Author

Daehwan Kim

Michael L. Rosenberg Assistant Professor of Bioinformatics at the University of Texas Southwestern - Cited by 49,248 - Life Sciences

Biography

Daehwan Kim is Michael L. Rosenberg  Assistant Professor in the Lyda Hill Department of Bioinformatics and a Scholar of the Cancer Prevention Research Institute of Texas (CPRIT). Dr. Kim’s research is focused on developing computer algorithms and statistical methods that enable accurate and rapid analysis of biological data, in particular sequencing data. Among his several first-author papers, his paper on the TopHat2 software program (published in 2013 in Genome Biology) and another on HISAT (published in 2015 in Nature Methods) have been cited over 10,000 and 7,000 times, respectively.  
Title
Cited by
Year
HISAT: a fast spliced aligner with low memory requirements
D Kim, B Langmead, SL SalzbergNature methods 12 (4), 357-360, 2015201
13795
2015
TopHat2: accurate alignment of transcriptomes in the presence of insertions, deletions and gene fusions
D Kim, G Pertea, C Trapnell, H Pimentel, R Kelley, SL SalzbergGenome biology 14 (4), 1-13, 2013201
12510
2013
Differential gene and transcript expression analysis of RNA-seq experiments with TopHat and Cufflinks
C Trapnell, A Roberts, L Goff, G Pertea, D Kim, DR Kelley, H Pimentel, ...Nature protocols 7 (3), 562-578, 2012201
12107
2012
Graph-based genome alignment and genotyping with HISAT2 and HISAT-genotype
D Kim, JM Paggi, C Park, C Bennett, SL SalzbergNature biotechnology 37 (8), 907-915, 2019201
4864
2019
Transcript-level expression analysis of RNA-seq experiments with HISAT, StringTie and Ballgown
M Pertea, D Kim, GM Pertea, JT Leek, SL SalzbergNature protocols 11 (9), 1650-1667, 2016201
4015
2016
Centrifuge: rapid and sensitive classification of metagenomic sequences
D Kim, L Song, FP Breitwieser, SL SalzbergGenome research 26 (12), 1721-1729, 2016201
985
2016
TopHat-Fusion: an algorithm for discovery of novel fusion transcripts
D Kim, SL SalzbergGenome biology 12 (8), 1-15, 2011201
829
2011
Rapid and accurate alignment of nucleotide conversion sequencing reads with HISAT-3N
Y Zhang, C Park, C Bennett, M Thornton, D KimGenome Research 31 (7), 1290-1295, 2021202
66
2021
Hisat-genotype: Next generation genomic analysis platform on a personal computer
D Kim, JM Paggi, S SalzbergBioRxiv, 266197, 2018201
17
2018
Genomic characterization of chromosome translocations in patients with T/myeloid mixed-phenotype acute leukemia
A Pallavajjala, D Kim, T Li, G Ghiaur, RJ Jones, KH Burns, SL Salzberg, ...Leukemia & lymphoma 59 (5), 1231-1238, 2018201
10
2018
HISAT: Hierarchical indexing for spliced alignment of transcripts
D Kim, B Langmead, SL SalzbergBioRxiv, 012591, 2014201
7
2014
BNT162b2-induced neutralizing and non-neutralizing antibody functions against SARS-CoV-2 diminish with age
TA Bates, P Lu, YJ Kang, D Schoen, M Thornton, SK McBride, C Park, ...Cell reports 41 (4), 2022202
5
2022
The novel fusion transcript NR5A2‐KLHL29FT is generated by an insertion at the KLHL29 locus
Z Sun, X Ke, SL Salzberg, D Kim, V Antonescu, Y Cheng, B Huang, ...Cancer 123 (9), 1507-1515, 2017201
4
2017
Graph-based 683 genome alignment and genotyping with HISAT2 and HISAT-genotype
D Kim, JM Paggi, C Park, C Bennett, SL SalzbergNat. 68 Biotechnol 37 (907-915), 685, 2019201
4
2019
Automated classification of cytogenetic abnormalities in hematolymphoid neoplasms
A Cox, C Park, P Koduru, K Wilson, O Weinberg, W Chen, R García, ...Bioinformatics 38 (5), 120-126, 2022202
4
2022
HISAT-3N: a rapid and accurate three-nucleotide sequence aligner
Y Zhang, C Park, C Bennett, M Thornton, D KimbioRxiv, 00.1. 15.4906, 000
2
2020
SeqWho: reliable, rapid determination of sequence file identity using k-mer frequencies in Random Forest classifiers
C Bennett, M Thornton, C Park, G Henry, Y Zhang, V Malladi, D KimBioinformatics 38 (7), 1830-1837, 0
2
2022

Referred From: https://scholar.google.com/citations?user=RotyhxEAAAAJ&hl=en

Cited by
Citations 49248
h-index 10
i10-index 11
Recommended Journals
Open Access Journals