User: cocchi.e89

gravatar for cocchi.e89
cocchi.e8930
Reputation:
30
Status:
New User
Location:
Last seen:
5 days, 15 hours ago
Joined:
6 months, 1 week ago
Email:
c*********@gmail.com

Posts by cocchi.e89

<prev • 57 results • page 1 of 6 • next >
2
votes
2
answers
142
views
2
answers
protein domain start-stop codons database
... I'm working on some variations (exome, human) and I got their domain feature with VEP. e.g. of a result: `Pfam_domain:PF01762&hmmpanther:PTHR11214&hmmpanther:PTHR11214:SF28&Low_complexity_(Seg):seg` I need to get back from this domain to its codons coordinates (e.g. PANTHER `PTHR1121 ...
domain codon vep database written 10 days ago by cocchi.e8930 • updated 10 days ago by genomax69k
0
votes
1
answer
512
views
1
answers
Comment: C: Get genomic coordinates for protein domain
... And there is an available database to have the start&stop codons of each PANTHER domain? Instead of manually searching it every time? ...
written 10 days ago by cocchi.e8930
0
votes
0
answers
117
views
0
answers
Comment: C: protein domain "official" DB
... thank you very much @genomax ...
written 10 days ago by cocchi.e8930
0
votes
0
answers
117
views
0
answers
Comment: C: protein domain "official" DB
... I know, but I'd like to know if there's a more maintained, widely used etc. Maybe there's not ...
written 10 days ago by cocchi.e8930
1
vote
0
answers
117
views
0
answers
protein domain "official" DB
... I'm working on some variants (exome, human) and I found the different outputs printed for each domain by VEP, e.g. : ex. VAR `1-949422-G-A` : `Gene3D:3.10.20.90&Pfam_domain:PF00240&PROSITE_profiles:PS50053&hmmpanther:PTHR10666&hmmpanther:PTHR10666:SF81&SMART_domains:SM00213&S ...
vep variation protein human domains written 10 days ago by cocchi.e8930
0
votes
2
answers
90
views
2
answers
Comment: C: uniprot variant classification DB retireve
... that's great! Thank you very much @elisabethgasteiger ...
written 12 days ago by cocchi.e8930
0
votes
1
answer
133
views
1
answers
Comment: C: how can a DELETION be not a NULL variant?
... In the ACMG classification, PVS1 explanation: "Not a null variant." ...
written 16 days ago by cocchi.e8930
3
votes
1
answer
133
views
1
answer
how can a DELETION be not a NULL variant?
... I've found a var (exam, human) in ROBO2 gene: `3-77684075-ACAG-A` According to [Varsome][1] this is not a NULL variant. Sorry if it sounds silly, but how can a DELETION not being a NULL variant? Thanks a lot in advance for any help! [1]: https://varsome.com/variant/hg19/3-77684075-ACAG-A ...
exome indel deletion variant acmg written 16 days ago by cocchi.e8930 • updated 16 days ago by Jean-Karim Heriche20k
1
vote
2
answers
90
views
2
answers
uniprot variant classification DB retireve
... I'm working on some variants (exome, human) annotation. I'd like to retrieve the UNIPROT info about the variant (e.g. "disease" when known as disease causing variant etc). How can I do that? I tried with `--uniprot` VEP command but it only output the var uniprot transcript. Thanks a lot in advance ...
variant vep uniprot ensembl written 17 days ago by cocchi.e8930 • updated 14 days ago by Elisabeth Gasteiger1.6k
0
votes
0
answers
116
views
0
answers
Comment: C: Retrieve base position/coordinates due to AA position on a protein
... Thank you very much Pierre. Have a look at my comment to your reply there: https://www.biostars.org/p/280271/#384092 ...
written 5 weeks ago by cocchi.e8930

Latest awards to cocchi.e89

No awards yet. Soon to come :-)

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 1910 users visited in the last hour