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3. genomics

Topic : Genomics

before start the lecture.. #programing is self study region..

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genomic T (totality of the genetic things)

diversity –  & variability l (with combination T)

variation.....

also need to know phalogenetic trees...

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geno + enviro => Pheno (GEP/T graph)

geno enviro -> trait or disease...

 

Gene Complexes -> enviroComplexes PhenoComplex.

with those data... analyzing it PHR & phenotypes...

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prediction problem.... -> why do you study biology???

in research we have to provide algorithm...


exact data + principles & Laws & algorithm

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factor & principles.. in DNA sequencing

 

to get the exact data in genomics : by Typing & sequencing...

in experiment they spent 90% of the time used to get exact data..

 

-typing (hybridization-concentration) : grouping

-sequencing : get the sequence data

--> imaging calling -> grep certain sequence... [base calling]

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when you do research,

you need to have abillity for design the experiment...

at that time .... consider : Social & science & technical priority !


in tiger & whale genomics

 

ways for sequencing : de novo assembly...

snow leopard... -> Hiseq...

mate-sequencing : pair end

cost for tiger gene sequencing : $ 1million

 

one species was de-novo assemblying with diverse sequence length.
for other gene sequencing with same length (400bp)

-> because one types de-novo assembly sequence can be used as an reference genome.

 

the result data from olfactory genes...

TYR gene 47 linons... : with different amino acid residue define the color of the creature.

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phylogenetic analysis & divergence time..

for estimating Species differentiation events

 

-> MRCA : most recent common ancestor..

compared the human and whale genome

-> see the mutation accumulated information.

applying heterogeneity mutation rates with in time

 

with blast data -> call the number of mutation x total length of sequence x mutation rates.

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others..

 

when people moves to the island : dwarfism -> even found the genotypes..

hominidae -> 1myr ago...