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Publications

(2011)
 
Handler, D., Olivieri, D., Novatchkova, M., Gruber, FS., Meixner, K., Mechtler, K., Stark, A., Sachidanandam, R., Brennecke, J. (2011). A systematic analysis of Drosophila TUDOR domain-containing proteins identifies Vreteno and the Tdrd12 family as essential primary piRNA pathway factors. EMBO J. 30(19):3977-93 (abstract)
 
Ni, JQ., Zhou, R., Czech, B., Liu, LP., Holderbaum, L., Yang-Zhou, D., Shim, HS., Tao, R., Handler, D., Karpowicz, P., Binari, R., Booker, M., Brennecke, J., Perkins, LA., Hannon, GJ., Perrimon, N. (2011). A genome-scale shRNA resource for transgenic RNAi in Drosophila. Nat Methods. 8(5):405-7 (abstract)
 
(2010)
 
Olivieri, D., Sykora, MM., Sachidanandam, R., Mechtler, K., Brennecke, J. (2010). An in vivo RNAi assay identifies major genetic and cellular requirements for primary piRNA biogenesis in Drosophila. EMBO J. 29(19):3301-17 (abstract)
 
Senti, KA., Brennecke, J. (2010). The piRNA pathway: a fly's perspective on the guardian of the genome. Trends Genet. 26(12):499-509 (abstract)
 
(2009)
 
Czech, B., Zhou, R., Erlich, Y., Brennecke, J., Binari, R., Villalta, C., Gordon, A., Perrimon, N., Hannon, GJ. (2009). Hierarchical rules for Argonaute loading in Drosophila. Mol Cell. 36(3):445-56 (abstract)
 
Malone, CD., Brennecke, J., Dus, M., Stark, A., McCombie, WR., Sachidanandam, R., Hannon, GJ. (2009). Specialized piRNA pathways act in germline and somatic tissues of the Drosophila ovary. Cell. 137(3):522-35 (abstract)
 
Zhou, R., Czech, B., Brennecke, J., Sachidanandam, R., Wohlschlegel, JA., Perrimon, N., Hannon, GJ. (2009). Processing of Drosophila endo-siRNAs depends on a specific Loquacious isoform. RNA. 15(10):1886-95 (abstract)
 
(2008)
 
Brennecke, J., Malone, CD., Aravin, AA., Sachidanandam, R., Stark, A., Hannon, GJ. (2008). An epigenetic role for maternally inherited piRNAs in transposon silencing. Science. 322(5906):1387-92 (abstract)
 
Bushati, N., Stark, A., Brennecke, J., Cohen, SM. (2008). Temporal reciprocity of miRNAs and their targets during the maternal-to-zygotic transition in Drosophila. Curr Biol. 18(7):501-6 (abstract)
 
Czech, B., Malone, CD., Zhou, R., Stark, A., Schlingeheyde, C., Dus, M., Perrimon, N., Kellis, M., Wohlschlegel, JA., Sachidanandam, R., Hannon, GJ., Brennecke, J. (2008). An endogenous small interfering RNA pathway in Drosophila. Nature. 453(7196):798-802 (abstract)
 
Müller, MS., Brennecke, JF., Porter, ET., Ottinger, MA., Anderson, DJ. (2008). Perinatal androgens and adult behavior vary with nestling social system in siblicidal boobies. PLoS One. 3(6):e2460 (abstract)
 
Olson, AJ., Brennecke, J., Aravin, AA., Hannon, GJ., Sachidanandam, R. (2008). Analysis of large-scale sequencing of small RNAs. Pac Symp Biocomput. :126-36 (abstract)
 
Stark, A., Bushati, N., Jan, CH., Kheradpour, P., Hodges, E., Brennecke, J., Bartel, DP., Cohen, SM., Kellis, M. (2008). A single Hox locus in Drosophila produces functional microRNAs from opposite DNA strands. Genes Dev. 22(1):8-13 (abstract)
 
(2007)
 
Aravin, AA., Hannon, GJ., Brennecke, J. (2007). The Piwi-piRNA pathway provides an adaptive defense in the transposon arms race. Science. 318(5851):761-4 (abstract)
 
Brennecke, J., Aravin, AA., Stark, A., Dus, M., Kellis, M., Sachidanandam, R., Hannon, GJ. (2007). Discrete small RNA-generating loci as master regulators of transposon activity in Drosophila. Cell. 128(6):1089-103 (abstract)
 
Stark, A., Kheradpour, P., Parts, L., Brennecke, J., Hodges, E., Hannon, GJ., Kellis, M. (2007). Systematic discovery and characterization of fly microRNAs using 12 Drosophila genomes. Genome Res. 17(12):1865-79 (abstract)
 
Stark, A., Lin, MF., Kheradpour, P., Pedersen, JS., Parts, L., Carlson, JW., Crosby, MA., Rasmussen, MD., Roy, S., Deoras, AN., Ruby, JG., Brennecke, J., Hodges, E., Hinrichs, AS., Caspi, A., Paten, B., Park, SW., Han, MV., Maeder, ML., Polansky, BJ., Robson, BE., Aerts, S., van Helden, J., Hassan, B., Gilbert, DG., Eastman, DA., Rice, M., Weir, M., Hahn, MW., Park, Y., Dewey, CN., Pachter, L., Kent, WJ., Haussler, D., Lai, EC., Bartel, DP., Hannon, GJ., Kaufman, TC., Eisen, MB., Clark, AG., Smith, D., Celniker, SE., Gelbart, WM., Kellis, M. (2007). Discovery of functional elements in 12 Drosophila genomes using evolutionary signatures. Nature. 450(7167):219-32 (abstract)
 
(2006)
 
Cohen, SM., Brennecke, J. (2006). Developmental biology. Mixed messages in early development. Science. 312(5770):65-6 (abstract)
 
Cohen, SM., Brennecke, J., Stark, A. (2006). Denoising feedback loops by thresholding--a new role for microRNAs. Genes Dev. 20(20):2769-72 (abstract)
 
Rehwinkel, J., Natalin, P., Stark, A., Brennecke, J., Cohen, SM., Izaurralde, E. (2006). Genome-wide analysis of mRNAs regulated by Drosha and Argonaute proteins in Drosophila melanogaster. Mol Cell Biol. 26(8):2965-75 (abstract)
 
(2005)
 
Brennecke, J., Stark, A., Cohen, SM. (2005). Not miR-ly muscular: microRNAs and muscle development. Genes Dev. 19(19):2261-4 (abstract)
 
Brennecke, J., Stark, A., Russell, RB., Cohen, SM. (2005). Principles of microRNA-target recognition. PLoS Biol. 3(3):e85 (abstract)
 
Stark, A., Brennecke, J., Bushati, N., Russell, RB., Cohen, SM. (2005). Animal MicroRNAs confer robustness to gene expression and have a significant impact on 3'UTR evolution. Cell. 123(6):1133-46 (abstract)
 
(2003)
 
Brennecke, J., Hipfner, DR., Stark, A., Russell, RB., Cohen, SM. (2003). bantam encodes a developmentally regulated microRNA that controls cell proliferation and regulates the proapoptotic gene hid in Drosophila. Cell. 113(1):25-36 (abstract)
 
Stark, A., Brennecke, J., Russell, RB., Cohen, SM. (2003). Identification of Drosophila MicroRNA targets. PLoS Biol. 1(3):E60 (abstract)
 

(2004)

Güttinger S, Mühlhäusser P, Koller-Eichhorn R, Brennecke J, Kutay U. (2004). Transportin2 functions as importin and mediates nuclear import of HuR. Proc Natl Acad Sci U S A. 2004 Mar 2; 101(9): 2918-23.


(2003)

Stark A, Brennecke J, Russell RB, Cohen SM. (2003). Identification of Drosophila MicroRNA targets. PLoS Biol. 1(3):e60.

Brennecke J, Cohen SM. (2003). Towards a complete description of the microRNA complement of animal genomes. Genome Biol. 4(9):228. Epub 2003 Aug 21.

Brennecke J, Hipfner DR, Stark A, Russell RB, Cohen SM. (2003). bantam encodes a developmentally regulated microRNA that controls cell proliferation and regulates the proapoptotic gene hid in Drosophila. Cell. 113(1):25-36.


(2002)

Gritzan U, Weiss C, Brennecke J, Bohmann D. (2002). Transrepression of AP-1 by nuclear receptors in Drosophila. Mech Dev. 115(1-2):91-100.