RECLU: a pipeline to discover reproducible transcriptional start sites and their alternative regulation using capped analysis of gene expression (CAGE). (Q33642251)

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English	RECLU: a pipeline to discover reproducible transcriptional start sites and their alternative regulation using capped analysis of gene expression (CAGE).	scientific article

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scholarly article

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Europe PubMed Central

PubMed publication ID

28 July 2017

RECLU: a pipeline to discover reproducible transcriptional start sites and their alternative regulation using capped analysis of gene expression (CAGE). (English)

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Europe PubMed Central

PubMed publication ID

28 July 2017

reproducibility

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based on heuristic

inferred from title

8

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PubMed publication ID

28 July 2017

object named as

Morana Vitezic

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Martin C Frith

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Masayoshi Itoh

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Piero Carninci

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Yoshihide Hayashizaki

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object named as

Yoshihide Hayashizaki

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Europe PubMed Central

PubMed publication ID

28 July 2017

author name string

Hiroko Ohmiya

1

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Europe PubMed Central

PubMed publication ID

28 July 2017

Alistair R R Forrest

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Europe PubMed Central

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28 July 2017

FANTOM Consortium

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Europe PubMed Central

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28 July 2017

language of work or name

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publication date

25 April 2014

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Europe PubMed Central

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28 July 2017

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Europe PubMed Central

PubMed publication ID

28 July 2017

15

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28 July 2017

269

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28 July 2017

describes a project that uses

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edgeR package

edgeR

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CZ Software Mentions: A large dataset of software mentions in the biomedical literature

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A promoter-level mammalian expression atlas

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4029093

28 July 2018

Landscape of transcription in human cells

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4029093

28 July 2018

An integrated encyclopedia of DNA elements in the human genome

1 reference

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28 July 2018

Autocrine regulation of TGF-β1-induced cell migration by exocytosis of ATP and activation of P2 receptors in human lung cancer cells

1 reference

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28 July 2018

Molecular insights into the heterogeneity of telomere reprogramming in induced pluripotent stem cells.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4029093

28 July 2018

Systematic clustering of transcription start site landscapes

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4029093

28 July 2018

Unamplified cap analysis of gene expression on a single-molecule sequencer.

1 reference

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28 July 2018

De-novo discovery of differentially abundant transcription factor binding sites including their positional preference

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4029093

28 July 2018

Differential expression analysis for sequence count data

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4029093

28 July 2018

Human RNA polymerase III transcriptomes and relationships to Pol II promoter chromatin and enhancer-binding factors

1 reference

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28 July 2018

LPA receptors: subtypes and biological actions

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4029093

28 July 2018

edgeR: a Bioconductor package for differential expression analysis of digital gene expression data

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4029093

28 July 2018

JASPAR 2010: the greatly expanded open-access database of transcription factor binding profiles

1 reference

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28 July 2018

The Sequence Alignment/Map format and SAMtools

1 reference

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28 July 2018

The transcriptional network that controls growth arrest and differentiation in a human myeloid leukemia cell line.

1 reference

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28 July 2018

Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources

1 reference

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28 July 2018

Genome-wide detection and analysis of hippocampus core promoters using DeepCAGE.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4029093

28 July 2018

A code for transcription initiation in mammalian genomes

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4029093

28 July 2018

Mammalian RNA polymerase II core promoters: insights from genome-wide studies

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4029093

28 July 2018

Quantifying similarity between motifs

1 reference

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28 July 2018

Induction of pluripotent stem cells from mouse embryonic and adult fibroblast cultures by defined factors

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4029093

28 July 2018

Genome-wide analysis of mammalian promoter architecture and evolution

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4029093

28 July 2018

CAGE: cap analysis of gene expression

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4029093

28 July 2018

KLF4, p21 and context-dependent opposing forces in cancer

1 reference

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28 July 2018

The Kruppel-like KLF4 transcription factor, a novel regulator of urokinase receptor expression, drives synthesis of this binding site in colonic crypt luminal surface epithelial cells

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4029093

28 July 2018

Cap analysis gene expression for high-throughput analysis of transcriptional starting point and identification of promoter usage

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4029093

28 July 2018

The emerging role of lysophosphatidic acid in cancer

1 reference

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28 July 2018

The human genome browser at UCSC

1 reference

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28 July 2018

Comprehensive and definitive molecular cytogenetic characterization of HeLa cells by spectral karyotyping

1 reference

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28 July 2018

BEDTools: a flexible suite of utilities for comparing genomic features

1 reference

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21 January 2018

The GENCODE v7 catalog of human long noncoding RNAs: analysis of their gene structure, evolution, and expression

1 reference

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1 reference

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1 reference

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21 January 2018

Identifiers

10.1186/1471-2164-15-269

1 reference

Europe PubMed Central

PubMed publication ID

28 July 2017

Dimensions Publication ID

1 reference

https://scigraph.springernature.com/pub.10.1186/1471-2164-15-269

9 September 2019

PMC publication ID

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Europe PubMed Central

PubMed publication ID

28 July 2017

PubMed publication ID

1 reference

Europe PubMed Central

PubMed publication ID

28 July 2017

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