Library construction for next-generation sequencing: overviews and challenges (Q26995193)

24502796

21 June 2017

title

Library construction for next-generation sequencing: overviews and challenges (English)

1 reference

21 June 2017

0 references

Filip Van Nieuwerburgh

5

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4 June 2020

6

Daniel R Salomon

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4 June 2020

3

Sarah A LaMere

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4 June 2020

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Thomas Whisenant

4

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4 June 2020

Phillip Ordoukhanian

7

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4 June 2020

Steven R Head

1

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4 June 2020

H Kiyomi Komori

2

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4 June 2020

language of work or name

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1 February 2014

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21 June 2017

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4 June 2020

volume

56

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4 June 2020

issue

2

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4 June 2020

page(s)

61-4, 66, 68, passim

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Genome-wide annotation and quantitation of translation by ribosome profiling

4 June 2020

cites work

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21 March 2017

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21 March 2017

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21 March 2017

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21 March 2017

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21 March 2017

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21 March 2017

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21 March 2017

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Matrin 3 Binds and Stabilizes mRNA

21 March 2017

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21 March 2017

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21 March 2017

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

21 March 2017

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21 March 2017

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21 March 2017

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Human DNA methylomes at base resolution show widespread epigenomic differences

21 March 2017

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21 March 2017

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RNA-Seq: a revolutionary tool for transcriptomics

21 March 2017

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HITS-CLIP yields genome-wide insights into brain alternative RNA processing

21 March 2017

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Identification of microRNAs and other small regulatory RNAs using cDNA library sequencing

21 March 2017

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Proposed methods for testing and selecting the ERCC external RNA controls

21 March 2017

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Epigenetic regulation of gene expression: how the genome integrates intrinsic and environmental signals

21 March 2017

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CLIP identifies Nova-regulated RNA networks in the brain

21 March 2017

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Quantitative sequencing of 5-methylcytosine and 5-hydroxymethylcytosine at single-base resolution

21 March 2017

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Identification of neuronal RNA targets of TDP-43-containing ribonucleoprotein complexes

21 March 2017

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mRNA-Seq whole-transcriptome analysis of a single cell

21 March 2017

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CLIP: a method for identifying protein-RNA interaction sites in living cells

21 March 2017

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Genome-wide Identification of Polycomb-Associated RNAs by RIP-seq

21 March 2017

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Ligation bias in illumina next-generation DNA libraries: implications for sequencing ancient genomes

21 March 2017

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21 March 2017

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UCHIME improves sensitivity and speed of chimera detection

21 March 2017

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7 April 2017

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7 April 2017

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7 April 2017

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7 April 2017

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9 May 2017

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9 May 2017

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28 September 2017

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Profiling post-transcriptionally networked mRNA subsets using RIP-Chip and RIP-Seq

28 September 2017

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Finding the active genes in deep RNA-seq gene expression studies

28 September 2017

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TET enzymes, TDG and the dynamics of DNA demethylation.

28 September 2017

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28 September 2017

Mapping human epigenomes

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The next-generation sequencing revolution and its impact on genomics

28 September 2017

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SHAPE-Seq: High-Throughput RNA Structure Analysis

28 September 2017

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28 September 2017

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28 September 2017

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RNA sequencing of cancer reveals novel splicing alterations

28 September 2017

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Genome-wide profiling of 5-formylcytosine reveals its roles in epigenetic priming

28 September 2017

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28 September 2017

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28 September 2017

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28 September 2017

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28 September 2017

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28 September 2017

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28 September 2017

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28 September 2017

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28 September 2017

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28 September 2017

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28 September 2017

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28 September 2017

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

28 September 2017

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Base-resolution analysis of 5-hydroxymethylcytosine in the mammalian genome.

28 September 2017

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Length and GC-biases during sequencing library amplification: a comparison of various polymerase-buffer systems with ancient and modern DNA sequencing libraries

28 September 2017

1 reference

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Library-free methylation sequencing with bisulfite padlock probes

28 September 2017

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Generation of long insert pairs using a Cre-LoxP Inverse PCR approach

28 September 2017

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

28 September 2017

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Digital RNA sequencing minimizes sequence-dependent bias and amplification noise with optimized single-molecule barcodes

28 September 2017

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Optimizing Illumina next-generation sequencing library preparation for extremely AT-biased genomes.

28 September 2017

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Reducing the effects of PCR amplification and sequencing artifacts on 16S rRNA-based studies

28 September 2017

1 reference

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Aptamer selection by high-throughput sequencing and informatic analysis

28 September 2017

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Systematic comparison of three methods for fragmentation of long-range PCR products for next generation sequencing

28 September 2017

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Illumina mate-paired DNA sequencing-library preparation using Cre-Lox recombination

28 September 2017

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Sensitive and specific single-molecule sequencing of 5-hydroxymethylcytosine.

28 September 2017

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Preparation of high-quality next-generation sequencing libraries from picogram quantities of target DNA.

28 September 2017

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Direct, genome-wide assessment of DNA mutations in single cells.

28 September 2017

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Whole-genome chromatin profiling from limited numbers of cells using nano-ChIP-seq

28 September 2017

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Evaluation of a transposase protocol for rapid generation of shotgun high-throughput sequencing libraries from nanogram quantities of DNA

28 September 2017

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Long non-coding RNA modifies chromatin: epigenetic silencing by long non-coding RNAs

28 September 2017

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Small RNAs derived from longer non-coding RNAs

28 September 2017

1 reference

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

28 September 2017

1 reference

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Application of microdroplet PCR for large-scale targeted bisulfite sequencing.

28 September 2017

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Application of ChIP-Seq and Related Techniques to the Study of Immune Function

28 September 2017

1 reference

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Counting individual DNA molecules by the stochastic attachment of diverse labels

28 September 2017

1 reference

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Ectopic B-cell clusters that infiltrate transplanted human kidneys are clonal

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4351865

Analyzing and minimizing PCR amplification bias in Illumina sequencing libraries

28 September 2017

1 reference

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Whole transcriptome analysis: what are we still missing?

28 September 2017

1 reference

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Whole-genome molecular haplotyping of single cells

28 September 2017

1 reference

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Chromatin condensation via the condensin II complex is required for peripheral T-cell quiescence

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4351865

Overcoming bias and systematic errors in next generation sequencing data

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4351865

Rapid, low-input, low-bias construction of shotgun fragment libraries by high-density in vitro transposition

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4351865

Sequencing antibody repertoires: the next generation

28 September 2017

1 reference

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Comprehensive identification and quantification of microbial transcriptomes by genome-wide unbiased methods

28 September 2017

1 reference

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Comprehensive comparative analysis of strand-specific RNA sequencing methods

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4351865

Genome-scale DNA methylation analysis

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4351865

Long antisense non-coding RNAs and their role in transcription and oncogenesis

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4351865

DNA hypomethylation in cancer cells

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4351865

Discovering disease-specific biomarker genes for cancer diagnosis and prognosis

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4351865

Target-enrichment strategies for next-generation sequencing

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4351865

DNA methylation of cancer genome.

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4351865

Microdroplet-based PCR enrichment for large-scale targeted sequencing

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4351865

Digital transcriptome profiling using selective hexamer priming for cDNA synthesis

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4351865

The role of epigenetics in aging and autoimmunity

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4351865

Transcriptome analysis by strand-specific sequencing of complementary DNA.

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4351865

Amplification-free Illumina sequencing-library preparation facilitates improved mapping and assembly of (G C)-biased genomes

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4351865

CLIP: crosslinking and immunoprecipitation of in vivo RNA targets of RNA-binding proteins

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4351865

RNA-binding proteins and post-transcriptional gene regulation

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4351865

Antisense artifacts in transcriptome microarray experiments are resolved by actinomycin D.

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4351865

Uniform amplification of multiple DNAs by emulsion PCR.

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4351865

Protein families and RNA recognition

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4351865

Rapid amplification of plasmid and phage DNA using Phi 29 DNA polymerase and multiply-primed rolling circle amplification

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4351865

Reverse transcriptase template switching: a SMART approach for full-length cDNA library construction

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4351865

Monitoring of technical variation in quantitative high-throughput datasets

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4351865

Genome analyses of single human oocytes

31 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4351865

Genome-wide analysis reveals TET- and TDG-dependent 5-methylcytosine oxidation dynamics.

28 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4351865

Reducing the impact of PCR-mediated recombination in molecular evolution and environmental studies using a new-generation high-fidelity DNA polymerase

28 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4351865

Efficient microRNA capture and bar-coding via enzymatic oligonucleotide adenylation

28 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4351865

Novel isothermal, linear nucleic acid amplification systems for highly multiplexed applications.

28 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4351865

Specific Deamination of RNA by Sodium Bisulphite

28 November 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/24502796

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Distributions of exons and introns in the human genome

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/24502796

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Protein-RNA recognition

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/24502796

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.2144/000114133

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:24502796 AND SRC:MED&resulttype=core&format=json

OpenCitations bibliographic resource ID

4 June 2020

167569

1 reference

Consolidated OpenCitations Corpus – April 2017

OpenCitations bibliographic resource ID

2 references

Consolidated OpenCitations Corpus – April 2017

OpenCitations bibliographic resource ID

167569

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:24502796 AND SRC:MED&resulttype=core&format=json

4 June 2020

24502796

1 reference