User: Manu Madhavan

gravatar for Manu Madhavan
Reputation:
20
Status:
New User
Location:
NIT Calicut
Website:
http://people.cse.nitc...
Last seen:
9 months, 1 week ago
Joined:
2 years, 10 months ago
Email:
m*************@nitc.ac.in

Research Scholar

Department of CSE

NIT Calicut, Kerala

India

Posts by Manu Madhavan

<prev • 14 results • page 1 of 2 • next >
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Connecting LncRNAs and Pathways
... I am trying to analyze long non-coding RNA pathway association computationally. My idea is to construct a network with lncRNA, miRNA, mRNA and pathway as nodes. Then cluster analysis of this network will give some insights on their association. I could not find any related work in this area. So, I w ...
pathway disease network analysis lncrna written 9 months ago by Manu Madhavan20
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dbVar Unique ID for varients
... I have gene name and variant name extracted from pubmed abstract using NCBI tmVar tool. For example HADHB and c|DEL|1109+243_1438-703|. Now I want to link this variant to corresponding details available in databases like dbVar/dbSNP. What is the standard way of linking the variants to public da ...
mutation api dbvar snp python written 22 months ago by Manu Madhavan20 • updated 11 months ago by Biostar ♦♦ 20
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Comment: C: Medical terms Synonyms
... Thanks for the reply and sharing useful links. ...
written 2.1 years ago by Manu Madhavan20
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Medical terms Synonyms
... I am doing a project in Biomedical Literature mining. I want to download all Pumbed article related a disease say diabetics. I am using a python API-metapub- for fetching pumbed articles, by providing keywords. Is there any document/database/tool available to get the synonyms of given medical term, ...
biomedical synonyms medical ontology written 2.1 years ago by Manu Madhavan20 • updated 2.1 years ago by Denise CS5.1k
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Comment: C: Biomedical Literature Mining- Steps and Resources
... Thanks for the reply. Let me go through the paper. > This question is definitely too broad Let me focus on the NER in biomedical literature? Could yo please suggests good resources? ...
written 2.2 years ago by Manu Madhavan20
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Biomedical Literature Mining- Steps and Resources
... I want to implement NLP pipeline for extracting gene-disease associations from PubMed abstracts. Which are the tools used in various NLP steps such as Tokenisation, POS Tagging, and NER. I would like to implement in Python. ...
bionlp literature mining written 2.2 years ago by Manu Madhavan20 • updated 2.2 years ago by jared.andrews078.6k
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Comment: C: RNA secondary structure - Feature extraction
... Thank you for your clarification. This discussions help me to get more insights on my problem. My study is whether there exist any distinctive structural motif pattern in protein coding RNAs and non-coding RNAs, so that we can use this feature for their identification using machine learning. Based o ...
written 2.8 years ago by Manu Madhavan20
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Comment: C: RNA secondary structure - Feature extraction
... Thanks a lot!! Your support and suggestions are very useful and motivational. > Do you mean beyond what's done in the code I posted earlier? I mean, what is the algorithm for identifying structural fragments ( as in Fig 2.7 in your master thesis)? What I understand is a fragment may contain mo ...
written 2.8 years ago by Manu Madhavan20
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Comment: C: RNA secondary structure - Feature extraction
... Thank you for the detailed reply. I started reading your Master thesis, and it help me to get more clear understanding of the secondary structure. I am interested to know more details of definition/identification secondary structure motifs, mentioned in second chapter. If I can represent the secon ...
written 2.8 years ago by Manu Madhavan20
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Comment: C: RNA secondary structure - Feature extraction
... Thank you for your effort. Let me ask some of my basic doubts (I am sorry if it is too childish) 1. Are base pairs corresponds to stem in secondary structure? 2. In the above example, can I say the structure contain 3 multiloops and 2 hair pins? 4. ['Hairpin', (4, 8)] means nucleotides from pos ...
written 2.8 years ago by Manu Madhavan20

Latest awards to Manu Madhavan

Popular Question 21 months ago, created a question with more than 1,000 views. For Multiple Sequence Alignment Python
Popular Question 21 months ago, created a question with more than 1,000 views. For RNA secondary structure - Feature extraction
Autobiographer 2.8 years ago, has more than 80 characters in the information field of the user's profile.

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