INTEGRATING DENV WHOLE

GENOME ANNOTATION WITH

DISEASE ONTOLOGY

By

Zulkifal Yousaf

1

WORK FLOW

RESULTS AND

FINDINGS

1. Nucleotide Level

Annotation

Genome Organization Genome Mapping

Genome Organization of DENV-1, DENV-2, DENV-3 and DENV-4.

Distribution of structural and Non-structural Proteins on the basis of Size

Proteins Having Different Sizes Proteins Having Same Sizes

Genomes Proteins C E NS3 NS4B NS5 NS1 NS2A NS2B NS4A 2K M

DENV1

Genome location

(bp) 95-436

935-2419

4520-6376

6827-7573

7574-10270

2420-3475

3476-4129

4130-4519

6377-6757

6758-6826

437-934

Size (bp)

341 1484 1856 746 2696 1055 653 389 380 68 497

DENV2

Genome location

97-438 937-2421

4522-6375

6826-7569

7570-10269

2422-3477

3478-4131

4132-4521

6376-6756

6757-6825

439-936

Size 341 1484 1853 743 2699 1055 653 389 380 68 497

DENV3

Genome location

95-436

935-2413

4514-6370

6821-7564

7565-10264

2414-3469

3470-4123

4124-4513

6371-6751

6752-6820

437-934

Size 341 1478 1856 743 2699 1055 653 389 380 68 497

DENV4

Genome location

102-440 939-2423

4524-6377

6828-7562

7563-10262

2424-3479

3480-4133

4134-4523

6378-6758

6759-6827

441-938

Size 338 1484 1853 743 2699 1055 653 389 380 68 497

Grouping of proteins on basis of similar and different sizes and respective genome location.

Distribution of structural and non-structural proteins of DENV-1, DENV-2, DENV-3 and DENV-4.

Categorization of DENV proteins on the basis of size in whole genome.

0

5

10

15

20

25

30

Structural Non-structural

C

M

E

NS1

NS2A

NS2B

NS3

NS4A

2K

NS4B

NS5

others

2. DENV Intra- specie Single Nucleotide Polymorphism in

C/PrM region.

Strain

Names Serotypes SNP No Position Substitution

DENV-

PK/95-

2/2008-2

2

1 12 S F

2 50 MT

3 53 DV

DENV3-PK1-

3 3

1 12 YS

2 22 RP

3 54 LR

DENV-

PK/20/2007-

3

3 1 102 IT

2 126 HI