Cargando…

Systematic identification of functional modules and cis-regulatory elements in Arabidopsis thaliana

BACKGROUND: Several large-scale gene co-expression networks have been constructed successfully for predicting gene functional modules and cis-regulatory elements in Arabidopsis (Arabidopsis thaliana). However, these networks are usually constructed and analyzed in an ad hoc manner. In this study, we...

Descripción completa

Detalles Bibliográficos
Autores principales:	Ruan, Jianhua, Perez, Joseph, Hernandez, Brian, Lei, Chengwei, Sunter, Garry, Sponsel, Valerie M
Formato:	Online Artículo Texto
Lenguaje:	English
Publicado:	BioMed Central 2011
Materias:	Proceedings
Acceso en línea:	https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3247083/ https://www.ncbi.nlm.nih.gov/pubmed/22168340 http://dx.doi.org/10.1186/1471-2105-12-S12-S2

Ejemplares similares

A genome-wide cis-regulatory element discovery method based on promoter sequences and gene co-expression networks
por: Gao, Zhen, et al.
Publicado: (2013)

Diversity of cis-regulatory elements associated with auxin response in Arabidopsis thaliana
por: Cherenkov, Pavel, et al.
Publicado: (2018)

A Network-Based Approach for Improving Annotation of Transcription Factor Functions and Binding Sites in Arabidopsis thaliana
por: Najnin, Tanzira, et al.
Publicado: (2023)

GPMiner: an integrated system for mining combinatorial cis-regulatory elements in mammalian gene group
por: Lee, Tzong-Yi, et al.
Publicado: (2012)

Computational annotation of UTR cis-regulatory modules through Frequent Pattern Mining
por: Turi, Antonio, et al.
Publicado: (2009)

Identification of transcription factor's targets using tissue-specific transcriptomic data in Arabidopsis thaliana
por: Srivastava, Gyan Prakash, et al.
Publicado: (2010)

RNA editing of nuclear transcripts in Arabidopsis thaliana
por: Meng, Yijun, et al.
Publicado: (2010)

Prediction of tissue-specific cis-regulatory modules using Bayesian networks and regression trees
por: Chen, Xiaoyu, et al.
Publicado: (2007)

In-silico analysis of cis-acting regulatory elements of pathogenesis-related proteins of Arabidopsis thaliana and Oryza sativa
por: Kaur, Amritpreet, et al.
Publicado: (2017)

A systems biology approach to the identification and analysis of transcriptional regulatory networks in osteocytes
por: Dean, Angela K, et al.
Publicado: (2009)

Identification of nucleotide patterns enriched in secreted RNAs as putative cis-acting elements targeting them to exosome nano-vesicles
por: Batagov, Arsen O, et al.
Publicado: (2011)

The cis-regulatory codes of response to combined heat and drought stress in Arabidopsis thaliana
por: Azodi, Christina B, et al.
Publicado: (2020)

Cis-regulatory PLETHORA promoter elements directing root and nodule expression are conserved between Arabidopsis thaliana and Medicago truncatula
por: Franssen, Henk J., et al.
Publicado: (2017)

Machine learning models reveal the importance of time-point specific cis-regulatory elements in Arabidopsis thaliana wounding response
por: Kenchanmane Raju, Sunil Kumar
Publicado: (2021)

Genome-wide search for miRNA-target interactions in Arabidopsis thaliana with an integrated approach
por: Ding, Jiandong, et al.
Publicado: (2012)

Identification of Cis-Regulatory Sequences Controlling Pollen-Specific Expression of Hydroxyproline-Rich Glycoprotein Genes in Arabidopsis thaliana
por: Li, Yichao, et al.
Publicado: (2020)

Identification of cis-regulatory motifs in first introns and the prediction of intron-mediated enhancement of gene expression in Arabidopsis thaliana
por: Back, Georg, et al.
Publicado: (2021)

AthaMap web tools for database-assisted identification of combinatorial cis-regulatory elements and the display of highly conserved transcription factor binding sites in Arabidopsis thaliana
por: Steffens, Nils Ole, et al.
Publicado: (2005)

Genome-wide prediction and identification of cis-natural antisense transcripts in Arabidopsis thaliana
por: Wang, Xiu-Jie, et al.
Publicado: (2005)

A cis-regulatory module activating transcription in the suspensor contains five cis-regulatory elements
por: Henry, Kelli F., et al.
Publicado: (2015)

AGRIS: Arabidopsis Gene Regulatory Information Server, an information resource of Arabidopsis cis-regulatory elements and transcription factors
por: Davuluri, Ramana V, et al.
Publicado: (2003)

Finding potential cis-regulatory loci using allele-specific chromatin accessibility as weights in a kernel-based variance component test
por: Peralta, Juan Manuel, et al.
Publicado: (2016)

The distribution and evolution of Arabidopsis thaliana cis natural antisense transcripts
por: Bouchard, Johnathan, et al.
Publicado: (2015)

A method to identify important dynamical states in boolean models of regulatory networks: application to regulation of stomata closure by ABA in A. thaliana
por: Bugs, Cristhian A, et al.
Publicado: (2011)

Altered expression of Arabidopsis genes in response to a multifunctional geminivirus pathogenicity protein
por: Liu, Lu, et al.
Publicado: (2014)

Multiple FLC haplotypes defined by independent cis-regulatory variation underpin life history diversity in Arabidopsis thaliana
por: Li, Peijin, et al.
Publicado: (2014)

Identification of cis-Regulatory Elements in the dmyc Gene of Drosophila Melanogaster
por: Kharazmi, Jasmine, et al.
Publicado: (2011)

Identification and Conservation Analysis of Cis-Regulatory Elements in Pig Liver
por: Luan, Yu, et al.
Publicado: (2019)

Characterization of Putative cis-Regulatory Elements in Genes Preferentially Expressed in Arabidopsis Male Meiocytes
por: Li, Junhua, et al.
Publicado: (2014)

Identification of gene co-regulatory modules and associated cis-elements involved in degenerative heart disease
por: Danko, Charles G, et al.
Publicado: (2009)

Allelic shift in cis-elements of the transcription factor RAP2.12 underlies adaptation associated with humidity in Arabidopsis thaliana
por: Lou, Shangling, et al.
Publicado: (2022)

Identification of regulatory regions of bidirectional genes in cervical cancer
por: Wang, Guohua, et al.
Publicado: (2013)

Bounded search for de novo identification of degenerate cis-regulatory elements
por: Carlson, Jonathan M, et al.
Publicado: (2006)

Identification of a novel cis-regulatory element essential for immune tolerance
por: LaFlam, Taylor N., et al.
Publicado: (2015)

Cell-specific cis-natural antisense transcripts (cis-NATs) in the sperm and the pollen vegetative cells of Arabidopsis thaliana
por: Qin, Peng, et al.
Publicado: (2018)

Transposable Elements Contribute to the Adaptation of Arabidopsis thaliana
por: Li, Zi-Wen, et al.
Publicado: (2018)

Statistical corrections of linkage data suggest predominantly cis regulations of gene expression
por: Shi, Jianxin, et al.
Publicado: (2007)

Large-scale computational identification of regulatory SNPs with rSNP-MAPPER
por: Riva, Alberto
Publicado: (2012)

Co-option of EDM2 to distinct regulatory modules in Arabidopsis thaliana development
por: Tsuchiya, Tokuji, et al.
Publicado: (2010)

A Regulatory Network for miR156-SPL Module in Arabidopsis thaliana
por: Zheng, Chenfei, et al.
Publicado: (2019)

Cannot write session to /tmp/vufind_sessions/sess_4gsa36sih5or6bi3994t0crs18