User: Thomas Maurel

gravatar for Thomas Maurel
Thomas Maurel600
Reputation:
600
Status:
Trusted
Location:
United Kingdom
Last seen:
5 hours ago
Joined:
4 years, 10 months ago
Email:
m*****@ebi.ac.uk

Bioinformatician - Ensembl Production Team

European Bioinformatics Institute (EMBL-EBI)

European Molecular Biology Laboratory

Wellcome Trust Genome Campus

Hinxton

Cambridge CB10 1SD

United Kingdom

Posts by Thomas Maurel

<prev • 94 results • page 1 of 10 • next >
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Answer: A: Ensembl 88 is out!
... Dear Alex, Thanks a lot for reporting this to us. We're aware of problems with the biomart service and are working on a fix at the moment. We will make it available as soon as possible. Apologies for any inconvenience caused Kind Regards, Thomas ...
written 5 hours ago by Thomas Maurel600
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News: Ensembl 88 is out!
... Dear all The new Ensembl marts for release 88 are now live on www.ensembl.org. If you are using biomaRt, you can change your host to access our most recent data: ensembl_mart_88 <- useEnsembl(biomart=“ensembl") Change affecting all marts: Species dropdown now displays species common name ins ...
biomart news ensembl ensembl mart e!88 written 1 day ago by Thomas Maurel600
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Answer: A: Error in getBM of biomaRt package
... Hello, I am afraid that we had a DOS attack affecting our www.ensembl.org marts on Friday. The services were restored shortly after the attack. Apologies for any inconveniences caused.  Kind Regards, Thomas ...
written 7 weeks ago by Thomas Maurel600
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Answer: A: Getting errors with makeTxDbFromBiomart
... Hello, I am afraid that only the 69 vertebrate species and the 16 mouse strains MySQL files can be found at this location: ftp://ftp.ensembl.org/pub/current_mysql/. The other ensembl divisions can be found on their respective FTP site spaces: Plants: ftp://ftp.ensemblgenomes.org/pub/release-34/ ...
written 9 weeks ago by Thomas Maurel600
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Comment: C: adding attributes affects number of results returned
... Dear Mike, You are right, rs368991480 don't have any associated phenotypes so we can't bring in ENSG00000175445 associated gene name. Regarding the issue with rs368991480 being dropped from the result, I changed the way we generate our phenotype table so for our next release (e!88), you will get so ...
written 10 weeks ago by Thomas Maurel600
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Answer: A: adding attributes affects number of results returned
... Hi Mike, Oh I see sorry, I got confused with an other associated gene name attribute. I guess what I gave above is a temporary solution then ;-). Yes, this look like a bug from our side, rs368991480 seems to be missing from our BioMart phenotype table. I will investigate and see if we can get it f ...
written 11 weeks ago by Thomas Maurel600
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Comment: C: adding attributes affects number of results returned
... Dear Mike, I had a look on the Ensembl biomart Interface and I get a different behaviour than what you have reported below with the biomaRt package. If I filter on the following variants rs368991480,rs1082714,rs1085093 and ask for the refsnp_id and ensembl_gene_stable_id attributes, I get the thre ...
written 11 weeks ago by Thomas Maurel600
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Answer: A: biomaRt - rice genes database not working
... Dear Maia, You will need to connect to the Ensembl plants marts to be able to query Rice: > listMarts(host="plants.ensembl.org") biomart version 1 plants_mart Plant Mart 2 plants_variations Plant Variation Mart > gramene = useMart("plants_mart", dat ...
written 5 months ago by Thomas Maurel600
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Answer: A: Biomart getLDS error
... Just to let you know that the US West, US East and Asian mirrors have now been fixed too. Thank you for your patience. Best Regards, Thomas ...
written 5 months ago by Thomas Maurel600
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Answer: A: Error in biomaRt User Guide example Task 11
... Dear all, Just to let you know that the US West, US East and Asian mirrors have now been fixed too. Thank you for your patience. Best Regards, Thomas ...
written 5 months ago by Thomas Maurel600

Latest awards to Thomas Maurel

Teacher 11 months ago, created an answer with at least 3 up-votes. For A: biomaRt: no access to Ensembl_75 (GRCh37.p13)
Scholar 11 months ago, created an answer that has been accepted. For A: how to use biomaRt with ensembl build 37
Teacher 21 months ago, created an answer with at least 3 up-votes. For A: how to use biomaRt with ensembl build 37
Appreciated 21 months ago, created a post with more than 5 votes. For Ensembl release 80 is out!
Appreciated 22 months ago, created a post with more than 5 votes. For Ensembl release 80 is out!
Teacher 2.4 years ago, created an answer with at least 3 up-votes. For A: how to use biomaRt with ensembl build 37
Scholar 2.4 years ago, created an answer that has been accepted. For A: how to use biomaRt with ensembl build 37
Autobiographer 2.5 years ago, has more than 80 characters in the information field of the user's profile.

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