User: Manu Madhavan
Manu Madhavan • 20
- 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
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... 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 ...
written 9 months ago by
Manu Madhavan • 20
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... 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 ...
written 22 months ago by
Manu Madhavan • 20
• 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 Madhavan • 20
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... 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, ...
written 2.1 years ago by
Manu Madhavan • 20
• updated
2.1 years ago by
Denise CS • 5.1k
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... 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 Madhavan • 20
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... 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.
...
written 2.2 years ago by
Manu Madhavan • 20
• updated
2.2 years ago by
jared.andrews07 ♦ 8.6k
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... 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 Madhavan • 20
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... 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 Madhavan • 20
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... 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 Madhavan • 20
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... 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 Madhavan • 20
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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