omics Flashcards
what do we study in omics
technique for target identification and development
what is omics
is study of the entire collection of a type of molecule. including genomics, transcriptomics, proteomics, and metabolomics.
define the following genomics, transcriptomics, proteomics, and metabolomics. and give one example of technique used
-genomics: study of gene contained in the chromosomes. ex; NGS
-transcriptomics: study of set of mRNA molecule being expressed at the given time under specified condition. ex: NGS
-proteomics: study of the set of protein expressed at given time under specific condition and state of their modification. ex: MS
-metabolomics: study of the set of small molecule at a given time under specific condition. ex: MS
how is omic used for target identification
-first take sample from the patient
-compare the sample group from patient and health population variation.
- find the difference that are causative to pinpoint the target
what do we identify in genomics
-find genome level deviation that maybe causing the diseases
- association between phenotype and genotype
- point mutation
what do we identify in transcriptomics and the technique
look at gene that are actually expressed.
tech: NGS and micro array
how is data processing for analysis for target discovery using RNA-sequencing
- need to reduce experimental noise to find the biological relevant variation
-QC: filter low quality data
what are the data analysis technique
- PCA (percentage variation analysis): show percentage variation
- gene level filter: used to filter data
how is data normalized in the omics/ while identifying the target
compensate for different in sample amount because most analyte don’t differ btn samples
what is the aim for data normalisation
we need similary data distribution
why do we do between sample normalization
because of different RNA being analyzed
how do we conduct Differential expression analyses for target discovery or identification
find the difference between the diseases and the control group from different condition
Network analyse and system biology: How genes work together
many gene/protein change expression level according to the condition
how Gene set enrichment analyses work
help to find pathway that contain more differentially expressed gene
things to consider during target identification
-sample size is important within analysis
-batch effect
-correlation is not causation
-bioinformatics
the aim is to see if the results are reproducible and possible to replicate within other sample
