Area 51 » Science

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Bioinformatics & Computational Chemistry

Proposed Q&A site for bioinformatics and theoretical/computational chemistry geeks
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<comments removed> If you have any questions or comments about this proposal, please select 'create new discussion' below. – Robert Cartaino♦ Aug 7 '12 at 21:55
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Do not use the comments to answer the questions! Remember, Area 51 is to discuss the example questions and determine the site topic. – jmort253 Aug 16 '12 at 14:43

16 Example Questions

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up vote 11 down vote
How can I anticipate whether adding a certain side chain to my small molecule will increase its affinity for its target?
added by mac389 Aug 2 '12 at 18:06
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I guess, such questions related to cheminformatics can also be covered in this proposal. "Bioinformatics and Beyond" is also about CompChem. – Chirag Aug 16 '12 at 14:58
up vote 10 down vote
Please explain the concept of functional genomics and what the goals are as it's applied to Alzheimer research.
added by jmort253 Jul 31 '12 at 5:46
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Hi @Chirag, please don't use the comments to answer the questions. The point of the comments in Area 51 is to discuss whether or not the question is on-topic for the proposed site. You'll have an opportunity to answer questions if the site topic is defined and moved to beta. Please see the faq for guidance, and consider deleting your above comment. Good luck! – jmort253 Aug 16 '12 at 14:40
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@jmort253 Okay, thanks for informing. I have withdrawn my comment. – Chirag Aug 16 '12 at 14:52
This question comes within the domain of this proposal because "functional genomics" is a subset of Bioinformatics to a large extent. Additionally, it would be very interesting to discuss specific topics like Alzheimer's Disease. – Chirag Aug 16 '12 at 14:55
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I think this fits well within the field of Bioinformatics – 319-0483109819013841023 Dec 11 '12 at 13:30
up vote 10 down vote
What types of PK/PD (pharmacokinetics/pharmacodynamics) modesl are used industry as opposed to adacemia?
added by mac389 Aug 12 '12 at 14:26
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This shall be the right place to discuss topics related to in silico prediction of Drug Metabolism and Pharmacokinetics (DMPK). Computational Biology/Chemistry is very common in early phase of pharmaceutical drug discovery research and I guess many researchers might be interested in this. – Chirag Aug 16 '12 at 15:03
up vote 10 down vote
How to evaluate the hypophicity of one amino acid?
added by Zhiyong Wang Sep 13 '12 at 4:37
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up vote 10 down vote
How to determine the order of the scaffolds after doing de novo assembling of a bacterial genome?
added by Javier Jan 10 at 17:27
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up vote 6 down vote
How Health Level 7 (HL7) can improve medical productivity?
added by Chirag Aug 16 '12 at 7:36
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This might be more appropriate to ask in the Health Informatics SE. – mac389 Aug 23 '12 at 12:23
up vote 5 down vote
What is difference between "ontology" and "vocabulary" in Semantics?
added by Chirag Aug 16 '12 at 7:52
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up vote 3 down vote
Why is this multiple sequence alignment nonsensical? What parameters have I got wrong?
added by Andrew Grimm Jan 1 at 10:39
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up vote 2 down vote
How can I find HPC resources for NGS?
added by igelkott Feb 14 at 23:34
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Probably need to specify area of the world and industry vs academia. – igelkott Feb 14 at 23:35
up vote 2 down vote
Are there any Illumina 250bp RNAseq example datasets publicly available for download?
added by 319-0483109819013841023 Mar 23 at 10:20
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up vote 2 down vote
Is there any tool somewhere to convert genotype data from VCF format to the HapMap genotype format?
added by mrobertran Mar 23 at 10:28
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up vote 1 down vote
Are there any tools to impute missing SNPs for a resequencing dataset of hundreds of individuals for which there is no reference panel?
added by 319-0483109819013841023 Mar 23 at 10:19
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up vote 1 down vote
Is there a script available to produce text Stem-and-Leaf Histograms from sequence lengths of fasta file?
added by user201882 Mar 23 at 10:57
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up vote 0 down vote
What are good examples of exome enrichment kits that will cover the genic regions in the mitochondrial genome?
added by 319-0483109819013841023 Mar 23 at 10:21
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up vote 0 down vote
How can I programmatically obtain the list of SRA SRP000ids from a GEO GSE00id? Ideally a tool that runs on a headless terminal.
added by 319-0483109819013841023 Mar 23 at 10:22
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up vote 0 down vote
Does anybody know of any publicly available ChIP-exo datasets done with Illumina sequencing?
added by 319-0483109819013841023 Mar 23 at 10:23
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