(Q34681576)

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:16600018%20AND%20SRC:MED&resulttype=core&format=json

19 January 2020

review article

1 reference

title

A survey of motif discovery methods in an integrated framework (English)

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:16600018%20AND%20SRC:MED&resulttype=core&format=json

19 January 2020

1

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:16600018%20AND%20SRC:MED&resulttype=core&format=json

19 January 2020

Finn Drabløs

series ordinal

2

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:16600018%20AND%20SRC:MED&resulttype=core&format=json

19 January 2020

2

Finn Drabløs

1 reference

3 August 2017

6 April 2006

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:16600018%20AND%20SRC:MED&resulttype=core&format=json

19 January 2020

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:16600018%20AND%20SRC:MED&resulttype=core&format=json

19 January 2020

volume

1

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:16600018%20AND%20SRC:MED&resulttype=core&format=json

19 January 2020

page(s)

11

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:16600018%20AND%20SRC:MED&resulttype=core&format=json

https://scigraph.springernature.com/pub.10.1186/1745-6150-1-11

19 January 2020

exact match

0 references

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7 July 2018

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7 July 2018

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7 July 2018

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Decoding human regulatory circuits

7 July 2018

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7 July 2018

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CisModule: de novo discovery of cis-regulatory modules by hierarchical mixture modeling

7 July 2018

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Identifying combinatorial regulation of transcription factors and binding motifs

7 July 2018

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Detecting DNA regulatory motifs by incorporating positional trends in information content

7 July 2018

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Computational identification of transcription factor binding sites by functional analysis of sets of genes sharing overrepresented upstream motifs

7 July 2018

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Motif discovery in heterogeneous sequence data.

7 July 2018

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Detection of functional DNA motifs via statistical over-representation

7 July 2018

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ChIP-chip: considerations for the design, analysis, and application of genome-wide chromatin immunoprecipitation experiments

7 July 2018

1 reference

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Computational prediction of transcription-factor binding site locations

7 July 2018

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Combining phylogenetic data with co-regulated genes to identify regulatory motifs

7 July 2018

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Computational detection of cis -regulatory modules.

7 July 2018

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The eukaryotic genome: a system regulated at different hierarchical levels

7 July 2018

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Gibbs Recursive Sampler: finding transcription factor binding sites

7 July 2018

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Of mice and men: phylogenetic footprinting aids the discovery of regulatory elements

7 July 2018

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The evolution of transcriptional regulation in eukaryotes

7 July 2018

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1479319

Identification of co-regulated genes through Bayesian clustering of predicted regulatory binding sites

7 July 2018

1 reference

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Integrating regulatory motif discovery and genome-wide expression analysis

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1479319

Additivity in protein-DNA interactions: how good an approximation is it?

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1479319

SCORE: a computational approach to the identification of cis-regulatory modules and target genes in whole-genome sequence data. Site clustering over random expectation.

7 July 2018

1 reference

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An algorithm for finding protein-DNA binding sites with applications to chromatin-immunoprecipitation microarray experiments

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1479319

Discovery of regulatory elements by a computational method for phylogenetic footprinting

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1479319

Correlating overrepresented upstream motifs to gene expression: a computational approach to regulatory element discovery in eukaryotes

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1479319

Exploiting transcription factor binding site clustering to identify cis-regulatory modules involved in pattern formation in the Drosophila genome

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1479319

Detection of cis-element clusters in higher eukaryotic DNA.

7 July 2018

1 reference

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A computational analysis of sequence features involved in recognition of short introns

7 July 2018

1 reference

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cis element/transcription factor analysis (cis/TF): a method for discovering transcription factor/cis element relationships

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1479319

A predictive model for regulatory sequences directing liver-specific transcription.

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1479319

BioProspector: discovering conserved DNA motifs in upstream regulatory regions of co-expressed genes.

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1479319

Regulatory element detection using correlation with expression.

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1479319

Phylogenetic footprinting of transcription factor binding sites in proteobacterial genomes

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1479319

Genome-wide location and function of DNA binding proteins

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1479319

A statistical method for finding transcription factor binding sites.

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1479319

Combinatorial approaches to finding subtle signals in DNA sequences.

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1479319

Finding regulatory elements using joint likelihoods for sequence and expression profile data

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1479319

Building a dictionary for genomes: identification of presumptive regulatory sites by statistical analysis

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1479319

Automatic discovery of regulatory patterns in promoter regions based on whole cell expression data and functional annotation

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1479319

DNA binding sites: representation and discovery

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1479319

An exact method for finding short motifs in sequences, with application to the ribosome binding site problem.

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1479319

Discovering regulatory elements in non-coding sequences by analysis of spaced dyads

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1479319

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

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1479319

The biology of eukaryotic promoter prediction--a review

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1479319

Computer analysis of transcription regulatory patterns in completely sequenced bacterial genomes

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1479319

Finding DNA regulatory motifs within unaligned noncoding sequences clustered by whole-genome mRNA quantitation

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1479319

Extracting regulatory sites from the upstream region of yeast genes by computational analysis of oligonucleotide frequencies.

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1479319

Identification of regulatory regions which confer muscle-specific gene expression.

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1479319

Combinatorial pattern discovery in biological sequences: The TEIRESIAS algorithm.

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1479319

Specific modelling of regulatory units in DNA sequences.

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1479319

Efficient discovery of conserved patterns using a pattern graph.

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1479319

Data mining for regulatory elements in yeast genome.

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1479319

Gibbs motif sampling: detection of bacterial outer membrane protein repeats

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1479319

Detecting subtle sequence signals: a Gibbs sampling strategy for multiple alignment

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1479319

The value of prior knowledge in discovering motifs with MEME.

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1479319

Use of the ‘Perceptron’ algorithm to distinguish translational initiation sites inE. coli

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1479319

Computer methods to locate signals in nucleic acid sequences

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1479319

Improvements to a program for DNA analysin: a procedure to find homologies among many sequences

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1479319

Selection of DNA binding sites by regulatory proteins. Statistical-mechanical theory and application to operators and promoters.

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1479319

Embryonic epsilon and gamma globin genes of a prosimian primate (Galago crassicaudatus). Nucleotide and amino acid sequences, developmental regulation and phylogenetic footprints.

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1479319

Quantitative analysis of the relationship between nucleotide sequence and functional activity

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1479319

An expectation maximization (EM) algorithm for the identification and characterization of common sites in unaligned biopolymer sequences.

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1479319

Computer analysis of nucleic acid regulatory sequences

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1479319

Non-additivity in protein-DNA binding.

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1479319

A linear programming approach for identifying a consensus sequence on DNA sequences.

26 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1479319

Transcription factor binding site identification using the self-organizing map.

26 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1479319

Environmentally induced foregut remodeling by PHA-4/FoxA and DAF-12/NHR.

26 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1479319

Logos: a modular bayesian model for de novo motif detection.

26 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1479319

Periodic gene expression program of the fission yeast cell cycle.

26 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1479319

Prediction of similarly acting cis-regulatory modules by subsequence profiling and comparative genomics in Drosophila melanogaster and D.pseudoobscura.

26 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1479319

Negative information for motif discovery.

26 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1479319

Modeling within-motif dependence for transcription factor binding site predictions.

26 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1479319

Computational discovery of gene modules and regulatory networks

26 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1479319

Searching for statistically significant regulatory modules.

26 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1479319

A probabilistic method to detect regulatory modules.

26 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1479319

CREME: a framework for identifying cis-regulatory modules in human-mouse conserved segments.

26 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1479319

Genome-wide discovery of transcriptional modules from DNA sequence and gene expression.

26 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1479319

Identification of functional clusters of transcription factor binding motifs in genome sequences: the MSCAN algorithm.

26 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1479319

Comparing expression profiles of genes with similar promoter regions.

26 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1479319

Finding subtle motifs with variable gaps in unaligned DNA sequences.

26 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1479319

Computational identification of transcription factor binding sites via a transcription-factor-centric clustering (TFCC) algorithm.

26 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1479319

A Gibbs sampling method to detect overrepresented motifs in the upstream regions of coexpressed genes.

26 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1479319

Automatic annotation of genomic regulatory sequences by searching for composite clusters.

26 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1479319

Promoter prediction in the human genome.

26 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1479319

Systematic and fully automated identification of protein sequence patterns.

26 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1479319

Algorithms for extracting structured motifs using a suffix tree with an application to promoter and regulatory site consensus identification.

26 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1479319

ANN-Spec: a method for discovering transcription factor binding sites with improved specificity.

26 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1479319

Conformational and physicochemical DNA features specific for transcription factor binding sites.

26 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1479319

Functional promoter modules can be detected by formal models independent of overall nucleotide sequence similarity.

26 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1479319

Approaches to the automatic discovery of patterns in biosequences.

26 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1479319

A genetic algorithm for the detection of new cis-regulatory modules in sets of coregulated genes

26 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1479319

In silico identification of metazoan transcriptional regulatory regions

9 December 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1479319

TFBScluster: a resource for the characterization of transcriptional regulatory networks

9 December 2018

1 reference

12 December 2020

Conservation of DNA Regulatory Motifs and Discovery of New Motifs in Microbial Genomes

1 reference

12 December 2020

Identifying target sites for cooperatively binding factors

1 reference

12 December 2020

Models for prediction and recognition of eukaryotic promoters

1 reference

12 December 2020

Finding composite regulatory patterns in DNA sequences

1 reference

12 December 2020

Genes regulated cooperatively by one or more transcription factors and their identification in whole eukaryotic genomes

1 reference

12 December 2020

An algorithm for finding signals of unknown length in DNA sequences

1 reference

12 December 2020

Identifiers

DOI

10.1186/1745-6150-1-11

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:16600018%20AND%20SRC:MED&resulttype=core&format=json

Dimensions Publication ID

19 January 2020

0 references

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:16600018%20AND%20SRC:MED&resulttype=core&format=json

19 January 2020

1 reference