-microRNA regulation database

Juan Wang et al.

NUCLEIC ACIDS RESEARCH (2010)

Article Biochemistry & Molecular Biology

Numerical modelling of microRNA-mediated mRNA decay identifies novel mechanism of microRNA controlled mRNA downregulation

Jiri Vohradsky et al.

NUCLEIC ACIDS RESEARCH (2010)

Article Biochemistry & Molecular Biology

Multiple microRNAs rescue from Ras-induced senescence by inhibiting p21Waf1/Cip1

V. Borgdorff et al.

ONCOGENE (2010)

Article Biochemical Research Methods

Network Modeling Identifies Molecular Functions Targeted by miR-204 to Suppress Head and Neck Tumor Metastasis

Younghee Lee et al.

PLOS COMPUTATIONAL BIOLOGY (2010)

Review Biochemistry & Molecular Biology

MicroRNAs: Target Recognition and Regulatory Functions

David P. Bartel

Article Biochemistry & Molecular Biology

14-3-3σ gene silencing during melanoma progression and its role in cell cycle control and cellular senescence

Julia Schultz et al.

MOLECULAR CANCER (2009)

Article Biotechnology & Applied Microbiology

The Systems Biology Graphical Notation

Nicolas Le Novere et al.

NATURE BIOTECHNOLOGY (2009)

Article Biochemistry & Molecular Biology

Combinatorial network of primary and secondary microRNA-driven regulatory mechanisms

Kang Tu et al.

NUCLEIC ACIDS RESEARCH (2009)

Article Biochemistry & Molecular Biology

Human Protein Reference Database-2009 update

T. S. Keshava Prasad et al.

NUCLEIC ACIDS RESEARCH (2009)

Article Biochemistry & Molecular Biology

miRecords: an integrated resource for microRNA-target interactions

Feifei Xiao et al.

NUCLEIC ACIDS RESEARCH (2009)

Article Multidisciplinary Sciences

Phenotypes and tolerances in the design space of biochemical systems

Michael A. Savageau et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2009)

Article Biochemical Research Methods

Computational modeling of post-transcriptional gene regulation by microRNAs

Raya Khanin et al.

JOURNAL OF COMPUTATIONAL BIOLOGY (2008)

Article Biochemistry & Molecular Biology

p53-repressed miRNAs are involved with E2F in a feed-forward loop promoting proliferation

Ran Brosh et al.

MOLECULAR SYSTEMS BIOLOGY (2008)

Article Multidisciplinary Sciences

Widespread changes in protein synthesis induced by microRNAs

Matthias Selbach et al.

NATURE (2008)

Review Genetics & Heredity

Mechanisms of post-transcriptional regulation by microRNAs: are the answers in sight?

Witold Filipowicz et al.

NATURE REVIEWS GENETICS (2008)

Article Multidisciplinary Sciences

MicroRNA regulation of a cancer network: Consequences of the feedback loops involving miR-17-92, E2F, and Myc

Baltazar D. Aguda et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2008)

Article Biochemical Research Methods

Computing topological parameters of biological networks

Yassen Assenov et al.

BIOINFORMATICS (2008)

Article Biochemistry & Molecular Biology

miRNAMap 2.0: genomic maps of microRNAs in metazoan genomes

Sheng-Da Hsu et al.

NUCLEIC ACIDS RESEARCH (2008)

Article Biophysics

Target-specific and global effectors in gene regulation by MicroRNA

Erel Levine et al.

BIOPHYSICAL JOURNAL (2007)

Article Operations Research & Management Science

A particle swarm pattern search method for bound constrained global optimization

A. Ismael F. Vaz et al.

JOURNAL OF GLOBAL OPTIMIZATION (2007)

Article Biochemical Research Methods

Global and local architecture of the mammalian microRNA-transcription factor regulatory network

Reut Shalgi et al.

PLOS COMPUTATIONAL BIOLOGY (2007)

Article Multidisciplinary Sciences

MicroRNA silencing through RISC recruitment of eIF6

Thimmaiah P. Chendrimada et al.

NATURE (2007)

Article Biochemistry & Molecular Biology

MicroRNA-mediated feedback and feedforward loops are recurrent network motifs in mammals

John Tsang et al.

MOLECULAR CELL (2007)

Article Biochemistry & Molecular Biology

Distance constraints between microRNA target sites dictate efficacy and cooperativity

Pal Saetrom et al.

NUCLEIC ACIDS RESEARCH (2007)

Article Multidisciplinary Sciences

A hexanucleotide element directs microRNA nuclear import

Hun-Way Hwang et al.

SCIENCE (2007)

Review Cell Biology

Physicochemical modelling of cell signalling pathways

Bree B. Aldridge et al.

NATURE CELL BIOLOGY (2006)

Article Biochemistry & Molecular Biology

Relief of microRNA-mediated translational repression in human cells subjected to stress

Suvendra N. Bhattacharyya et al.

Article Multidisciplinary Sciences

Short blocks from the noncoding parts of the human genome have instances within nearly all known genes and relate to biological processes

I Rigoutsos et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2006)

Article Biochemical Research Methods

Systems Biology Toolbox for MATLAB: a computational platform for research in systems biology

H Schmidt et al.

BIOINFORMATICS (2006)

Article Cell Biology

Target hub proteins serve as master regulators of development in yeast

AR Borneman et al.

GENES & DEVELOPMENT (2006)

Article Biochemistry & Molecular Biology

TarBase: A comprehensive database of experimentally supported animal microRNA targets

P Sethupathy et al.

Article Biotechnology & Applied Microbiology

Using process diagrams for the graphical representation of biological networks

H Kitano et al.

NATURE BIOTECHNOLOGY (2005)

Article Cell Biology

Specificity of microRNA target selection in translational repression

JG Doench et al.

GENES & DEVELOPMENT (2004)

Review Genetics & Heredity

Network biology:: Understanding the cell's functional organization

AL Barabási et al.

NATURE REVIEWS GENETICS (2004)

Review Biochemistry & Molecular Biology

MicroRNAs: Genomics, biogenesis, mechanism, and function

DP Bartel

Review Biochemistry & Molecular Biology

Human MicroRNA targets

B John et al.

PLOS BIOLOGY (2004)

Article Multidisciplinary Sciences

Structure and function of the feed-forward loop network motif

S Mangan et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2003)

Article Biochemistry & Molecular Biology

The UCSC Genome Browser Database

D Karolchik et al.

NUCLEIC ACIDS RESEARCH (2003)

Article Multidisciplinary Sciences

Error and attack tolerance of complex networks

R Albert et al.

NATURE (2000)

Article Biochemistry & Molecular Biology

HuR regulates p21 mRNA stabilization by UV light

WG Wang et al.

MOLECULAR AND CELLULAR BIOLOGY (2000)