User: Arnaud Ceol

gravatar for Arnaud Ceol
Arnaud Ceol710
Reputation:
710
Status:
Trusted
Location:
Milan, Italy
Website:
http://arnaudceol.word...
Twitter:
arnaudceolpro
Scholar ID:
Google Scholar Page
Last seen:
4 days, 12 hours ago
Joined:
5 years, 9 months ago
Email:
a**************@gmail.com

With a degree in computer sciences and a specialization in bioinformatics, I developed during a PhD in Molecular and Cellular Biology several databases and tools for the storage and manipulation of Molecular Interaction (MI) data (MINT, Domino, HomoMINT, etc.). This has been possible through an active participation in International consortium like the Protein Standard Initative (PSI-MI) and the International Molecular Exchange consortium (imex).

In the Structural Bioinformatics and Network Biology group, I used this experience in the field of network biology, for instance to identify novel drug targets in Gram-negative bacteria.

At the Italian Institute of Technology, I'm now focusing on the development of tools and servers for the analyses of genomic data.

Posts by Arnaud Ceol

<prev • 59 results • page 1 of 6 • next >
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Answer: A: adv of RPKM for gene expression profile
... I found this useful post about this topic some time ago: https://haroldpimentel.wordpress.com/2014/05/08/what-the-fpkm-a-review-rna-seq-expression-units/ , it should answer your question. ...
written 6 days ago by Arnaud Ceol710
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Answer: A: database for enhancer sequences in human/mammal genomes
... You may start with the results of ChromHMM (http://compbio.mit.edu/ChromHMM/) or Segway (http://noble.gs.washington.edu/proj/encyclopedia/). In both cases, we are talking about prediction (by machine learning), rather than a proper knowledge base. ...
written 6 days ago by Arnaud Ceol710
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Comment: C: Bioinformatics software distribution
... "web/whatever application to use straight forward": I'm justing meaning any application (either desktop or web based), that can be used out of the box (as opposite to a library that should be integrated into other software). As far as I know, it is not possible to create plugins for Samtool and Fa ...
written 6 days ago by Arnaud Ceol710
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DAS 2 interface: is it used?
... Hello, A few years ago there was an attempt to create a new enhanced version of the DAS protocol to **share genomic data**, called DAS/2 ([http://www.das2.org/][1]). I know at least one implementation of a **DAS/2** server (**Genopub**: [some documentation here][2]), with a flash based web interfa ...
das/2 genopub igb das written 13 days ago by Arnaud Ceol710
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Answer: A: Bioinformatics software distribution
... > UPDATE: two more questions: > > 1) What do you think about having access for your tool as a library or > a package for python, ruby, perl, R, other languages? Is this > important and needed? > This is often at least really useful. It means that you can integrate it in your own ...
written 13 days ago by Arnaud Ceol710
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Answer: A: Gene Ontology visualisation webservice in 2017
... Did you look at Panther? http://www.pantherdb.org/ ...
written 26 days ago by Arnaud Ceol710
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Answer: A: Searching for databases and repositories for AML rna seq data
... Although I would not complain about GDC having data about "only" 300 patients, you should have a look at https://repositive.io/, they collect information about data from many repositories. ...
written 5 weeks ago by Arnaud Ceol710
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Comment: C: how to parse MIPS data
... From the reference [37], I understand the authors refers to the CYGD database (the yeast PPI database from MIPS). Unfortunately it looks like the website is not available anymore. Indeed the network available from the MIPS website contains less than 2000 interactions (human proteins, at least for th ...
written 4 months ago by Arnaud Ceol710
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Comment: C: how to parse MIPS data
... This is a Java app, working under windows/linux/macos. The example provided here extract binary interactions: pubmed and a pair of uniprot Acs. It is possible to browse the "tree" representation of the XML schema to select additional fields. What information are you looking for exactly? ...
written 4 months ago by Arnaud Ceol710
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Answer: A: how to parse MIPS data
... Hi Learner, The MIPS data available at http://mips.helmholtz-muenchen.de/proj/ppi/ is quite old now, and still released in an obsolete PSI format. Nevertheless you should still be able to use an application I write on this purpose when the PSI-MI standard was first released and is still working fo ...
written 4 months ago by Arnaud Ceol710

Latest awards to Arnaud Ceol

Teacher 13 days ago, created an answer with at least 3 up-votes. For A: What Happened To The Bind (Biological Interaction Network) Database And Is Acces
Popular Question 9 months ago, created a question with more than 1,000 views. For Asking The Developers Before Asking Biostars
Teacher 2.9 years ago, created an answer with at least 3 up-votes. For A: Go Enrichment From Protein Id
Appreciated 3.0 years ago, created a post with more than 5 votes. For Asking The Developers Before Asking Biostars
Good Answer 3.0 years ago, created an answer that was upvoted at least 5 times. For A: What Happened To The Bind (Biological Interaction Network) Database And Is Acces
Popular Question 3.0 years ago, created a question with more than 1,000 views. For Asking The Developers Before Asking Biostars
Supporter 3.0 years ago, voted at least 25 times.
Teacher 3.0 years ago, created an answer with at least 3 up-votes. For A: Go Enrichment From Protein Id
Teacher 3.0 years ago, created an answer with at least 3 up-votes. For A: Gene Disease (Cancer) Association
Teacher 3.0 years ago, created an answer with at least 3 up-votes. For A: Protein-Protein Interaction Prediction
Teacher 3.0 years ago, created an answer with at least 3 up-votes. For A: How To Know Percentage Of Identity Between Every Pair Of Orthologous Genes In Se
Teacher 3.0 years ago, created an answer with at least 3 up-votes. For A: What Happened To The Bind (Biological Interaction Network) Database And Is Acces
Teacher 3.0 years ago, created an answer with at least 3 up-votes. For A: Converting A Set Of Protein Ids To Gene Ids
Autobiographer 3.0 years ago, has more than 80 characters in the information field of the user's profile.

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