Bridger: a new framework for de novo transcriptome assembly using RNA-seq data (Q30901343)

15 November 2017

Bridger: a new framework for de novo transcriptome assembly using RNA-seq data (English)

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15 November 2017

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Cody Ashby

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author name string

Zheng Chang

1

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15 November 2017

Guojun Li

2

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15 November 2017

Juntao Liu

3

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15 November 2017

Yu Zhang

4

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15 November 2017

Deli Liu

6

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15 November 2017

Carole L Cramer

7

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15 November 2017

Xiuzhen Huang

8

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15 November 2017

11 February 2015

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15 November 2017

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15 November 2017

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15 November 2017

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Creative Commons Attribution 4.0 International

15 November 2017

start time

11 February 2015

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April 2022 Public Data File from Crossref

copyright status

copyrighted

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describes a project that uses

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https://scigraph.springernature.com/pub.10.1186/s13059-015-0596-2

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cites work

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SOAPdenovo-Trans: de novo transcriptome assembly with short RNA-Seq reads.

21 June 2018

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IDBA-tran: a more robust de novo de Bruijn graph assembler for transcriptomes with uneven expression levels

21 June 2018

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BRANCH: boosting RNA-Seq assemblies with partial or related genomic sequences

21 June 2018

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KISSPLICE: de-novo calling alternative splicing events from RNA-seq data

21 June 2018

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Oases: robust de novo RNA-seq assembly across the dynamic range of expression levels

21 June 2018

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Opera: reconstructing optimal genomic scaffolds with high-throughput paired-end sequences

21 June 2018

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Next-generation transcriptome assembly

21 June 2018

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Full-length transcriptome assembly from RNA-Seq data without a reference genome

21 June 2018

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RNA sequencing: advances, challenges and opportunities

21 June 2018

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De novo assembly and analysis of RNA-seq data.

21 June 2018

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MapSplice: accurate mapping of RNA-seq reads for splice junction discovery.

21 June 2018

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

21 June 2018

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Ab initio reconstruction of cell type-specific transcriptomes in mouse reveals the conserved multi-exonic structure of lincRNAs

21 June 2018

1 reference

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Detection of splice junctions from paired-end RNA-seq data by SpliceMap.

21 June 2018

1 reference

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Fast and SNP-tolerant detection of complex variants and splicing in short reads

21 June 2018

1 reference

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Pebble and rock band: heuristic resolution of repeats and scaffolding in the velvet short-read de novo assembler

21 June 2018

1 reference

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Sequencing technologies - the next generation

21 June 2018

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RNA-seq: from technology to biology

21 June 2018

1 reference

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Genome-wide analysis of allelic expression imbalance in human primary cells by high-throughput transcriptome resequencing

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4342890

De novo transcriptome assembly with ABySS.

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4342890

SOAP2: an improved ultrafast tool for short read alignment

21 June 2018

1 reference

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RNA-Seq-quantitative measurement of expression through massively parallel RNA-sequencing

21 June 2018

1 reference

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TopHat: discovering splice junctions with RNA-Seq

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4342890

ABySS: a parallel assembler for short read sequence data

21 June 2018

1 reference

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RNA-Seq: a revolutionary tool for transcriptomics

21 June 2018

1 reference

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

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4342890

Velvet: algorithms for de novo short read assembly using de Bruijn graphs

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4342890

ALLPATHS: de novo assembly of whole-genome shotgun microreads

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4342890

BLAT—The BLAST-Like Alignment Tool

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4342890

Splicing graphs and EST assembly problem

21 June 2018

1 reference

Crossref

https://api.crossref.org/works/10.1186%2FS13059-015-0596-2

A Decomposition Theorem for Partially Ordered Sets

21 January 2018

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Crossref

https://api.crossref.org/works/10.1186%2FS13059-015-0596-2

10.1186/S13059-015-0596-2

21 January 2018

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15 November 2017

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15 November 2017

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