@s00binkwon

UCLA Bioinformatics. PhD candidate in @JasonErnstLab. Bin is not my middle name 🇰🇷

Joined July 2020
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Excited to share our @iclr_2024 spotlight paper. Our work shows that critical learning periods exist in a minimal analytically tractable model of artificial deep networks (deep linear networks) trained with SGD. Paper: arxiv.org/abs/2308.12221 Work w/ A. Achille & S. Soatto
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The mammalian methylation array is now published nature.com/articles/s41467-0… Congrats to @adriana_arneson @amin_haghani, Mike, Matteo, @s00binkwon @HaVu_science, Emily, Mingjia, Caesar, @akelu38, Marco, Liudmilla, Bret, @kasperdhansen @zhouwanding @charles_breeze @jernst98 and Steve!
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Soo Bin Kwon retweeted
Ha Vu@HaVu_science7 Jan 2022
Please check out our paper about the universal chromatin state annotation that was learned based on data from over 1000 datasets in over 100 cell types.
Genome Biology@GenomeBiology7 Jan 2022
Chromatin state annotation of the human genome using a version of ChromHMM adapted for large scale use, applied to over 1000 datasets from 100 cell types, by @HaVu_science and @JasonErnstLab. The 'stacked' model improves match to external annotation genomebiology.biomedcentral.…
Enrichment of states associated with structural variants (left) and emission probabilities associated with those states (right)

ALT Enrichment of states associated with structural variants (left) and emission probabilities associated with those states (right)

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My first grad school publication is out on pnas.org. We reported partial synthetic models of FeMoco cluster with various bridging atoms, including a C-based ligand. Thanks to everyone for the contribution pnas.org/content/118/49/e210…
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To better understand the functional consequences of SARS-COv-2 mutations, @JasonErnstLab @s00binkwon used comparative genomics to annotate SARS-COv-2 conservation states and compare sequence alignment patterns between different coronaviruses. nature.com/articles/s42003-0…
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Our paper "Single-nucleotide conservation state annotation of the SARS-CoV-2 genome" led by @s00binkwon is now published. In this paper we apply ConsHMM (previously developed by @adriana_arneson) to annotate the SARS-CoV-2 genome and analyze mutations. nature.com/articles/s42003-0…

Single-nucleotide conservation state annotation of the SARS-CoV-2 genome

Communications Biology - Kwon and Ernst applied the comparative genomics method, ConsHMM, to the multi-strain alignments of different coronaviruses in order to annotate every base of the SARS-CoV-2...

nature.com
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A genome-wide conservation score integrating epigenomic, transcription factor binding, and transcriptomic data from mouse and human genomes. @JasonErnstLab @s00binkwon nature.com/articles/s41467-0…
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What are the locations from the mouse genome more likely to transfer to human biology? @JasonErnstLab @s00binkwon compmed.ucla.edu/news/learni… Funded by @NIH @NSF @kureit, and the Rose Hills Foundation. @UCLAMEng @dgsomucla
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My first first-author paper is finally out! LECIF scores human-mouse conservation at the functional genomics level 👩‍🔬🐭
Jason Ernst Lab@JasonErnstLab3 May 2021
New paper "Learning a genome-wide score of human–mouse conservation at the functional genomics level" led by @s00binkwon is now out. nature.com/articles/s41467-0…
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Our latest paper "ConsHMM Atlas: conservation state annotations for major genomes and human genetic variation" by @adriana_arneson with her former @UCLA_BIGSummer students Brooke and @thechiennifer academic.oup.com/nargab/arti…

ConsHMM Atlas: conservation state annotations for major genomes and human genetic variation

Abstract. ConsHMM is a method recently introduced to annotate genomes into conservation states, which are defined based on the combinatorial and spatial pa

academic.oup.com
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Our paper "Identification and characterization of constrained non-exonic bases lacking predictive epigenomic and transcription factor binding annotations" with contributions from Olivera,@tanyaphung,@s00binkwon, @adriana_arneson,Yuju,@lohmueller is now out nature.com/articles/s41467-0…
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Our latest preprint "Learning a genome-wide score of human-mouse conservation at the functional genomics level" led by @s00binkwon
bioRxiv Bioinfo@biorxiv_bioinfo10 Sep 2020
Learning a genome-wide score of human-mouse conservation at the functional genomics level biorxiv.org/cgi/content/shor… #biorxiv_bioinfo
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Our preprint on applying ConsHMM to generate conservation state annotations of the SARS-CoV-2 genome and then analyze strain mutations. This is the work of @s00binkwon leveraging ConsHMM previously developed by @adriana_arneson.
bioRxiv Genomics@biorxiv_genomic15 Jul 2020
Single-nucleotide conservation state annotation of SARS-CoV-2 genome biorxiv.org/cgi/content/shor… #biorxiv_genomic
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