Scaling metagenome sequence assembly with probabilistic de Bruijn graphs (Q36170818)

12 August 2017

Scaling metagenome sequence assembly with probabilistic de Bruijn graphs (English)

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12 August 2017

6

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12 August 2017

Jason Pell

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James M. Tiedje

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5

object named as

James M Tiedje

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12 August 2017

4

Adina Howe

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12 August 2017

Arend Hintze

2

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12 August 2017

Rosangela Canino-Koning

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3

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12 August 2017

language of work or name

English

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publication date

30 July 2012

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Proceedings of the National Academy of Sciences of the United States of America

12 August 2017

6

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published in

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12 August 2017

109

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33

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13272-13277

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maintained by WikiProject

12 August 2017

WikiProject Mathematics

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cites work

MetaVelvet: an extension of Velvet assembler to de novo metagenome assembly from short sequence reads

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De novo assembly and genotyping of variants using colored de Bruijn graphs

1 October 2017

1 reference

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GAGE: A critical evaluation of genome assemblies and assembly algorithms

1 October 2017

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How to apply de Bruijn graphs to genome assembly

1 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3421212

Metagenomic analysis of a permafrost microbial community reveals a rapid response to thaw

1 October 2017

1 reference

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Efficient counting of k-mers in DNA sequences using a bloom filter

1 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3421212

Meta-IDBA: a de Novo assembler for metagenomic data

1 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3421212

Full-length transcriptome assembly from RNA-Seq data without a reference genome

1 October 2017

1 reference

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The Earth Microbiome Project: Meeting report of the "1 EMP meeting on sample selection and acquisition" at Argonne National Laboratory October 6 2010.

1 October 2017

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Meeting report: the terabase metagenomics workshop and the vision of an Earth microbiome project

1 October 2017

1 reference

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Metagenomic discovery of biomass-degrading genes and genomes from cow rumen

1 October 2017

1 reference

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Succinct data structures for assembling large genomes

1 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3421212

High-quality draft assemblies of mammalian genomes from massively parallel sequence data

1 October 2017

1 reference

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Quake: quality-aware detection and correction of sequencing errors

1 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3421212

Classification of DNA sequences using Bloom filters.

1 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3421212

A parallel algorithm for error correction in high-throughput short-read data on CUDA-enabled graphics hardware

1 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3421212

Assembly algorithms for next-generation sequencing data

1 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3421212

A human gut microbial gene catalogue established by metagenomic sequencing

1 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3421212

1 October 2017

A primer on metagenomics

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3421212

Genome assembly reborn: recent computational challenges

1 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3421212

ABySS: a parallel assembler for short read sequence data

1 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3421212

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

1 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3421212

Computational improvements reveal great bacterial diversity and high metal toxicity in soil

1 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3421212

De novo identification of repeat families in large genomes

1 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3421212

Environmental genome shotgun sequencing of the Sargasso Sea

1 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3421212

Critical and near-critical branching processes

1 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3421212

An Eulerian path approach to DNA fragment assembly

1 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3421212

DecGPU: distributed error correction on massively parallel graphics processing units using CUDA and MPI.

1 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3421212

DNA sequence assembly and multiple sequence alignment by an Eulerian path approach

2 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3421212

Phenotypic connections in surprising places

23 September 2018

1 reference

Crossref

https://api.crossref.org/works/10.1073%2FPNAS.1121464109

Space/time trade-offs in hash coding with allowable errors

21 January 2018

1 reference

Crossref

https://api.crossref.org/works/10.1073%2FPNAS.1121464109

Network Applications of Bloom Filters: A Survey

21 January 2018

1 reference

Crossref

https://api.crossref.org/works/10.1073%2FPNAS.1121464109

21 January 2018

Identifiers

DOI

10.1073/PNAS.1121464109

1 reference

journals/pnas/PellHCHTB12

12 August 2017

0 references

1 reference

1 reference

DBLP Dataset 2021-01-02

28 January 2021

1 reference

12 August 2017

PubMed publication ID

22847406

1 reference