User: Manu Madhavan

gravatar for Manu Madhavan
Reputation:
10
Status:
New User
Location:
NIT Calicut
Website:
http://people.cse.nitc...
Last seen:
5 days, 5 hours ago
Joined:
8 months, 2 weeks ago
Email:
m*************@nitc.ac.in

Research Scholar

Department of CSE

NIT Calicut, Kerala

India

Posts by Manu Madhavan

<prev • 12 results • page 1 of 2 • next >
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Comment: C: Medical terms Synonyms
... Thanks for the reply and sharing useful links. ...
written 5 days ago by Manu Madhavan10
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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 5 days ago by Manu Madhavan10 • updated 3 days ago by Denise - Open Targets4.7k
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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 6 weeks ago by Manu Madhavan10
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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 6 weeks ago by Manu Madhavan10 • updated 6 weeks ago by jared.andrews071.8k
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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 7 months ago by Manu Madhavan10
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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 7 months ago by Manu Madhavan10
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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 7 months ago by Manu Madhavan10
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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 8 months ago by Manu Madhavan10
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Comment: C: RNA secondary structure - Feature extraction
... Thank you for your reply and sharing your insights. When I run your code "mdg_dt.py", got the following output. [Output][1] Could you please help me to interpret this output? [1]: https://ibb.co/dh2Wo8 ...
written 8 months ago by Manu Madhavan10
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RNA secondary structure - Feature extraction
... Hi All, For coding-non coding RNA identification (using Machine learning classifier), I would like to add features extracted from RNA secondary structure. I used RNAfold to get the secondary structure from primary sequence (as dot-bracket representation). Now I want to identify loops, stems, bulges, ...

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