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Publications 2010

Carone BR, Fauquier L, Habib N, Shea JM, Hart CE, Li R, Bock C, Li C, Gu H, Zamore PD, Meissner A, Weng Z, Hofmann HA, Friedman N, Rando OJ. (2010) 
Paternally induced transgenerational environmental reprogramming of metabolic gene expression in mammals. 
Cell. Dec 23;143(7):1084-96. (PMCID: PMC3039484).

Xie J, Xie Q, Zhang H, Ameres SL, Hung J, Su Q, He R, Mu X, Ahmed S, Park S, Kato H, Li C, Mueller C, Mello CC, Weng Z, Flotte TR, Zamore PD+, Gao G+. (2010) 
MicroRNA-regulated, Systemically Delivered rAAV9: A Step Closer to CNS-restricted Transgene Expression.
Mol Ther. Dec 21. (PMCID: PMC3048189).

Khurana JS, Xu J, Weng Z, Theurkauf WE (2010)
Distinct functions for the Drosophila piRNA pathway in genome maintenance and telomere protection. 
PLoS Genet. 2010; 6(12):e1001246 (PMCID: PMC3003142).

Ameres SL, Hung JXu J, Weng Z+, Zamore PD+.(2010)
Target RNA-directed tailing and trimming purifies the sorting of endo-siRNAs between the two Drosophila Argonaute proteins. 
RNA  Jan; 17(1):54-63. Epub 2010 Nov 24. (PMCID: PMC3004066) 
+Co-corresponding authors.

Kastritis P*, Moal I*, Hwang H, Weng Z, Bates P, Bonvin A, Janin J.(2010)  
A structure-based benchmark for protein-protein binding affinity.  
Protein Sci 20(3):482-91. doi:10.1002/pro.580. (PMCID: PMC3064828)
*Joint first authors.

Pierce B, Haidar J, Yu Y, Weng Z. (2010) 
Combinations of Affinity-Enhancing Mutations in a T Cell Receptor Reveal Highly Nonadditive Effects within and between CDRs and Chains. 
Biochemistry, Aug 24;49(33): 7050-9. (PMCID: PCM3062070).

Hwang H, Vreven T, Janin J, Weng Z. (2010) 
Protein-Protein Docking Benchmark Version 4.0. 
Proteins: Structure, Function, and Bioinformatics Nov 15;78(15):3111-4.(PMCID: PMC2958056).

Han SJ, Hu J, Pierce B, Weng Z and Renne R. (2010) 
Mutational analysis of the Latency-associated nuclear antigen DNA binding domain of Kaposi's sarcoma-associated Herpesvirus reveals structural conservation among Herpesvirus origin binding proteins. 
J.Gen.Virol., Sep; 91 (Pt9): 2203-15. (PMCID: PMC3066550).

McNally B*, Singer A*, Yu Z, Sun Y, Weng Z and Meller A. (2010) 
Optical recognition of converted DNA nucleotides for single-molecule DNA sequencing using nanopore arrays. 
Nano Letters  Jun 9;10(6):2237-44. (PMCID: PMC2883017)
*Joint first authors.

Connor C, Cheung I, Simon A, Jakovcevski M, Weng Z, Akbarian S. (2010) 
A simple method for improving the specificity of anti-methyl histone antibodies.
Epigenetics  Jul; 5(5): 392-5. (PMID:20458167)[PubMed – indexed for MEDLINE].

Cheung I*, Shulha H*, Jiang Y, Matevossian A, Wang J, Weng Z+, Akbarian S+. (2010) 
Developmental regulation and individual differences of neuronal H3K4me3 epigenomes in the prefrontal cortex. 
PNAS, (PMCID: PMC 2889328) *Joint first authors. 
+Co-corresponding authors.

Hung J, Whitfield TW, Yang TH, Hu Z, Weng Z+, DeLisi C+. (2010) 
Identification of functional modules that correlate with phenotypic difference: the influence of network topology. 
Genome Biology. (PMCID: PMC2872883) 
+Co-corresponding authors.

Hwang H, Vreven T, Pierce B, Hung J, Weng Z. (2010)
Performance of ZDOCK and ZRANK in CAPRI round 13-19.
Proteins: Structure, Function, and Bioinformatics first published on May 11, 2010, DOI:10.1002/prot. 22764. (PMCID: PMC3936321).

Landolin J*, Johnson D*, Trinklein N, Aldred S, Medina C, Shulha H, Weng Z+, Myers R+. (2010) 
Sequence features that drive human promoter function and tissue specificity. 
Genome Research. Jul;20(7):890-8. (PMCID: PMC2892090) 
*Joint first authors, +Co-corresponding authors.

Moqtaderi Z, Wang J, Raha D, White R, Snyder M, Weng Z, Struhl K. (2010) 
Genomic Binding Profiles of Functionally Distinct RNA Polymerase III Transcription Complexes in Human Cells. 
Nature Structural and Molecular Biology May;17(5):635-40. Epub 2010 Apr 25. (PMCID: PMC3350333).

Ameres SL, Horwich MD, Hung J, Xu J, Ghildiyal M, Weng Z, Zamore PD. (2010) 
Target RNA-directed trimming and tailing of small silencing RNAs. 
Science. June 18;328(5985):1534-1539. (PMCID: PMC2902985).

Ghildiyal M*, Xu J*, Seitz H, Weng Z, Zamore PD., (2010) 
Sorting of Drosophila small silencing RNAs partitions microRNA* strands into the RNA interference pathway.  
RNA, 16(1):43-56. (PMCID: PMC2802036)
*Joint first authors.