Moderator: genomax

gravatar for genomax
genomax33k
Reputation:
33,070
Status:
Trusted
Location:
United States
Last seen:
6 minutes ago
Joined:
2 years, 3 months ago
Email:
g*******@gmail.com

Posts by genomax

<prev • 6,022 results • page 1 of 603 • next >
1
vote
0
answers
75
views
0
answers
Comment: C: Sample contamination level over 30%
... If there is independent experimental validation across many samples then it may be acceptable but you would still have to explain why contamination exists at that high level. That said, consider this quote from ContEst paper > a typical cancer project might expect >10% of the samples to ha ...
written 1 hour ago by genomax33k
1
vote
0
answers
75
views
0
answers
Comment: C: Sample contamination level over 30%
... I don't think we can answer this question without full context as @andrew said above. In general, if something was contaminated then your conclusions are always going to have a cloud hanging over them (unless there is a clear experimental case/explanation for presence of that contamination). ...
written 1 hour ago by genomax33k
2
votes
0
answers
75
views
0
answers
Comment: C: Sample contamination level over 30%
... What do *you* think? If you were reviewing such a paper would you consider this acceptable? How did the contamination occur in first place? ...
written 1 hour ago by genomax33k
0
votes
0
answers
75
views
0
answers
Comment: C: Sample contamination level over 30%
... Tumor is contaminated with what? ...
written 2 hours ago by genomax33k
0
votes
0
answers
58
views
0
answers
Comment: C: Genomics book for a computer scientist
... It helps to specify if you are looking for a free resource or are willing to pay (something). If latter then Biostar handbook is linked by @st.ph.n. If former then take a look at [WikiBooks entry here][1]. [1]: https://en.wikibooks.org/wiki/Next_Generation_Sequencing_(NGS) ...
written 2 hours ago by genomax33k
1
vote
1
answer
83
views
1
answers
Comment: C: Finding S. cerevisiae mRNA of specific genes from SGD db.
... You don't need to install since it is a stand alone executable. All you should need to do is make the file executable by doing `chmod u+x faSomeRecords` and then run it `./faSomeRecords orf_coding_all.fasta file_w_id extracted.fa` ...
written 3 hours ago by genomax33k
0
votes
1
answer
83
views
1
answers
Comment: C: Finding S. cerevisiae mRNA of specific genes from SGD db.
... I gave you the example command line above. ...
written 4 hours ago by genomax33k
1
vote
2
answers
104
views
2
answers
Answer: A: Illumina R1 vs. R2 read quality differences - reasons?
... See this [thread on SA][1] and my answer there. [1]: http://seqanswers.com/forums/showthread.php?t=75116 ...
written 4 hours ago by genomax33k
2
votes
1
answer
83
views
1
answers
Answer: A: Finding S. cerevisiae mRNA of specific genes from SGD db.
... Get the sequence of all ORF's from [here][1]. Then use [faSomeRecords][2] from Kent Utilities from UCSC (with your ID's of interest in a file, one ID per line) to extract those 600 fasta files. `faSomeRecords orf_coding_all.fasta file_w_id extracted.fa` [1]: https://downloads.yeastgenome.org/seq ...
written 4 hours ago by genomax33k
0
votes
1
answer
83
views
1
answers
Comment: C: Finding S. cerevisiae mRNA of specific genes from SGD db.
... What do you mean you can't download sequence from SGD (e.g. [YAL063C][1] which is also called FLO9). [1]: https://www.yeastgenome.org/locus/S000000059/sequence ...
written 4 hours ago by genomax33k

Latest awards to genomax

Good Answer 5 days ago, created an answer that was upvoted at least 5 times. For A: Professor assign me some tasks, gene ontology sucks. Anyone please guide me, i a
Appreciated 5 days ago, created a post with more than 5 votes. For First PacBio Sequel data available
Teacher 5 days ago, created an answer with at least 3 up-votes. For A: Do I need to remove adapter if FastQC showed no adapter content.
Teacher 12 days ago, created an answer with at least 3 up-votes. For A: Do I need to remove adapter if FastQC showed no adapter content.
Scholar 13 days ago, created an answer that has been accepted. For A: which one is adapter and which one is index
Scholar 14 days ago, created an answer that has been accepted. For A: which one is adapter and which one is index
Teacher 16 days ago, created an answer with at least 3 up-votes. For A: Do I need to remove adapter if FastQC showed no adapter content.
Scholar 18 days ago, created an answer that has been accepted. For A: which one is adapter and which one is index
Commentator 19 days ago, created a comment with at least 3 up-votes. For C: Is there a way to download FASTq files from SRR IDs?
Teacher 19 days ago, created an answer with at least 3 up-votes. For A: which one is adapter and which one is index
Commentator 22 days ago, created a comment with at least 3 up-votes. For C: Is there a way to download FASTq files from SRR IDs?
Teacher 23 days ago, created an answer with at least 3 up-votes. For A: which one is adapter and which one is index
Scholar 23 days ago, created an answer that has been accepted. For A: which one is adapter and which one is index
Teacher 27 days ago, created an answer with at least 3 up-votes. For A: which one is adapter and which one is index
Commentator 27 days ago, created a comment with at least 3 up-votes. For C: Is there a way to download FASTq files from SRR IDs?
Scholar 29 days ago, created an answer that has been accepted. For A: which one is adapter and which one is index
Teacher 4 weeks ago, created an answer with at least 3 up-votes. For A: which one is adapter and which one is index
Teacher 5 weeks ago, created an answer with at least 3 up-votes. For A: which one is adapter and which one is index
Scholar 5 weeks ago, created an answer that has been accepted. For A: which one is adapter and which one is index
Scholar 6 weeks ago, created an answer that has been accepted. For A: which one is adapter and which one is index
Appreciated 6 weeks ago, created a post with more than 5 votes. For C: website to buy and sell genomic data
Teacher 6 weeks ago, created an answer with at least 3 up-votes. For A: which one is adapter and which one is index
Scholar 6 weeks ago, created an answer that has been accepted. For A: which one is adapter and which one is index
Teacher 7 weeks ago, created an answer with at least 3 up-votes. For A: which one is adapter and which one is index
Teacher 8 weeks ago, created an answer with at least 3 up-votes. For A: which one is adapter and which one is index

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 1557 users visited in the last hour