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(Julius)
Jun Wan, Ph.D.
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I
work as senior bioinformatics scientist @ Bioinformatics Core of Wilmer
Institute, Johns Hopkins University School of Medicine. My research
interests include but are not limited to large-scale genomic data
integration and analysis (e.g. microarray and protein chip analysis),
transcriptional and post-transcriptional gene regulation and network,
epigenetics, microRNA-gene regulation and
network, protein-DNA interaction, and physics study of periodic
structures.
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Selected Peer Reviewed Papers (*: co-first author)
1.
Woodard, C., Shamay, M., Liao, G., Zhu, J., Ng, A., Li, R.,
Newman, R., Rho, H., Hu, J., Wan, J., Qian, J., Zhu, H, and Hayward, S.D.
(2012) Phosphorylation of the Chromatin Binding Domain of
KSHV LANA. PLoS
Pathogen (in press)
2.
YR Ren, R Chaerkady, S Hu, J Wan, J Qian, H Zhu, A Pandey, and S Kern (2012) Unbiased
discovery of interactions at a control locus driving expression of the
cancer-specific therapeutic and diagnostic target, mesothelin.
Journal of Proteome Research (in press).
3.
A Joushaghani, R Iyer, JKS Poon, JS Aitchison,
CM de Sterke, J Wan, MM Dignam (2012) Generalized Exact Dynamic
Localization in Curved Coupled Optical Waveguide Arrays. Phys. Rev. Lett. 109
(10), 103901.
4.
SL Merbs, MA Khan, L
Hackler, VF Oliver, J Wan, J Qian, DJ Zack (2012)
Cell-Specific DNA Methylation Patterns of Retina-Specific Genes. PLoS ONE 7 (3), e32602.
5.
RP Kandpal, HK
Rajasimha, MJ Brooks, J Nellissery, J Wan, J
Qian, TS Kern, A Swaroop (2012) Transcriptome
analysis using next generation sequencing reveals molecular signatures of
diabetic retinopathy and efficacy of candidate drugs. Molecular Vision 18, 1123.
6.
Zheng,
D.*, Wan, J.*, Cho, Y.*, Wang, L., Chiou, CJ., Pai,
S., Woodard, C., Zhu, J., Liao, G., Martinez-Maza,
O., Qian, J., Zhu, H., Hayward, GS., Ambinder, RF., and Hayward, SD.
(2011) Comparison of Humoral Immune Responses
to Epstein-Barr Virus and Kaposi's Sarcoma Associated Herpesvirus
Using a Viral Proteome Microarray. Journal of Infectious Diseases 204 (11), 1683-1691.
7.
Wan, J., Masuda, T., Hackler, L., Torres, K., Shannath, LM., Zack, DJ., and Qian, J. (2011) Dynamic usage of
alternative splicing exons during mouse retina development. Nucleic
Acids Research 39, 7920-7930.
8.
Hu, J., Wan, J., Hackler, L., Zack, D. J., and Qian, J.
(2010) Computational analysis of tissue-specific gene networks:
application to murine retinal functional
studies. Bioinformatics 26, 2289-97.
9.
Hackler, L.*, Wan, J.*, Swaroop, A., Qian, J., and Zack,
D. J. (2010) MicroRNA profile of the developing
mouse retina. Investigative Ophthalmology & Visual Science 20,
1823-31.
10.
Wan, J., Lin, J., Zack,
D.J., and Qian, J. (2009) Relating periodicity of nucleosome organization
and gene regulation. Bioinformatics 25, 1782-1788.
11.
Lin, Y., Lu, J., Zhang, J., Walter, W., Dang, W., Wan, J., Tao. S., Qian., J., Zhao., Y., Boeke,
J.D., Berger, S. L., and Zhu., H. (2009) Protein Acetylation
Microarray Reveals that NuA4 Controls Key Metabolic Target Regulating Gluconeogenesis. Cell 136, 1073-1084.
12.
A. Joushaghani, R. Iyer, J.K.S. Poon, J.S. Aitchison,
C.M. de Sterke, J. Wan and
M.M. Dignam (2009) Quasi-Bloch Oscillations in Curved Coupled Optical
Waveguides. Phys. Rev. Lett. 103,
143903.
13.
R. Iyer, S. Aitchison, J.
Wan, M. M. Dignam, and C. M. de Sterke (2007) Exact Dynamic
Localization in Curved AlGaAs Optical Waveguide
Arrays. Opt. Express 15, 3212-3233.
14.
J. Wan, M. Laforest, C. M. de Sterke, and M. M. Dignam (2005)
Optical filters based on dynamic localization in curved coupled optical
waveguides. Opt. Comm. 247, 353-365.
15.
J. Wan, C. M. de Sterke,
and M. M. Dignam (2004) Dynamic localization and quasi-Bloch oscillations
in general periodic ac-dc electric fields. Phys. Rev. B 70,
125311-9. Also selected for the Virtual Journal of Nanoscale
Science & Technology 10
(14) (2004).
16.
J. Wan, P. Domachuk, M. M. Dignam, and C. M. de Sterke (2004)
Electron dynamics and dynamic localization in asymmetric periodic
potentials. Phys. Rev. B 69, 113304-4.
17.
P. Domachuk, C. M. de Sterke, J. Wan, and M. M. Dignam (2002)
Dynamic localization in continuous ac electric fields. Phys. Rev. B
66, 165313-10.
18.
J. Wan, R. Q. Zhang, and
H. F. Cheung (2002) Energetics of Ti atom
diffusion in diamond film. Comp. Mater. Sci. 23, 73.
19.
R. Q. Zhang, S. F. Lo, J. Wan, D. K. Yu, and S. T. Lee (2002) Characteristics of
Boron and Nitrogen species on Aluminum surface. Comp. Mater. Sci.
23, 38.
20.
Zhang C., Qiao F., Wan J., and Zi
J. (2001) Novel polarizer made from two-dimensional photonic bandgap materials. Chinese Phys. Lett. 18, 1082.
21.
F. Qiao, C. Zhang, J. Wan, and Jian
Zi (2000) Photonic quantum-well structures:
multiple channeled filtering phenomena. Appl. Phys. Lett. 77, 3698.
22.
Zhang C., Qiao F., Wan J., and Zi
J. (2000) Enlargement of nontransmission
frequency range in photonic crystals by using multiple heterostructures. J. Appl. Phys. 87, 3174.
23.
J. Wan, Chun Zhang, Linjun Wang, and Jian Zi (1999) Photonic Crystals and their applications
(Invited review paper). Physics (in Chinese) 28, 393.
24.
J. Zi, J. Wan, and C. Zhang (1998) Large
frequency range of negligible transmission in 1D photonic quantum well
structures. Appl. Phys. Lett. 73, 2084.
Patents * (* As one of group authors)
25.
The way to Product 1-D Photonic Crystal Multiple-Channel
Filter (No.01105105.1, 2001, China).
26.
The Way to Product Photonic Crystal Quantum Well
(No.00137208.4, 2000, China).
27.
The Way to Product 2-D Photonic Crystal Polarizor (No.98110990.X, 1998, China).
Selected conference presentations
28.
J. Wan and J. Qian,
Profiling micro-RNA gene expression during retina development, 2009 20th
Wilmer Research Meeting, Baltimore, Maryland, USA.
29.
J. Wan, A. A. Adeyemi,
and T. E. Darcie (2007) Optimizing Reconstruction Resolution for
Weak-phase Object in Lensless Holographic
Imaging. Communications, Computers and Signal Processing, 2007. PacRim 2007. IEEE Pacific Rim Conference on 22-24
Aug. 2007, pp. 589-592.
30.
C.M. de Sterke, M. Dignam, and J. Wan, A menagerie of Bloch oscillations
(Invited talk), LEOS 2005, the 18th Annual Meeting of the IEEE Lasers
& Electro-Optic Society, paper ThN1.
31.
J. Wan and M. M. Dignam, Exact and approximate dynamic
localization in combined ac and dc electric fields, 2004 American
Physical Society March Meeing, Montreal,
Quebec, Canada.
32.
J. Wan, M. Laforest,
C. M. de Sterke (speaker), and M. M. Dignam, Dynamic localization in curved coupled optical waveguides,
2003 Optical Society of America (OSA) annual meeting, Tucson, Arizona,
USA.
33.
J. Wan, Theoretical study and application of two dimension photonic
crystal band-gaps, 1999 National Photon-Electron Annual Meeting, Ninbo, Zhejiang, China
Professional Activities
v Member of Biophysical Society
v Member of American
Physical Society
v Editorial Board Member:
International Journal of Computational Biology and Drug Design (IJCBDD)
v Scientific Reviewer
for journals: Briefings in Bioinformatics, Nucleic Acid Research,
Bioinformatics, BMC Genomics, Cell Research, PLoS
One, Journal of Biomedicine and Biotechnology, Optics Letters, Journal of
the Optical Society of America B, etc.
v
Program Committee Member of Workshop on
Integrative Data Analysis in Systems Biology 2011
v Program Committee
Member of 2011 International Conference on Intelligent Computing
v
Program Committee Member of Workshop on
Integrative Data Analysis in Systems Biology 2010
v Program Committee
Member of 2010 International Conference on Intelligent Computing
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