Literature DB >> 25477242

The Unipept metaproteomics analysis pipeline.

Bart Mesuere1, Griet Debyser, Maarten Aerts, Bart Devreese, Peter Vandamme, Peter Dawyndt.   

Abstract

Unipept (http://unipept.ugent.be) is a web application that offers a user-friendly way to explore the biodiversity of complex metaproteome samples by providing interactive visualizations. In this article, the updates and changes to Unipept since its initial release are presented. This includes the addition of interactive sunburst and treeview visualizations to the multipeptide analysis, the foundations of an application programming interface (API) and a command line interface, updated data sources, and the open-sourcing of the entire application under the MIT license.
© 2014 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim.

Keywords:  Biodiversity analysis; Bioinformatics; Data visualization; Metaproteomics; Tryptic peptides

Mesh：

Substances：

Year:  2015        PMID： 25477242     DOI： 10.1002/pmic.201400361

Source DB:  PubMed          Journal:  Proteomics        ISSN： 1615-9853            Impact factor:   3.984


  32 in total

1.  An Alignment-Free "Metapeptide" Strategy for Metaproteomic Characterization of Microbiome Samples Using Shotgun Metagenomic Sequencing.

Authors:  Damon H May; Emma Timmins-Schiffman; Molly P Mikan; H Rodger Harvey; Elhanan Borenstein; Brook L Nunn; William S Noble
Journal:  J Proteome Res       Date:  2016-07-19       Impact factor: 4.466

2.  A Meta-proteogenomic Approach to Peptide Identification Incorporating Assembly Uncertainty and Genomic Variation.

Authors:  Sujun Li; Haixu Tang; Yuzhen Ye
Journal:  Mol Cell Proteomics       Date:  2019-05-29       Impact factor: 5.911

3.  Nitrated meat products are associated with mania in humans and altered behavior and brain gene expression in rats.

Authors:  Seva G Khambadkone; Zachary A Cordner; Faith Dickerson; Emily G Severance; Emese Prandovszky; Mikhail Pletnikov; Jianchun Xiao; Ye Li; Gretha J Boersma; C Conover Talbot; Wayne W Campbell; Christian S Wright; C Evan Siple; Timothy H Moran; Kellie L Tamashiro; Robert H Yolken
Journal:  Mol Psychiatry       Date:  2018-07-18       Impact factor: 15.992

4.  Metaproteomics Applied to Activated Sludge for Industrial Wastewater Treatment Revealed a Dominant Methylotrophic Metabolism of Hyphomicrobium zavarzinii.

Authors:  Carlo Salerno; Dirk Benndorf; Sabine Kluge; Luigi Leonardo Palese; Udo Reichl; Alfieri Pollice
Journal:  Microb Ecol       Date:  2016-04-18       Impact factor: 4.552

5.  A Novel Peptidomic Approach to Strain Typing of Clinical Acinetobacter baumannii Isolates Using Mass Spectrometry.

Authors:  Honghui Wang; Steven K Drake; Chen Yong; Marjan Gucek; Margaret Tropea; Avi Z Rosenberg; John P Dekker; Anthony F Suffredini
Journal:  Clin Chem       Date:  2016-04-26       Impact factor: 8.327

6.  Meta-proteomic analysis of two mammoth's trunks by EVA technology and high-resolution mass spectrometry for an indirect picture of their habitat and the characterization of the collagen type I, alpha-1 and alpha-2 sequence.

Authors:  Annamaria Cucina; Antonella Di Francesco; Rosaria Saletti; Maria Gaetana Giovanna Pittalà; Gleb Zilberstein; Svetlana Zilberstein; Alexei Tikhonov; Andrey G Bublichenko; Pier Giorgio Righetti; Salvatore Foti; Vincenzo Cunsolo
Journal:  Amino Acids       Date:  2022-04-17       Impact factor: 3.789

7.  Optimization of proteomics sample preparation for identification of host and bacterial proteins in mouse feces.

Authors:  Maryam Baniasad; Yongseok Kim; Michael Shaffer; Anice Sabag-Daigle; Ikaia Leleiwi; Rebecca A Daly; Brian M M Ahmer; Kelly C Wrighton; Vicki H Wysocki
Journal:  Anal Bioanal Chem       Date:  2022-02-01       Impact factor: 4.478

8.  Gut Bacteria Metabolism Impacts Immune Recovery in HIV-infected Individuals.

Authors:  Sergio Serrano-Villar; David Rojo; Mónica Martínez-Martínez; Simon Deusch; Jorge F Vázquez-Castellanos; Rafael Bargiela; Talía Sainz; Mar Vera; Santiago Moreno; Vicente Estrada; María José Gosalbes; Amparo Latorre; Jana Seifert; Coral Barbas; Andrés Moya; Manuel Ferrer
Journal:  EBioMedicine       Date:  2016-04-27       Impact factor: 8.143

9.  The impact of sequence database choice on metaproteomic results in gut microbiota studies.

Authors:  Alessandro Tanca; Antonio Palomba; Cristina Fraumene; Daniela Pagnozzi; Valeria Manghina; Massimo Deligios; Thilo Muth; Erdmann Rapp; Lennart Martens; Maria Filippa Addis; Sergio Uzzau
Journal:  Microbiome       Date:  2016-09-27       Impact factor: 14.650

10.  MetaPro-IQ: a universal metaproteomic approach to studying human and mouse gut microbiota.

Authors:  Xu Zhang; Zhibin Ning; Janice Mayne; Jasmine I Moore; Jennifer Li; James Butcher; Shelley Ann Deeke; Rui Chen; Cheng-Kang Chiang; Ming Wen; David Mack; Alain Stintzi; Daniel Figeys
Journal:  Microbiome       Date:  2016-06-24       Impact factor: 14.650
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