(Q33557722)

28 July 2017

title

Analysis options for high-throughput sequencing in miRNA expression profiling (English)

1 reference

high-throughput sequencing

28 July 2017

0 references

1 reference

Tomasz Stokowy

1

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Krzysztof Fujarewicz

Krzysztof Fujarewicz

4

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Markus Eszlinger

Markus Eszlinger

2

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Barbara Jarząb

Barbara Jarząb

5

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Michal Swierniak

3

Michał Świerniak

1 reference

28 July 2017

Ralf Paschke

6

1 reference

28 July 2017

Knut Krohn

7

1 reference

28 July 2017

publication date

13 March 2014

1 reference

28 July 2017

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28 July 2017

volume

7

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28 July 2017

page(s)

144

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describes a project that uses

28 July 2017

DESeq2

DESeq

1 reference

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

cites work

Next Generation Sequencing of miRNAs - Strategies, Resources and Methods

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4007773

High-throughput sequencing reveals differential expression of miRNAs in intestine from sea cucumber during aestivation

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4007773

Differences in microRNA detection levels are technology and sequence dependent

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4007773

Multi-platform analysis of microRNA expression measurements in RNA from fresh frozen and FFPE tissues

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4007773

Inverse correlation of miRNA and cell cycle-associated genes suggests influence of miRNA on benign thyroid nodule tumorigenesis.

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4007773

Comparison of microarray platforms for measuring differential microRNA expression in paired normal/cancer colon tissues.

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4007773

Bioinformatic analysis of barcoded cDNA libraries for small RNA profiling by next-generation sequencing

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4007773

Proliferation and tumorigenesis of a murine sarcoma cell line in the absence of DICER1.

14 July 2018

1 reference

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MicroRNA profiling: approaches and considerations

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4007773

Fast gapped-read alignment with Bowtie 2

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4007773

Evaluation of candidate diagnostic microRNAs in thyroid fine-needle aspiration biopsy samples

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4007773

Down-regulation of microRNAs controlling tumourigenic factors in follicular thyroid carcinoma

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4007773

miRDeep2 accurately identifies known and hundreds of novel microRNA genes in seven animal clades

14 July 2018

1 reference

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MicroRNAs in thyroid cancer

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4007773

microRNA-Seq reveals cocaine-regulated expression of striatal microRNAs

14 July 2018

1 reference

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Current state and future perspective of molecular diagnosis of fine-needle aspiration biopsy of thyroid nodules

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4007773

Dynamic linear model for the identification of miRNAs in next-generation sequencing data

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4007773

Gene silencing by microRNAs: contributions of translational repression and mRNA decay

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4007773

Formation, regulation and evolution of Caenorhabditis elegans 3'UTRs

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4007773

miRBase: integrating microRNA annotation and deep-sequencing data

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4007773

Differential expression analysis for sequence count data

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4007773

Molecular signatures of thyroid follicular neoplasia

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4007773

Systematic comparison of microarray profiling, real-time PCR, and next-generation sequencing technologies for measuring differential microRNA expression

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4007773

Concordance among digital gene expression, microarrays, and qPCR when measuring differential expression of microRNAs.

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4007773

A scaling normalization method for differential expression analysis of RNA-seq data

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4007773

BEDTools: a flexible suite of utilities for comparing genomic features

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4007773

Quantitative miRNA expression analysis: comparing microarrays with next-generation sequencing.

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4007773

Reproducibility of quantitative RT-PCR array in miRNA expression profiling and comparison with microarray analysis

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4007773

ShortRead: a bioconductor package for input, quality assessment and exploration of high-throughput sequence data

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4007773

The Sequence Alignment/Map format and SAMtools

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4007773

Expression profiling of microRNAs by deep sequencing

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4007773

Measuring microRNAs: comparisons of microarray and quantitative PCR measurements, and of different total RNA prep methods

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4007773

Mapping and quantifying mammalian transcriptomes by RNA-Seq

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4007773

MicroRNA expression profiling of thyroid tumors: biological significance and diagnostic utility

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4007773

MicroRNAs in tumorigenesis: a primer

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4007773

A limited set of human MicroRNA is deregulated in follicular thyroid carcinoma.

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4007773

MicroRNA expression profiles classify human cancers

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4007773

Principles of microRNA-target recognition

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4007773

Bioconductor: open software development for computational biology and bioinformatics

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4007773

MicroRNAs: genomics, biogenesis, mechanism, and function

14 July 2018

2 references

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4007773

14 July 2018

https://api.crossref.org/works/10.1186%2F1756-0500-7-144

A uniform system for microRNA annotation

21 January 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4007773

Identification of novel microRNA-like-coding sites on the long-stem microRNA precursors in Arabidopsis

14 July 2018

1 reference

Crossref

https://api.crossref.org/works/10.1186%2F1756-0500-7-144

Analysis of the accessibility of CLIP bound sites reveals that nucleation of the miRNA:mRNA pairing occurs preferentially at the 3'-end of the seed match

21 January 2018

1 reference

Crossref

https://api.crossref.org/works/10.1186%2F1756-0500-7-144

21 January 2018

Identifiers

DOI

10.1186/1756-0500-7-144

1 reference

Dimensions Publication ID

28 July 2017

1 reference

https://scigraph.springernature.com/pub.10.1186/1756-0500-7-144

9 September 2019

1 reference

28 July 2017

1 reference