About: RT-qPCR work-flow for single-cell data analysis

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An Entity of Type : http://linked.opendata.cz/ontology/domain/vavai/Vysledek, within Data Space : linked.opendata.cz associated with source document(s)

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rdf:type	skos:Concept http://linked.opendata.cz/ontology/domain/vavai/Vysledek
Description	Individual cells represent the basic unit in tissues and organisms and are in many aspects unique in their properties. The introduction of new and sensitive techniques to study single-cells opens up new avenues to understand fundamental biological processes. Well established statistical tools and recommendations exist for gene expression data based on traditional cell population measurements. However, these workflows are not suitable, and some steps are even inappropriate, to apply on single-cell data. Here, we present a simple and practical workflow for preprocessing of single-cell data generated by reverse transcription quantitative real-time PCR. The approach is demonstrated on a data set based on profiling of 41 genes in 303 single-cells. For some pre-processing steps we present options and also recommendations. In particular, we demonstrate and discuss different strategies for handling missing data and scaling data for downstream multivariate analysis. The aim of this workflow is provide guide to the rapidly growing community studying single-cells by means of reverse transcription quantitative real-time PCR profiling. (C) 2012 Elsevier Inc. All rights reserved. Individual cells represent the basic unit in tissues and organisms and are in many aspects unique in their properties. The introduction of new and sensitive techniques to study single-cells opens up new avenues to understand fundamental biological processes. Well established statistical tools and recommendations exist for gene expression data based on traditional cell population measurements. However, these workflows are not suitable, and some steps are even inappropriate, to apply on single-cell data. Here, we present a simple and practical workflow for preprocessing of single-cell data generated by reverse transcription quantitative real-time PCR. The approach is demonstrated on a data set based on profiling of 41 genes in 303 single-cells. For some pre-processing steps we present options and also recommendations. In particular, we demonstrate and discuss different strategies for handling missing data and scaling data for downstream multivariate analysis. The aim of this workflow is provide guide to the rapidly growing community studying single-cells by means of reverse transcription quantitative real-time PCR profiling. (C) 2012 Elsevier Inc. All rights reserved. (en)
Title	RT-qPCR work-flow for single-cell data analysis RT-qPCR work-flow for single-cell data analysis (en)
skos:prefLabel	RT-qPCR work-flow for single-cell data analysis RT-qPCR work-flow for single-cell data analysis (en)
skos:notation	RIV/86652036:_____/13:00392069!RIV14-MSM-86652036
http://linked.open...avai/riv/aktivita	I P Z
http://linked.open...avai/riv/aktivity	I, P(GAP303/10/1338), P(ME10052), Z(AV0Z50520701)
http://linked.open...iv/cisloPeriodika	1
http://linked.open...vai/riv/dodaniDat	2014
http://linked.open...aciTvurceVysledku	Kubista, Mikael Rusňáková, Vendula
http://linked.open.../riv/druhVysledku	J - Článek v odborném periodiku
http://linked.open...iv/duvernostUdaju	S - Úplné a pravdivé údaje nepodléhající ochraně podle zvláštních právních předpisů
http://linked.open...titaPredkladatele	Biotechnologický ústav AV ČR, v. v. i.
http://linked.open...dnocenehoVysledku	103721
http://linked.open...ai/riv/idVysledku	RIV/86652036:_____/13:00392069
http://linked.open...riv/jazykVysledku	eng - angličtina
http://linked.open.../riv/klicovaSlova	RT-qPCR; Single-cell biology; Single-cell data analysis (en)
http://linked.open.../riv/klicoveSlovo	Single-cell biology Single-cell data analysis RT-qPCR
http://linked.open...odStatuVydavatele	US - Spojené státy americké
http://linked.open...ontrolniKodProRIV	[B66C58B408CB]
http://linked.open...i/riv/nazevZdroje	Methods
http://linked.open...in/vavai/riv/obor	EB
http://linked.open...ichTvurcuVysledku	2 (xsd:int)
http://linked.open...cetTvurcuVysledku	5 (xsd:int)
http://linked.open...vavai/riv/projekt	Cellular Expression Signatures in Idiopathic Pulmonary Fibrosis Cell volume regulation in glial cells during brain ischemia/reperfusion
http://linked.open...UplatneniVysledku	2013
http://linked.open...v/svazekPeriodika	59
http://linked.open...iv/tvurceVysledku	Kubista, Mikael Stahlberg, A. Rusňáková, Vendula Anděrová, Miroslava Forootan, A.
http://linked.open...ain/vavai/riv/wos	000314555700009
http://linked.open...n/vavai/riv/zamer	Establishing of the Biotechnology Institute ASCR
issn	1046-2023
number of pages	9 (xsd:int)

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