in silico Whole Genome Sequencer & Analyzer (iWGS): A Computational Pipeline to Guide the Design and Analysis of de novo Genome Sequencing Studies. (Q36136140)

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English	in silico Whole Genome Sequencer & Analyzer (iWGS): A Computational Pipeline to Guide the Design and Analysis of de novo Genome Sequencing Studies.	scientific article

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https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:27638685%20AND%20SRC:MED&resulttype=core&format=json

23 March 2020

In Silico Whole Genome Sequencer and Analyzer (iWGS): a Computational Pipeline to Guide the Design and Analysis of de novo Genome Sequencing Studies (English)

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https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:27638685%20AND%20SRC:MED&resulttype=core&format=json

23 March 2020

whole genome sequencing

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based on heuristic

inferred from title

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based on heuristic

inferred from title

1

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23 March 2020

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23 March 2020

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23 March 2020

Cletus P Kurtzman

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23 March 2020

Chris Todd Hittinger

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23 March 2020

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23 March 2020

Chris Todd Hittinger

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Chris Todd Hittinger

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12 August 2017

author name string

Cletus P Kurtzman

4

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12 August 2017

publication date

8 November 2016

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23 March 2020

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23 March 2020

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23 March 2020

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23 March 2020

3655-3662

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23 March 2020

Phased diploid genome assembly with single-molecule real-time sequencing.

1 reference

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2 October 2017

DBG2OLC: Efficient Assembly of Large Genomes Using Long Erroneous Reads of the Third Generation Sequencing Technologies

1 reference

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2 October 2017

Contiguous and accurate de novo assembly of metazoan genomes with modest long read coverage

1 reference

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2 October 2017

Genome Sequence and Analysis of a Stress-Tolerant, Wild-Derived Strain of Saccharomyces cerevisiae Used in Biofuels Research

1 reference

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2 October 2017

Genomics and the making of yeast biodiversity

1 reference

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2 October 2017

Metassembler: merging and optimizing de novo genome assemblies

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2 October 2017

The Genome Sequence of Saccharomyces eubayanus and the Domestication of Lager-Brewing Yeasts.

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2 October 2017

A complete bacterial genome assembled de novo using only nanopore sequencing data

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2 October 2017

Assembling large genomes with single-molecule sequencing and locality-sensitive hashing

1 reference

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2 October 2017

Mitochondrial genome evolution in yeasts: an all-encompassing view

1 reference

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2 October 2017

The Theory and Practice of Genome Sequence Assembly

1 reference

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2 October 2017

RAMPART: a workflow management system for de novo genome assembly

1 reference

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2 October 2017

Assessment of de novo assemblers for draft genomes: a case study with fungal genomes

1 reference

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2 October 2017

Comparative genomics reveals insights into avian genome evolution and adaptation

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5100864

2 October 2017

Extensive error in the number of genes inferred from draft genome assemblies

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5100864

2 October 2017

One chromosome, one contig: complete microbial genomes from long-read sequencing and assembly

1 reference

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2 October 2017

Pilon: an integrated tool for comprehensive microbial variant detection and genome assembly improvement

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5100864

2 October 2017

The Genomes OnLine Database (GOLD) v.5: a metadata management system based on a four level (meta)genome project classification.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5100864

2 October 2017

Comprehensive variation discovery in single human genomes

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5100864

2 October 2017

Genome sequencing of chimpanzee malaria parasites reveals possible pathways of adaptation to human hosts.

1 reference

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2 October 2017

Evaluation and validation of de novo and hybrid assembly techniques to derive high-quality genome sequences

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5100864

2 October 2017

Automated ensemble assembly and validation of microbial genomes

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5100864

2 October 2017

Patterns of positive selection in seven ant genomes

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2 October 2017

Efficient de novo assembly of highly heterozygous genomes from whole-genome shotgun short reads.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5100864

2 October 2017

Simulation of genome-wide evolution under heterogeneous substitution models and complex multispecies coalescent histories

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5100864

2 October 2017

Prevention, diagnosis and treatment of high-throughput sequencing data pathologies

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5100864

2 October 2017

Reducing assembly complexity of microbial genomes with single-molecule sequencing

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5100864

2 October 2017

The MaSuRCA genome assembler

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5100864

2 October 2017

Assemblathon 2: evaluating de novo methods of genome assembly in three vertebrate species

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5100864

2 October 2017

Characterizing and measuring bias in sequence data

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5100864

2 October 2017

REAPR: a universal tool for genome assembly evaluation

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5100864

2 October 2017

GAGE-B: an evaluation of genome assemblers for bacterial organisms

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5100864

2 October 2017

Nonhybrid, finished microbial genome assemblies from long-read SMRT sequencing data

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5100864

2 October 2017

SOAPdenovo2: an empirically improved memory-efficient short-read de novo assembler

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5100864

2 October 2017

QUAST: quality assessment tool for genome assemblies

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5100864

2 October 2017

Sequence assembly demystified

1 reference

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2 October 2017

Diverse lifestyles and strategies of plant pathogenesis encoded in the genomes of eighteen Dothideomycetes fungi

1 reference

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2 October 2017

PBSIM: PacBio reads simulator--toward accurate genome assembly

1 reference

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2 October 2017

Finished bacterial genomes from shotgun sequence data

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5100864

2 October 2017

Exploiting sparseness in de novo genome assembly

1 reference

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2 October 2017

SPAdes: a new genome assembly algorithm and its applications to single-cell sequencing

1 reference

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2 October 2017

ART: a next-generation sequencing read simulator.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5100864

2 October 2017

Efficient de novo assembly of large genomes using compressed data structures

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5100864

2 October 2017

GAGE: A critical evaluation of genome assemblies and assembly algorithms

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5100864

2 October 2017

Assemblathon 1: a competitive assessment of de novo short read assembly methods

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5100864

2 October 2017

Evaluation of methods for de novo genome assembly from high-throughput sequencing reads reveals dependencies that affect the quality of the results

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5100864

2 October 2017

Meraculous: de novo genome assembly with short paired-end reads

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5100864

2 October 2017

Finished genome of the fungal wheat pathogen Mycosphaerella graminicola reveals dispensome structure, chromosome plasticity, and stealth pathogenesis

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5100864

2 October 2017

Field guide to next‐generation DNA sequencers

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2 October 2017

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5100864

2 October 2017

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1 reference

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2 October 2017

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1 reference

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2 October 2017

ABySS: a parallel assembler for short read sequence data

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5100864

2 October 2017

Harnessing genomics for evolutionary insights

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5100864

2 October 2017

Velvet: algorithms for de novo short read assembly using de Bruijn graphs

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5100864

2 October 2017

Genome-scale approaches to resolving incongruence in molecular phylogenies

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5100864

2 October 2017

Genome sequence of the human malaria parasite Plasmodium falciparum

1 reference

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2 October 2017

Mutation rates in mammalian genomes

1 reference

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2 October 2017

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1 reference

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2 October 2017

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1 reference

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2 October 2017

The genome sequence of Drosophila melanogaster

1 reference

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2 October 2017

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1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5100864

2 October 2017

Informed and automated k-mer size selection for genome assembly

1 reference

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23 September 2018

Inferring ancient divergences requires genes with strong phylogenetic signals.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5100864

23 September 2018

pIRS: Profile-based Illumina pair-end reads simulator

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23 September 2018

Creating a buzz about insect genomes.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5100864

23 September 2018

Overview of the yeast genome.

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23 September 2018

Canu: scalable and accurate long-read assembly via adaptive k-mer weighting and repeat separation

1 reference

https://pubmed.ncbi.nlm.nih.gov/27638685

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Identifiers

10.1534/G3.116.034249

1 reference

Europe PubMed Central

PMC publication ID

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:27638685%20AND%20SRC:MED&resulttype=core&format=json

23 March 2020

PMC publication ID

1 reference

Europe PubMed Central

PMC publication ID

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:27638685%20AND%20SRC:MED&resulttype=core&format=json

23 March 2020

PubMed publication ID

1 reference

Europe PubMed Central

PMC publication ID

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:27638685%20AND%20SRC:MED&resulttype=core&format=json

23 March 2020

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