Microsoft PowerPoint _0810 MWB_YMU

Size: px

Start display at page:

Download "Microsoft PowerPoint _0810 MWB_YMU"

姗茅
5 years ago
Views:

1 實驗設計分析最佳工具整合性生物資訊平台金萬林企業股份有限公司產品專員李玉琪 Doris

2 CLC Main Workbench 一套軟體多種功能, 滿足客戶多項需求軟體相容度高, 可處理多種來源的檔案格式直接連結生物技術資訊中心 (NCBI) 的資料庫, 進行資料的蒐尋與下載有效提供快速編輯整合各種 DNA RNA 及 Protein 序列可以快速進行各種序列的比對與分析

3 CLC Main Workbench 可以輕鬆設計 Cloning 實驗的方法快速設計最適合的 Primer 可直接開啟定序圖譜檔案, 輕鬆進行分析比對可直接連結 NCBI 進行 DNA RNA Protein 及 SNP 的 BLAST, 有效節省搜尋及比對的時間可預測 RNA Protein 的二級結構可快速上手, 有效整理實驗上一連串繁瑣的資料

4 CLC Main Workbench

5 Major functions Assembly of sequencing data Primer design Cloning and restriction sites 3D protein view Protein analyses (SignalP, TMHMM, Pfam domain search etc.) Alignments Phylogenetic trees RNA structure prediction RNA secondary structure view Integrated BLAST (local or webbased) GenBank and UniProt search and download Pattern discovery and motif search SNP annotation Sharing of data Automated documentation work flow Wide range of import and export formats

6 Import formats 30 ACE files, (.ace), contigs Phylip Alignment, (.phy), alignments GCG Alignment, (.msf), alignments Clustal Alignment, (.aln), alignments Newick, (.nwk), trees FASTA, (.fsa/.fasta), sequences GenBank, (.gbk/.gb/.gp), sequences GCG sequence, (.gcg), sequences (only import) PIR (NBRF), (.pir), sequences (only import) Staden, (.sdn), sequences (only import) DNAstrider, (.str/.strider), sequences Swiss-Port, (.swp), protein sequences Lasergene sequence, (.pro), protein sequence (only import) Lasergene sequence, (.seq), nucleotide sequence (only import) Embl, (.embl), nucleotide sequences Nexus, (.nxs/.nexus), sequences, tree, alignments, and sequence lists CLC, (.clc), sequences, trees, alignments, reports Text, (.txt), all data in a textual format CSV, (.csv), tables, each cell separated with semicolons (only export) ABI, (.abi), trace files (only import) AB1, (.ab1), trace files (only import) SCF2, (.scf), trace files (only import) SCF3, (.scf), trace files (only import) Phred, (.phd), trace files (only import) mmcif, (.cif), structure (only import) PDB, (.pdb), structure (only import) BLAST Database, (.phr/.nhr), BLAST database (import) VectorNTI Database, sequences (import of whole database) VectorNTI achieves, (.ma4/.pa4/.da4), sequences (only import) Gene Construction kit, (.gcc), sequences (only import)

7 Export formats 20 Export Export Graphics CLC (.clc) Protable Network Graphics (.png) COL file (.col) Protable Document Format (.pdf) CT filc (.ct) JPEG (.jpg) DNA Strider files (.str/.strider) Vector Graphics (.svg) Embl (.emb/embl) Tagged Image File Format (.tif) FASTA (.fa/.fsa/.fasta) PostScript (.ps) GenBank (.gbk/.gb/.gp) Encapsulated PostScript (.eps) History PDF (.pdf) Nexus data (.nxs/.nexus) PIR (.pir) RNAML file (.rnaml/.xml) Semicolon-delimited CSV (.csv) Zip file (.zip)

8 Navigation Area Graphical user interface View Area Tool Box

9 Graphical user interface 1 Navigation Area 2 Tool Box 3 View Area

10 Primer design

11 Primer design

12 Primer design

13 Restriction sites analysis

14 Cloning

15 Cloning

17 Translation

18 Alignment

19 Phylogenetic trees Algorithm: UPGMA Neighbor Joining

20 Sequences Analysis

21 Assemble sequences

22 Database Search for sequence at NCBI

23 BLAST Search

24 SNP Annotation BLAST Search

25 SNP Annotation BLAST Search

26 RNA: Predict secondary structure

27 RNA: Predict secondary structure

28 Protein: Predict secondary structure

29 3D protein view

bioinformatics software To integrate all

30 Software objectives To make user-friendly state-of-the-art bioinformatics software To integrate all analyses in one program To make software that works on: To involve users as much as possible CLC bio offers free user-support to all programs CLC bio is very open to user suggestions We provide at least 2 program upgrades a year

31 CLC Main Workbench 簡單的操作介面單一模式即可執行多種功能軟體相容度高可處理多種來源的檔案與作業系統可快速有效地與生物技術資訊中心 (NCBI) 的資料庫連結可完成實驗資料搜尋實驗設計及實驗結果分析, 每一步驟的資料均可儲存, 有效進行資料管理

32 Website Information Product overviews: Tutorials:

Thank you for your attention! http://www.kimforest.com http://www.clcbio.

33 Thank you for your attention! 產品專員李玉琪 Doris 服務電話 : 金萬林企業股份有限公司免付費 :

一步一步教你使用NCBI

一步一步教你使用NCBI 查找 DNA mrna cdna Protein promoter 引物设计 BLAST 序列比对等作者 :urbest 2007-8-1 苏州大学生命科学学院最近看到很多战友在论坛上询问如何查询基因序列如何进行引物设计如何使用 BLAST 进行序列比对, 这些问题在 NCBI