UCSC Genome Browser

UCSC Genome Browser

UCSC Genome Browser

UCSC Genome Browser

UCSC Genome Browser

UCSC Genome Browser

Complete human genome

Transposable Elements

45% of the human genome is occupied by transposons and

Схожесть с ретровирусами
Retrovirus reverse transcripiton

http://www.youtube.com/watch?v=eS1GODinO8w

Class II

Class I – retrotransposons (via

Active

Non-Active

First Layer of Genome Annotation

Epigenetics

Second Layer of Genome Annotation

Second Layer of Genome Annotation

Second Layer of Genome Annotation

Second Layer of Genome Annotation

Second Layer of Genome Annotation

Third Layer of Genome Annotation

Data Accumulation

ENCODE: Encyclopedia of DNA Elements

Digital Universe

Like the Physical Universe the Digital Universe is also expanding

Digital Universe

Data Universe Will Expand To 44 Trillion GBs By 2020

Что делать?

Что получилось? (Success Stories)

СКРЫТЫЕ ЦЕПИ МАРКОВА

Gene Prediction

E0

E1

E2

E2

E1

E0

N

P

Eterm

P

Einit

polyA

5’ UTR

I0

I1

I2

I0

I1

I2

Esngl

Esngl

Einit

Eterm

forward strand

backward strand

3’ UTR

5’ UTR

3’ UTR

polyA

E- exons
I- introns
single exon
5’

Promoter prediction

Hidden Markov model with six interpolated Markov chain submodels
upstream

predict tissue-dependent changes in alternative splicing for thousands of exons.
1,014

Genome intrinsic organization can explain ,50% of the in vivo nucleosome

Schematic overview of epigenetic regulatory mechanisms.

Yonggang Zhou et al. Circ

Random Forest model predicts cancer mutation densities from epigenomic mark ups

We have many experimental genome-wide annotations

Question 1: Are different annottaions correlated?

Annotations under different conditions

Как много данных?

Roadmap Epigenomics
~ 3 000 полногеномных данных
ENCODE Encyclopedia of

Открытые вопросы

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