Informatics Specialist in Bioinformatics
Contact Information
Wilson Dental Library & Learning Center
Herman Ostrow School of Dentistry of USC
925 W. 34th Street, DEN 21
Los Angeles, CA 90089-0641


Yong-Hwee Eddie LOH

Liaison For


Library Responsibilities

Working with the team to develop an effective and innovative bioinformatics support for the UPC community. Leading the implementation of such strategy and carrying out the routine operation on UPC, including such tasks as user consultation, training, collaborative data analysis, as well as grant application support.

Leading the efforts of augmenting our bioinformatics software offering by implementing open-source bioinformatics tools on our own computing resources.  Developing workshops and provide training on such tools for USC users.

Managing users access of our licensed commercial software for UPC users, as well as participating in various daily operational activities of our program.

Maintains a current awareness of newly developed bioinformatics tools and develops innovative approaches to disseminating this information.

Contact me regarding

Bioinformatics workshop content and schedules
Bioinformatics resources relevant to specific research needs
Application of bioinformatics tools in various stages of research
Analysis and interpretation of high-throughput genomics data

Educational Background

PhD, Biology, Georgia Institute of Technology, USA, 2011

MS, Bioinformatics, Bioinformatics Institute, National University of Singapore, 2004

B.Eng, Chemical Engineering, National University of Singapore, 2000

Selected Publications & Presentations

Peña CJ, Kronman HG, Cates HM, Bagot RC, Purushothaman I, Walker DM, Issler O, Loh YHE, Leong T, Goodman E, Kiraly DD, Neve RL, Shen L, Nestler EJ. 2017. Early life stress confers lifelong stress susceptibility in mice via ventral tegmental area OTX2. Science. [Accepted]

Jiang Y*, Loh YHE*, Rajarajan P, Hirayama T, Liao W, Kassim B, Javidfar B, Hartley BJ, Kleofas L, Park R, Labonte B, Ho SM, Chandrasekaran S, Do C, Ramirez B, Peter C, TCW J, Safaie B, Morishita H, Roussos P, Nestler EJ, Schaefer A, Tycko B, Brennand KJ, Yagi T, Shen L, Akbarian S. 2017. Kmt1e regulates a large neuron-specific topological chromatin domain. Nat Genet. [Accepted]

Descalzi G, Mitsi V, Purushothaman I, Gaspari S, Avrampou K, Loh YHE, Shen L, Zachariou V. 2017. Neuropathic pain promotes gene expression adaptations in brain networks involved in stress and depression. Sci Signal. 10(471) pii: eaaj1549.

Engmann O, Labonté B, Mitchell A, Bashtrykov P, Calipari ES, Rosenbluh C, Loh YHE, Walker DM, Burek D, Hamilton PJ, Issler O, Neve RL, Turecki G, Hurd Y, Chess A, Shen L, Mansuy I, Jeltsch A, Akbarian S, Nestler EJ. 2017. Cocaine-Induced Chromatin Modifications Associate With Increased Expression and Three-Dimensional Looping of Auts2. Biol Psychiatry. pii: S0006-3223(17)31517-2.

Wan L, Wen H, Li Y, Lyu J, Xi Y, Hoshii T, Joseph J, Wang X, Loh YHE, Erb MA, Souza AL, Bradner JE, Shen L, Li W, Li H, Allis CD, Armstrong SA, Shi X. 2017. ENL links histone acetylation to oncogenic gene expression in AML. Nature. 543(7644):265-269.

Loh YHE, Feng J, Nestler EJ, Shen L. 2016. Bioinformatic Analysis for Profiling Drug-induced Chromatin Modification Landscapes in Mouse Brain using ChlP-seq Data. Bio Protocols. 7(3):e2123.

Loh YHE*, Koemeter-Cox A*, Finellli M, Shen L, Friedel R, Zou H. 2016. Comprehensive mapping of 5-hmC epigenetic dynamics in axon regeneration. Epigenetics. 12(2):77-92.

Lepack AE, Bagot RC, Pena CJ, Loh YHE, Farrelly LA, Lu Y, Powell SK, Lorsch ZS, Issler O, Tamminga CA, Molina H, Shen L, Nestler EJ, Allis CD, Maze I. 2016. Aberrant H3.3 dynamics in NAc promote vulnerability to depressive-like behavior. Proc Natl Acad Sci USA. 113(44):12562-12567.

Quach H*, Rotival M*, Pothlichet J*, Loh YHE*, Dannemann M, Zidane N, Laval G, Patin E, Harmant C, Lopez M, Deschamps M, Naffakh N, Duffy D, Coen A, Leroux-Roels G, Clement F, Boland A, Deleuze JF, Kelso J, Albert ML, Quintana-Murci L. 2016. Genetic Adaptation and Neandertal Admixture Shaped the Immune System of Modern Human Populations. Cell. 167(3):643-656.e17

Shen EY, Jiang Y, Javidfar B, Kassim B, Loh YHE, Ma Q, Mitchell AC, Pothula V, Stewart AF, Ernst P, Yao WD, Martin G, Shen L, Jakovcevski M, Akbarian S. 2016. Neuronal Deletion of Kmt2a/Mll1 Histone Methyltransferase in Ventral Striatum is Associated with Defective Spike-Timing Dependent Striatal Synaptic Plasticity, Altered Response to Dopaminergic Drugs and Increased Anxiety. Neuropsychopharmacology. 41(13):3103-3113.

Loh YHE, Shen L. 2016. Analysis and visualization of ChIP-seq and RNA-seq sequence alignments using ngs.plot. Methods Mol Biol. 1415:371-383

Siddle KJ, Tailleux L, Deschamps M, Loh YHE, Deluen C et. al. 2015. Bacterial infection drives the expression dynamics of microRNAs and their isomiRs. PLoS Genet. 11(3):e1005064.

Hulsey CD, Roberts RJ, Loh YHE, Rupp MF, Streelman JT. 2013. Lake Malawi cichlid evolution along a benthic.limnetic axis. Ecol and Evol. 3(7):2262-2272.

Loh YHE, Bezault E, Muenzel FM, Roberts RB, Swofford R, Barluenga M, Kidd CE, Howe AE, Di Palma F, Lindbald-Toh K, Hey J, Seehausen O, Salzburger W, Kocher TD, Streelman JT. 2013. Origins of shared genetic variation in African cichlids. Mol Biol Evol. 30(4):906-917.

O’Quin KE, Smith D, Naseer Z, Schulte J, Engel SD, Loh YHE, Streelman JT, Boore JL, Carleton KL. 2011. Divergence in cis-regulatory sequences surrounding the opsin gene arrays of African cichlid fishes. BMC Evol Biol. 11(1):120.

Loh YHE, Yi SV, Streelman JT. 2011. Evolution of microRNAs and the diversification of species. Genome Biol Evol. 3:55-65.

Sylvester JB, Rich CA, Loh YHE, van Staaden MJ, Fraser GJ, Streelman JT. 2010. Brain diversity evolves via differences in patterning. Proc Natl Acad Sci. 107(21):9718-9723.

Elango N, Lee JY, Peng Z, Loh YHE, Yi SV. 2009. Evolutionary Rate Variation in Old World Monkey Genomes. Biology Lett. 5(3):405-408.

Loh YHE, Katz LS, Mims MC, Kocher TD, Yi S, Streelman JT. 2008. Comparative analysis reveals signatures of differentiation amid genomic polymorphism among Lake Malawi cichlids. Genome Biol. 9(7):R113.

Loh YHE, Brenner S, Venkatesh B. 2008. Investigation of loss and gain of introns in the compact genomes of pufferfishes (fugu and Tetraodon). Mol Biol Evol. 25(3):526-535.

Venkatesh B, Kirkness EF, Loh YHE, Halpern AL, Lee AP, Johnson J, Dandona N, Viswanathan LD, Tay A, Venter JC, Strausberg RL, Brenner S. 2007. Survey sequencing and comparative analysis of the elephant shark (Callorhinchus milii) genome. PLoS Biol. 5(4):e101

Venkatesh B, Kirkness EF, Loh YHE, Halpern AL, Lee AP, Johnson J, Dandona N, Viswanathan LD, Tay A, Venter JC, Strausberg RL, Brenner S. 2006. Ancient noncoding elements conserved in the human genome. Science 314:1892

Loh YHE, Christoffels A, Brenner S, Hunziker W, Venkatesh B. 2004. Extensive expansion of the claudin gene family in the teleost fish, Fugu rubripesGenome Res. 14(7):1248-57.

*Joint first-author.