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Graduate School of Biomedical Sciences

QCB Student Publications

Master
Content

Our students successfully publish in leading journals in their fields. Below is a sampling of recent student publications.

Chen, Hu
Yuan, Yuan, Lingxiang Liu, Hu Chen, Yumeng Wang, Yanxun Xu, Huzhang Mao, Jun Li et al. "Comprehensive characterization of molecular differences in cancer between male and female patients." Cancer cell 29, no. 5 (2016): 711-722.

Zhu, Ying
“Fine and distributed subcellular retinotopy of excitatory inputs to the dendritic tree of a collision-detecting neuron.” J Neurophysiol. 2016 Jun 1;115(6):3101-12. doi: 10.1152/jn.00044.2016. Epub 2016 Mar 23.

Chen, Muyuan
High resolution single particle refinement in EMAN2. 1, Bell, James M and Chen, Muyuan and Baldwin, Philip R and Ludtke, Steven J, Methods, 100, 25--34, 2016

De Novo modeling in cryo-EM density maps with Pathwalking, Chen, Muyuan and Baldwin, Philip R and Ludtke, Steven J and Baker, Matthew L, Journal of Structural Biology, 196, 3, 289--298, 2016

Bell, James Michael
High resolution single particle refinement in EMAN2.1., Bell JM, Chen M, Baldwin PR, Ludtke SJ., Methods. 2016 May 1;100:25-34. doi:10.1016/j.ymeth.2016.02.018. Epub 2016 Feb 27.

Wang, Yumeng
Wang, Y., and P. Barth. "Evolutionary-guided de novo structure prediction of self-associated transmembrane helical proteins with near-atomic accuracy." Nature communications 6 (2015).

Yuan Y, Liu L, Chen H, Wang, Y., Han L and Liang H, "Comprehensive Characterization of Molecular Differences in Cancer between Male and Female Patients." Cancer cell. 2016 May 9;29(5):711-22.

Kim, J., Siverly, A.N., Chen, D., Wang, M., Yuan, Y., Wang, Y., Lee, H., Zhang, J., Muller, W.J., Liang, H. and Gan, B., 2016. Ablation of miR-10b Suppresses Oncogene-Induced Mammary Tumorigenesis and Metastasis and Reactivates Tumor-Suppressive Pathways. Cancer Research, pp.canres-1571.

Wang, Y., Xu X, Yu S, Chen H, Han L, Yuan Y, Lu Y, Mills GB and Liang H. Systematic characterization of miRNA A-to-I RNA editing hotspots in human cancers. (under review)

Hyrc, Corey
Hryc CF, Chen D-H, Afonine PV, Jakana J, Wang Z, Haase-Pettingell C, Jiang W, Adams PD, King JA, Schmid MF, and Chiu W (2017) Accurate model annotation of a near-atomic resolution cryo-EM map. Proceedings of the National Academy of Sciences.

Lawson CL, Patwardhan A, Baker ML, Hryc CF, Garcia ES, Hudson BP, Lagerstedt I, Ludtke SJ, Pintilie G, Sala R, Westbrook JD, Berman HM, Kleywegt GJ, and Chiu W (2016) EMDataBank unified data resource for 3DEM. Nucleic Acids Res 44:D396-403.

Wang Z*, Fan G*, Hryc CF*, Schmid MF, Serysheva II, Chiu W, Luisi BF and Du D. (2017) An allosteric transport mechanism for the AcrAB-TolC Multidrug Efflux Pump. In press: eLife.

Seilheimer, Robert
Sabharwal J, Seilheimer RL, Cowan CS, Wu SM (2016) The ON crossover circuitry shapes spatiotemporal profile in the center and Surround of Mouse OFF Retinal Ganglion Cells. Front. Neural Circuits. 10:106.

Cowan, CS*, Sabharwal J*, Seilheimer RL, Wu SM (2016) Distinct subcomponents of mouse retinal ganglion cell receptive fields are differentially altered by light adaptation. Vision Research 131:96-105.

Koire, Amanda
Koire A, Kim YW, Wang J, Katsonis P, Jin H, Lichtarge O. Codon-level co-occurrences of germline variants and somatic mutations in cancer are rare but often lead to incorrect variant annotation and underestimated impact prediction. PLoS One. 2017, (In Press)

Gallion J*, Koire A*, Katsonis P, Schoenegge A, Bouvier M, Lichtarge O. Predicting phenotype from genotype: improving accuracy through more robust experimental and computational modeling. Human Mutation. 2017, Available from: doi: 10.1002/humu.23193

Koire A, Gilbert BE, Sucgang R, Zechiedrich L. Repurposed Transcriptomic Data Reveal Small Viral RNA Produced by Influenza Virus during Infection in Mice. PLoS One. 2016, Available from: doi: 10.1371/journal.pone.0165729.

Zhu, Lin Lynn
Zhu LL and Beauchamp MS (2017). Mouth and voice: a relationship between visual and auditory preference in the human superior temporal sulcus. Journal of Neuroscience. 37(10): 2734-2745.