(Q35914387)

English

Primer ID Validates Template Sampling Depth and Greatly Reduces the Error Rate of Next-Generation Sequencing of HIV-1 Genomic RNA Populations

scientific article published on 3 June 2015

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Statements

scholarly article

1 reference

Europe PubMed Central

11 August 2017

Primer ID Validates Template Sampling Depth and Greatly Reduces the Error Rate of Next-Generation Sequencing of HIV-1 Genomic RNA Populations (English)

1 reference

Europe PubMed Central

11 August 2017

Ronald Swanstrom

4

object named as

Ronald Swanstrom

1 reference

Europe PubMed Central

11 August 2017

Piotr A Mieczkowski

3

object named as

Piotr Mieczkowski

1 reference

Europe PubMed Central

11 August 2017

author name string

Shuntai Zhou

1

1 reference

Europe PubMed Central

11 August 2017

Corbin Jones

2

1 reference

Europe PubMed Central

11 August 2017

language of work or name

0 references

publication date

3 June 2015

1 reference

Europe PubMed Central

11 August 2017

Journal of Virology

1 reference

Europe PubMed Central

11 August 2017

89

1 reference

Europe PubMed Central

11 August 2017

16

1 reference

Europe PubMed Central

11 August 2017

8540-8555

1 reference

Europe PubMed Central

11 August 2017

Primer ID Informs Next-Generation Sequencing Platforms and Reveals Preexisting Drug Resistance Mutations in the HIV-1 Reverse Transcriptase Coding Domain

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4524263

11 July 2018

Challenges with using primer IDs to improve accuracy of next generation sequencing

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4524263

11 July 2018

subSeq: determining appropriate sequencing depth through efficient read subsampling

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4524263

11 July 2018

Performance comparison of second- and third-generation sequencers using a bacterial genome with two chromosomes

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4524263

11 July 2018

Clinical evidence and bioinformatics characterization of potential hepatitis C virus resistance pathways for sofosbuvir

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4524263

11 July 2018

Hepatitis C Virus (HCV) NS3 sequence diversity and antiviral resistance-associated variant frequency in HCV/HIV coinfection

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4524263

11 July 2018

HIV transmission. Selection bias at the heterosexual HIV-1 transmission bottleneck

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4524263

11 July 2018

Theoretical and experimental assessment of degenerate primer tagging in ultra-deep applications of next-generation sequencing

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4524263

11 July 2018

High-throughput DNA sequencing errors are reduced by orders of magnitude using circle sequencing

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4524263

11 July 2018

Comprehensive evaluation of differential gene expression analysis methods for RNA-seq data

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4524263

11 July 2018

Use of four next-generation sequencing platforms to determine HIV-1 coreceptor tropism

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4524263

11 July 2018

A tale of three next generation sequencing platforms: comparison of Ion Torrent, Pacific Biosciences and Illumina MiSeq sequencers

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4524263

11 July 2018

Whole genome deep sequencing of HIV-1 reveals the impact of early minor variants upon immune recognition during acute infection

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4524263

11 July 2018

Accurate sampling and deep sequencing of the HIV-1 protease gene using a Primer ID

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4524263

11 July 2018

Detection and quantification of rare mutations with massively parallel sequencing

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4524263

11 July 2018

The evolutionary analysis of emerging low frequency HIV-1 CXCR4 using variants through time--an ultra-deep approach

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4524263

11 July 2018

Drug resistance mutations for surveillance of transmitted HIV-1 drug-resistance: 2009 update

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4524263

11 July 2018

Accurate whole human genome sequencing using reversible terminator chemistry

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4524263

11 July 2018

Quality scores and SNP detection in sequencing-by-synthesis systems

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4524263

11 July 2018

Characterization of mutation spectra with ultra-deep pyrosequencing: application to HIV-1 drug resistance

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4524263

11 July 2018

BLAST: improvements for better sequence analysis

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4524263

11 July 2018

MUSCLE: a multiple sequence alignment method with reduced time and space complexity

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4524263

11 July 2018

MUSCLE: multiple sequence alignment with high accuracy and high throughput

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4524263

11 July 2018

Biological and biochemical characterization of a cloned Leu-3- cell surviving infection with the acquired immune deficiency syndrome retrovirus

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4524263

11 July 2018

The accuracy of reverse transcriptase from HIV-1.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4524263

11 July 2018

DNA recombination during PCR.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4524263

11 July 2018

Practical innovations for high-throughput amplicon sequencing.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4524263

24 September 2018

Degenerate Primer IDs and the birthday problem

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4524263

24 September 2018

Escherichia coli DNA polymerase III epsilon subunit increases Moloney murine leukemia virus reverse transcriptase fidelity and accuracy of RT-PCR procedures

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4524263

24 September 2018

HIV Quasispecies and Resampling

1 reference

https://pubmed.ncbi.nlm.nih.gov/26041299

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

The impact of PCR-generated recombination on diversity estimation of mixed viral populations by deep sequencing

1 reference

https://pubmed.ncbi.nlm.nih.gov/26041299

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Identifiers

10.1128/JVI.00522-15

1 reference

Europe PubMed Central

11 August 2017

1 reference

Europe PubMed Central

11 August 2017

1 reference

Europe PubMed Central

11 August 2017

ResearchGate publication ID

0 references

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