Identification of TATA and TATA-less promoters in plant genomes by integrating diversity measure, GC-Skew and DNA geometric flexibility. (Q44907374)

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:21112384%20AND%20SRC:MED&resulttype=core&format=json

17 January 2020

title

Identification of TATA and TATA-less promoters in plant genomes by integrating diversity measure, GC-Skew and DNA geometric flexibility (English)

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:21112384%20AND%20SRC:MED&resulttype=core&format=json

17 January 2020

1

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:21112384%20AND%20SRC:MED&resulttype=core&format=json

17 January 2020

author name string

Qian-Zhong Li

series ordinal

2

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:21112384%20AND%20SRC:MED&resulttype=core&format=json

17 January 2020

language of work or name

1 reference

26 November 2010

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:21112384%20AND%20SRC:MED&resulttype=core&format=json

17 January 2020

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:21112384%20AND%20SRC:MED&resulttype=core&format=json

17 January 2020

volume

97

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:21112384%20AND%20SRC:MED&resulttype=core&format=json

17 January 2020

issue

2

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:21112384%20AND%20SRC:MED&resulttype=core&format=json

17 January 2020

page(s)

112-120

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:21112384%20AND%20SRC:MED&resulttype=core&format=json

Improved prediction of bacterial transcription start sites.

17 January 2020

cites work

1 reference

https://api.crossref.org/works/10.1016%2FJ.YGENO.2010.11.002

The prediction of bacterial transcription start sites using SVMs.

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YGENO.2010.11.002

Promoter prediction and annotation of microbial genomes based on DNA sequence and structural responses to superhelical stress

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YGENO.2010.11.002

Boosting with stumps for predicting transcription start sites

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YGENO.2010.11.002

Promoter2.0: for the recognition of PolII promoter sequences.

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YGENO.2010.11.002

Improving promoter prediction for the NNPP2.2 algorithm: a case study using Escherichia coli DNA sequences.

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YGENO.2010.11.002

Synergy of human Pol II core promoter elements revealed by statistical sequence analysis

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YGENO.2010.11.002

Computational analysis of core promoters in the Drosophila genome

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YGENO.2010.11.002

Prevalence of the initiator over the TATA box in human and yeast genes and identification of DNA motifs enriched in human TATA-less core promoters

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YGENO.2010.11.002

Identification of human gene core promoters in silico

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YGENO.2010.11.002

Highly specific localization of promoter regions in large genomic sequences by PromoterInspector: a novel context analysis approach

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YGENO.2010.11.002

Dragon Promoter Finder: recognition of vertebrate RNA polymerase II promoters

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YGENO.2010.11.002

Computational modeling of oligonucleotide positional densities for human promoter prediction

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YGENO.2010.11.002

PromoterExplorer: an effective promoter identification method based on the AdaBoost algorithm.

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YGENO.2010.11.002

Eukaryotic promoter prediction based on relative entropy and positional information.

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YGENO.2010.11.002

Using estimative reaction free energy to predict splice sites and their flanking competitors

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YGENO.2010.11.002

DNA sequence and structural properties as predictors of human and mouse promoters

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YGENO.2010.11.002

Generic eukaryotic core promoter prediction using structural features of DNA.

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YGENO.2010.11.002

Core promoters are predicted by their distinct physicochemical properties in the genome of Plasmodium falciparum.

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YGENO.2010.11.002

Large-scale structural analysis of the core promoter in mammalian and plant genomes

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YGENO.2010.11.002

Computational approaches to identify promoters and cis-regulatory elements in plant genomes

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YGENO.2010.11.002

The future for plants and plants for the future

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YGENO.2010.11.002

Plant promoter prediction with confidence estimation

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YGENO.2010.11.002

Computational analysis of plant RNA Pol-II promoters.

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YGENO.2010.11.002

Differentiation of core promoter architecture between plants and mammals revealed by LDSS analysis.

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YGENO.2010.11.002

Identification of plant promoter constituents by analysis of local distribution of short sequences

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YGENO.2010.11.002

DNA sequence-dependent deformability deduced from protein-DNA crystal complexes

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YGENO.2010.11.002

Determining promoter location based on DNA structure first-principles calculations

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YGENO.2010.11.002

Using DNA mechanics to predict in vitro nucleosome positions and formation energies.

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YGENO.2010.11.002

The recognition and prediction of sigma70 promoters in Escherichia coli K-12.

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YGENO.2010.11.002

Transcriptional and structural impact of TATA-initiation site spacing in mammalian core promoters

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YGENO.2010.11.002

Genome wide analysis of Arabidopsis core promoters

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YGENO.2010.11.002

The word landscape of the non-coding segments of the Arabidopsis thaliana genome

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YGENO.2010.11.002

TC-motifs at the TATA-box expected position in plant genes: a novel class of motifs involved in the transcription regulation

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YGENO.2010.11.002

Skew in CG content near the transcription start site in Arabidopsis thaliana.

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YGENO.2010.11.002

Dependence of the E. coli promoter strength and physical parameters upon the nucleotide sequence.

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YGENO.2010.11.002

The Arabidopsis Information Resource (TAIR): gene structure and function annotation.

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YGENO.2010.11.002

ProSOM: core promoter prediction based on unsupervised clustering of DNA physical profiles

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YGENO.2010.11.002

Cinnamate-4-hydroxylase expression in Arabidopsis. Regulation in response to development and the environment.

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YGENO.2010.11.002

Computational analyses of eukaryotic promoters

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YGENO.2010.11.002

PlantProm: a database of plant promoter sequences

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YGENO.2010.11.002

7 January 2021

The measure of diversity

1 reference

https://api.crossref.org/works/10.1016%2FJ.YGENO.2010.11.002

Using pseudo amino acid composition to predict protein structural class: approached by incorporating 400 dipeptide components.

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YGENO.2010.11.002

The prediction of the structural class of protein: application of the measure of diversity.

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YGENO.2010.11.002

Splice site prediction with quadratic discriminant analysis using diversity measure

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YGENO.2010.11.002

Prediction of the subcellular location of apoptosis proteins.

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YGENO.2010.11.002

Weight matrix descriptions of four eukaryotic RNA polymerase II promoter elements derived from 502 unrelated promoter sequences

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YGENO.2010.11.002

Quantitative discrimination of MEF2 sites

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YGENO.2010.11.002

GC-compositional strand bias around transcription start sites in plants and fungi

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YGENO.2010.11.002

Prediction of membrane protein types from sequences and position-specific scoring matrices

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YGENO.2010.11.002

Operon prediction based on SVM

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YGENO.2010.11.002

ARTS: accurate recognition of transcription starts in human

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YGENO.2010.11.002