Experimental setup and data analysis considerations for DNA- and RNA-SIP experiments in the Omics Era
The result's identifiers
Result code in IS VaVaI
<a href="https://www.isvavai.cz/riv?ss=detail&h=RIV%2F60077344%3A_____%2F19%3A00518966" target="_blank" >RIV/60077344:_____/19:00518966 - isvavai.cz</a>
Result on the web
<a href="http://dx.doi.org/10.1007/978-1-4939-9721-3_1" target="_blank" >http://dx.doi.org/10.1007/978-1-4939-9721-3_1</a>
DOI - Digital Object Identifier
<a href="http://dx.doi.org/10.1007/978-1-4939-9721-3_1" target="_blank" >10.1007/978-1-4939-9721-3_1</a>
Alternative languages
Result language
angličtina
Original language name
Experimental setup and data analysis considerations for DNA- and RNA-SIP experiments in the Omics Era
Original language description
Careful and thoughtful experimental design is crucial to the success of any SIP experiment. This chapter discusses the essential aspects of designing a SIP experiment, focusing primarily on DNA- and RNA-SIP. The design aspects discussed here begin with considerations for carrying out the incubation, such as, the effect of choosing different stable isotopes and target biomolecules, to what degree should a labeled substrate be enriched, what concentration to use, and how long should the incubation take. Then tips and pitfalls in the technical execution of SIP are listed, including how much nucleic acids should be loaded, how many fractions to collect, and what centrifuge rotor to use. Lastly, a brief overview of the current methods for analyzing SIP data is presented, focusing on high-throughput amplicon sequencing, together with a discussion on how the choice of analysis method might affect the experimental design.
Czech name
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Czech description
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Classification
Type
C - Chapter in a specialist book
CEP classification
—
OECD FORD branch
10606 - Microbiology
Result continuities
Project
Result was created during the realization of more than one project. More information in the Projects tab.
Continuities
P - Projekt vyzkumu a vyvoje financovany z verejnych zdroju (s odkazem do CEP)
Others
Publication year
2019
Confidentiality
S - Úplné a pravdivé údaje o projektu nepodléhají ochraně podle zvláštních právních předpisů
Data specific for result type
Book/collection name
Stable Isotope Probing: Methods and Protocols, Methods in Molecular Biology
ISBN
978-1-4939-9720-6
Number of pages of the result
15
Pages from-to
1-15
Number of pages of the book
247
Publisher name
Humana Press
Place of publication
New York
UT code for WoS chapter
000517291000002