Daniel Cook ∛
@daniel_e_cook
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My name is Dan
Chicago
Joined July 2014
DeepSomatic ( https://t.co/BqZkDNMv1E) preprint is out showing improvements in somatic variant calling in various platforms. Work lead by @jiimiinpaark and @daniel_e_cook. Tumor-only lead by @pichuan. In collaboration with @acarroll_ATG, @MishaKolmogorov and @BenedictPaten. 🧵1/7
github.com
DeepSomatic is an analysis pipeline that uses a deep neural network to call somatic variants from tumor-normal and tumor-only sequencing data. - google/deepsomatic
DeepSomatic: Accurate somatic small variant discovery for multiple sequencing technologies https://t.co/l42tuwqoCh
#biorxiv_bioinfo
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This @rustlang tool is part of my work @GoogleHealth’s genomics team (hosts: @daniel_e_cook and @belyaeva_ana). We use it for evaluating DeepConsensus, though it should be generally useful for evaluating basecalling or other sequencing methods Github:
github.com
Bam Error Stats Tool (best): analysis of error types in aligned reads. - google/best
Best: A Tool for Characterizing Sequencing Errors https://t.co/fkpecsWwIy
#bioRxiv
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@BioMickWatson @pmelsted @GuillaumOleSan Yes, Jesus is 1-based too since there is no year zero between 1 BC and 1 AD https://t.co/YtQ9cdttKs.
en.wikipedia.org
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We've been fascinated by a few diverse C. elegans strains on the Hawaiian islands. In an effort to find more of them and investigate natural niches, my lab deeply sampled the islands. Here is what we found:
biorxiv.org
Recent efforts to understand the natural niche of the keystone model organism Caenorhabditis elegans have suggested that this species is cosmopolitan and associated with rotting vegetation and...
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A new opinion from @asiepel looks at how bioinformatics grew up from ad hoc, almost hobbyist beginnings, into the underpinning of most of modern biology, but the funding routes have not adapted. He suggests ways to improve the funding support https://t.co/08DFIxbC1S
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Congratulations to center investigator Erik Andersen @ecandersen on his appointment to tenured Associate Professor of Molecular Biosciences @NorthwesternU (shown here, Richard Carthew, Erik Andersen, Alec Wang) #quantitativebiology
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Congratulations to @sdraljefainc (@ecandersen Lab) on his recent publication! Check out the article here: https://t.co/uenDcY2kEj and
elifesciences.org
Quantitative genetics approaches using Caenorhabditis elegans facilitate the discovery of a novel arsenic toxicity mechanism.
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Submitted my first-author paper! Check out the preprint. I got to name a gene!!
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The C. elegans Natural Diversity Resource (CeNDR, https://t.co/Ty8jOwnqMg) paper accepted at Nucleic Acids Research
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Our new paper on natural variation in telomere length is out in GENETICS! https://t.co/RVUJoUNdGt
@GeneticsGSA @daniel_e_cook
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Let's face it, LibGen and SciHub are popular because they solve a problem Elsevier should have solved: disseminating knowledge.
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Another take on path visualization in GRCh38-based graphs of HLA--- this time annotating the edges. http://t.co/0tJieKnTcr
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First intron length in mammals is associated with 5′ exon skipping rate http://t.co/6oDjACMlQL
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