Literature DB >> 20077413

Using Laboratory Information Management Systems as central part of a proteomics data workflow.

Christian Stephan1, Michael Kohl, Michael Turewicz, Katharina Podwojski, Helmut E Meyer, Martin Eisenacher.   

Abstract

The organization and storage of proteomics data are challenging issues today and even more for the rising amount of information in the future. This review article describes the advantages of using Laboratory Information Management Systems (LIMS) in proteomics laboratories. Seven typical LIMS are explored in detail to describe their role in an even bigger interrelation. They are a central part of the proteomics data workflow, starting with data generation and ending with the publication in journals and repositories. Therefore, they enable community-wide data utilization and further Systems Biology discoveries.

Mesh：

Year:  2010        PMID： 20077413     DOI： 10.1002/pmic.200900420

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


  10 in total

Review 1.  Systems immunology of human malaria.

Authors:  Tuan M Tran; Babru Samal; Ewen Kirkness; Peter D Crompton
Journal:  Trends Parasitol       Date:  2012-05-15

2.  Method for tracking core-contributed publications.

Authors:  Cynthia A Loomis; Carol Lynn Curchoe
Journal:  J Biomol Tech       Date:  2012-12

Review 3.  State-of-the-Art Data Management: Improving the Reproducibility, Consistency, and Traceability of Structural Biology and in Vitro Biochemical Experiments.

Authors:  David R Cooper; Marek Grabowski; Matthew D Zimmerman; Przemyslaw J Porebski; Ivan G Shabalin; Magdalena Woinska; Marcin J Domagalski; Heping Zheng; Piotr Sroka; Marcin Cymborowski; Mateusz P Czub; Ewa Niedzialkowska; Barat S Venkataramany; Tomasz Osinski; Zbigniew Fratczak; Jacek Bajor; Juliusz Gonera; Elizabeth MacLean; Kamila Wojciechowska; Krzysztof Konina; Wojciech Wajerowicz; Maksymilian Chruszcz; Wladek Minor
Journal:  Methods Mol Biol       Date:  2021

4.  The Protein Information Management System (PiMS): a generic tool for any structural biology research laboratory.

Authors:  Chris Morris; Anne Pajon; Susanne L Griffiths; Ed Daniel; Marc Savitsky; Bill Lin; Jonathan M Diprose; Alan Wilter da Silva; Katya Pilicheva; Peter Troshin; Johannes van Niekerk; Neil Isaacs; James Naismith; Colin Nave; Richard Blake; Keith S Wilson; David I Stuart; Kim Henrick; Robert M Esnouf
Journal:  Acta Crystallogr D Biol Crystallogr       Date:  2011-03-18

5.  PRODIS: a proteomics data management system with support to experiment tracking.

Authors:  Alessandra Faria-Campos; Herbert Fernandes-Rausch; Celina Val; Peter Thorun; Vinicius Abreu; Paulo Henrique Batista; Paulo Henrique Mendonça; Vinicius Alves; Maíra Ribeiro Rodrigues; Adriano Pimenta; Glória Franco; Sérgio Vale Aguiar Campos
Journal:  BMC Genomics       Date:  2011-12-22       Impact factor: 3.969

6.  Clinical proteomic biomarkers: relevant issues on study design & technical considerations in biomarker development.

Authors:  Maria Frantzi; Akshay Bhat; Agnieszka Latosinska
Journal:  Clin Transl Med       Date:  2014-03-29

7.  e!DAL--a framework to store, share and publish research data.

Authors:  Daniel Arend; Matthias Lange; Jinbo Chen; Christian Colmsee; Steffen Flemming; Denny Hecht; Uwe Scholz
Journal:  BMC Bioinformatics       Date:  2014-06-24       Impact factor: 3.169

8.  qcML: an exchange format for quality control metrics from mass spectrometry experiments.

Authors:  Mathias Walzer; Lucia Espona Pernas; Sara Nasso; Wout Bittremieux; Sven Nahnsen; Pieter Kelchtermans; Peter Pichler; Henk W P van den Toorn; An Staes; Jonathan Vandenbussche; Michael Mazanek; Thomas Taus; Richard A Scheltema; Christian D Kelstrup; Laurent Gatto; Bas van Breukelen; Stephan Aiche; Dirk Valkenborg; Kris Laukens; Kathryn S Lilley; Jesper V Olsen; Albert J R Heck; Karl Mechtler; Ruedi Aebersold; Kris Gevaert; Juan Antonio Vizcaíno; Henning Hermjakob; Oliver Kohlbacher; Lennart Martens
Journal:  Mol Cell Proteomics       Date:  2014-04-23       Impact factor: 5.911

9.  Bringing IoT to the Lab: SiLA2 and Open-Source-Powered Gateway Module for Integrating Legacy Devices into the Digital Laboratory.

Authors:  Marc Porr; Sebastian Schwarz; Ferdinand Lange; Laura Niemeyer; Thorleif Hentrop; Daniel Marquard; Patrick Lindner; Thomas Scheper; Sascha Beutel
Journal:  HardwareX       Date:  2020-06-21

Review 10.  Soil and leaf litter metaproteomics-a brief guideline from sampling to understanding.

Authors:  Katharina M Keiblinger; Stephan Fuchs; Sophie Zechmeister-Boltenstern; Katharina Riedel
Journal:  FEMS Microbiol Ecol       Date:  2016-08-21       Impact factor: 4.194
  10 in total

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