How to analyse the transcriptome Flashcards
1
Q
epigenomics studies
A
chromatin state ChIP-seq (genome wide detection of histone modifications or transcription factor binding) and methylation - Methyl-Seq
2
Q
what are 4 applications of NGS
A
identify:
- human gentic varaitation and diseases
- epigenomics
- detection of low abundance DNA pop
- detection of non human genomes
3
Q
non invasive pre-natal testing on circulation fetal DNA
A
done by a blood test from the tenth week of gestation, evaluates risks of certain genetic conditions
4
Q
metagenomics
A
study of all genes contained within a community, allows the analyses of the microbiome
5
Q
transcriptome
A
is the complete set of transcripts ina cell, and their quantity for a specific developmental stag or physiological condition
6
Q
aim of transcriptomics
A
- to catalogue all species of transcripts
- to determine the transcriptional structure of genes
- to quantify the changing expression levels of each transcript during development
7
Q
what are the 2 methods to study transcriptomics
A
microarray, RNAseq
8
Q
how is RNAseq library prep done
A
- enrich for specific RNA pop : total RNA or mRNA
- RNA are fragmented and converted into cDNA
- sequencing adaptors are added to each cDNA fragment and library sequenced
- the result sequence are aligned with the reference genome or transcriptome
9
Q
RNA seq applications
A
- gene expression
- alternative splicing
- chimeric (fusion) transcripts
- novel transcripts
- variants
- microRNA
- Non coding RNA
