(Q34044477)

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metaseq: a Python package for integrative genome-wide analysis reveals relationships between chromatin insulators and associated nuclear mRNA.

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scholarly article

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Europe PubMed Central

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https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25063299%20AND%20SRC:MED&resulttype=core&format=json

10 March 2020

metaseq: a Python package for integrative genome-wide analysis reveals relationships between chromatin insulators and associated nuclear mRNA (English)

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Europe PubMed Central

PMC publication ID

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25063299%20AND%20SRC:MED&resulttype=core&format=json

10 March 2020

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author name string

Leah H Matzat

2

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Europe PubMed Central

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https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25063299%20AND%20SRC:MED&resulttype=core&format=json

10 March 2020

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24 July 2014

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Europe PubMed Central

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https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25063299%20AND%20SRC:MED&resulttype=core&format=json

10 March 2020

Nucleic Acids Research

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Europe PubMed Central

PMC publication ID

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25063299%20AND%20SRC:MED&resulttype=core&format=json

10 March 2020

42

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Europe PubMed Central

PMC publication ID

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25063299%20AND%20SRC:MED&resulttype=core&format=json

10 March 2020

14

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Europe PubMed Central

PMC publication ID

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25063299%20AND%20SRC:MED&resulttype=core&format=json

10 March 2020

9158-9170

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Europe PubMed Central

PMC publication ID

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25063299%20AND%20SRC:MED&resulttype=core&format=json

10 March 2020

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maintained by WikiProject

WikiProject Software

0 references

HTSeq--a Python framework to work with high-throughput sequencing data

1 reference

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5 July 2018

deepTools: a flexible platform for exploring deep-sequencing data.

1 reference

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5 July 2018

ngs.plot: Quick mining and visualization of next-generation sequencing data by integrating genomic databases

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4132753

5 July 2018

The RNA-binding protein Rumpelstiltskin antagonizes gypsy chromatin insulator function in a tissue-specific manner

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4132753

5 July 2018

Surviving an identity crisis: a revised view of chromatin insulators in the genomics era.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4132753

5 July 2018

Dynein-dependent transport of nanos RNA in Drosophila sensory neurons requires Rumpelstiltskin and the germ plasm organizer Oskar

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4132753

5 July 2018

Messenger RNA is a functional component of a chromatin insulator complex

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4132753

5 July 2018

A compendium of RNA-binding motifs for decoding gene regulation.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4132753

5 July 2018

TopHat2: accurate alignment of transcriptomes in the presence of insertions, deletions and gene fusions

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4132753

5 July 2018

High-throughput sequencing for biology and medicine

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4132753

5 July 2018

Tissue-specific regulation of chromatin insulator function

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4132753

5 July 2018

Df31 Protein and snoRNAs Maintain Accessible Higher-Order Structures of Chromatin

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4132753

5 July 2018

The UCSC genome browser and associated tools

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4132753

5 July 2018

Nature and function of insulator protein binding sites in the Drosophila genome.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4132753

5 July 2018

Genome regulation by long noncoding RNAs.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4132753

5 July 2018

Pybedtools: a flexible Python library for manipulating genomic datasets and annotations

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4132753

5 July 2018

A late phase of germ plasm accumulation during Drosophila oogenesis requires lost and rumpelstiltskin

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4132753

5 July 2018

The variant call format and VCFtools

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4132753

5 July 2018

Identification of functional elements and regulatory circuits by Drosophila modENCODE

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4132753

5 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=4132753

5 July 2018

BigWig and BigBed: enabling browsing of large distributed datasets

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4132753

5 July 2018

Simple combinations of lineage-determining transcription factors prime cis-regulatory elements required for macrophage and B cell identities

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4132753

5 July 2018

Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4132753

5 July 2018

The Genomedata format for storing large-scale functional genomics data

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4132753

5 July 2018

ChIA-PET tool for comprehensive chromatin interaction analysis with paired-end tag sequencing

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4132753

5 July 2018

BEDTools: a flexible suite of utilities for comparing genomic features

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4132753

5 July 2018

The Sanger FASTQ file format for sequences with quality scores, and the Solexa/Illumina FASTQ variants

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4132753

5 July 2018

Comprehensive mapping of long-range interactions reveals folding principles of the human genome

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4132753

5 July 2018

Unlocking the secrets of the genome

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4132753

5 July 2018

The Sequence Alignment/Map format and SAMtools

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4132753

5 July 2018

Three subclasses of a Drosophila insulator show distinct and cell type-specific genomic distributions

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4132753

5 July 2018

Design and analysis of ChIP-seq experiments for DNA-binding proteins

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4132753

5 July 2018

RNA interference machinery influences the nuclear organization of a chromatin insulator.

1 reference

https://api.crossref.org/works/10.1093%2FNAR%2FGKU644

21 January 2018

Cutadapt removes adapter sequences from high-throughput sequencing reads

1 reference

https://api.crossref.org/works/10.1093%2FNAR%2FGKU644

21 January 2018

CruzDB: software for annotation of genomic intervals with UCSC genome-browser database

1 reference

https://api.crossref.org/works/10.1093%2FNAR%2FGKU644

21 January 2018

Single base-resolution methylome of the silkworm reveals a sparse epigenomic map.

1 reference

https://api.crossref.org/works/10.1093%2FNAR%2FGKU644

21 January 2018

Identifiers

10.1093/NAR/GKU644

1 reference

Europe PubMed Central

PMC publication ID

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25063299%20AND%20SRC:MED&resulttype=core&format=json

10 March 2020

PMC publication ID

1 reference

Europe PubMed Central

PMC publication ID

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25063299%20AND%20SRC:MED&resulttype=core&format=json

10 March 2020

PubMed publication ID

1 reference

Europe PubMed Central

PMC publication ID

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25063299%20AND%20SRC:MED&resulttype=core&format=json

10 March 2020

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