Petri Nets with Fuzzy Logic (PNFL): reverse engineering and parametrization

Autor: Tobias Petri, Lukas Windhager, Robert Küffner, Ralf Zimmer

Publikováno v: PLoS ONE, Vol 5, Iss 9, Pp 3307-3314 (2010)
PLoS ONE

Background: The recent DREAM4 blind assessment provided a particularly realistic and challenging setting for network reverse engineering methods. The in silico part of DREAM4 solicited the inference of cycle-rich gene regulatory networks from heterog

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::5153b255d0f056550caadfd428d30736
http://europepmc.org/articles/PMC2942832?pdf=render

Transcription: getting close to the action

Autor: Mary, Muers

Publikováno v: PLoS Biology

Cycling of gene expression in individual cells is controlled by dynamic chromatin remodeling.
In individual mammalian cells the expression of some genes such as prolactin is highly variable over time and has been suggested to occur in stochastic

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=pmid________::ba87eeef99221c83a64238356f2326d1
https://pubmed.ncbi.nlm.nih.gov/21532732

Ratio-based analysis of differential mRNA processing and expression of a polyadenylation factor mutant pcfs4 using arabidopsis tiling microarray

Autor: Yingjia Shen, Denghui Xing, Xiaohui Wu, Jianti Zheng, Qingshun Quinn Li, Diana M. Kroll, Guoli Ji

Publikováno v: PLoS ONE, Vol 6, Iss 2, p e14719 (2011)
PLoS ONE

Background Alternative polyadenylation as a mechanism in gene expression regulation has been widely recognized in recent years. Arabidopsis polyadenylation factor PCFS4 was shown to function in leaf development and in flowering time control. The func

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::9d9f1e12016139a762bdecec90cdcdb6
http://europepmc.org/articles/PMC3045369?pdf=render

Quantitative models of the mechanisms that control genome-wide patterns of transcription factor binding during early Drosophila development

Autor: Sean Thomas, Mark D. Biggin, Xiao Yong Li, Peter J. Sabo, John A. Stamatoyannopoulos, Michael B. Eisen, Tommy Kaplan

Publikováno v: PLoS Genetics, Vol 7, Iss 2, p e1001290 (2011)
PLoS Genetics

Transcription factors that drive complex patterns of gene expression during animal development bind to thousands of genomic regions, with quantitative differences in binding across bound regions mediating their activity. While we now have tools to ch

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::9e9f905528426d1495fab9809095502c
https://www.ncbi.nlm.nih.gov/pmc/articles/pmid/21304941/?tool=EBI

A Signature Inferred from Drosophila Mitotic Genes Predicts Survival of Breast Cancer Patients

Autor: Maria Patrizia Somma, Ferdinando Di Cunto, Paolo Provero, C. Damasco, Maurizio Gatti, Antonio Lembo

Publikováno v: PLoS ONE
PLoS ONE, Vol 6, Iss 2, p e14737 (2011)
PloS one 6 (2011): e14737. doi:10.1371/journal.pone.0014737
info:cnr-pdr/source/autori:Damasco C.; Lembo A.; Somma MP.; Gatti M.; Di Cunto F.; and Provero P./titolo:A signature inferred from Drosophila mitotic genes predicts survival of breast cancer patients/doi:10.1371%2Fjournal.pone.0014737/rivista:PloS one/anno:2011/pagina_da:e14737/pagina_a:/intervallo_pagine:e14737/volume:6

INTRODUCTION: The classification of breast cancer patients into risk groups provides a powerful tool for the identification of patients who will benefit from aggressive systemic therapy. The analysis of microarray data has generated several gene expr

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::5143f99822406e315d5148774e5bfa39
http://europepmc.org/articles/PMC3046113