Cargando…

TrFAST: A Tool to Predict Signaling Pathway-specific Transcription Factor Binding Sites

Recent advances in the development of high-throughput tools have significantly revolutionized our understanding of molecular mechanisms underlying normal and dysfunctional biological processes. Here we present a novel computational tool, transcription factor search and analysis tool (TrFAST), which...

Descripción completa

Detalles Bibliográficos
Autores principales:	Seemab, Umair, Ain, Qurrat ul, Nawaz, Muhammad Sulaman, Saeed, Zafar, Rashid, Sajid
Formato:	Online Artículo Texto
Lenguaje:	English
Publicado:	Elsevier 2012
Materias:	Method
Acceso en línea:	https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5054711/ https://www.ncbi.nlm.nih.gov/pubmed/23317703 http://dx.doi.org/10.1016/j.gpb.2012.06.007

Ejemplares similares

Integrative analyses of conserved WNT clusters and their co-operative behaviour in human breast cancer
por: Qurrat-ul-Ain,, et al.
Publicado: (2011)

Prediction of Structure of Human WNT-CRD (FZD) Complex for Computational Drug Repurposing
por: Ain, Qurrat U., et al.
Publicado: (2013)

MotViz: A Tool for Sequence Motif Prediction in Parallel to Structural Visualization and Analyses
por: Nawaz, Muhammad Sulaman, et al.
Publicado: (2012)

Unraveling determinants of transcription factor binding outside the core binding site
por: Levo, Michal, et al.
Publicado: (2015)

MONKEY: identifying conserved transcription-factor binding sites in multiple alignments using a binding site-specific evolutionary model
por: Moses, Alan M, et al.
Publicado: (2004)

Identification of transcription factor binding sites using ATAC-seq
por: Li, Zhijian, et al.
Publicado: (2019)

Anchor: trans-cell type prediction of transcription factor binding sites
por: Li, Hongyang, et al.
Publicado: (2019)

Fast decoding cell type–specific transcription factor binding landscape at single-nucleotide resolution
por: Li, Hongyang, et al.
Publicado: (2021)

Genome-wide prediction of transcription factor binding sites using an integrated model
por: Won, Kyoung-Jae, et al.
Publicado: (2010)

Disentangling transcription factor binding site complexity
por: Eggeling, Ralf
Publicado: (2018)

A systematic genome-wide account of binding sites for the model transcription factor Gcn4
por: Coey, Christopher T., et al.
Publicado: (2022)

Machine‐learning scoring functions to improve structure‐based binding affinity prediction and virtual screening
por: Ain, Qurrat Ul, et al.
Publicado: (2015)

REforge Associates Transcription Factor Binding Site Divergence in Regulatory Elements with Phenotypic Differences between Species
por: Langer, Björn E, et al.
Publicado: (2018)

High-Speed Tracer Analysis of Metabolism (HS-TrAM)
por: Smith, Thomas Brendan, et al.
Publicado: (2018)

Strong anion-exchange fast performance liquid chromatography as a versatile tool for preparation and purification of RNA produced by in vitro transcription
por: Koubek, Jiri, et al.
Publicado: (2013)

Evolutionary computation for discovery of composite transcription factor binding sites
por: Fogel, Gary B., et al.
Publicado: (2008)

COTRASIF: conservation-aided transcription-factor-binding site finder
por: Tokovenko, Bogdan, et al.
Publicado: (2009)

TrAp: a tree approach for fingerprinting subclonal tumor composition
por: Strino, Francesco, et al.
Publicado: (2013)

SelexGLM differentiates androgen and glucocorticoid receptor DNA-binding preference over an extended binding site
por: Zhang, Liyang, et al.
Publicado: (2018)

SAT326 Massive Adrenomyelolipomas Due To Longstanding CAH
por: Aziz, Qurrat-ul-ain, et al.
Publicado: (2023)

Palidis: fast discovery of novel insertion sequences
por: Carr, Victoria R., et al.
Publicado: (2023)

A blind deconvolution approach to high-resolution mapping of transcription factor binding sites from ChIP-seq data
por: Lun, Desmond S, et al.
Publicado: (2009)

Structural basis of βTrCP1-associated GLI3 processing
por: Shafique, Shagufta, et al.
Publicado: (2019)

InSite: a computational method for identifying protein-protein interaction binding sites on a proteome-wide scale
por: Wang, Haidong, et al.
Publicado: (2007)

ConBind: motif-aware cross-species alignment for the identification of functional transcription factor binding sites
por: Lelieveld, Stefan H., et al.
Publicado: (2016)

Improved analysis of (e)CLIP data with RCRUNCH yields a compendium of RNA-binding protein binding sites and motifs
por: Katsantoni, Maria, et al.
Publicado: (2023)

DamIP: A novel method to identify DNA binding sites in vivo
por: Xiao, Rui, et al.
Publicado: (2010)

A computational approach for genome-wide mapping of splicing factor binding sites
por: Akerman, Martin, et al.
Publicado: (2009)

Optimized detection of transcription factor-binding sites in ChIP-seq experiments
por: Elo, Laura L., et al.
Publicado: (2012)

Improved predictions of transcription factor binding sites using physicochemical features of DNA
por: Maienschein-Cline, Mark, et al.
Publicado: (2012)

A novel method for improved accuracy of transcription factor binding site prediction
por: Khamis, Abdullah M, et al.
Publicado: (2018)

Transcription Start Site Evolution in Drosophila
por: Main, Bradley J., et al.
Publicado: (2013)

Massively parallel synthetic promoter assays reveal the in vivo effects of binding site variants
por: Mogno, Ilaria, et al.
Publicado: (2013)

Darwin Assembly: fast, efficient, multi-site bespoke mutagenesis
por: Cozens, Christopher, et al.
Publicado: (2018)

Detecting cis-regulatory binding sites for cooperatively binding proteins
por: van Oeffelen, Liesbeth, et al.
Publicado: (2008)

Fast and systematic genome-wide discovery of conserved regulatory elements using a non-alignment based approach
por: Elemento, Olivier, et al.
Publicado: (2005)

DBSI: DNA-binding site identifier
por: Zhu, Xiaolei, et al.
Publicado: (2013)

SiFit: inferring tumor trees from single-cell sequencing data under finite-sites models
por: Zafar, Hamim, et al.
Publicado: (2017)

Use of structural DNA properties for the prediction of transcription-factor binding sites in Escherichia coli
por: Meysman, Pieter, et al.
Publicado: (2011)

Discovery and validation of information theory-based transcription factor and cofactor binding site motifs
por: Lu, Ruipeng, et al.
Publicado: (2017)

Cannot write session to /tmp/vufind_sessions/sess_vufnlpqmklhlk4bt4m4622icec