User: Burke

gravatar for Burke
Burke270
Reputation:
270
Status:
Trusted
Location:
Bethesda, MD
Website:
http://www.niaid.nih.g...
Scholar ID:
Google Scholar Page
Last seen:
1 year, 10 months ago
Joined:
8 years ago
Email:
b***********@gmail.com

Computational Genomics Specialist

NIAID's Bioinformatics and Computational Biosciences Branch (BCBB)

I am a Computational Genomics Specialist with the NIAID's Bioinformatics and Computational Biosciences Branch (BCBB, http://bit.ly/NIAID-BCBB) in Bethesda, Maryland. Formerly, I worked as a computational biologist / bioinformaticist specializing in influenza virus research at the Influenza Research Database (www.fludb.org), formerly the BioHealthBase, one of five NIAID sponsoed Bioinformatics Resource Centers (BRC). I also contribute the to Virus Pathogen Resource (ViPR), the new virus Bioinformatics Resource Center (BRC) under the principle investigator-ship of Richard Scheuermann. Furthermore, I am a Doctoral student at the University of Texas at Arlington in Computer Sciecne and Engineering, whiere my research involves influnza virus evolution.

Posts by Burke

<prev • 20 results • page 1 of 2 • next >
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How Does One Programmatically (Python) Download Pdb Structures By Keyword
... I would like to download all hemagglutinin structures for influenza virus from the Protein Data Bank via a python script. I have looked through the PDB and BioPython PDB package on how to do this with no luck. Does anyone know if this is possible? ...
pdb python search written 4.1 years ago by Burke270 • updated 4.1 years ago by User000250
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Comment: C: Compare Two Fasta Files By Headers
... This works if you add the 'fasta' format information to the Seq.IO.parse call: s1 = set(rec.id for rec in SeqIO.parse('f1.fasta', 'fasta')) s2 = set(rec.id for rec in SeqIO.parse('f2.fasta', 'fasta')) However, an advantage of using the function that Istvan mentioned above is that you can create a ...
written 4.1 years ago by Burke270
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Comment: C: What Are Some Good Interactive Circular Genome Browsers?
... This looks cool, especially if someone want to do synteny visualization. ...
written 5.6 years ago by Burke270
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Comment: C: What Are Some Good Interactive Circular Genome Browsers?
... Corrected! Thanks! ...
written 5.6 years ago by Burke270
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Comment: C: What Are Some Good Interactive Circular Genome Browsers?
... LOL for sure! The current project is for papillomavirus but my previous work includes many other viruses, especially influenza virus. ...
written 5.6 years ago by Burke270
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Comment: C: What Are Some Good Interactive Circular Genome Browsers?
... Hi Zev. You can find a description of genome here. ...
written 5.6 years ago by Burke270
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Comment: C: What Are Some Good Interactive Circular Genome Browsers?
... Hi Gjain, While those are nice uses of data visualization they are not really suited for use as genome browsers. Additionally, the are static and not interactive representations. Thanks! ...
written 5.6 years ago by Burke270
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What Are Some Good Interactive Circular Genome Browsers?
... Hi all, I am looking for a interactive genome browser for circular (viral) genomes. Something that lets users view genome features in the context of the genome while allowing for backend and user customization. I need something that is interactive not simply a program to draw a static genome repres ...
genome visualization browser written 5.6 years ago by Burke270 • updated 5.6 years ago by madk00k330
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Comment: C: How Does One Download An Xml Formatted List Of Cited Article From Pubmed?
... Pierre...you are right...a wireless proxy was giving me problems. The link works well. Do you know how I would go about getting all information for the list of ID that are returned? ...
written 5.7 years ago by Burke270
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Comment: C: How Does One Download An Xml Formatted List Of Cited Article From Pubmed?
... Hi Pierre...thanks for the help but that link is giving me a 404 error. ...
written 5.7 years ago by Burke270

Latest awards to Burke

Appreciated 4.1 years ago, created a post with more than 5 votes. For A: Is There Interest In An Ios Bioinformatics "Toolkit"?
Appreciated 4.1 years ago, created a post with more than 5 votes. For What Are Some Good Interactive Circular Genome Browsers?
Good Question 4.1 years ago, asked a question that was upvoted at least 5 times. For What Are Some Good Interactive Circular Genome Browsers?
Popular Question 4.1 years ago, created a question with more than 1,000 views. For How Does One Download An Xml Formatted List Of Cited Article From Pubmed?
Popular Question 4.1 years ago, created a question with more than 1,000 views. For What Are Some Good Interactive Circular Genome Browsers?
Popular Question 4.1 years ago, created a question with more than 1,000 views. For How Does One Programmatically (Python) Download Pdb Structures By Keyword
Popular Question 4.1 years ago, created a question with more than 1,000 views. For Is There A Way To Sort A Biopython Alignment By A Feature Other Then Id?
Popular Question 4.1 years ago, created a question with more than 1,000 views. For Is There A Method Or Script To Read Distance Matrix Output Using Python
Teacher 4.1 years ago, created an answer with at least 3 up-votes. For A: Looking For Ontology Related To Biological Experiments
Teacher 4.1 years ago, created an answer with at least 3 up-votes. For A: Is There Interest In An Ios Bioinformatics "Toolkit"?
Student 4.1 years ago, asked a question with at least 3 up-votes. For What Are Some Good Interactive Circular Genome Browsers?
Autobiographer 4.1 years ago, has more than 80 characters in the information field of the user's profile.

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