Hyeshik Chang

@hyeshik

Computational biologist; RNA, transcriptome, RNA-protein interaction, high-throughput experiments

Seoul, South Korea

highthroughput.org

Replies Reposts Media

Hyeshik Chang
@hyeshik
Apr 7, 2020
Our @nanopore direct RNA sequencing data for #SARSCoV2 transcriptome now can be explored using the UCSC Genome Browser. Tracks for sgRNA-specific RNA modifications and discontinuous transcriptions are available. genome.ucsc.edu/s/hyeshik/sars…
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Hyeshik Chang
@hyeshik
Mar 15, 2020
We did @nanopore direct RNA sequencing for #SARS_CoV_2. Found that a heavily modified region in N ORF shows a remarkable difference between sgRNAs.
biorxiv.org
The architecture of SARS-CoV-2 transcriptome
SARS-CoV-2 is a betacoronavirus that is responsible for the COVID-19 pandemic. The genome of SARS-CoV-2 was reported recently, but its transcriptomic architecture is unknown. Utilizing two compleme...
3
Hyeshik Chang
@hyeshik
Dec 27, 2018
Having trouble with multi-read FAST5 basecalling with albacore? Tones of old FAST5s are packed in gzipped tarballs? Try this for a smoother transition to the new @nanopore format.
GitHub - hyeshik/seamlessf5: Helpers for smoother transitioning to multi-read FAST5 files
From github.com
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Hyeshik Chang
@hyeshik
Oct 10, 2018
New release: Poreplex 0.3.1, a jackknife for @nanopore direct RNA-seq. Demultiplexes “failed” reads, too. Poly(A) dwell time measurement for nearly all reads. New DNN-based signal scaler boosts the overall accuracy even higher.
GitHub - hyeshik/poreplex: A versatile sequenced read processor for nanopore direct RNA sequencing
From github.com
1
Hyeshik Chang
@hyeshik
Jun 29, 2018
Just released the first version of Poreplex, a versatile preprocessing pipeline for @nanopore direct RNA sequencing. It provides barcoding, 3′ adapter trimming, live basecalling, real-time alignment, and entertaining dashboard view for real-time reports.
GitHub - hyeshik/poreplex: A versatile sequenced read processor for nanopore direct RNA sequencing
From github.com