Moderator: Malachi Griffith

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Location:
Washington University School of Medicine, St. Louis, USA
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http://www.malachigrif...
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6 years, 2 months ago
Email:
m*******@genome.wustl.edu

I am an Assistant Director of the Genome Institute, and Assistant Professor of Genetics at Washington University School of Medicine. I am conducting research in medical genomics and bioinformatics specializing in the application of molecular biology, informatics, and statistics to the study of cancer.

Posts by Malachi Griffith

<prev • 477 results • page 2 of 48 • next >
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Comment: C: What are the resources to design the most comprehensive clinical SNP chip?
... The bioRXiv for the [CIViC][1] paper lists several other useful resources that you may find helpful (mostly cancer focused): http://biorxiv.org/content/early/2016/09/01/072892 [1]: https://civic.genome.wustl.edu/#/home ...
written 16 months ago by Malachi Griffith16k
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Comment: C: Best way to obtain list of all drug-variant associations from CIViC
... Please note that both the [Data Releases section][1] and [API documentation][2] of [www.civicdb.org][3] have been substantially updated! Please let us know if you have any issues. [1]: https://civic.genome.wustl.edu/#/releases [2]: https://genome.github.io/civic-api-docs/ [3]: https://civic. ...
written 16 months ago by Malachi Griffith16k • updated 16 months ago by Obi Griffith16k
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Comment: C: CIViC - Clinical Interpretation of Variants in Cancer
... Update on licensing. The code is still licensed with MIT, but the content is now under the Creative Commons Public Domain Designation (CC0). ...
written 16 months ago by Malachi Griffith16k
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Comment: C: How To Get Phasing Status From Vcf Files
... I found this description to be the most helpful for understanding how phasing information is represented in a VCF file: http://gatkforums.broadinstitute.org/gatk/discussion/45/purpose-and-operation-of-read-backed-phasing It has nice intuitive examples of what the file actually looks like for phased ...
written 17 months ago by Malachi Griffith16k
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Answer: A: PubChem CID data retrieval
... This question could use some clarification as it is not clear what you are trying to achieve. There will not be anything like a 1-to-1 relationship between pubchem CIDs (which refer to *chemical compounds*) and Uniprot IDs (which refer to protein structures). Are you interested in interactions b ...
written 19 months ago by Malachi Griffith16k
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Comment: C: Current Topics in Genome Analysis 2014 (collection of educational lectures)
... A new post for the updated 2016 series is now available here: https://www.biostars.org/p/191658/. ...
written 20 months ago by Malachi Griffith16k
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Comment: C: Current Topics in Genome Analysis 2014 (collection of educational lectures)
... A new post for the updated 2016 series is now available here: https://www.biostars.org/p/191658/. ...
written 20 months ago by Malachi Griffith16k
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Comment: C: Current Topics in Genome Analysis 2016 (collection of educational lectures)
... This is an update for the 2016 version of this very popular lecture series. The old post is here: https://www.biostars.org/p/103074/. That post also includes links back to archived versions of this lecture series. It has now been going on for 14 years. ...
written 20 months ago by Malachi Griffith16k
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Tutorial: Current Topics in Genome Analysis 2016 (collection of educational lectures)
... Current Topics in Genome Analysis 2016 A lecture series covering contemporary areas in genomics and bioinformatics February 17 - May 25, 2016 Given the rapid advances in genomics and bioinformatics that have taken place in the past few years, an intensive review of the major areas of ongoing geno ...
lectures tutorial training genomics workshop written 20 months ago by Malachi Griffith16k
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Answer: A: Detecting a small set of given Intron-Exon junctions in a RNA-Seq dataset
... You can use the tool RegTools to get this information from a BAM file. So you would align your reads to the reference genome first using TopHat2, STAR, HISAT2, etc. Then use regtools to both extract and annotate the exon-exon junctions (i.e. exon-intron ... intron-exon). The Code is here: https: ...
written 20 months ago by Malachi Griffith16k

Latest awards to Malachi Griffith

Popular Question 12 days ago, created a question with more than 1,000 views. For Analysis of dbGaP data on the cloud
Gold Standard 12 weeks ago, created a post with more than 25 bookmarks. For Current Topics in Genome Analysis 2014 (collection of educational lectures)
Great Question 4 months ago, created a question with more than 5,000 views. For Current Topics in Genome Analysis 2014 (collection of educational lectures)
Appreciated 5 months ago, created a post with more than 5 votes. For A: How Does Argonaute Recognize Mirnas?
Appreciated 5 months ago, created a post with more than 5 votes. For A: Technical Or Biological Replicate
Appreciated 8 months ago, created a post with more than 5 votes. For A: How Does Argonaute Recognize Mirnas?
Great Question 8 months ago, created a question with more than 5,000 views. For Current Topics in Genome Analysis 2014 (collection of educational lectures)
Good Answer 8 months ago, created an answer that was upvoted at least 5 times. For A: How Does Argonaute Recognize Mirnas?
Popular Question 8 months ago, created a question with more than 1,000 views. For Analysis of dbGaP data on the cloud
Appreciated 10 months ago, created a post with more than 5 votes. For A: How Does Argonaute Recognize Mirnas?
Popular Question 11 months ago, created a question with more than 1,000 views. For Bioinformatics Scientist At Compendia Bioscience, Ann Arbor, Mi
Teacher 11 months ago, created an answer with at least 3 up-votes. For A: How Does Argonaute Recognize Mirnas?
Popular Question 12 months ago, created a question with more than 1,000 views. For Bioinformatics Scientist At Compendia Bioscience, Ann Arbor, Mi
Teacher 12 months ago, created an answer with at least 3 up-votes. For A: How Does Argonaute Recognize Mirnas?
Great Question 12 months ago, created a question with more than 5,000 views. For List Of Genome Sequencing Centers/Institutes
Good Answer 12 months ago, created an answer that was upvoted at least 5 times. For A: How Does Argonaute Recognize Mirnas?
Popular Question 12 months ago, created a question with more than 1,000 views. For Bioinformatics Scientist At Compendia Bioscience, Ann Arbor, Mi
Commentator 13 months ago, created a comment with at least 3 up-votes. For C: Ways To Filter Noise From Rnaseq Data
Gold Standard 14 months ago, created a post with more than 25 bookmarks. For A: Recommended Tools For Alternative Splicing Detection From Rna-Seq Data
Good Answer 14 months ago, created an answer that was upvoted at least 5 times. For A: How Does Argonaute Recognize Mirnas?
Appreciated 15 months ago, created a post with more than 5 votes. For A: How Does Argonaute Recognize Mirnas?
Appreciated 15 months ago, created a post with more than 5 votes. For A: Technical Or Biological Replicate
Great Question 15 months ago, created a question with more than 5,000 views. For List Of Genome Sequencing Centers/Institutes
Commentator 15 months ago, created a comment with at least 3 up-votes. For C: Ways To Filter Noise From Rnaseq Data
Teacher 15 months ago, created an answer with at least 3 up-votes. For A: How Does Argonaute Recognize Mirnas?

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