(Q30671582)

20 August 2017

Comprehensive analysis of RNA-seq data reveals the complexity of the transcriptome in Brassica rapa (English)

1 reference

20 August 2017

0 references

1 reference

1 reference

1 reference

1 reference

Chaobo Tong

1

1 reference

20 August 2017

Xiaowu Wang

2

1 reference

20 August 2017

Jingyin Yu

3

1 reference

20 August 2017

Jian Wu

4

1 reference

20 August 2017

Wanshun Li

5

1 reference

20 August 2017

Junyan Huang

6

1 reference

20 August 2017

Caihua Dong

7

1 reference

20 August 2017

Wei Hua

8

1 reference

20 August 2017

Shengyi Liu

9

1 reference

20 August 2017

language of work or name

English

0 references

publication date

7 October 2013

1 reference

20 August 2017

1 reference

20 August 2017

14

1 reference

20 August 2017

689

1 reference

describes a project that uses

20 August 2017

WGCNA

object named as

WGCNA

WGCNA R package

1 reference

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

WGCNA

0 references

cites work

A perspective on mammalian upstream open reading frame function

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3853194

The significance of alternative transcripts for Caenorhabditis elegans transcription factor genes, based on expression pattern analysis

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3853194

Genome-wide landscape of alternative splicing events in Brachypodium distachyon.

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3853194

Conserved Peptide Upstream Open Reading Frames are Associated with Regulatory Genes in Angiosperms

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3853194

Transcriptome survey reveals increased complexity of the alternative splicing landscape in Arabidopsis

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3853194

NGS QC Toolkit: a toolkit for quality control of next generation sequencing data

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3853194

Predicting the impact of alternative splicing on plant MADS domain protein function

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3853194

Functional consequences of developmentally regulated alternative splicing

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3853194

Extensive changes to alternative splicing patterns following allopolyploidy in natural and resynthesized polyploids

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3853194

The genome of the mesopolyploid crop species Brassica rapa

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3853194

RNA sequencing: advances, challenges and opportunities

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3853194

The developmental transcriptome of Drosophila melanogaster

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3853194

Sequence and structure of Brassica rapa chromosome A3

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3853194

Deep RNA sequencing at single base-pair resolution reveals high complexity of the rice transcriptome

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3853194

Genome-wide analysis of alternative splicing in Chlamydomonas reinhardtii

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3853194

Expansion of the eukaryotic proteome by alternative splicing

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3853194

Genome-wide mapping of alternative splicing in Arabidopsis thaliana

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3853194

TopHat: discovering splice junctions with RNA-Seq

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3853194

WGCNA: an R package for weighted correlation network analysis

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3853194

RNA-Seq: a revolutionary tool for transcriptomics

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3853194

Deep surveying of alternative splicing complexity in the human transcriptome by high-throughput sequencing

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3853194

A global view of gene activity and alternative splicing by deep sequencing of the human transcriptome

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3853194

RNA-seq: an assessment of technical reproducibility and comparison with gene expression arrays

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3853194

The first generation of a BAC-based physical map of Brassica rapa

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3853194

Mapping and quantifying mammalian transcriptomes by RNA-Seq

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3853194

Dynamic repertoire of a eukaryotic transcriptome surveyed at single-nucleotide resolution

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3853194

Many gene and domain families have convergent fates following independent whole-genome duplication events in Arabidopsis, Oryza, Saccharomyces and Tetraodon

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3853194

Following tetraploidy in an Arabidopsis ancestor, genes were removed preferentially from one homeolog leaving clusters enriched in dose-sensitive genes

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3853194

A general framework for weighted gene co-expression network analysis

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3853194

Genomewide comparative analysis of alternative splicing in plants

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3853194

Gene prediction in eukaryotes with a generalized hidden Markov model that uses hints from external sources

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3853194

Modeling gene and genome duplications in eukaryotes

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3853194

Dosage balance in gene regulation: biological implications

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3853194

Functional divergence of duplicated genes formed by polyploidy during Arabidopsis evolution

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3853194

Small GTPases: versatile signaling switches in plants

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3853194

Physical mapping and microsynteny of Brassica rapa ssp. pekinensis genome corresponding to a 222 kbp gene-rich region of Arabidopsis chromosome 4 and partially duplicated on chromosome 5.

28 July 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2164-14-689

Differential gene and transcript expression analysis of RNA-seq experiments with TopHat and Cufflinks

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2164-14-689

Survey of the transcriptome of Aspergillus oryzae via massively parallel mRNA sequencing

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2164-14-689

InterProScan: protein domains identifier

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2164-14-689

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

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2164-14-689

Genome-wide midrange transcription profiles reveal expression level relationships in human tissue specification

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2164-14-689

The developmental dynamics of the maize leaf transcriptome

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2164-14-689

Alternative isoform regulation in human tissue transcriptomes

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2164-14-689

Characterization and comparison of intron structure and alternative splicing between Medicago truncatula, Populus trichocarpa, Arabidopsis and rice

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2164-14-689

Genome-wide analysis of transcript isoform variation in humans

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2164-14-689

Unproductive alternative splicing and nonsense mRNAs: a widespread phenomenon among plant circadian clock genes

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2164-14-689

A subgroup of MYB transcription factor genes undergoes highly conserved alternative splicing in Arabidopsis and rice

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2164-14-689

Splice variant of the SND1 transcription factor is a dominant negative of SND1 members and their regulation in Populus trichocarpa

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2164-14-689

Bias in plant gene content following different sorts of duplication: tandem, whole-genome, segmental, or by transposition

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2164-14-689

Extensive divergence in alternative splicing patterns after gene and genome duplication during the evolutionary history of Arabidopsis.

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2164-14-689

Integration of genetic, physical, and cytogenetic maps for Brassica rapa chromosome A7.

21 January 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3853194

Features of Arabidopsis genes and genome discovered using full-length cDNAs

25 November 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/24098974

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Construction of a novel database containing aberrant splicing mutations of mammalian genes

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/24098974

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1186/1471-2164-14-689

1 reference

Dimensions Publication ID

20 August 2017

1 reference

9 September 2019

https://scigraph.springernature.com/pub.10.1186/1471-2164-14-689

1 reference

20 August 2017

PubMed publication ID

24098974

1 reference