Ti liu chia s ti: wWw.SinhHoc.edu.

vn

Ti liu chia s ti: wWw.SinhHoc.edu.vn

S dng Pubmed

Ti liu chia s ti: wWw.SinhHoc.edu.vn

Ti liu chia s ti: wWw.SinhHoc.edu.vn

Ti liu chia s ti: wWw.SinhHoc.edu.vn

Ti liu chia s ti: wWw.SinhHoc.edu.vn

Tm kim trnh t sinh hc qua NCBI

Ti liu chia s ti: wWw.SinhHoc.edu.vn

Click

Tm kim trnh t sinh hc

Ti liu chia s ti: wWw.SinhHoc.edu.vn

Tm kim trnh t DNA

Ti liu chia s ti: wWw.SinhHoc.edu.vn

Tm kim trnh t qua m s truy cp

Ti liu chia s ti: wWw.SinhHoc.edu.vn

M s truy cp ca mt trnh t l m s do cc nh qun tr CSDLSH t cho mt trnh t, thng c dng : 8 k t : 2 ch v 6 s v d nh AY690640 6 k t : 1 ch v 5 s v d nh U20068
10

Ti liu chia s ti: wWw.SinhHoc.edu.vn

TM KIM TRNH T SINH HC QUA M S TRUY CP

11

Kt qu tm trnh t DNA qua m s truy cp

Ti liu chia s ti: wWw.SinhHoc.edu.vn

12

Ti liu chia s ti: Tm kim trnhwWw.SinhHoc.edu.vn t qua tn gene

13

Ti liu chia s ti: wWw.SinhHoc.edu.vn

14

Ti liu chia s ti: wWw.SinhHoc.edu.vn

nh dng FASTA

FASTA l mt gii thut bt cp trnh t c David J. Lipman v William R. Pearson miu t ln u tin vo nm 1985 (Rapid and sensitive protein similarity searches). Nhiu phn mm tin sinh hc cn d liu trnh t gene hoc protein theo kiu nh dng FASTA nh v d minh ho di y: >tn trnh t
gattctcacttggtctgctgcaaggacgcggaccattaaaactgttcatggcccttgtg gcgttctcgtttcctaacaatcccaccaacagcagggatactaaaaagatggggaac gatcaaaaaatcaaaagctatcaatgtcttgagagggttcaggaaagagattggaag 15 gatgctgaacatcttgaacaggagacgcaggacagcaggcgtgattgttatgttgatt

Cch Ti liu chia s ti: wWw.SinhHoc.edu.vn ly trnh t theo nh dng FASTA

16

Ti liu chia s ti: wWw.SinhHoc.edu.vn

Mt s m s truy cp ca RefSeq database

1. mRNAs and Proteins
NM_123456 NP_123456 NR_123456 XM_123456 XP_123456 XR_123456 Curated mRNA Curated Protein Curated non-coding RNA Predicted mRNA Predicted Protein Predicted non-coding RNA

2. Chromosome NC_123455 Microbial replicons, organelle genomes, human chromosomes 4. Assemblies NT_123456 Contig

17

Ti liu NM_123456 V d 1:chia s ti: wWw.SinhHoc.edu.vn Curated mRNA

NM_123456

18

Ti liu chia s ti: wWw.SinhHoc.edu.vn

V d 2: NC_12345

19

Kt qu tm kim b gene

Ti liu chia s ti: wWw.SinhHoc.edu.vn

20

Ti liu chia s ti: wWw.SinhHoc.edu.vn

Blast trnh t
So snh cc chui sinh hc khc nhau (chui aminoacid, chui DNA), tm kim trnh t tng ng

BLAST thc s lTi liu chia strnh (bao gm c chng trnh blastall). Sau y l mt h cc chng ti: wWw.SinhHoc.edu.vn mt s chng trnh trong h, c sp xp theo th t quan trng ca n: Nucleotide-nucleotide BLAST (blastn): khi a vo mt DNA truy vn, s tr v cc chui DNA gn ging nht t c s d liu DNA m ngi dng ch nh. Protein-protein BLAST (blastp): khi a vo mt protein truy vn, s tr v cc chui protein gn ging nht t c s d liu protein m ngi dng ch nh. Position-Specific Iterative BLAST (PSI-BLAST): Mt trong nhng chng trnh BLAST mi nht, chng trnh ny dng tm kim cc mi quan h xa ca mt protein. Trc tin, mt danh sch cc protein lin quan s c to ra. Sau , nhng protein ny c kt hp thnh mt "profile" di dng chui trung bnh. Mt cu truy vn ti mt c s d liu protein s c thc thi nh profile ny, v mt nhm ln hn cc protein c tm thy. Nhm ln ny li c dng to ra mt profile khc, v qu trnh ny c lp li. Bng cch thm cc protein lin quan vo vic tm kim, PSI-BLAST tr nn tt hn trong vic la ra cc mi quan h tin ha cch xa nhau hn l phn mm chun protein-protein BLAST. Nucleotide-protein 6-frame translation (blastx): Chng trnh ny so snh cc sn phm chuyn i (tru tng) sang 6-khung ca mt chui nucleotide truy vn (c 2 di) vi mt c s d liu chui protein. Qu trnh ny c th rt chm. Nucleotide-nucleotide 6-frame translation (tblastx): Chng trnh ny l chm nht trong h BLAST. N chuyn chui nucleotide truy vn thnh mi 6-khung (frame) c th v so snh cc proteins to thnh. Mc tiu ca tblastx l tm kim mi quan h rt xa gia cc chui nucleotide. Protein-nucleotide 6-frame translation (tblastn): Chng trnh ny chuyn c s d liu ch thnh mi 6-khung (frame) v so snh vi chui protein truy vn . Large numbers of query sequences (megablast): Khi so snh mt s lng ln cc chui u vo qua ch mt BLAST dng dng lnh, "megablast" l nhanh hn rt nhiu so vi chy BLAST nhiu ln.

Ti liu chia s ti: wWw.SinhHoc.edu.vn

Ti liu chia s ti: wWw.SinhHoc.edu.vn

Ti liu chia s ti: wWw.SinhHoc.edu.vn

Ti liu chia s ti: wWw.SinhHoc.edu.vn

Ti liu chia s ti: wWw.SinhHoc.edu.vn

Ti liu chia s ti: wWw.SinhHoc.edu.vn

Ti liu chia s ti: wWw.SinhHoc.edu.vn

So snh hai trnh t bng blast

Ti liu chia s ti: wWw.SinhHoc.edu.vn

30

Ti liu So snh chia s ti: wWw.SinhHoc.edu.vn H5N1 v streptococus

Load trnh t 1

Load trnh t 2 Nhn th

31

Kt qu bng so snh hai trnh t

Ti liu chia s ti: wWw.SinhHoc.edu.vn

32

Kt qu so snh H5N1 v Streptococus

Ti liu chia s ti: wWw.SinhHoc.edu.vn

33

Phn tch trnh t DNA: tm khung c m (ORF)

Ti liu chia s ti: wWw.SinhHoc.edu.vn

Ti liu chia s ti: wWw.SinhHoc.edu.vn

Ti liu chia s ti: wWw.SinhHoc.edu.vn

Thit k primer

Ti liu chia s ti: wWw.SinhHoc.edu.vn

Ti liu chia s ti: wWw.SinhHoc.edu.vn Kim tra c hiu mi bng blast

38

Ti liu chia s ti: wWw.SinhHoc.edu.vn

Nucleotide blast

39

Ti liu chia s ti: wWw.SinhHoc.edu.vn

Nhp trnh t mi

agtggcttgccgctacgactccactgtctgaaaacagccgac

40

Ti liu chia s ti: wWw.SinhHoc.edu.vn

Primer blast

41

Ti liu chia s ti: wWw.SinhHoc.edu.vn

Tnh tng ng ca ca cc primer

42

Ti liu chia s ti: wWw.SinhHoc.edu.vn

c hiu ca mi

43

Ti liu chia s ti: wWw.SinhHoc.edu.vn

c hiu ca mi

-H s Expect: Xc sut ca cc trnh t tng ng. E cng nh c hiu cng cao. - Score v Excpect t l nghch.

10R1_13785-13806

44

Primer blast-Chc nng nh gi mi

Ti liu chia s ti: wWw.SinhHoc.edu.vn

45

Ti liu chia s ti: wWw.SinhHoc.edu.vn

Kt qu phn ng nh gi mi

46

Cch Ti liu k trnh t c gii m qua ng chia s ti: wWw.SinhHoc.edu.vn phn mm sequin

Chn Genebank (NCBI)

47

Ti liu chia s ti: wWw.SinhHoc.edu.vn

Bc 1: in thng tin

48

Ti liu chia s ti: wWw.SinhHoc.edu.vn

49

Ti liu chia s ti: wWw.SinhHoc.edu.vn

50

Ti liu chia s ti: wWw.SinhHoc.edu.vn

51

Ti liu chia s ti: wWw.SinhHoc.edu.vn

52

Ti liu chia s ti: wWw.SinhHoc.edu.vn

53

Ti liu chia s ti: wWw.SinhHoc.edu.vn

54

Ti liu chia s ti: wWw.SinhHoc.edu.vn

55

Ti liu chia s ti: wWw.SinhHoc.edu.vn

56

Ti liu chia s ti: wWw.SinhHoc.edu.vn

57

Ti liu chia s ti: wWw.SinhHoc.edu.vn

58

Ti liu chia s ti: wWw.SinhHoc.edu.vn

59

Ti liu chia s ti: wWw.SinhHoc.edu.vn

60