User: Emre

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Emre70
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Posts by Emre

<prev • 13 results • page 1 of 2 • next >
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Answer: A: PIN or PPI Network Construction
... Cross-post adapted from my answer to [this question][1]: You can find a rather outdated list and comparison of tools for interaction data integration & analysis on the Table 2 of [this article][2], which presents BIANA, a tool for biological interaction and network analysis. (Disclaimer: I cont ...
written 17 months ago by Emre70
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Answer: A: Tips to build a protein network
... You can find a rather outdated list and comparison of tools for interaction data integration & analysis on the Table 2 of [this article][1], which presents BIANA, a tool for biological interaction and network analysis. (Disclaimer: I contributed to the development of BIANA.) There is a web serv ...
written 17 months ago by Emre70
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Answer: A: Disease To Omim Id Or Mesh Id
... Check CTD's merged disease vocabulary (MEDIC), a curated resource mapping OMIM disease terms into the MeSH hierarchical vocabulary. You can the ontology in various formats in the downloads section of [CTD][1] (here is the [link][2] to the article introducing the resource). [1]: http://ctdbase.or ...
written 18 months ago by Emre70
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Answer: A: Is it possible to predict the physical interacton between two proteins knowing t
... You might give a try to one of the following web-servers: - [iFrag][1] - [Struct2Net][2] [1]: http://sbi.imim.es/web/index.php/research/servers/iFrag [2]: http://cb.csail.mit.edu/cb/struct2net/webserver/ ...
written 19 months ago by Emre70
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Answer: A: Protein interaction interface prediction from "sequence alone"
... In general, it is rather tricky to get to the structure directly from sequence, unless you know proteins with known structure that show high sequence similarity to your query. Predicting structure using sequence similarity and known structures is known as homology modeling (you might want to check [ ...
written 19 months ago by Emre70
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Answer: A: Know Of A Database Of Disease Symptoms, Preferably Linking To Mesh Terms?
... I am cross posting from my reply from [another post][1]. Have a look at the Human symptoms–disease network. All the disease-symptoms relationships identified from text mining on Pubmed meta data and mapped to MeSH are in the supplementary data set 3. [1]: http://biostar.stackexchange.com/questio ...
written 19 months ago by Emre70
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Answer: A: Disease/Symptom Database
... Hi, Have a look at the [Human symptoms–disease network][1]. All the disease-symptoms relationships identified from text mining on Pubmed meta data and mapped to MeSH are in the supplementary data set 3. Note that these are inferred relationships, yet reported to be fairly accurate through validat ...
written 19 months ago by Emre70
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Answer: A: Drug-Disease Pairs To Describe Drug Indications?
... Have a look at this: https://medschool.vanderbilt.edu/cpm/center-precision-medicine-blog/medi-ensemble-medication-indication-resource "MEDI (MEDication Indication) is an ensemble medication indication resource for primary and secondary uses of electronic medical record (EMR) data.  MEDI was created ...
written 2.7 years ago by Emre70
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Answer: A: Conversion From Mesh Id To Icd-9 And Icd-10
... You can use the cross references in Disease Ontology (disease-ontology.org/). For instance, for "Cornelia de Lange syndrome" (DOID:11725), the relevant xrefs are ICD10CM:Q87.1 and MSH:D003635. Based on their publication (http://nar.oxfordjournals.org/content/40/D1/D940.full.pdf), they use UMLS MRCO ...
written 2.7 years ago by Emre70
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Comment: C: Calculating P-Values From Z-Scores
... In one-sided case, one is interested to find how extreme is the observation compared to random expectation. Therefore, it seems to be ill defined as it fails to take into account the sign of the z-scores: pnorm(abs(0.5)) == pnorm(abs(-0.5))   ...
written 3.5 years ago by Emre70

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Teacher 4.6 years ago, created an answer with at least 3 up-votes. For A: Finding High-Scoring And Functionally Enriched Subnetworks

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