User: enricoferrero
enricoferrero • 800
- Reputation:
- 800
- Status:
- Trusted
- Location:
- United Kingdom
- Last seen:
- 1 year, 11 months ago
- Joined:
- 8 years, 1 month ago
- Email:
- e**************@gmail.com
Posts by enricoferrero
<prev
• 65 results •
page 1 of 7 •
next >
1
vote
1
answer
949
views
1
answer
... Hello,
I'm looking for resources (reviews, papers, tutorials) on using machine learning approaches that discriminate between phenotypic or clinical characteristics using omics data as input.
Simplest case scenario would be to build a classifier on gene expression profiles of patients with or witho ...
written 24 months ago by
enricoferrero • 800
• updated
24 months ago by
Kevin Blighe ♦ 63k
0
votes
1
answer
1.4k
views
1
answers
... Can you please point me to the method you used to map these IDs to SMILES? Thanks ...
written 3.3 years ago by
enricoferrero • 800
0
votes
1
answer
1.4k
views
1
answers
... And yet on LIFE I can see BRD to PubChem IDs mappings so it must be possible to do that (without having to go through SMILES):
![enter image description here][1]
[1]: http://imgur.com/download/7UZEN8v ...
written 3.3 years ago by
enricoferrero • 800
2
votes
1
answer
1.4k
views
1
answer
... I have some IDs from LINCS/CMap (e.g.: BRD-A00267231) that I need to convert to either ChEMBL or PubChem IDs.
I usually use [UniChem][1] for this kind of stuff but BRD identifiers are not recognised.
BRD identifiers are used in most (all?) LINCS resources such as [clue.io][2], [Harmonizome][3], [L1 ...
written 3.3 years ago by
enricoferrero • 800
• updated
3.3 years ago by
Lars Juhl Jensen ♦ 11k
0
votes
0
answers
1.6k
views
0
answers
... Hello,
I'm trying to perform an analysis similar to those in ENCODE or FANTOM publications where enrichment of GWAS SNPs in regulatory regions (e.g.: DHSs, CAGE-defined enhancers) is calculated (1,2).
So, I would like to calculate if a set of GWAS SNPs associated with a disease of interest is enri ...
written 3.9 years ago by
enricoferrero • 800
0
votes
3
answers
1.6k
views
3
answers
... Just to report I'm still getting errors using biomaRt through R, with both the main server and a mirror:
> ensembl <- useMart("ensembl", "hsapiens_gene_ensembl")
Extra content at the end of the document
Error: 1: Extra content at the end of the document
> ensembl <- useM ...
written 3.9 years ago by
enricoferrero • 800
0
votes
3
answers
1.6k
views
3
answers
... All right, no worries - I can wait till Tuesday ;) ...
written 4.0 years ago by
enricoferrero • 800
0
votes
3
answers
1.6k
views
3
answers
... Still having issues here:
> ensembl <- useMart("ensembl", "hsapiens_gene_ensembl", host="useastdb.ensembl.org", port=3306)
Request to BioMart web service failed. Verify if you are still connected to the internet. Alternatively the BioMart web service is temporarily down. Check http: ...
written 4.0 years ago by
enricoferrero • 800
1
vote
0
answers
1.1k
views
0
answers
... Hello,
I'm looking for tools that allow identification of active modules in networks.
A typical scenario is where you have a protein-protein interaction network and some gene expression data overlaid on top of it and you want to identify set of connected nodes in the network that show significant ...
written 4.0 years ago by
enricoferrero • 800
3
votes
2
answers
2.9k
views
2
answers
... Hi,
I've just started working in this area and am looking for some pointers.
What software packages does the community use for the analysis of differentially methylated regions from WGBS data?
I used Bismark to perform the alignment and the methylation calling steps.
Thanks!
...
written 5.2 years ago by
enricoferrero • 800
• updated
3.1 years ago by
hongbo919 • 20
Latest awards to enricoferrero
Great Question
3.2 years ago,
created a question with more than 5,000 views.
For Remove Illumina TruSeq Index adapters
Great Question
3.2 years ago,
created a question with more than 5,000 views.
For Best Tools For Motif Finding And/Or De Novo Motif Discovery?
Great Question
3.2 years ago,
created a question with more than 5,000 views.
For Retrieve All Genes Associated With A Go Term
Epic Question
3.2 years ago,
created a question with more than 10,000 views.
For Retrieve All Genes Associated With A Go Term
Epic Question
3.2 years ago,
created a question with more than 10,000 views.
For Remove mitochondrial reads from BAM files
Popular Question
3.2 years ago,
created a question with more than 1,000 views.
For Differential Methylation Analysis
Popular Question
3.2 years ago,
created a question with more than 1,000 views.
For Remove Illumina TruSeq Index adapters
Student
3.2 years ago,
asked a question with at least 3 up-votes.
For Remove Illumina TruSeq Index adapters
Great Question
3.6 years ago,
created a question with more than 5,000 views.
For Remove mitochondrial reads from BAM files
Student
3.6 years ago,
asked a question with at least 3 up-votes.
For I Work A Lot With Table-Like Structures, Should I Learn Sql?
Popular Question
3.6 years ago,
created a question with more than 1,000 views.
For Select Nearest Neighbors Shared By More Than One Selected Node
Popular Question
3.8 years ago,
created a question with more than 1,000 views.
For Select Nearest Neighbors Shared By More Than One Selected Node
Popular Question
3.8 years ago,
created a question with more than 1,000 views.
For Select Nearest Neighbors Shared By More Than One Selected Node
Voter
4.0 years ago,
voted more than 100 times.
Popular Question
4.0 years ago,
created a question with more than 1,000 views.
For Best Tools For Motif Finding And/Or De Novo Motif Discovery?
Appreciated
4.3 years ago,
created a post with more than 5 votes.
For I Work A Lot With Table-Like Structures, Should I Learn Sql?
Good Question
4.3 years ago,
asked a question that was upvoted at least 5 times.
For Retrieve All Genes Associated With A Go Term
Popular Question
4.3 years ago,
created a question with more than 1,000 views.
For I Work A Lot With Table-Like Structures, Should I Learn Sql?
Great Question
4.7 years ago,
created a question with more than 5,000 views.
For Retrieve All Genes Associated With A Go Term
Popular Question
4.7 years ago,
created a question with more than 1,000 views.
For Select Nearest Neighbors Shared By More Than One Selected Node
Popular Question
4.7 years ago,
created a question with more than 1,000 views.
For Transcription Factors <--> Regulated Genes Database
Popular Question
4.7 years ago,
created a question with more than 1,000 views.
For Resources For Ngs?
Popular Question
4.7 years ago,
created a question with more than 1,000 views.
For Transcription Factors <--> Regulated Genes Database
Popular Question
4.9 years ago,
created a question with more than 1,000 views.
For Best Tools For Motif Finding And/Or De Novo Motif Discovery?
Popular Question
5.2 years ago,
created a question with more than 1,000 views.
For Select Nearest Neighbors Shared By More Than One Selected Node
Use of this site constitutes acceptance of our User
Agreement
and Privacy
Policy.
Powered by Biostar
version 2.3.0
Traffic: 816 users visited in the last hour