(Q35740346)

10 August 2017

title

The use of exome capture RNA-seq for highly degraded RNA with application to clinical cancer sequencing (English)

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10 August 2017

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Marcin Cieslik

1

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10 August 2017

Rashmi Chugh

2

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10 August 2017

Yi-Mi Wu

3

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10 August 2017

Ming Wu

4

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10 August 2017

Christine Brennan

5

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10 August 2017

Robert Lonigro

6

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10 August 2017

Fengyun Su

7

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10 August 2017

Rui Wang

8

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10 August 2017

Javed Siddiqui

9

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10 August 2017

Rohit Mehra

10

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10 August 2017

Xuhong Cao

11

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10 August 2017

David Lucas

12

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10 August 2017

Arul M Chinnaiyan

13

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10 August 2017

Dan Robinson

14

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10 August 2017

publication date

7 August 2015

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10 August 2017

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10 August 2017

volume

25

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10 August 2017

issue

9

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10 August 2017

page(s)

1372-1381

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describes a project that uses

10 August 2017

limma

1 reference

22 June 2022

https://europepmc.org/article/PMC/4561495

based on heuristic

inferred from PubMed Central ID database lookup

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27 July 2018

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27 July 2018

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27 July 2018

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27 July 2018

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27 July 2018

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27 July 2018

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27 July 2018

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Exome RNA sequencing reveals rare and novel alternative transcripts

27 July 2018

1 reference

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27 July 2018

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27 July 2018

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27 July 2018

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27 July 2018

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27 July 2018

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27 July 2018

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27 July 2018

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Detection of KIAA1549-BRAF fusion transcripts in formalin-fixed paraffin-embedded pediatric low-grade gliomas.

27 July 2018

1 reference

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27 July 2018

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Comprehensive comparative analysis of strand-specific RNA sequencing methods

27 July 2018

1 reference

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Impact of RNA degradation on gene expression profiling.

27 July 2018

1 reference

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27 July 2018

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Rearrangements of the RAF kinase pathway in prostate cancer, gastric cancer and melanoma

27 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4561495

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27 July 2018

1 reference

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The Sequence Alignment/Map format and SAMtools

27 July 2018

1 reference

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Transcript length bias in RNA-seq data confounds systems biology

27 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4561495

Mapping and quantifying mammalian transcriptomes by RNA-Seq

27 July 2018

1 reference

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27 July 2018

1 reference

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27 July 2018

1 reference

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Quantitative expression profiling of highly degraded RNA from formalin-fixed, paraffin-embedded breast tumor biopsies by oligonucleotide microarrays.

27 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4561495

Effect of RNA quality on transcript intensity levels in microarray analysis of human post-mortem brain tissues

27 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4561495

Tissue handling for genome-wide expression analysis: a review of the issues, evidence, and opportunities

27 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4561495

Characterization of the effect of sample quality on high density oligonucleotide microarray data using progressively degraded rat liver RNA.

27 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4561495

Identification of the transforming EML4-ALK fusion gene in non-small-cell lung cancer

27 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4561495

Agreement in breast cancer classification between microarray and quantitative reverse transcription PCR from fresh-frozen and formalin-fixed, paraffin-embedded tissues

27 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4561495

Recurrent fusion of TMPRSS2 and ETS transcription factor genes in prostate cancer.

27 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4561495

MLL translocations specify a distinct gene expression profile that distinguishes a unique leukemia

27 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4561495

Molecular classification of cutaneous malignant melanoma by gene expression profiling

27 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4561495

Comparison of RNA-Seq by poly (A) capture, ribosomal RNA depletion, and DNA microarray for expression profiling

27 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4561495

voom: Precision weights unlock linear model analysis tools for RNA-seq read counts

25 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4561495

RAF inhibitor resistance is mediated by dimerization of aberrantly spliced BRAF(V600E)

25 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4561495

Nucleic acid quantity and quality from paraffin blocks: defining optimal fixation, processing and DNA/RNA extraction techniques.

25 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4561495

High-throughput resequencing of target-captured cDNA in cancer cells.

25 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4561495

A framework for variation discovery and genotyping using next-generation DNA sequencing data

25 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4561495

Genomewide characterization of non-polyadenylated RNAs

25 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4561495

A comparison between ribo-minus RNA-sequencing and polyA-selected RNA-sequencing

25 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4561495

The Genome Analysis Toolkit: A MapReduce framework for analyzing next-generation DNA sequencing data

25 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4561495

Genetic diagnosis by whole exome capture and massively parallel DNA sequencing

25 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4561495

Transcriptome analysis by strand-specific sequencing of complementary DNA.

25 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4561495

Comprehensive genomic characterization defines human glioblastoma genes and core pathways

25 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4561495

RNA degradation by the exosome is promoted by a nuclear polyadenylation complex

25 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4561495

25 September 2018

Identifiers

DOI

10.1101/GR.189621.115

1 reference

10 August 2017

1 reference

10 August 2017

1 reference