An optimized kit-free method for making strand-specific deep sequencing libraries from RNA fragments. (Q34453799)

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25505164%20AND%20SRC:MED&resulttype=core&format=json

25 February 2020

title

An optimized kit-free method for making strand-specific deep sequencing libraries from RNA fragments (English)

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25505164%20AND%20SRC:MED&resulttype=core&format=json

25 February 2020

1

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25505164%20AND%20SRC:MED&resulttype=core&format=json

25 February 2020

Emiliano P Ricci

series ordinal

3

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25505164%20AND%20SRC:MED&resulttype=core&format=json

25 February 2020

Can Cenik

series ordinal

4

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25505164%20AND%20SRC:MED&resulttype=core&format=json

25 February 2020

5

Melissa J Moore

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25505164%20AND%20SRC:MED&resulttype=core&format=json

25 February 2020

author name string

Hakan Ozadam

series ordinal

2

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25505164%20AND%20SRC:MED&resulttype=core&format=json

25 February 2020

language of work or name

English

0 references

publication date

12 December 2014

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25505164%20AND%20SRC:MED&resulttype=core&format=json

25 February 2020

published in

Nucleic Acids Research

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25505164%20AND%20SRC:MED&resulttype=core&format=json

25 February 2020

volume

43

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25505164%20AND%20SRC:MED&resulttype=core&format=json

25 February 2020

issue

1

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25505164%20AND%20SRC:MED&resulttype=core&format=json

25 February 2020

page(s)

e2

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25505164%20AND%20SRC:MED&resulttype=core&format=json

Creative Commons Attribution-NonCommercial 4.0 International

25 February 2020

copyright license

start time

8 May 2017

1 reference

April 2022 Public Data File from Crossref

copyright status

copyrighted

0 references

describes a project that uses

ImageQuant

1 reference

11 June 2022

https://www.ebi.ac.uk/europepmc/webservices/rest/PMC4288154/fullTextXML

inferred from PubMed Central ID database lookup

cites work

An efficient and sensitive method for preparing cDNA libraries from scarce biological samples

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4288154

Endogenous U2·U5·U6 snRNA complexes in S. pombe are intron lariat spliceosomes

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4288154

Staufen1 senses overall transcript secondary structure to regulate translation

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4288154

High-efficiency RNA cloning enables accurate quantification of miRNA expression by deep sequencing

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4288154

RIPiT-Seq: a high-throughput approach for footprinting RNA:protein complexes.

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4288154

Genome-wide annotation and quantitation of translation by ribosome profiling

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4288154

Quantification of microRNA expression with next-generation sequencing

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4288154

Peregrine: A rapid and unbiased method to produce strand-specific RNA-Seq libraries from small quantities of starting material

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4288154

A hybridization-based approach for quantitative and low-bias single-stranded DNA ligation.

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4288154

Strand-specific libraries for high throughput RNA sequencing (RNA-Seq) prepared without poly(A) selection.

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4288154

The cellular EJC interactome reveals higher-order mRNP structure and an EJC-SR protein nexus

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4288154

Barcoded cDNA library preparation for small RNA profiling by next-generation sequencing

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4288154

The ribosome profiling strategy for monitoring translation in vivo by deep sequencing of ribosome-protected mRNA fragments

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4288154

Reducing ligation bias of small RNAs in libraries for next generation sequencing

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4288154

Structural bias in T4 RNA ligase-mediated 3'-adapter ligation

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4288154

6 July 2018

ViennaRNA Package 2.0

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4288154

Quantitative bias in Illumina TruSeq and a novel post amplification barcoding strategy for multiplexed DNA and small RNA deep sequencing

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4288154

Identification and remediation of biases in the activity of RNA ligases in small-RNA deep sequencing.

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4288154

RNA-ligase-dependent biases in miRNA representation in deep-sequenced small RNA cDNA libraries

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4288154

Barcoding bias in high-throughput multiplex sequencing of miRNA.

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4288154

T4 RNA ligase 2 truncated active site mutants: improved tools for RNA analysis

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4288154

Genome-wide translational profiling by ribosome footprinting

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4288154

Optimization of enzymatic reaction conditions for generating representative pools of cDNA from small RNA.

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4288154

Comprehensive comparative analysis of strand-specific RNA sequencing methods

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4288154

iCLIP reveals the function of hnRNP particles in splicing at individual nucleotide resolution

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4288154

Strand-specific deep sequencing of the transcriptome

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4288154

Biases in Illumina transcriptome sequencing caused by random hexamer priming

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4288154

Transcriptome-wide identification of RNA-binding protein and microRNA target sites by PAR-CLIP

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4288154

Absolute quantification of microRNAs by using a universal reference

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4288154

Digital transcriptome profiling using selective hexamer priming for cDNA synthesis

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4288154

Genome-wide analysis in vivo of translation with nucleotide resolution using ribosome profiling

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4288154

Stem cell transcriptome profiling via massive-scale mRNA sequencing

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4288154

Application of massively parallel sequencing to microRNA profiling and discovery in human embryonic stem cells

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4288154

A pyrosequencing-tailored nucleotide barcode design unveils opportunities for large-scale sample multiplexing

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4288154

Patterns of known and novel small RNAs in human cervical cancer

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4288154

CLIP identifies Nova-regulated RNA networks in the brain

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4288154

An extensive class of small RNAs in Caenorhabditis elegans

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4288154

An abundant class of tiny RNAs with probable regulatory roles in Caenorhabditis elegans

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4288154

RNA interference is mediated by 21- and 22-nucleotide RNAs

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4288154

In vitro selection of RNAs that undergo autolytic cleavage with Pb2+

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4288154

Limitations and possibilities of small RNA digital gene expression profiling.

6 July 2018

1 reference

https://api.crossref.org/works/10.1093%2FNAR%2FGKU1235

Cutadapt removes adapter sequences from high-throughput sequencing reads

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FNAR%2FGKU1235

Low-bias, strand-specific transcriptome Illumina sequencing by on-flowcell reverse transcription (FRT-seq).

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FNAR%2FGKU1235

Reverse transcriptase. The use of cloned Moloney murine leukemia virus reverse transcriptase to synthesize DNA from RNA.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FNAR%2FGKU1235

Optimal enzymes for amplifying sequencing libraries.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FNAR%2FGKU1235

RNA Ligase Structures Reveal the Basis for RNA Specificity and Conformational Changes that Drive Ligation Forward

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FNAR%2FGKU1235

Isolation of new ribozymes from a large pool of random sequences [see comment]

21 January 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/25505164

12 December 2020

inferred from PubMed ID database lookup

Reverse transcriptase adds nontemplated nucleotides to cDNAs during 5'-RACE and primer extension

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/25505164

12 December 2020

inferred from PubMed ID database lookup

Cloning of small RNA molecules

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/25505164

12 December 2020

inferred from PubMed ID database lookup

Identifiers

DOI

10.1093/NAR/GKU1235

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25505164%20AND%20SRC:MED&resulttype=core&format=json

25 February 2020

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25505164%20AND%20SRC:MED&resulttype=core&format=json

25 February 2020

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25505164%20AND%20SRC:MED&resulttype=core&format=json