(Q41964782)

14 October 2017

An Alignment-Free "Metapeptide" Strategy for Metaproteomic Characterization of Microbiome Samples Using Shotgun Metagenomic Sequencing (English)

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14 October 2017

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5

Elhanan Borenstein

1 reference

14 October 2017

Damon H May

1

1 reference

14 October 2017

Emma Timmins-Schiffman

2

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14 October 2017

Molly P Mikan

3

1 reference

14 October 2017

H Rodger Harvey

4

1 reference

14 October 2017

Brook L Nunn

6

1 reference

14 October 2017

William S Noble

7

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14 October 2017

11 July 2016

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Journal of Proteome Research

14 October 2017

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14 October 2017

15

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14 October 2017

8

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14 October 2017

2697-2705

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Needles in the blue sea: sub-species specificity in targeted protein biomarker analyses within the vast oceanic microbial metaproteome

14 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5116374

Tandem Mass Spectrum Identification via Cascaded Search

5 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5116374

Microbial metaproteomics for characterizing the range of metabolic functions and activities of human gut microbiota

5 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5116374

The MetaProteomeAnalyzer: a powerful open-source software suite for metaproteomics data analysis and interpretation.

5 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5116374

The Unipept metaproteomics analysis pipeline

5 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5116374

Metaproteomics reveals differential modes of metabolic coupling among ubiquitous oxygen minimum zone microbes

5 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5116374

Metaproteomic analysis of a winter to spring succession in coastal northwest Atlantic Ocean microbial plankton.

5 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5116374

Determining the calibration of confidence estimation procedures for unique peptides in shotgun proteomics

5 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5116374

Unipept: tryptic peptide-based biodiversity analysis of metaproteome samples.

5 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5116374

Comet: an open-source MS/MS sequence database search tool

5 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5116374

Soil metaproteomics - Comparative evaluation of protein extraction protocols.

5 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5116374

Strategies for metagenomic-guided whole-community proteomics of complex microbial environments

5 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5116374

SolexaQA: At-a-glance quality assessment of Illumina second-generation sequencing data

5 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5116374

A survey of computational methods and error rate estimation procedures for peptide and protein identification in shotgun proteomics

5 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5116374

Orphelia: predicting genes in metagenomic sequencing reads

5 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5116374

MetaGeneAnnotator: detecting species-specific patterns of ribosomal binding site for precise gene prediction in anonymous prokaryotic and phage genomes

5 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5116374

Colloquium paper: resistance, resilience, and redundancy in microbial communities

5 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5116374

MetaGene: prokaryotic gene finding from environmental genome shotgun sequences

5 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5116374

The Uncultured Microbial Majority

5 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5116374

Base-calling of automated sequencer traces using phred. I. Accuracy assessment

5 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5116374

Proteomics of Colwellia psychrerythraea at subzero temperatures - a life with limited movement, flexible membranes and vital DNA repair.

5 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5116374

Substrate-controlled succession of marine bacterioplankton populations induced by a phytoplankton bloom.

18 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5116374

Comparative metaproteomics reveals ocean-scale shifts in microbial nutrient utilization and energy transduction

18 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5116374

Semi-supervised learning for peptide identification from shotgun proteomics datasets.

18 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5116374

10.1021/ACS.JPROTEOME.6B00239

18 August 2018

Identifiers

DOI

1 reference

14 October 2017

1 reference

14 October 2017

PubMed publication ID

27396978

1 reference