MetaSim: a sequencing simulator for genomics and metagenomics (Q33374533)

26 July 2017

title

MetaSim: a sequencing simulator for genomics and metagenomics (English)

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26 July 2017

1 reference

1 reference

Daniel C Richter

1 reference

26 July 2017

Felix Ott

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26 July 2017

Alexander F Auch

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26 July 2017

Ramona Schmid

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26 July 2017

Daniel H Huson

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26 July 2017

language of work or name

English

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publication date

8 October 2008

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26 July 2017

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26 July 2017

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26 July 2017

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26 July 2017

page(s)

e3373

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Creative Commons Attribution 4.0 International

26 July 2017

start time

8 October 2008

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April 2022 Public Data File from Crossref

copyrighted

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cites work

Phylogenetic classification of short environmental DNA fragments

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Database resources of the National Center for Biotechnology Information

14 July 2018

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The Pfam protein families database

14 July 2018

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2556396

Use of simulated data sets to evaluate the fidelity of metagenomic processing 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=2556396

The Sorcerer II Global Ocean Sampling expedition: northwest Atlantic through eastern tropical Pacific

14 July 2018

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MEGAN analysis of metagenomic data

14 July 2018

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2556396

An obesity-associated gut microbiome with increased capacity for energy harvest

14 July 2018

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Accurate phylogenetic classification of variable-length DNA fragments

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2556396

Whole-genome re-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=2556396

Metagenomic analysis of the human distal gut microbiome

14 July 2018

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An application of statistics to comparative metagenomics

14 July 2018

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2556396

Metagenomics to paleogenomics: large-scale sequencing of mammoth DNA

14 July 2018

1 reference

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The subsystems approach to genome annotation and its use in the project to annotate 1000 genomes

14 July 2018

1 reference

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Genome sequencing in microfabricated high-density picolitre reactors

14 July 2018

1 reference

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Comparative metagenomics of microbial communities

14 July 2018

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STRING: known and predicted protein-protein associations, integrated and transferred across organisms

14 July 2018

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14 July 2018

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TETRA: a web-service and a stand-alone program for the analysis and comparison of tetranucleotide usage patterns in DNA sequences

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2556396

Environmental genome shotgun sequencing of the Sargasso Sea

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2556396

Community structure and metabolism through reconstruction of microbial genomes from the environment

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2556396

The TIGRFAMs database of protein families

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2556396

Genomes OnLine Database (GOLD): a monitor of genome projects world-wide

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2556396

Automation for genomics, part two: sequencers, microarrays, and future trends

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2556396

Automation for genomics, part one: preparation for sequencing

14 July 2018

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2556396

KEGG: kyoto encyclopedia of genes and genomes

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2556396

Genomic signature: characterization and classification of species assessed by chaos game representation of sequences

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2556396

A genomic perspective on protein families

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2556396

Seq-Gen: an application for the Monte Carlo simulation of DNA sequence evolution along phylogenetic trees

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2556396

Dinucleotide relative abundance extremes: a genomic signature

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2556396

Dating of the human-ape splitting by a molecular clock of mitochondrial DNA

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2556396

CompostBin: A DNA Composition-Based Algorithm for Binning Environmental Shotgun Reads

14 July 2018

1 reference

Crossref

https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0003373

A Mathematical Theory of Evolution, Based on the Conclusions of Dr. J. C. Willis, F.R.S

21 January 2018

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https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0003373

GenFrag 2.1: new features for more robust fragment assembly benchmarks.

21 January 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2556396

Interpreting the unculturable majority

31 October 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/18841204

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

A dataset generator for whole genome shotgun sequencing

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/18841204

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1371/JOURNAL.PONE.0003373

1 reference

26 July 2017

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1 reference

26 July 2017

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