Changjin Hong, Ph.D.

Changjin
Postdoctoral Associate, Johnson Lab

Education

B.S., Electrical Engineering, Hanyang University, South Korea
Ph.D., Electrical Engineering, University of Minnesota, Twin Cities, MN

Contact Information

Email: cjhong@bu.edu

Research Interests

Probabilistic Short Read Alignments with Next Generation Sequencing (NGS) Data. To develop a probabilistic mapping algorithm to achieve a high-quality NGS alignments. The applications I primarily focus on include bisulfited reads for methylation profiling, RNA editing, and Single-nucleotide polymorphism(SNP) analysis.

Rapid Diagnosis of Pathogen with Clinical Samples. To design a statistical framework and develop a highly scalable algorithm to rapidly identify non-human sequences with the minimum read depth.

Genome-wide Methylation Data Analysis. To apply Kalman filter to bisulfited reads alignments and quantify a true methylation proifle across cells. Furthermore, a time-dependent autoregressive–moving-average model (ARMA) is applied to analyze a differentially methylated region (DMR).

Publications

A Novel Update Propagation Module for the Data Provenance Problem: A Contemplating Vision on Realizing Data Provenance from Models to Storage. Abed E. Lawabni, Changjin Hong, David H-C. Du, and Ahmed H. Tewfik, IEEE Mass Storage Systems 2005, pp.61-9, 2005.

Efficient Updating of Biological Sequence Analyses. Changjin Hong and Ahmed H. Tewfik, IEEE Journal of Selected Topics in Signal Processing, Volume 2, Issue 3 pp.365-77, Jun. 2008.

Heuristic Reusable Dynamic Programming: Efficient Updates of Local Sequence Alignment. Changjin Hong and Ahmed H. Tewfik, IEEE/ACM Transactions on Computational Biology and Bioinformatics, Volume 6, Issue 4, pp.570-82, Oct. 2009.

Co-clustering Phenome-genome for Phenotype Classification and Disease Gene Discovery. Hwang, TaeHyun; Atluri, Gowtham; Xie, Maoqiang; Dey, Sanjoy; Hong, Changjin; Kumar, Vipin; Kuang, Rui, Nucl. Acids Res., 2012.

Module-based Subnetwork Alignments Reveal Novel Transcriptional Regulators in Malaria Parasite Plasmodium falciparum.  Hong Cai*, Changjin Hong*, Jianying Gu*, Timothy G. Lilburn, Rui Kuang, Yufeng Wang, BMC system biology, 2012.