Literature DB >> 29344888

Perseus: A Bioinformatics Platform for Integrative Analysis of Proteomics Data in Cancer Research.

Stefka Tyanova1, Juergen Cox2.   

Abstract

Mass spectrometry-based proteomics is a continuously growing field marked by technological and methodological improvements. Cancer proteomics is aimed at pursuing goals such as accurate diagnosis, patient stratification, and biomarker discovery, relying on the richness of information of quantitative proteome profiles. Translating these high-dimensional data into biological findings of clinical importance necessitates the use of robust and powerful computational tools and methods. In this chapter, we provide a detailed description of standard analysis steps for a clinical proteomics dataset performed in Perseus, a software for functional analysis of large-scale quantitative omics data.

Entities:  

Keywords:  Cancer proteomics; Omics data analysis; Perseus; Software; Translational bioinformatics

Mesh:

Substances:

Year:  2018        PMID: 29344888     DOI: 10.1007/978-1-4939-7493-1_7

Source DB:  PubMed          Journal:  Methods Mol Biol        ISSN: 1064-3745


  116 in total

1.  Hdac4 Interactions in Huntington's Disease Viewed Through the Prism of Multiomics.

Authors:  Joel D Federspiel; Todd M Greco; Krystal K Lum; Ileana M Cristea
Journal:  Mol Cell Proteomics       Date:  2019-04-30       Impact factor: 5.911

2.  A Protocol for Isolation, Purification, Characterization, and Functional Dissection of Exosomes.

Authors:  Alin Rai; Haoyun Fang; Monique Fatmous; Bethany Claridge; Qi Hui Poh; Richard J Simpson; David W Greening
Journal:  Methods Mol Biol       Date:  2021

3.  Automated Coupling of Nanodroplet Sample Preparation with Liquid Chromatography-Mass Spectrometry for High-Throughput Single-Cell Proteomics.

Authors:  Sarah M Williams; Andrey V Liyu; Chia-Feng Tsai; Ronald J Moore; Daniel J Orton; William B Chrisler; Matthew J Gaffrey; Tao Liu; Richard D Smith; Ryan T Kelly; Ljiljana Pasa-Tolic; Ying Zhu
Journal:  Anal Chem       Date:  2020-07-22       Impact factor: 6.986

Review 4.  Application of Proteomics Technologies in Oil Palm Research.

Authors:  Benjamin Yii Chung Lau; Abrizah Othman; Umi Salamah Ramli
Journal:  Protein J       Date:  2018-12       Impact factor: 2.371

Review 5.  Assessment of the SRC Inhibition Role in the Efficacy of Breast Cancer Radiotherapy.

Authors:  Shabnam Shahrokh; Vahid Mansouri; Mohammadreza Razzaghi
Journal:  J Lasers Med Sci       Date:  2019-12-01

6.  Lactosyl-sepharose binding proteins from pancreatic cancer cells show differential expression in primary and metastatic organs.

Authors:  Micah N Sagini; Karel D Klika; Agnes Hotz-Wagenblatt; Michael Zepp; Martin R Berger
Journal:  Exp Biol Med (Maywood)       Date:  2020-03-04

7.  The Formation of a Camalexin Biosynthetic Metabolon.

Authors:  Stefanie Mucha; Stephanie Heinzlmeir; Verena Kriechbaumer; Benjamin Strickland; Charlotte Kirchhelle; Manisha Choudhary; Natalie Kowalski; Ruth Eichmann; Ralph Hückelhoven; Erwin Grill; Bernhard Kuster; Erich Glawischnig
Journal:  Plant Cell       Date:  2019-09-11       Impact factor: 11.277

8.  Sample Preparation by Easy Extraction and Digestion (SPEED) - A Universal, Rapid, and Detergent-free Protocol for Proteomics Based on Acid Extraction.

Authors:  Joerg Doellinger; Andy Schneider; Marcell Hoeller; Peter Lasch
Journal:  Mol Cell Proteomics       Date:  2019-11-21       Impact factor: 5.911

9.  Study on the Molecular Mechanisms Against Human Breast Cancer from Insight of Elemental Distribution in Tissue Based on Laser-Induced Breakdown Spectroscopy (LIBS).

Authors:  Hongyan Wei; Zhao Zhao; Qingyu Lin; Yixiang Duan
Journal:  Biol Trace Elem Res       Date:  2020-08-07       Impact factor: 3.738

10.  In situ detection of protein interactions for recombinant therapeutic enzymes.

Authors:  Mojtaba Samoudi; Chih-Chung Kuo; Caressa M Robinson; Km Shams-Ud-Doha; Song-Min Schinn; Stefan Kol; Linus Weiss; Sara Petersen Bjorn; Bjorn G Voldborg; Alexandre Rosa Campos; Nathan E Lewis
Journal:  Biotechnol Bioeng       Date:  2020-11-24       Impact factor: 4.530

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