User: gabriele.sales

Reputation:
70
Status:
Trusted
Location:
European Union
Last seen:
9 months ago
Joined:
3 years, 1 month ago
Email:
g*************@unipd.it

Posts by gabriele.sales

<prev • 5 results • page 1 of 1 • next >
0
votes
1
answers
203
views
1
answers
Comment: C: Indirect path in KEGG, activation or inhibition?
... We will release a new version of graphite with the next Bioconductor release, which should take place mid-April.   Best,   Gabriele   ...
written 9 months ago by gabriele.sales70
0
votes
1
answers
203
views
1
answers
Answer: A: Indirect path in KEGG, activation or inhibition?
... Dear Haoran, this is a good observation. Right now graphite is not able to reconstruct the "sign" of the reaction when it goes through a compound, like PIP3 here. It would be nice to do that, however. We'll try to implement this behaviour in a new release.   Best,   Enrica & Gabriele ...
written 9 months ago by gabriele.sales70
0
votes
1
answers
188
views
1
answers
Answer: A: KEGG data error?
... Dear Haoran, graphite developers here. We have checked the conversion of the pathway you mention. In the first case (repression from FOXO to CCND1), the KGML file corresponding to the pathway doesn't include such reaction. We have already observed a number of cases in which the graphical plot does ...
written 9 months ago by gabriele.sales70
0
votes
1
answers
325
views
1
answers
Answer: A: Reactome pathways in ReactomeDB/graphite
... Dear User, graphite developers here. We've taken a look at the "HDL-mediated lipid transport" pathway, and in particular at the ALB protein (P02768). In the original Reactome pathway such protein takes part to the following biochemical reaction: ALB + 1-acyl LPC -> Complex(ALB + 1-acyl LPC) ...
written 10 months ago by gabriele.sales70
0
votes
1
answers
440
views
1
answers
Answer: A: graphite KEGG pathway list vs KEGG pathway list
... There are a number of reasons why a KEGG pathway could be missing from graphite. First of all, take as an example hsa00514 (Other types of O-glycan biosynthesis). The corresponding KGML file does not contain any "relation" or "reaction", so graphite cannot extract any meaningful edge. As a result, ...
written 2.7 years ago by gabriele.sales70

Latest awards to gabriele.sales

Scholar 2.7 years ago, created an answer that has been accepted. For A: Reactome pathways in ReactomeDB/graphite
Teacher 2.7 years ago, created an answer with at least 3 up-votes. For A: Reactome pathways in ReactomeDB/graphite

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.2.0
Traffic: 206 users visited in the last hour