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ZLab Publications 2013

Chen PB, Hung JH, Hickman TL, Coles AH, Carey JF, Weng Z, Chu F, Fazzio TG. (2013) 
Hdac6 regulates Tip60-p400 function in stem cells. 
eLife Dec 3:e01557.doi: 10.7554/eLife.01557. (PMCID: PMC3843111).

Lensink MF, Moal IH, Bates PA, Kastritis PL, Pierce BG, Hwang H, Vreven T, Weng Z. et. al. (2013) 
Blind prediction of interfacial water positions in CAPRI. 
Proteins Oct 23. doi: 10.1002/prot.24439. (PMCID: PMC4582081).

Vreven T, Pierce BG, Hwang H, Weng Z. (2013) 
Performance of ZDOCK in CAPRI rounds 20–26. 
Proteins Oct 3. doi: 10.1002/prot.24432. (PMCID: PMC3975700).

Shulha HP, Cheung I, Guo Y, Akbarian S+ and Weng Z+. (2013)  
Coordinated Cell Type-Specific Epigenetic Remodeling in Prefrontal Cortex Begins before Birth and Continues into Early Adulthood. 
PLoS GenetData  Apr;9(4):e1003433. (PMCID: PMC3623761) 
+Co-corresponding authors.

Perrat PN, DasGupta S, Wang J, Theurkauf W, Weng Z, Rosbash M and Waddell S. (2013) 
Transposition-driven genomic heterogeneity in the Drosophila brain.
Science. Apr 5;340(6128):91-5. (PMCID: PMC3887341).

Dong X and Weng Z (2013) 
The correlation between histone modifications and gene expression. 
Epigenomics.  Apr;5(2):113-6. (PMCID: PMC4230708).

Li XZ*, Roy CK*, Dong X, Bolcun-Filas E, Wang J, Han BW, Xu J, Moore MJ, Schimenti JC, Weng Z+ and Zamore PD+. (2013) 
An Ancient Transcription Factor Initiates the Burst of piRNA Production during Early Meiosis in Mouse Testes. 
Mol Cell Apr 11;50(1):67-81. (PMCID: PMC3671569) 
*Joint first authors.  +Co-corresponding authors.

Pierce BG, Eberwine R, Noble JA, Habib M, Shulha HP, Weng Z, Blankenhorn EP, Mordes JP. (2013) 
The Missing Heritability in T1D and Potential New Targets for Prevention. 
J Diabetes Res 2013:737485. doi: 10.1155/2013/737485. (PMCID: PMC3647582).

Hwang H, Vreven T, Weng Z(2013) 
Binding interface prediction by combining protein–protein docking results. 
Proteins (2014) Jan;82(1):57-66. doi: 10.1002/prot.24354. Epub 2013 Aug 31. (PMCID: PMC3936310).

Zhang L, Zhang Z, Weng Z (2013)
Rapid reassortment of internal genes in avian influenza A(H7N9) virus.
Clin. Infect. Dis. 2013 Oct; 57(7):1059-61.

Zhang L, Zhang Z, Weng Z, Shi W (2013)
Substitution rates of the internal genes in the novel avian H7N9 influenza virus.
Clin. Infect. Dis. 2013 Oct; 57(8):1213-5.

Moretti R, Fleishman SJ, Pierce BG, Hwang H, Vreven T,Weng Z. et.al. (2013) 
Community-wide evaluation of methods for predicting the effect of mutations on protein–protein interactions. 
Proteins Nov; 81(11):1980-7. doi: 10.1002/prot.24356. Epub 2013 Aug 23. (PMCID: PMC4143140).

Vreven T*, Hwang H*, Pierce BG, Weng Z (2013) 
Evaluating template-based and template-free protein–protein complex structure prediction. 
Brief Bioinform Jul 1. Epub ahead of print (PMCID: PMC3957070)
*Joint first authors.

Vreven T, Hwang H, Weng Z. (2013) 
Exploring Angular Distance in Protein-Protein Docking Algorithms. 
PLoS One Feb;8(2):e56645: doi. 10.1371/journal.pone.0056645. (PMCID: PMC3578925).

Wang J*, Zhuang J*, Iyer S*, Lin XY*, Greven MC*, Kim BH, Moore J, Pierce BG, Dong X, Virgil D, Birney E, Hung JH and Weng Z. (2013) 
Factorbook.org: a Wiki-based database for transcription factor-binding data generated by the ENCODE consortium. 
Nucleic Acids Res. Jan;41(Database issue):D171-6. (PMCID: PMC3531197) *Joint first authors.

Tu S, Pederson T+, and Weng Z+. (2013) 
Networking development by Boolean logic.  
Nucleus Feb 14;4(2) (PMCID: PMC3621749) 
+Co-corresponding authors.

Pierce BG and Weng Z. (2013) 
A flexible docking approach for prediction of T cell receptor-peptide-MHC complexes.  
Protein Sci. Jan;22(1):35-46 (PMCID:PMC3575858).