(Q34089210)

30 July 2017

title

Sparse linear modeling of next-generation mRNA sequencing (RNA-Seq) data for isoform discovery and abundance estimation (English)

1 reference

30 July 2017

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Jingyi Jessica Li

1

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Peter J. Bickel

series ordinal

5

object named as

Peter J Bickel

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30 July 2017

Ci-Ren Jiang

2

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30 July 2017

James B Brown

series ordinal

3

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30 July 2017

Haiyan Huang

series ordinal

4

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30 July 2017

language of work or name

English

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publication date

1 December 2011

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Proceedings of the National Academy of Sciences of the United States of America

30 July 2017

published in

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30 July 2017

volume

108

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30 July 2017

issue

50

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30 July 2017

page(s)

19867-19872

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NSMAP: a method for spliced isoforms identification and quantification from RNA-Seq.

30 July 2017

cites work

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3250192

Improving RNA-Seq expression estimates by correcting for fragment bias

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3250192

Integrative analysis of the Caenorhabditis elegans genome by the modENCODE project

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3250192

Identification of functional elements and regulatory circuits by Drosophila modENCODE

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3250192

Accurate quantification of transcriptome from RNA-Seq data by effective length normalization

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3250192

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3250192

The UCSC Genome Browser database: update 2011

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3250192

A comparison of RNA-Seq and high-density exon array for detecting differential gene expression between closely related species

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3250192

Modeling non-uniformity in short-read rates in RNA-Seq data

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3250192

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

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3250192

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

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3250192

Biases in Illumina transcriptome sequencing caused by random hexamer priming

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3250192

Prediction of alternative isoforms from exon expression levels in RNA-Seq experiments

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3250192

RNA-Seq gene expression estimation with read mapping uncertainty

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3250192

Unlocking the secrets of the genome

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3250192

Statistical inferences for isoform expression in RNA-Seq

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3250192

Substantial biases in ultra-short read data sets from high-throughput DNA sequencing

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3250192

Mapping and quantifying mammalian transcriptomes by RNA-Seq

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3250192

Penalized likelihood for sparse contingency tables with an application to full-length cDNA libraries

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3250192

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

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3250192

Rapid production of full-length cDNAs from rare transcripts: amplification using a single gene-specific oligonucleotide primer

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3250192

Complementary DNA sequencing: expressed sequence tags and human genome project

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3250192

Comparing sequences without using alignments: application to HIV/SIV subtyping

5 July 2018

1 reference

Crossref

https://api.crossref.org/works/10.1073%2FPNAS.1113972108

21 January 2018

Identifiers

DOI

10.1073/PNAS.1113972108

1 reference

30 July 2017

0 references

1 reference

30 July 2017

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