User: Yi-Ting Liu

gravatar for Yi-Ting Liu
Yi-Ting Liu30
Reputation:
30
Status:
New User
Location:
Taiwan
Website:
https://www.behance.ne...
Last seen:
57 minutes ago
Joined:
2 years, 2 months ago
Email:
e**********@gmail.com

I'm a Front-End Web Developer and Artist, working from Taiwan, with a background in Computer Science and Bioinformatics.

profile for Yi-Ting Liu at Stack Overflow, Q&A for professional and enthusiast programmers

Posts by Yi-Ting Liu

<prev • 23 results • page 1 of 3 • next >
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Comment: C: Find Corresponding GenBank ID
... As far as I know, ***[Shewanella haliotis][1]*** and ***[Shewanella algae][2]*** are the same genus but different species. [1]: https://www.ncbi.nlm.nih.gov/biosample/4492225 [2]: https://www.ncbi.nlm.nih.gov/assembly/organism/38313/latest/ ...
written 9 months ago by Yi-Ting Liu30
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Comment: C: Find Corresponding GenBank ID
... In my submission, the strain is **[KCT][1]** instead of **[YHL][2]**. [1]: https://www.ncbi.nlm.nih.gov/biosample/4492225 [2]: https://www.ncbi.nlm.nih.gov/biosample/SAMN04492206/ ...
written 9 months ago by Yi-Ting Liu30
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Comment: C: Find Corresponding GenBank ID
... I was assigned BioProject and BioSample accession number when I take **WGS submission**. Will I get the GenBank ID when the annotation process is finished? Perhaps I misunderstood and thanks again! ...
written 9 months ago by Yi-Ting Liu30
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Comment: C: Find Corresponding GenBank ID
... Thanks, but it's not what I expected. For example, [https://www.ncbi.nlm.nih.gov/protein/AAC76128.2][1] BioProject: **PRJNA225**, BioSample: **SAMN02604091**. Both of these should refer to the GenBank accession **AAC76128**. [1]: https://www.ncbi.nlm.nih.gov/protein/AAC76128.2 ...
written 9 months ago by Yi-Ting Liu30
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Find Corresponding GenBank ID
... This is what I have. - **BioSample Accession**: [SAMN04492225][1] - **BioProject Accession**: [PRJNA312015][2] Is it possible to get corresponding **GenBank ID** via **BioSample or BioProject Accession**? It is great if you guys could give me some valuable suggestions and comments how to ...
gene biosample genbank bioproject written 9 months ago by Yi-Ting Liu30
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Comment: C: Species identification via gilist
... My extract method same as you. This process can take several hours to complete. I added multiple keywords ([term=whole+genome+bacteria][1]) to narrow down the search scope. [1]: https://www.ncbi.nlm.nih.gov/protein/?term=bacteria%20complete%20genome ...
written 15 months ago by Yi-Ting Liu30
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Comment: C: Species identification via gilist
... You're right. The word `gi` is redundancy. I removed the redundant data from text file, then the problem is solved. :) ...
written 21 months ago by Yi-Ting Liu30
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Species identification via gilist
... I want to narrow down the blastn search against `nt database` using `gilist`. I already got all taxids of bacteria (`taxid 2`) and extacted GIs with `csvtk` ([Please refer to this][1]). The next step was to proceed bacterial species identification. When I run blastn -query query.fasta -db /p ...
taxid blast gilist written 21 months ago by Yi-Ting Liu30
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Comment: C: Extract all bacteria sequences from the nr database
... [TaxonKit][1] worked out perfectly. However, there's something strange here. I already got all taxids of bacteria (taxid 2) and extacted accessions also GIs with csvtk ([Please refer to this][2]). Subsequently, I [extracting nr sequences][3] as the next step `$ blastdbcmd -db nr -entry all -outfmt ...
written 21 months ago by Yi-Ting Liu30
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Comment: C: Extract all bacteria sequences from the nr database
... The page displaying title is extract all protein sequences from the NCBI nr database. How to get DNA sequences rather than protein sequences? ...
written 22 months ago by Yi-Ting Liu30

Latest awards to Yi-Ting Liu

Popular Question 8 weeks ago, created a question with more than 1,000 views. For Search COGs from the EggNOG collection
Popular Question 3 months ago, created a question with more than 1,000 views. For Extract all bacteria sequences from the nr database
Autobiographer 12 months ago, has more than 80 characters in the information field of the user's profile.
Popular Question 15 months ago, created a question with more than 1,000 views. For Extract all bacteria sequences from the nr database

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