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| RESEARCH PAPERS | REVIEWS | BOOK CHAPTERS | CORRESP. TO EDITOR | | ||||||||||||||||||||||||||||||
Research Papers1) Perrimon, N. and Gans, M.(1983) Clonal analysis of the tissue specificity of recessive female sterile mutations of Drosophila melanogaster using a dominant female sterile mutation Fs(1)K1237. Dev. Biol. 100, 365-373. PDF 2) Perrimon, N. (1984) Clonal analysis of dominant female sterile, germline- dependent mutations in Drosophila melanogaster. Genetics 108, 927-939. PDF 3) White, R. H., Perrimon, N and Gehring, W. J. (1984) Differentiation markers in Drosophila ovary. J. E. E. M. 84, 275-286. PDF 4) Perrimon, N., Engstrom, L., and Mahowald, A. P. (1984). The effects of zygotic lethal mutations on female germ-line functions in Drosophila. Dev. Biol. 105, 404-414. PDF 5) Perrimon, N., Engstrom, L., and Mahowald, A. P. (1984). Developmental genetics of the 2E-F region of the Drosophila X-chromosome: A region rich in "developmentally important " genes. Genetics 108, 559-572. PDF 6) Perrimon, N., Engstrom, L., and Mahowald, A. P. (1985). A pupal lethal mutation with a paternally influenced maternal effect on embryonic development in Drosophila melanogaster. Dev. Biol. 110, 480-491. PDF 7) Perrimon, N., Engstrom, L., and Mahowald, A. P. (1985). Developmental genetics of the 2C-D region of the Drosophila X-chromosome. Genetics 111, 23-41. PDF 8) Mortin, M. A., Perrimon, N. and Bonner, J. J (1985) Clonal analysis of two mutations in the large subunit of RNA polymerase II of Drosophila. Mol. Gen. Genet. 199, 421-426. 9) Degelmann, A., Hardy, P., Perrimon, N. and Mahowald, A. P. (1986) Developmental analysis of the torso-like phenotype in Drosophila produced by maternal effect locus. Dev. Biol. 115, 479-489. PDF 10) Perrimon, N., Mohler, J. D., Engstrom, L and Mahowald, A. P. (1986) X-linked female sterile loci in Drosophila melanogaster. Genetics 113, 695-712. PDF 11) Perrimon, N. and Mahowald, A. P. (1986) l(1)hopscotch a larval-pupal lethal with a specific maternal effect on segmentation in Drosophila. Dev. Biol. 118, 28-41. PDF 12) Petschek, J., Perrimon, N., and Mahowald, A. P. (1987). Region specific effects in l(1)giant embryos of Drosophila melanogaster. Dev. Biol. 119, 175-189. PDF 13) Perrimon, N. and Mahowald, A. P. (1987) Multiple functions of the segment polarity genes in Drosophila. Dev. Biol. 119, 587-600. PDF 14) Mark, G. E., MacIntyre, R. J., Digan, M. E., Ambrosio, L. and Perrimon, N. (1987) Drosophila melanogaster homologs of the raf oncogene. Mol. Cell. Biol. 7, 2134-2140. PDF 15) Oliver, B., Perrimon, N. and Mahowald, A. P. (1987) The ovo locus is required for sex specific germ line maintenance in Drosophila. Genes and Dev. 1, 913-923. PDF 16) Perrimon, N. (1988) The maternal effect of l(1)discs-large-1, a recessive oncogene in Drosophila melanogaster. Dev. Biol. 127, 392-407. PDF 17) Oliver, B., Perrimon, N. and Mahowald, A. P. (1988) Genetics evidence that the sans-fille locus is involved in Drosophila sex determination. Genetics 120, 159-171. PDF 18) Smouse, D., Goodman, C., Mahowald, A. P. and Perrimon, N. (1988) polyhomeotic: A gene required for the embryonic development of axon pathways in the central nervous system of Drosophila. Genes and Dev. 2, 830-842. PDF 19) Ng, S-C., Perkins, L. A., Conboy, G., Perrimon, N. and Fishmann, M. (1989) A Drosophila gene expressed in the embryonic CNS shares one conserved domain with the mammalian GAP-43. Development. 105, 629-638. PDF 20) Perrimon, N., Engstrom, L., and Mahowald, A. P. (1989) Zygotic lethals with specific maternal effect phenotypes in Drosophila melanogaster. I. Loci on the X-chromosome. Genetics 121, 333-352. PDF 21) Perrimon, N., Smouse, D. T. and Miklos, G. L. G. (1989) Developmental genetics of loci at the base of the X-chromosome of Drosophila melanogaster. Genetics 121, 313-331. PDF 22) Perrimon, N., and Smouse, D. (1989) Multiple functions of a Drosophila homeotic gene, zeste-white 3, during segmentation and neurogenesis Dev. Biol. 135, 287-305. PDF 23) Klingensmith, J., Noll, E. and Perrimon, N. (1989) The segment polarity phenotype of Drosophila involves differential tendencies toward transformation and cell death. Dev. Biol. 134, 130-145. PDF 24) Ambrosio, L. Mahowald, A. P. and Perrimon, N. (1989) l(1)pole hole is required maternally for pattern formation in the terminal regions of the embryo. Development 106, 145-158. PDF 25) Ambrosio, L. Mahowald, A. P. and Perrimon, N. (1989) Requirement of the Drosophila raf homologue for torso function. Nature 342, 288-291. PDF 26) Perkins, L. A., Doctor, J. S., Zhang, K., Stinson, L., Perrimon, N. and Craig. E. A. (1990) Molecular and developmental characterization of the heat shock cognate 4 gene of Drosophila melanogaster. Mol. Cell. Biol. 10, 3232-3238. PDF 27) Smouse, D. T. and Perrimon, N. (1990) Genetic dissection of a complex neurological mutant, polyhomeotic, in Drosophila. Dev. Biol. 139, 169-185. PDF 28) Zhang, K., Chaillet, R., Perkins, L. A., Halazonetis, T. and Perrimon, N. (1990) Drosophila homolog of the mammalian jun oncogene is expressed during embryonic development and activates transcription in mammalian cells. P.N.A.S. 87, 6281-6285. PDF 29) Finkelstein, R., Smouse. D. T., Capaci, T., Spradling, A. C. and Perrimon, N. (1990) The orthodenticle gene encodes a novel homeodomain protein involved in the development of the Drosophila nervous system and ocellar visual structures. Genes and Dev. 4, 1516-1527. PDF 30) Finkelstein, R. and Perrimon, N. (1990) The orthodenticle gene is regulated by bicoid and torso and specifies Drosophila head development. Nature 346, 485-488. PDF 31) Siegfried, E., Perkins, L. A., Capaci, T. M. and Perrimon, N. (1990) Putative protein kinase product of the Drosophila segment-polarity gene, zeste-white 3. Nature 345, 825-829. PDF 32) Zhang, K. Smouse, D. T. and N. Perrimon (1991) The crooked neck gene of Drosophila contains a motif found in a family of yeast cell cycle genes. Genes and Dev. 5, 1080-1091. PDF 33) Perrimon, N., Noll, E., McCall, K. and Brand, A. (1991) Generating lineage-specific markers to study Drosophila development. Dev. Genet. 12, 238-252. PDF 34) Eberl, D. Perkins, L. A., Engelstein, M., Hilliker, A., and N. Perrimon. (1992) Developmental genetics of loci in region 17 of the X-chromosome of Drosophila melanogaster. Genetics 130, 569-583. PDF 35) Kassis, J. A., Noll, E., VanSickle, E., Odenwald, W. and N. Perrimon. (1992) Altering the insertion specificity of a Drosophila transposable element. P.N.A.S. 89, 1919-1923. PDF 36) Chou T. B., and N. Perrimon (1992) Use of a yeast site-specific recombinase to produce female germline chimeras in Drosophila. Genetics 131, 643-653. PDF 37) Perkins, L. A., Larsen, I., and Perrimon, N. (1992) corkscrew encodes a putative protein tyrosine phosphatase that functions to transduce the terminal signal from the receptor tyrosine kinase torso. Cell 70, 225-236. PDF 38) Rutledge, B., Zhang, K., Bier, E., Jan, Y. N. and Perrimon, N. (1992) The Drosophila spitz gene encodes a putative EGF-like growth factor involved in dorsal-ventral axis formation and neurogenesis. Genes and Dev. 6, 1503-1517. PDF 39) Wieschaus, E., Perrimon, N. and Finkelstein, R. (1992) orthodenticle activity is required for the development of medial structures in the larval and adult epidermis of Drosophila. Development 115, 801-811. PDF 40) Siegfried, E. Chou, T-B, and Perrimon, N. (1992) wingless signaling acts through zeste-white 3, the Drosophila homologue of glycogen synthase kinase-3, to regulate engrailed and establish cell fate. Cell 71, 1167-1179. 41) Dang, D. T. and Perrimon, N (1992) Use of a yeast site-specific recombinase to generate embryonic mosaics in Drosophila. Dev. Genetics. 13, 367-375. PDF 42) Lu, X. Chou T. B, Williams, N., Roberts, T. and Perrimon, N. (1993) Control of cell fate determination by p21ras/Ras1, an essential component of torso signaling in Drosophila. Genes and Dev. 7, 621-632. PDF 43) Melnick, M. B. Perkins, L. A., Lee, M., Ambrosio, L. Perrimon, N. (1993) Developmental and molecular characterization of mutations in the Drosophila raf serine-threonine protein kinase. Development 118, 127-138. PDF 44) Brand, A. and Perrimon, N. (1993) Targeted gene expression as a means of altering cell fates and generating dominant phenotypes. Development 118, 401-415. PDF 45) Harrison, D. and Perrimon, N. (1993) Simple and efficient generation of marked clones in Drosophila. Current Biology. 3, 424-433. PDF 46) Melnick, M. B., Noll, E. and Perrimon, N. (1993) The Drosophila stubarista phenotype is associated with a dosage effect of the putative ribosome-associated protein D-p40 on spineless. Genetics 135, 553-564. PDF 47) Chou, T.-B., Noll, E. and Perrimon, N. (1993) Autosomal P[ovoD1] dominant female sterile insertions in Drosophila and their use in generating germline chimeras. Development 119, 1359-1369. PDF 48) van den Heuvel, M., Harryman-Samos, C., Klingensmith, J., Perrimon, N. and Nusse, R. (1993) Mutations in the segment polarity genes wingless and porcupine impair secretion of the wingless protein. EMBO. J. 12, 5293-5303. PDF 49) Siegfried, E., Wilder, E. and Perrimon, N. (1994) Components of wingless signaling in Drosophila. Nature 367, 76-80. PDF 50) Noordermeer, J., Klingensmith, J., Perrimon, N. and Nusse, R. (1994)dishevelled and armadillo are essential components of the wingless signaling pathway in Drosophila. Nature 367, 80-83. PDF 51) Klingensmith, J., Nusse, R. and Perrimon, N. (1994) The Drosophila segment polarity gene dishevelled encodes a novel protein required for response to the wingless signal. Genes and Dev. 8, 118-130. PDF 52) Binari, R. and Perrimon, N. (1994) Stripe-specific regulation of pair-rule genes by hopscotch, a putative Jak family tyrosine kinase in Drosophila. Genes and Dev. 8, 300-312. PDF 53) Brand, A. and Perrimon, N. (1994) Raf acts downstream of the EGF receptor to determine dorso-ventral polarity during Drosophila oogenesis. Genes and Dev. 8, 629-639. PDF 54) Lu, X., Melnick, M.B., Hsu, J-C. and Perrimon, N. (1994). Genetics and molecular analysis of mutations involved in Drosophila-raf signal transduction. EMBO J. 13, 2592-2599. PDF 55) Hsu, J-C. and Perrimon, N. (1994). A temperature sensitive MEK mutation demonstrates the conservation of the signaling pathways activated by receptor tyrosine kinases. Genes and Dev. 8, 2176-2187. PDF 56) Sussman, D.J., Klingensmith, J., Salinas, P., Adams, P. S., Nusse, R. and Perrimon, N. (1994) Isolation and characterization of a mouse homolog of the Drosophila dishevelled segment polarity gene. Dev. Biol. 166, 73-86. PDF 57) Wilder, E.L. and Perrimon, N. (1995). Dual functions of wingless in the Drosophila leg imaginal disc. Development 121, 477-488. PDF 58) Hou, X.S., Chou, T.-B., Melnick, M. and Perrimon, N. (1995). The Torso receptor tyrosine kinase can activate Raf in a Ras-independent pathway. Cell 81, 63-7. PDF 59) Sokol, S.Y., Klingensmith, J., Perrimon, N. and Itoh, K. (1995). Dorsalizing and neuralizing properties of Xdsh, a maternally expressed Xenopus homolog of dishevelled. Development. 121, 1637-1647. PDF 60) Harrison, D.A., Binari, R., Nahreini, T. S., Gilman, M. and Perrimon, N. (1995) Activation of a Drosophila janus kinase (JAK) causes hematopoietic neoplasia and developmental defects. EMBO. J. 14, 2857-2865. PDF 61) Rivera-Pomar, R., Lu, X., Perrimon, N., Taubert, H. and Jackle, H. (1995) Activation of posterior gap gene expression in the Drosophila blastoderm. Nature 376, 253-256. PDF 62) Yoffe, K., Manoukian, A., Wilder, E., Brand, A. and Perrimon, N. (1995) Evidence for engrailed-independent wingless autoregulation in Drosophila. Dev. Biol. 170, 636-650. PDF 63) Yin, J.C.P., Wallach, J.S., Wilder, E.L., Klingensmith, J., Dang, D., Perrimon, N., Zhou, H., Tully, T. and Quinn, W.G. (1995) ADrosophila CREB/CREM homolog encodes multiple isoforms, including a cyclic AMP-dependent protein kinase-responsive transcriptional activator and antagonist. Mol. Cell. Biol. 15, 5123-5130. PDF 64) Manoukian, A.S., Yoffe, K., Wilder, E.L. and Perrimon, N. (1995) The porcupine gene is required for wingless autoregulation in Drosophila. Development 121, 4037-4044. PDF 65) Hou, X.S., Melnick, M.B. and Perrimon, N. (1996) marelle acts downstream of the Drosophila Hop/JAK kinase and encodes a protein similar to the mammalian STATs. Cell 84, 411-420. PDF 66) Cleghon, V., Gayko, U., Copeland, T.D., Perkins, L.A., Perrimon, N. and Morrison, D.K. (1996). Drosophila terminal structure development is regulated by the compensatory activities of positive and negative phosphotyrosine signaling sites on the Torso RTK. Genes Dev. 10, 566-577. PDF 67) Axelrod, J., Matsuno, K., Artavanis-Tsakonas, S. and Perrimon, N. (1996). Dishevelled mediates interaction between Wingless and Notch signaling pathways. Science 271, 1826-1832. PDF 68) Musacchio M. and Perrimon N. (1996) The Drosophila kekkon genes: novel members of both the leucine-rich repeat and immunoglobulin superfamilies expresed in the CNS. Dev Biol. 78, 63-76. PDF 69) Klingensmith, J., Yang Y., Axelrod J. D., Beier D. R., Perrimon N. and Sussman D. J. (1996) Conservation of dishevelled structure and function between flies and mice: isolation and characterization of Dvl2. Mech Dev. 58, 15-26. PDF 70) Perkins, L.A., Johnson, M.R., Melnick, M.B. and Perrimon, N. (1996). The non-receptor protein tyrosine phosphatase Corkscrew functions in multiple receptor tyrosine kinase pathways in Drosophila. Dev. Biol. 180, 63-81. PDF 71) Kadowaki, T., Wilder, E., Klingensmith, J.,s Zachary, K. and Perrimon, N. (1996). The segment polarity gene porcupine encodes a putative multitransmembrane protein involved in Wingless processing. Genes and Dev. 15, 3116-3128. PDF 72) Rulifson, E.J., Micchelli, C.A., Axelrod, J.D., Halevy, M., Perrimon, N. and Blair, S. (1996). wingless refines its own expression domain on the Drosophila wing margin. Nature 384, 72-74. PDF 73) Chou, T.-B. and Perrimon, N. (1996). The autosomal FLP-DFS technique for generating germline mosaics in Drosophila melanogaster. Genetics 144, 1673-1679. PDF 74) Perrimon, N., Lanjuin, A., Arnold, C. and Noll, E. (1996). Zygotic lethal mutations with maternal effect phenotypes in Drosophila melanogaster. II. Loci on the second and third chromosomes identified by P-element induced mutations. Genetics 144, 1681-1692. PDF 75) Goode, S., Melnick, M.B., Chou, T.-B. and Perrimon, N. (1996). The role of Egghead during morphogenesis of the follicular cell epithelium. Development 122, 3863-3879. PDF 76) Hou, X.S. and Perrimon, S. (1997). The JAK/STAT pathway in Drosophila. TIG. 13, 105-110. PDF 77) Yu, Y., Li, W., Su, K., Yssa, M., Han, W., Perrimon, N. and Pick, L. (1997). The nuclear hormone receptor Ftz-F1 is a cofactor for the Drosophila homeodomain protein Fushi Tarazu. Nature 385, 552-555. PDF 78) Eberl, D., Lorenz, L.J., Melnick, M.B., F., Sood, V., Lasko, P. and Perrimon, N. (1997). A new enhancer of position-effect variegation in Drosophila melanogaster encodes a putative RNA helicase that binds chromosomes and is regulated by the cell cycle. Genetics 146, 951-963. PDF 79) Hou, X.S., Goldstein, E.S. and Perrimon, N. (1997). Drosophila Jun relays the Jun amino-terminal kinase signal transduction pathway to the Decapentaplegic signal transduction pathway in regulating epithelial cell sheet movement. Genes and Dev. 11, 1728-1737. PDF 80) Goode, S. and Perrimon, N. (1997). Inhibition of patterned cell shape change and cell invasion by Discs large during Drosophila oogenesis. Genes and Dev. 11, 2532-2544. PDF 81) Haecker, U., Lin, X. and Perrimon, N (1997) The Drosophila Sugarless gene modulates Wingless signaling and encodes an enzyme involved in polysaccharide biosynthesis. Development 124, 3565-3573. PDF 82) Li, W., Skoulakis, E.M.C., Davis, R.L. and Perrimon, N. (1997). The Drosophila 14-3-3 protein leonardo enhances torso signaling through D-raf in a Ras1-dependent manner. Development 124, 4163-4171. PDF 83) Eberl, D., Duyk, G.M. and Perrimon, N. (1997) A genetic screen for mutations that disrupt an auditory response in Drosophila melanogaster. P.N.A.S. 94, 14837-14842. PDF 84) Haecker, U. and Perrimon, N. (1998) The DRho- GEF2 encodes a member of the Dbl family of oncogenes and controls cell shape changes during gastrulation in Drosophila. Genes and Dev. 12, 274-284. PDF 85) Duffy, J.B., Harrison, D.A. and Perrimon, N. (1998). Identifying loci required for follicular patterning using directed mosaics. Development 125, 2263-2271. PDF 86) Bellaiche, Y., The, I. and Perrimon, N.(1998) Tout-velu, a Drosophila homologue of the putative tumor suppressor gene Ext-1, is required for the diffusion of the hedgehog protein. Nature 394, 85-88. PDF 87) Perrimon, N. (1998) New advances in Drosophila provide opportunities to study gene functions. P.N.A.S. 95, 9716-9717. PDF 88) Axelrod, J.D., Miller, J.R., Shulman, J.M., Moon, R.T. and Perrimon, N. (1998) Differential recruitment of Dishevelled provides signaling specificity in the Wingless and Planar Cell Polarity signaling pathways. Genes and Dev. 12, 2610-2622. PDF 89) Harrison, D.A., McCoon, P.E., Binari, R., Gilman, M. and Perrimon, N. (1998) Drosophila unpaired encodes a secreted protein that activates the JAK signaling pathway. Genes and Development 12, 3252-3263. PDF 90) Cleghon, V., Feldmann, P., Ghiglione, C., Copeland, T.D., Perrimon, N., Hughes, D.A., and Morrison, D.K. (1998). Opposing actions of CSW and RasGAP modulate the strength of Torso RTK signaling in the Drosophila terminal pathway. Molecular Cell 2, 719-727. PDF 91) Li, W., Melnick, M. and Perrimon, N. (1998) Dual Function of Ras in Raf activation. Development 125, 4999-5008. PDF 92) Ghiglione, C., Perrimon, N., and Perkins, L. (1999) Quantitative variations in the level of MAPK activity controls patterning of the embryonic termini in Drosophila. Dev. Biol. 205, 181-193. PDF 93) Gayko, U., Cleghon, V., Copeland, T., Morrison, D. K., and Perrimon, N. (1999). Synergistic activities of multiple phosphotyrosine residues mediate full signaling from the Drosophila Torso Receptor Tyrosine Kinase. P.N.A.S. 96, 523-528. PDF 94) Ghiglione, C., Carraway, K.L., Amundadottir, L.T., Boswell, R.E., Perrimon, N.*, and Duffy, J.B.* (1999). The transmembrane molecule Kekkon 1 acts in a feed back loop to negatively regulate the activity of the Drosophila EGF receptor during oogenesis.* Co-senior and corresponding authors.Cell 96, 847-856. PDF 95) Zeidler, M. P., Perrimon, N. and Strutt, D.I.(1999). Polarity determination in the Drosophila eye: a novel role for Unpaired and JAK/STAT signalling. Genes and Development 13, 1342-1353. PDF 96) Bellaiche, Y., Mogila, V. and Perrimon, N. (1999). I-SceI endonuclease, a new tool for studying DNA double stand break repair mechanisms in Drosophila. Genetics 152, 1037-1044. PDF 97) Lin, X., and Perrimon, N. (1999) Dally cooperates with Drosophila Frizzled 2 to transduce Wingless signaling. Nature 400, 218-284. PDF 98) Lin, X., Buff, E.M., Perrimon, N., and Michelson, A.M. (1999) Heparan sulfate proteoglycans are essential for FGF receptor signaling during Drosophila embryonic development. Development 126, 3715-3723. PDF 99) The, I., Bellaiche, and Perrimon, N. (1999) Evidence that movement of Hedgehog in Drosophila tissues is regulated by a specific Heparan Sulfate Proteoglycans. Molecular Cell 4, 633-639. PDF 100) Martin Blanco, E., Roch, F., Noll, E., Baonza, A., Duffy, J.B., and Perrimon, N. (1999) A temporal switch in DER signaling controls the specification and differentiation of veins and interveins in the Drosophila wing. Development 126, 5739-5747. PDF 101) Zeidler, M. P., Perrimon, N. and Strutt, D.I.(1999) The four jointed gene is required in the Drosophila eye for ommatidial polarity specification. Current Biology 9, 1363-1372. PDF 102) Bilder, D. and Perrimon, N. (2000) Localization of apical epithelial determinants by the basolateral PDZ protein Scribble. Nature 403, 676-680. PDF 103) Bilder, D., Li, M. and Perrimon, N. (2000) Cooperative regulation of cell polarity and growth by Drosophila tumor suppressors. Science 289, 113-116. PDF 104) Baum, B., Li, W. and Perrimon, N. (2000) A cyclase-associated protein regulates actin and cell polarity during Drosophila oogenesis and in yeast. Current Biology 10, 964-973. PDF 105) Li, W., Noll, E. and Perrimon, N. (2000) Identification of autosomal regions involved in Drosophila Raf function. Genetics 156, 763-774. PDF 106) Noll, E., Medina, M., Hartley, D., Zhou J., Perrimon, N and Kosik. K. S. (2000) Presenilin Affects Arm/b-Catenin Localization and Function in Drosophila. Dev Biol. 227, 450-464. PDF 107) Tanaka, K., Okabayashi, K., Asashima, M., Perrimon, N. and Kadowaki, T. (2000) The evolutionarily conserved porcupine gene family is involved in the processing of the Wnt family. Eur J. Biochem. 267, 4300-11. PDF 108) Zeidler, M. P., Perrimon, N. and Strutt, D.I.(2000) Multiple roles for four jointed in planar polarity and limb patterning. Dev Biol. 228, 181-196. PDF 109) Baeg, G. H., Lin, X., Khare, N., Baumgartner, S. and Perrimon, N. (2001) Heparan sulfate proteoglycans are critical for the organization of the extracellular distribution of Wingless. Development 128, 87-94. PDF 110) Bai, J. M., Wang, J. C., Chiu, W.S., Perrimon, N. and Hsu, J.C. (2001) The cell adhesion molecule Echinoid defines a new pathway that antagonizes the Drosophila EGF receptor signaling pathway. Development 128, 591-601. PDF 111) Baum, B. and Perrimon, N. (2001) Spatial organization of the actin cytoskeleton in Drosophila epithelial cells. Nature Cell Biology 3, 883-890. PDF 112) Selva, E., Hong, K., Baeg, G. H., Beverley, S. M., Turco, S. J., Perrimon, N. and Haecker, U. (2001) Dual Role of the fringe connection gene in both Heparan Sulfate and fringe-dependent signaling events. Nature Cell Biology 3, 809-815. PDF 113) Stronach, B. E. and Perrimon, N. (2001) Investigation of leading edge formation at the interface of amnioserosa and dorsal ectoderm in the Drosophila embryo.Development 128, 2905-2913. PDF 114) Suzanne, M., Perrimon, N. and Noselli, S. (2001). The Drosophila JNK pathway controls the morphogenesis of the egg dorsal appendages and micropyle. Dev Biol. 237, 282-294. PDF 115) Hong, Y., Stronach, B., Perrimon, N, Jan, L. Y. and Jan, Y. N. (2001) Drosophila stardust interacts with Crumbs to control polarity of epithelia but not neuroblasts in Drosophila. Nature 414, 634-638. PDF 116) Ghiglione, C., Bach, E., Paraiso, Y., Carraway, K., Noselli, S. and Perrimon, N. (2002) Mechanism of activation of the Drosophila EGF Receptor by the TGFa ligand Gurken during oogenesis. Development 129, 175-186. PDF 117) Stronach, B. E. and Perrimon, N. (2002) Activation of the JNK pathway during dorsal closure in Drosophila requires the mixed lineage kinase, slipper. Genes and Development 16, 377-387. PDF 118) Chen, H.W., Marinissen, M. J., Oh, S.W., Chen, X., Melnick, M., Perrimon, N. Gutkind, J.S., and Hou, S. X. (2002) CKA, a novel multidomain protein, regulates the JUN N-terminal kinase signal transduction pathway in Drosophila. Mol. Cell. Biol. 6, 1792-1803. PDF 119) Micchelli, C., The, I. Selva, E., Mogila, V. and and Perrimon, N. (2002) Rasp, a putative transmembrane acyltransferase, is required for Hedgehog signaling. Development 129, 843-851. PDF 120) Mathew, D., Gramates, L. S., Packard, M., Packard, U., Thomas, U., Bilder, D., Perrimon, N., Gorczyca, M., and Budnick, V. (2002) Recruitment of Scribble to the synaptic scaffolding complex requires GUK-holder, a novel DLG binding protein. Current Biology 12, 531-539. PDF 121) Schöck, F., and Perrimon, N. (2002) Cellular processes associated with germ band retraction in Drosophila. Developmental Biology 248, 29-39. PDF 122) Li, W., Agaisse, H., Mathey-Prevot, B. and Perrimon, N. (2002) Differential requirement for STAT by gain-of-function and wild-type receptor tyrosine kinase Torso in Drosophila. Development 129, 4241-4248. PDF 123) Hrdlicka, L., Gibson, M., Kiger, A., Micchelli, C., Schober, M., Schöck, F. and Perrimon, N. (2002) Analysis of twenty four Gal4 lines in Drosophila melanogaster. Genesis 34, 51-57. PDF 124) Boutros, M., Agaisse, H. and Perrimon, N. (2002) Sequential activation of signaling pathways during innate immune responses in Drosophila. Developmental Cell 3, 711-722. PDF MicroArray raw data 125) Song. H-J., Billeter, J-C., Reynaud, E., Carlo, T., Spana, E. P., Perrimon, N., Goodwin, S. F., Baker, B. S. and Taylor, B. J. (2002) The fruitless gene is required for the proper formation of axonal tracts in the embryonic central nervous system of Drosophila. Genetics 162, 1703-1724. PDF 126) Wills, Z., Emerson, M., Rusch, J., Bikoff, J., Baum, B., Perrimon, N. and Van Vactor, D. (2002) A Drosophila homologue of Cyclase-associated proteins collaborates with the Abl tyrosine kinase to control midline axon pathfinding. Neuron 36, 611-622. PDF 127) Tan, C., Stronach, B., and Perrimon, N. (2003) Roles of Myosin Phosphatase during Drosophila development. Development 130, 671-681. PDF 128) Bilder, D., Schober, M. and Perrimon, N. (2003) Integrated activity of PDZ protein complexes regulates epithelial polarity. Nature Cell Biology 5, 53-58. PDF 129) Schöck, F. and Perrimon, N. (2003) Retraction of the Drosophila germ band requires cell-matrix interaction. Genes and Development 17, 597-602. PDF 130) Micchelli, C., Esler, W. P., Kimberly, W. T., Jack, C., Berezovska, O., Kornilova, A., Hyman, B. T., Perrimon, N. and Wolfe, M. S. (2003) g-Secretase/presenilin inhibitors for Alheimer's disease phenocopy Notch mutations in Drosophila. FASEB Journal 17, 79-81. PDF 131) Adam, G., Perrimon, N. and Noselli, S. (2003) The retinoic-like juvenile hormone controls the looping of left-right asymmetric organs in Drosophila. Development 130, 2397-2406. PDF 132) Bashirullah, A., Pasquinelli, A. E., Kiger, A., Perrimon, N., Ruvkun, G. and Thummel, C. S. (2003) Coordinate regulation of small temporal RNAs at the onset of Drosophila metamorphosis. Dev. Biol. 259, 1-8. PDF 133) Lüders, F., Segawa, H., Stein, D., Selva, E. M., Perrimon, N., Turco, S. J. and Häcker, U. (2003) slalom encodes a PAPS transporter essential for segment polarity and dorsal-ventral axis determination. EMBO J. 22, 3635-3644. PDF 134) Ghiglione, G., Amundadottir, L., Andresdottir, M., Bilder, D., Diamonti, J. A., Noselli., Perrimon. N. and Carraway III, K. L. (2003) Mechanism of inhibition of the Drosophila and mammalian EGF receptors by the transmembrane protein Kekkon 1. Development 130, 4483-4493. PDF 135) Agaisse, H., Petersen, U-M., Boutros, M., Mathey-Prevot, B. and Perrimon, N. (2003) Signaling Role of Hemocytes in Drosophila JAK/STAT-Dependent Response to Septic Injury. Developmental Cell 5, 441-450. PDF 136) Sasamura, T., Sasaki, N., Miyashita, F., Nakao, S., Ishikawa, H. O., Ito, M., Kitagawa, M., Harigaya, K., Spana, E., Bilder, D., Perrimon, N. and Matsuno, K. (2003) neurotic, a novel maternal neurogenic gene, encodes an O-fucosyltransferase homolog that is essential for Notch-Delta interactions. Development 130, 4785-4795. PDF 137) Bach, E. A., Vincent. S., Zeidler. M. and Perrimon, N. (2003) A sensitized genetic screen to identify novel regulators and components of the Drosophila JAK/STAT pathway. Genetics. 165, 1149-66. PDF 138) Kiger, A. A., Baum, B., Jones, S., Jones, M. R., Coulson, A., Echeverri, C. and Perrimon, N. (2003) A functional genomic analysis of cell morphology using RNA-interference. Journal of Biology 2 (4). PDF 139) Cherry, S. and Perrimon, N. (2004) Entry is a rate-limiting step for viral infection in a Drosophila model for pathogenesis. Nature Immunology 5, 81-87. PDF 140) Boutros, M., Kiger, A. A., Armknecht, S., Kerr, K. Hild, M., Koch, B., Haas, S. A., Heidelberg Fly Array Consortium., Paro, R., and Perrimon, N. (2004) Genome-Wide RNAi Analysis of Growth and Viability in Drosophila Cells. Science 303. 832-835. PDF 141) Zeidler, M., Tan, C., Bellaiche, Y., Cherry, S., Häder, S., Gayko, U. and Perrimon, N. (2004) Controlling protein activity with conditionally splicing Inteins. Nature Biotechnology. 22, 871-876. PDF Supplement 142) Brückner, K., Kockel, L., Duchek, P., Luque, C. M., Rørth, P., and Perrimon, N. (2004) Control of blood cell survival and development by the Drosophila PDGF/VEGF Receptor. Developmental Cell. 7, 73-84. PDF 143) Sinenko, S. A., Kim, E-K., Wynn, R., Manfruelli, P., Ando, I., Wharton, K. A., Perrimon. N. and Mathey-Prevot. B. (2004) Yantar, a conserved arginine-rich protein is involved in Drosophila hemocyte development. Dev. Biol. 273, 48-62. PDF 144) Schlesinger, A., Kiger, A., Perrimon, N. and Shilo, B-Z. (2004) Small wing PLC? is required for ER retention of cleaved Spitz during eye development in Drosophila. Developmental Cell. 7, 535-45. PDF. 145) Baeg, G. H., Selva, E., Goodman, R., Dasgupta, R. and Perrimon, N. (2004) The Wingless morphogen gradient is established by the cooperative action of Frizzled and Heparan Sulfate Proteoglycans receptors. Dev Biol. 276, 89-100. PDF 146) Eggert, U. S., Kiger, A. A., Perlman, Z. E., Perrimon,N., Mitchison, T. J. and Field, C. M. (2004) Parallel RNAi and chemical screens identify cytokinesis inhibitors and target pathways. PLOS. 2 e379. PDF 147) Cherry, S., Doukas. T., Armknecht, S., Wang, S. Wheeler, H., Sarnow, P. and Perrimon, N. (2005) Genome-wide RNAi screen reveals a specific sensitivity of IRES-containing RNA viruses to host translation inhibition. Genes and Development 19 445-452. PDF Supplement 148) Gibson, M. and Perrimon, N. (2005) Extrusion of TGF-beta compromised cells from the Drosophila wing imaginal epithelium. Science 307 1785-1789. PDF Supplement 149) Hayward, P., Brennan, K., Sanders, P., Balayo, T., Dasgupta, R., Perrimon, N. and Martinez Arias, M. (2005) Notch modulates Wnt signalling by associating with Armadillo/ßcatenin and regulates its transcriptional activity. Development. 132 1819-1830 PDF 150) Dasgupta, R., Kaykas, A., Moon, R. T. and Perrimon, N. (2005). Functional genomic analysis of the Wingless/Wnt signaling pathway.” Science 308. 826-832. PDF Supplement 151) Schober, M., Rebay, I. and Perrimon, N. (2005) Function of the ETS transcription factor Yan in border cell migration. Development. 132, 3493-3504. PDF Supplement 152) Philips, J., Rubin, E. and Perrimon, N. (2005) Drosophila RNAi screen reveals CD36 family member required for mycobacterial infection. Science. 309: 1251-1253. PDF Supplement 153) Agaisse, H., Burrack, L., Philips, J., Rubin, E., Perrimon, N. and Higgins, D. E. (2005) Genome-wide RNAi screen for host factors required for intracellular bacterial infection. Science. 309: 1248-1251. PDF Supplement 154) Baeg, G. H., Zhou, R. and Perrimon, N. (2005) Genome-wide RNAi analysis of JAK/STAT signaling components in Drosophila. Genes and Development. 19(16):1861-70 PDF Addendum 155) Zhou, X., Liu, K.Y., Bradley, P., Perrimon, N., and Wong, S. T. (2005) Towards automated cellular image segmentation for RNAi genome-wide screening. Med Image Comput Comput Assist Interv Int Conf Med Image Comput Comput Assist Interv. 8, 885-92. 156) Nybakken K, Vokes SA, Lin TY, McMahon AP, Perrimon N. (2005) A genome-wide RNA interference screen in Drosophila melanogaster cells for new components of the Hh signaling Nat Genet. 37(12):1323-32. PDF Supplement 157) Kirilly, D., Spana, E., Perrimon, N., Padgett, R. W., and Xie, T. (2005) BMP signaling is required for controlling somatic stem cell self-renewal in the Drosophila ovary. Developmental Cell. 9, 651-662. PDF Supplement 158) Flockhart, I., Booker, M., Kiger. A., Boutros, M., Armknecht, S., Ramadan, N., Richardson, K., Xu, A., Perrimon, N. and Mathey-Prevot. B. (2006) FlyRNAi: The Drosophila RNAi Screening Center Database. Nucleic Acid Research. D489-94. PDF 159) Micchelli C., and Perrimon, N. (2006) Evidence that stem cells reside in the adult Drosophila midgut epithelium Nature. 439: 475-479 PDF Supplement 160) Bard, F., Casano, L., Mallabiabarrena, A., Wallace, E., Saito, K., Kitayama, H., Guizzunti, G., Hu, Y., Wendler, F., DasGupta, R., Perrimon, N. and Malhotra, V. (2006) Functional genomics reveals genes involved in protein secretion and Golgi organization. Nature. 439. 604-607. PDF Supplement 161) Karsten, P., Plischke, I., Perrimon, N. and Zeidler, M. P. (2006) Mutational analysis reveals separable DNA binding and trans-activation of Drosophila STAT92E. Cellular Signaling. 18, 819-829. PDF 162) Chen, L-Y., Wang, J-C., Hyvert, Y., Lin. H-P., Perrimon, N., Imler, J-L. and Hsu, J-C. (2006) Weckle is a Zinc Finger adaptor of the Toll pathway in dorsoventral patterning of the Drosophila Embryo. Current Biology 16. 1183-1193. PDF Supplement 163) Gibson, M. C. Patel, A., Nagpal, R. and Perrimon, N. (2006) The emergence of geometric order in proliferating metazoan epithelia. Nature 442. 1038-1041. PDF Supplement 164) Kulkarni, M. M., Booker M., Silver, S., Friedman, A., Hong, P. Perrimon, N., and Mathey-Prevot, B. (2006) Evidence of off-target effects associated with the use of long dsRNAs in Drosophila cell-based assays. Nature Methods 3 833-838.PDF Supplement PDF Excel 1 Excel 2 165) Friedman, A. and Perrimon, N. (2006) A functional genomic RNAi screen for novel regulators of RTK/ERK signaling. Nature 444, 230-234. PDF Supplement 1 Supplement 2 Supplement 3 Supplement 4 Supplement 5 166) Bach, E. A., Ekas, L. A., Ayala-Camargo, A., Flaherty, M. S., Lee, H. Perrimon, N. and Baeg, G-H. (2006) GFP reporters detect the activation of the Drosophila JAK/STAT pathway in vivo. Gene Expression Patterns. Epub ahead print. PDF 167) Cherry, S., Kunte, A., Wang, H., Coyne, C., Rawson, R. H. and Perrimon, N. (2006) COPI activity coupled with fatty acid biosynthesis is required for viral replication. PLoS Pathog 2(10): e102. DOI: 10.1371/journal.ppat.0020102. PDF Supplement 168) Lu, J. Ruhf, M-L., Perrimon, N. and Leder, P. (2007) A genome-wide RNA interference screen identifies putative chromatin regulators essential for E2F repression. PNAS. 104, 9381-9386 PDF Supplement 169) Bakal, C., Aach, J., Church, G. and Perrimon, N. (2007) Quantitative morphological signatures define local signaling networks regulating cell morphology. Science 316, 1753-1756. PDF Supplement 170) DasGupta, R., Nybakken, K., Booker, M., Mathey-Prevot, B., Gonsalves, F., Changkakoty, B. and Perrimon, N. (2007) A case study of the reproducibility of transcriptional reporter cell-based RNAi screens in Drosophila. Genome Biology. 8. R203. PDF* Supplement 1 Supplement 2 Supplement 3 Supplement 4 171) Silver, SJ., Hagen, JW., Okamura, K., Perrimon, N., and Lai, EC. (2007) Functional screening identifies miR-315 as a potent activator of Wingless signaling. PNAS 104,18151-18156 PDF Supplement 172) Bai, J., Hartwig, J. H., and Perrimon, N. (2007) SALS, a WH2-domain-containing protein, promotes sarcomeric actin filament elongation from pointed ends during Drosophila muscle growth. Developmental Cell. Dec;13(6):828-42. PDF Supplemental Information 173) Vinegoni, C., Pitsouli, C., Razansky, D., Perrimon, N. and Ntziachristos, V. (2008) Live-cell imaging of Drosophila melanogaster pupae with mesoscopic fluorescence tomography. Nature Methods. Jan;5(1):45-7. Epub 2007 Dec 9. PDF Supplement 174) Ni, J-Q., Markstein, M., Binari, R., Pfeiffer, B., Liu, L-P., Villalta, C., Booker, M., Perkins, L. A., and Perrimon, N. (2008) Vector and Parameters for Targeted Transgenic RNAi in Drosophila. Nature Methods 5, 49-51. PMCID: PMC2290002. PDF** Supplement 175) Wang J, Zhou X, Bradley PL, Chang SF, Perrimon N, Wong ST. (2008) Cellular phenotype recognition for high-content RNA interference genome-wide screening. J Biomol Screen. 13(1):29-39. PDF 176) Philips JA, Porto MC, Wang H, Rubin EJ, Perrimon N. 2008 ESCRT factors restrict mycobacterial growth. Proc Natl Acad Sci U S A. PNAS. Feb 26;105(8):3070-5. Epub 2008 Feb 19. PMCID: PMC2268586. PDF** Supplement 177) Bai, J., Binari, R., Ni, J-Q., Vijayakanthan, M.. Li, H-S. and Perrimon, N. (2008) RNA interference screening in Drosophila primary muscle cells for genes involved in muscle assembly and maintenance. Development. 135(8):1439-49. PDF* Supplemental Information 178) Markstein, M., Pitsouli, C., Villalta, C., Celniker, S. and Perrimon, N. (2008) Exploiting position effects and the gypsy retrovirus insulator to engineer precisely expressed transgenes. Nature Genetics. Apr;40(4):476-83. Epub 2008 Mar 2. PMCID: PMC2330261. PDF** Supplement 179) Czech, B., Malone, C. D., Zhou, R., Stark, A., Schlingeheyde, C., Dus, N., Perrimon, N., Kellis, M., Wohlschlegel, J. A., Sachidanandam, R., Hannon, G. H. and Brennecke, J. (2008) An endogenous small interfering RNAi pathway in Drosophila. Nature. 453, 798-802. PMCID: PMC2895258. PDF** Supplement 180) Yin, Z., Zhou, X., Bakal, C., Li, F., Sun, Y., Perrimon N. and Wong, S. (2008). Using iterative cluster merging with improved gap statistics to perform online phenotype discovery in the context of high-throughput RNAi screens. BMC Bioinformatics 2008, 9:264. PMCID: PMC2443381. PDF* Supplement 181) Sepp, K. J., Hong, P., Lizarraga, S. B., Liu, J. S., Mejia, L. A., Walsh, C. A. and Perrimon, N. (2008) Identification of neural outgrowth genes using genome-wide RNAi. PLoS Genetics. 7: e1000111. PMCID: PMC2435276. PDF* Supplement 182) Wang, J., Zhou, X., Li, F., Bradley, P. L., Chang, S. F., Perrimon, N. and Wong, S. T. (2008) An image score inference system for RNAi genome-wide screening based on fuzzy mixture regression modeling. J Biomed Inform. PMID: 18547870 183) Vincent S, Perrimon N, Axelrod JD. (2008) Hedgehog and Wingless stabilize but do not induce cell fate during Drosophila dorsal embryonic epidermal patterning. Development. 135, 2767-2775. PMCID: PMC2585068. PDF** Supplement 184) Bakal,C., Linding R., Llense, F., Heffern, E., Martin-Blanco, E., Pawson, T. and Perrimon, N. (2008) Phosphorylation networks regulating JNK activity in diverse genetic backgrounds. Science. 322, 453-456. PMCID: PMC2581798. PDF** Supplement 185) Zhou,R., Hotta, I., Denli, AM., Hong, P., Perrimon, N. and Hannon, GJ. (2008) Comparative Analysis of Argonaute-Dependent Small RNA Pathways in Drosophila. Mol Cell. 32 (4), 592-599. PMCID: PMC2615197. PDF** Supplement 186) Demontis, F and Perrimon, N(2009) Integration of Insulin receptor/Foxo signaling and dMyc activity during muscle growth regulates body size in Drosophila. Development 136, 983-993. PMCID: PMC2727562. PDF**Supplement 187) Zhang, S., Feany, MB., Saraswati, S., Littleton, JT., Perrimon, N. (2009) Inactivation of Drosophila Huntingtin affects long-term adult functioning and the pathogenesis of a Huntington's disease model. Dis Model Mech 2(5-6) 247-66. PMCID: PMC2675792. PDF* Supplement 188) Ni JQ, Liu LP, Binari R, Hardy R, Shim HS, Cavallaro A, Booker M, Pfeiffer B, Markstein M, Wang H, Villalta C, Laverty T, Perkins L, Perrimon N. (2009) A Drosophila Resource of Transgenic RNAi Lines for Neurogenetics. Genetics 182 (4) 1089-100. PMCID: PMC2728850. PDF** 189) Kaplow IM , Singh R, Friedman A, Bakal C, Perrimon N, Berger B. (2009) RNAiCut: automated detection of significant genes from functional genomic screens. Nat Methods. 6(7), 476-7. PMID: 19564846. PDF** Supplement 190) Celniker, S.E., Dillon, L. A., Gerstein, M.B., Gunsalus, K.C., Henikoff, S., Karpen, G.H., Kellis, M., Lai, E.C., Lieb, J.D., MacAlpine, D.M., Micklem, G., Piano, F., Snyder, M., Stein, L., White, K.P., Waterston, R.H., and modENCODE Consortium. (2009) Unlocking the secrets of the genome. Nature. 459, 927-30. 191) Griffin R, Sustar A, Bonvin M, Binari R, del Valle Rodriguez A, Hohl AM, Bateman JR, Villalta C, Heffern E, Grunwald D, Bakal C, Desplan C, Schubiger G, Wu CT, Perrimon N. (2009) The twin spot generator for differential Drosophila lineage analysis. Nat Methods. 6(8): 600-2. PMCID: PMC2720837. PDF ** Supplement 1 Supplement 2 192) Brouzes E, Medkova M, Savenelli N, Marran D, Twardowski M, Hutchison JB, Rothberg JM, Link DR, Perrimon N, Samuels ML. (2009) Droplet microfluidic technology for single-cell high-throughput screening. Proc Natl Acad Sci USA. Aug 25;106(34):14195-200. Epub 2009 Jul 15. PMCID: PMC2732882. PDF** Supplement 193) 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. Oct;15(10):1886-95. Epub 2009 Jul 27. PMCID: PMC2743050. PDF** Supplemental Information 194) Kondo S, Booker, M, Perrimon, N. (2009) Cross-species RNAi rescue platform in Drosophila melanogaster. Genetics 183(3) 1165-73. PMCID: PMC2778968. PDF** 195) 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. PMCID: PMC2795325. PDF** Supplement 196)Yang X, Friedman A, Nagpal S, Perrimon N, Asara JM. (2009) Use of a label-free quantitative platform based on MS/MS average TIC to calculate dynamics of protein complexes in insulin signaling. J Biomol Tech 20(5) 272-7. PMCID: PMC2777340. PDF* 197) Apidianakis Y, Pitsouli C, Perrimon N, Rahme L. (2009) Synergy between bacterial infection and genetic predisposition in intestinal dysplasia. Proc Natl Acad Sci USA. Dec 8;106(49):20883-8. Epub 2009 Nov 23. PMCID: PMC2791635. PDF** Supplement 198) Nir O, Bakal C, Perrimon N, Berger B. (2010) Inference of RhoGAP/GTPase regulation using single-cell morphological data from a combinatorial RNAi screen. Genome Res. 20(3) 372-80. PMCID: PMC2840989. PDF** Supplement 199) Zhang S, Binari R, Zhou R, Perrimon N. (2010) A Genomewide RNA Interference Screen for Modifiers of Aggregates Formation by Mutant Huntingtin in Drosophila. Genetics. 184(4): 1165-79. Epub 2010 Jan 25. PMCID: PMC2865916. PDF** 200) Kockel, L., Kerr, K.S., Melnick, M., Bruckner, K., Hebrok, M., and Perrimon, N. (2010) Dynamic switch of negative feedback regulation in Drosophila Akt-TOR signaling. PLoS Genet 6(6): e1000990. PMCID: PMC2887466. PDF* 201) Schnall-Levin, M., Zhao, Y., Perrimon, N. and Berger, B. (2010) Conserved microRNA targeting in Drosophila is as widespread in coding regions as in 3’UTRs. PNAS 107(36) 15751-15756. PMCID: PMC2936641. PDF** Supplement 202) Yan, H., Venkatesan, K., Beaver, J. E., Klitgord. N., Yildirim, M. A., Hao, T., Hill, D. E., Cusick, M. E., Perrimon, N., Roth, F. P., and Vidal, M. (2010) A genome-wide gene function prediction resource for Drosophila melanogaster. PLoS One 5, pii: e12139. PMCID: PMC29208296. PDF* 203) Pitsouli, C. and Perrimon, N. (2010) Embryonic multipotent progenitors remodel the Drosophila airways during metamorphosis. Development 137(21) 3615-3624. PMCID: PMC2964094. PDF** Figure S1 Figure S2 204) Karpowicz, P., Perez, J., Perrimon, N. (2010) The Hippo tumor suppressor pathway regulates intestinal stem cell regeneration. Development 137(24), 4135-4145. PMCID: PMC2990205. PDF** Fig S1 Fig S2 Fig S3 Fig S4 Fig S5 Fig S6 Fig S7 Fig S8 Fig S9 Fig S10 Fig S11 205) Rui, Y., Bai, J. and Perrimon, N. (2010). Sarcomere formation occurs by the assembly of multiple latent protein complexes. PLoS Genetics. 6: e1001208. PMCID: PMC2987826. PDF* 206) Demontis, F. and Perrimon, N. (2010) FOXO/4E-BP Signaling in Drosophila Muscles Regulates Organism-wide Proteostasis during Aging. Cell 143, 813-825. PMCID: PMC3066043. PDF** 207) modENCODE Consortium (2010) Identification of functional elements and regulatory circuits by Drosophila modEncode. Science 330,1787-1797 PMCID: PMC3192495. PDF** Supplemental Material 208) Cherbas, L., Willingham, A., Zhang, D., Yang, L., Zou, Y., Eads, B. D., Carlson, J. W., Landolin, J. M., Kapranov, P., Dumais, J., Samsonova, A., Choi, J-H., Roberts, J., Davis, C. A., Tang, H., van Baren, M. J., Ghosh, S., Dobin, A., Bell, K., Lin, W., Langton, L., Duff, M. O., Tenney, A. E., Zaleski, C., Brent, M. R., Hoskins, R. S., Kaufman, T. C., Andrews, J., Graveley, B. R., Perrimon, N., Celniker, S. E., Gingeras, T. R. and Cherbas, P. (2010) The transcriptional diversity of 25 Drosophila cell lines. Genome Research. 21, 301-314. PMCID: PMC3032933. PDF* Supplemental Material 209) Graveley, B. R., Brooks A. N., Carlson, J. W., Duff, M. O., Landolin, J., Yang, L., Artieri, C. G., van Baren, M. J., Boley, N., Booth, B. W., Brown, J. B., Cherbas, L., Davis, C. A., Dobin, A., Bell, K., Li, R., Lin, W., Malone, J. H., Mattiuzzo, N. R., Miller, D., Sturgill, D., Tuch, B., Zaleski, C., Zhang, D., Blanchette, M., Dudoit, S., Eads, B., Green, R. E., Hammonds, A., Jiang, L., Kapranov, P., Langton, L., Perrimon, N., Sandler, J. E., Wan, K/ H., Willingham, A., Zhang, Y., Zou, Y., Andrews, J., Bickel , P., Brenner, S. E., Brent, M. R., Cherbas, P., Gingeras, T. R., Hoskins, R. A., Kaufman, T. C., Oliver, B., and Celniker, S. E. (2010) The Developmental Transcriptome of Drosophila melanogaster. Nature. 471, 473-479.PMCID: PMC3075879. PDF** Supplemental Material 210) Berezikov, E., Robine, N., Samsonova, A., Westholm, J. O., Naqvi, A., Hung, J-H., Okamura, K., Dai, Q., Bortolamiol-Becet, D., Martin, R., Zhao, Y., Zamore, P. D., Hannon, G. J., Marra, M. A., Weng, Z., Perrimon, N. and Lai E. C. (2010) Deep annotation of Drosophila melanogaster microRNAs yields insights into their processing, modification, and emergence. Genome Research. 21, 203-215. PMCID: PMC3032924. PDF* 211) Kondo, S and Perrimon, N. (2011) A genome-wide RNAi screen identifies core components of the G2-M DNA damage checkpoint. Science Signaling. 4, rs1. PMCID: PMC3489265. PDF** Supplemental Material 212) Booker, M., Samsonova, A., Kwon, Y., Flockhart, I., Mohr, S. and Perrimon, N. (2011) False negative rates in Drosophila cellbased RNAi screens: a case study. BMC Genomics. 12, 50. PMCID: PMC3036618. PDF * Additional File 1 Additional File 2 213) Micchelli, C. A., Sudmeier, L., Perrimon, N., Tang, S. and Beehler-Evans, R. (2011) Identification of adult midgut precursors in Drosophila. Gene Expr Patterns. 1-2, 12-21. PMID: 20804858. PDF* Sup. Fig1 Sup. Fig2 Sup. Fig3 Sup. Fig4 Sup. Fig5 Sup. Fig6 Sup. Data 214) Gibson, W. T., Veldhuis, J. H., Rubinstein, B., Cartwright, H. N., Perrimon, N., Brodland, G. W., Nagpal, R. and Gibson, M. C. (2011) Control of mitotic cleavage plane by local epithelial cell topology. Cell. 144, 427-438. PMCID: PMC3491649. PDF ** 215) Chan, W. M., Tsoi, H., Wu, C. C., Wong, C. H., Cheng, T. C., Li, H. Y., Lau, K. F., Shaw, P. C., Perrimon, N. and Chan, H. Y. E. (2011) Expanded polyglutamine domain possesses nuclear export activity which modulates subcellular localization and toxicity of polyQ disease protein via exportin-1. Hum. Mol. Genet. 20(9):1738-50. PMID 21300695. PDF* 216) Ni, J-Q., Zhou, R., Czech, B., Liu, L-P., Holderbaum, L., Yang-Zhou, D., Shim, H-S., Tao, R., Handler, D., Karpowicz, P., Binari, R., Booker, M., Brennecke, J., Perkins, L. A. Hannon, G. J. and Perrimon, N. (2011) A genome-scale shRNA resource for transgenic RNAi in Drosophila. Nature Methods. 8(5):405-7. PMCID: PMC3489273. PDF** Supplemental Material 217) Schnall-Levin M., Rissland O.S., Johnston W.K., Perrimon N., Bartel D.P., Berger B. (2011) Unusually effective microRNA targeting within repeat-rich coding regions of mammalian mRNAs. Genome Res. Sep;21(9):1395-403. Epub 2011 Jun 17. PMCID: PMC3166825 PDF** 218) Rohn J. L., Sims, D., Liu, T., Fedorova, M., Schoeck, F., Dopie, J., Vartiainen, M., Kiger, A. A., Perrimon, N. and Baum, B. (2011) Comparative RNAi screening identifies a conserved core metazoan actinome by phenotype. J. Cell Biol. 194(5):789-805. PMCID: PMC3171124. PDF** 219) Hu, Y., Flockhart, I., Vinayagam, V., Bergwitz, C., Berger, B., Perrimon, N. and Mohr, S. E. (2011) An Integrative Approach to Ortholog Prediction for Disease-Focused and Other Functional Studies. BMC Bioinformatics. 12:357. PMCID: PMC3179972. PDF* 220) Friedman A. A., Tucker G., Singh R., YanD., Vinayagam A., Hu Y., Binari R., Hong P., Sun X., Porto M., Pacifico S., Murali T., Finley Jr. R. L., Asara J. M., Berger B., Perrimon N. (2011) Proteomic and Functional Genomic Landscape of Receptor Tyrosine Kinase and Ras to Extracellular Signal–Regulated Kinase Signaling. Science Signaling 4(196):rs10. PMCID: PMC3439136. PDF** Sup. Figures Sup. Table S1 Sup. Table S2 Sup. Table S4 Sup. Table S5 Sup. Table S6 221) Neumüller, R. A., Wirtz-Peitz, F., Lee, S., Kwon, Y., Buckner, M., Hoskins R, A., Venken, K., Bellen, H., Mohr, S. and Perrimon, N. (2012) Stringent analysis of gene function and protein-protein interactions using fluorescently tagged genes. Genetics. 190(3):931-40. Epub 2011 Dec 14. PMCID: PMC3296255. PDF** Sup. Fig. 1 Sup. Fig. 2 Sup. Table 1 Sup. Table 2 Sup. File 222) Flockhart, I. T., Booker, M., Hu, Y., 1, McElvany, B., Gilly, Q., Mathey-Prevot, B., Perrimon, N. and Mohr, S. (2012). FlyRNAi.org—the database of the Drosophila RNAi Screening Center: 2012 Update. Nucleic Acid Research. 40:D715-9. PMCID: PMC3245182. PDF* 223) Bergwitz, C., Rasmussen, M. D., DeRobertis, C., Wee, M. J., Sinha, S., Chen, H. H., Huang, J. and Perrimon, N. (2012) Roles of major facilitator superfamily transporters in phosphate response in Drosophila. PloS One. 7(2):e31730. PMCID: PMC3280997. PDF* Sup. Fig. 1 Sup. Fig. 2 Sup. Fig. 3 Sup. Fig. 4 Sup. Table 1 Sup. Table 2 Sup. Table 3 Sup. Table 4 224) Bejarano, F., Bortolamiol-Becet, D., Dai, Q., Sun, K., Saj, A., Chou, Y-T., Raleigh, D. R., Kim, K., Ni, J., Duan, H., Yang, J-S., Fulga, T. A., Van Vactor, D., Perrimon, N. and Lai, E. C. (2012) A genome-wide transgenic resource for conditional expression of Drosophila microRNAs. Development. 139(15):2821-31. PMCID: PMC3392707. PDF** Sup. Fig. 1 Sup. Fig. 2 Sup. Table 1 Sup. Table 2 Sup. Table 3 225) Kusche-Gullberg, M., Nybakken, K., Perrimon, N. and Lindahl, U. (2012) Drosophila heparan sulfate – a novel design. Journal of Biological Chemistry. 287(26):21950-6. PMCID: PMC3381155. PDF** 226) Katewa, S. D., Demontis, F., Kolipinski, M., Hubbard, A., Gill, M. S., Perrimon, N., Melov, S. and Kapahi, P. (2012) Intramyocellular fatty-acid metabolism plays a critical role in mediating responses to dietary restriction in Drosophila melanogaster. Cell Metabolism. 16(1):97-103. PMCID: PMC3400463. PDF** Supplementary Materials Sup. Table 2 Sup. Table 4 227) Stender, J. D., Pascual, G., Liu, W., Kaikkonen, M. U., Do, K., Spann, N., Boutros, M., Perrimon, N., Rosenfeld, M. G. and Glass, C. K. (2012) Control of pro-Inflammatory gene programs by regulated trimethylation and demythelation of histone H4K20. Mol Cell. 48(1):28-38. PMCID: PMC3472359 . PDF** Sup. Figs. Sup. Table 1 228) Hosur, R., Peng, J., Arunachalam, V., Stelzl, U., Xu, J., Perrimon, N., Bienkowska, J. and Berger, B. (2012) Coev2Net: computational framework for boosting confidence in high-throughput protein-protein interaction datasets. Genome Biology. 13(8):R76. PMID: 22937800. PDF* 229) Rajan, A. and Perrimon, N. (2012) The Drosophila cytokine Unpaired 2 senses the nutritional-state and regulates Insulin secretion. Cell. 151(1):123-137. PMCID: PMC347520. PDF Erratum*** 230) Staller, M.V. Yan, D. Randklev, S. Bragdon, M.D. Wunderlich, Z.B. Tao, R. Perkins, L.A. Depace, A.H. Perrimon, N. (2013) Depleting Gene Activities in Early Drosophila Embryos with the "Maternal-Gal4-shRNA" System. Genetics. 193(1):51-61. PMCID: PMC3527254. PDF** Table S1 231) Yeh, J.T.-H., Binari, R., Gocha, T., Dasgupta, R. and Perrimon, N. (2013) PAPTi: A Peptide Aptamer Interference Toolkit for perturbation of protein-protein interaction network. Scientific Reports. 3, 1156; DOI:10.1038/srep01156. PMCID: PMC3557448. PDF Supplementary Material 232) Bergwitz C., Wee M.J., Sinha S., Huang J., DeRobertis C., Mensah L.B., Cohen J., Friedman A., Kulkarni M., Hu Y., Vinayagam A., Schnall-Levin M., Berger B., Perkins L.A., Mohr S.E., Perrimon N. (2013) Genetic Determinants of Phosphate Response in Drosophila. PLoS ONE 8(3): e56753. doi:10.1371/journal.pone.0056753 PDF * Sup. Methods Table S1 Figure S1 Figure S2 Figure S3 Figure S4 Figure S5 Figure S6 Figure S7 Figure S8 Figure S9 233) Pitsouli C. and Perrimon N. (2013) The Homeobox Transcription Factor Cut Coordinates Patterning and Growth During Drosophila Airway Remodeling. Science Signaling. 6(263):ra12. doi: 10.1126/scisignal.2003424. PMID: 23423438 [PubMed - in process] PDF ** Supplementary Figures Table S1 Table S2 Table S3 Table S4 234) Roti G., Carlton A., Ross K. N., Markstein M., Pajcini K., Su A.H., Perrimon N., Pear W.S., Kung A.L., Blacklow S.C., Aster J.C., Stegmaier K. (2013) Complementary genomic screens identify SERCA as a therapeutic target in NOTCH1 mutated cancer. Cancer Cell. 23, 390-405. PMCID: PMC3709972. PDF Supplement 235) Vinayagam A., Hu, Y. Kulkarni M., Roesel C., Sopko R., Mohr S.E. and Perrimon N. (2013) Protein complex−based analysis framework for high-throughput data sets. Science Signaling. 6, rs5. PDF ** Supplementary Figures S1-S11 andTables S1-S11, S20 Table S12 Table S13 Table S14 Table S15 Table S16 Table S17 Table S18 Table S19 236) Karpowicz, P., Zhang, Y., Hogenesh, J. B., Emery, P. and Perrimon, N. (2013) The circadian clock gates the intestinal stem cell regenerative state. Cell Reports. 3, 996-1004. PMID: 23583176. PDF ** 237) Silva-Ayala, D., López, T., Gutiérrez, M., Perrimon, N., López, S., and Arias, C. F. (2013) Genome-wide RNAi screen reveals a role for the ESCRT complex in rotavirus cell entry. PNAS. PMID: 23733942 PMCID: PMC3690850. PDF ** 238) Yin, Z., Sadok, A., Sailem, H., McCarthy, A., Xia, X., Li, F., Arias Garcia, M., Evans, L., Barr, A., Perrimon, N., Marshall, C., Wong, S. T. C. and Bakal, C. (2013) A screen for morphological complexity identifies evolutionary conserved regulators of discrete switch-like morphogenesis. Nature Cell Biology. 15, 860-871. PMID:23748611 PMCID: PMC3712499. PDF ** 239) Hu, Y., Roesel, C., Flockhart, I., Perkins, L., Perrimon, N. and Mohr, S. (2013) UP-TORR: online tool for accurate and up-to-date annotation of RNAi reagents. Genetics. PMID: 23792952 PMCID: PMC3761311. PDF** 240) Hu, Y., Sopko, R., Foos, M., Kelley, C., Flockhart, I., Ammeux, N., Wang, X., Perkins, L., Perrimon, N. and Mohr, S. (2013) FlyPrimerBank: An online database for Drosophila melanogaster gene expression analysis and knockdown evaluation of RNAi Reagents. G3. doi:pii: g3.113.007021v1. PMID: 23893746 PMCID: PMC3755921. PDF * 241) Neumüller, R. A., Gross, T., Samsonova, A. A., Vinayagam, A., Buckner, M., Founk, K., Hu, Y., Sharifpoor, S., Rosebrock, A. P., Andrews, B., Winston, F. and Perrimon, N. (2013) Conserved regulators of nucleolar size revealed by global phenotypic analyses. Science Signaling. 6, ra70. PMID: 23962978 PMCID: PMC3964804. PDF ** 242) Zirin, J., Cheng, D., Dhanyasi, N., Cho, J., Dura, J-M., VijayRaghavan, K. and Perrimon, N. (2013) Ecdysone signaling at metamorphosis triggers apoptosis of Drosophila abdominal muscles. Dev. Biol. pii: S0012-1606(13)00483-1. PMID: 24051228 PMCID: PMC3991436. PDF 243) Shulman, J.M., Imboywa, S., Giagtzoglou, N., Powers, M. P., Hu, Y., Devenport, D., Chipendo, P., Chibnik, L. B., Diamond, A., Perrimon, N., Brown, N. H., De Jager, P. L. and Feany, M. B. (2013) Functional screening in Drosophila identifies Alzheimer’s disease susceptibility genes and implicates Tau-mediated mechanisms. Human Molecular Genetics. PMID: 24067533 PMCID: PMC3900103. PDF Sup. Materials Sup. Tables 244) Xiong, X-P., Kurthkoti, K., Chang, K-Y., Lichinchi, G., De, N., Schneemann, A., Macrae, I. J., Rana, T. M., Perrimon, N. and Zhou, R. (2013). Core small nuclear ribonucleoprotein particle splicing factor SmD1 modulates RNA interference in Drosophila. PNAS. 110, 16520-5. PMID: 24067655 PMCID: PMC3799365. PDF + SI ** 245) Owusu-Ansah, E., Song, W. and Perrimon, N. (2013) Mitohormesis promotes longevity and delays age-dependent muscle functional decline. Cell. 155(3), 699-712. PMID: 24243023 PMCID: PMC3856681. PDF ** Tables S1-S8 246) Kwon, Y., Arunachalam, V., Sun, X., Dephoure, N., Gygi, S. P., Hong, P. and Perrimon, N. (2013) The Hippo signaling pathway interactome. Science. 342, 737-40. PMID: 24114784 PMCID: PMC3951131. PDF ** Sup. Materials Table S1 Table S2 Table S6 Table S7 Table S9 247) Ren, X., Sun, J., Housden, B., Hu, Y., Roesel, C., Lin, S., Liu, L-P., Yang, Z., Mao, D., Sun, L., Wu, Q., Ji, J-Y., Xi, J., Mohr, S., Xu, J., Perrimon, J., and Ni, J-Q. (2013) Optimized gene editing technology for Drosophila melanogaster using germline-specific Cas9. PNAS. PMID: 24191015 PMCID: PMC3839733. PDF + SI ** 248) Vinayagam, A., Zirin, J., Roesel, C., Hu, Y., Yilmazel, B., Samsonova, A., Neumuller, R., Mohr, S. E. and Perrimon, N. (2013) Integrating protein-protein interaction networks with phenotypes reveals signs of interactions. Nature Methods. doi:10.1038/nmeth.2733. PMID:24240319 PMCID: PMC3877743. PDF** Sup. Materials Table S7 Table S10 Table S15 249) Zirin, J., Nieuwenhuis, J. and Perrimon, N. (2013) Role of autophagy in glycogen breakdown and its relevance to Chloroquine myopathy. PLoS Biology. DOI: 10.1371/journal.pbio.1001708. PMID: 24265594 PMCID: PMC3825659. PDF* Fig. S1 Fig. S2 Fig. S3 Fig. S4 Sup. Text 250) Sun X, Hong P, Kulkarni M, Kwon Y, Perrimon N. (2013) PPIRank - an advanced method for ranking protein-protein interations in TAP/MS data. Proteome Sci. 2013 11(Suppl 1):S16. PMID: 24565074 PMCID: PMC3908380. PDF** 251) Yan, D., Neumüller, R. A., Buckner, M., Ayers, K., Hu, Y., Yang-Zhou, D., Pan, L., Wang, X., Kelley, C., Vinayagam, A., Binari, R., Randklev, S., Perkins, L. A., Xie, T., Cooley, L. and Perrimon, N. (2014) A regulatory network of Drosophila germline stem cell self-renewal. Developmental Cell. 28, 459-473. PMID:24576427 PMCID: PMC3998650. PDF Document S1 Table S1 Table S2 252) Markstein, M., Dettorre, S., Cho, J., Neumüller, R., A., Craig-Muller, S. and Perrimon, N. (2014) Systematic screen of chemotherapeutics in Drosophila stem cell tumors. PNAS. PMID: 24616500 PMCID: PMC3970492. PDF + SI ** 253) Griffin, R., Binari, R. and Perrimon, N. (2014) Genetic odyssey to generate marked clones in Drosophila mosaics. PNAS. PMID:24623854 PMCID:PMC3977257. PDF ** 254) Brown, J. B., Boley, N., Eisman, R., May, G. E., Stoiber, M. H., Duff, M. O., Booth, B. W., Wen, J., Park, S., Suzuki, A. M., Wan, K. H., Yu, C., Zhang, D., Carlson, J. W., Cherbas, L., Eads, B. D., Miller, D., Mockaitis, K., Roberts, J., Davis, C. A., Frise, E., Hammonds, A. S., Olson, S., Shenker, S., Sturgill, D., Samsonova, A. A., Weiszmann, R., Robinson, G., Hernandez, J., Andrews, J., Bickel, P. J., Carninci, P., Cherbas, P., Gingeras, T. R., Hoskins, R. A., Kaufman, T. C., Lai, E. C., Oliver, B., Perrimon, N., Graveley, B. R. and Celniker, S. E. (2014) Diversity and dynamics of the Drosophila transcriptome. Nature. PMID:24670639 PMCID: PMC4152413. . PDF ** Document S1 Table S1 Table S2 Table S3 Table S4 Table S5 Table S6 Table S7 Table S8 Table S9 Table S10 Supplementary data sets 1-6 (zip file) Supplementary data sets 7-9 (zip file) 255) Gerstein, M.B., Rozowsky, J., Yan, K.K., Wang, D., Cheng, C., Brown, J.B., Davis, C.A., Hillier, L., Sisu, C., Li, J.J., Pei, B., Harmanci, A.O., Duff, M.O., Djebali, S., Alexander, R.P., Alver, B.H., Auerbach, R.K., Bell, K., Bickel, P.J., Boeck, M.E., Boley, N.P., Booth, B.W., Cherbas, L., Cherbas, P., Di, C., Dobin, A., Drenkow, J., Ewing, B., Fang, G., Fastuca, M., Feingold, E.A., Frankish, A., Gao, G., Good, P.J., Green, P., Guigó, R., Hammonds, A., Harrow, J., Hoskins, R.A., Howald, C., Hu, L., Huang, H., Hubbard, T.J.P., Huynh, C., Jha, S., Kasper, D., Kato, M., Kaufman, T.C., Kitchen, R., Ladewig, E., Lagarde, J., Lai, E., Leng, J., Lu, Z., MacCoss, M., May, G., McWhirter, R., Merrihew, G., Miller, D.M., Mortazavi, A., Murad, R., Oliver, B., Olson, S., Park, P., Pazin, M.J., Perrimon, N., Pervouchine, D., Reinke, V., Reymond, A., Robinson, G., Samsonova, A., Saunders, G.I., Schlesinger, F., Sethi, A., Slack, F.J., Spencer, W.C., Stoiber, M.H., Strasbourger, P., Tanzer, A., Thompson, O.A., Wan, K.H., Wang, G., Wang, H., Watkins, K.L., Wen, J., Wen, K., Xue, C., Yang, L., Yip, K., Zaleski, C., Zhang, Y., Zheng, H., Brenner, S.E., Graveley, B.R., Celniker, S.E., Gingeras, T.R. and Waterston, R. (2014) Comparative analysis of the transcriptome across distant species. Nature. Aug 28;512(7515):445-8. doi: 10.1038/nature13424.PMID: 25164755 PMCID: PMC4155737. PDF ** Supplement 256) Demontis, F., Patel, V., Swindell, W. and Perrimon, N. (2014) Intertissue control of the nucleolus via a myokine-dependent longevity pathway. Cell Reports. 7:1481-94. PMID:24882005 PMCID: PMC4125979. PDF ** S1 S2 257) Kim, K., Vinayagam, A., and Perrimon, N. (2014) A rapid genome wide miRNA screen identifies miR-14 as a modulator of Hedgehog signaling. Cell Reports. pii: S2211-1247(14)00400-8. doi: 10.1016/j.celrep.2014.05.025. PMID: 24931604 PMCID: PMC4142207. PDF ** S1 S2 Table S2 Table S3 Table S4 258) Sopko, R., Foos, M., Vinayagam, A., Zhai, B., Binari, R., Hu, Y., Randklev. S., Perkins. L., Gygi, S., and Perrimon, N. (2014) Combining genetic perturbations and proteomics to examine kinase-phosphatase networks in Drosophila embryos. Developmental Cell. Oct 1. pii: S1534-5807(14)00555-3. doi: 10.1016/j.devcel.2014.07.027. [Epub ahead of print]. PMID: 25284370 PMCID: PMC4208667. PDF ** 259) Yilmazel, B., Hu, Y., Sigoillot, F., Smith, J.A, Shamu, C.E, Perrimon, N. and Mohr. S. E. (2014). Online GESS: prediction of miRNA-like off-target effects in large-scale RNAi screen data by seed region analysis. BMC Bioinformatics. 15(1):192. PMID:24934636 PMCID:PMC4073188. PDF * 260) Song, W., Veenstra, J. A. and Perrimon, N. (2014) Control of lipid metabolism by gut Tachykinin hormones. Cell Reports. Oct 9;9(1):40-7. doi: 10.1016/j.celrep.2014.08.060. Epub 2014 Sep 25. PMID: 25263556 PMCID: PMC4325997. PDF ** 261) Amcheslavsky A., Song W., Li Q., Nie Y., Bragatto I., Ferrandon D., Perrimon N., Ip Y.T. (2014) Enteroendocrine cells support intestinal stem-cell-mediated homeostasis in Drosophila. Cell Reports. 2014 Oct 9;9(1):32-9. doi: 10.1016/j.celrep.2014.08.052. Epub 2014 Sep 25. PMID: 25263551 PMCID: PMC4198943. PDF ** 262) Leshchiner, E. S., Parkhitko, A., Bird, G. H., Lucarelli, J., Bellairs, J. A., Escudero, S., Opoku-Nsiah, K., Godes, M., Perrimon, N. and Walensky, L. D. (2015) Direct inhibition of oncogenic KRAS by hydrocarbon-stapled SOS1 helices. PNAS. ** 112:1761-6. PMID: 25624485 PMCID: PMC4330742. PDF 263) Zirin, J., Nieuwenhuis, J., Samsonova, A. Tao, R. and Perrimon, N. (2015) Regulators of autophagosome formation in Drosophila muscles. PLoS Genetics. 11(2):e1005006. doi: 10.1371/journal.pgen.1005006. PMID: 25692684 PMCID: PMC4334200. PDF * SI Legend Table S1 Fig S1 Fig S2 Fig S3 Fig S4 Fig S5 264) Sopko, R., Lin, Y. B., Makhijani, K., Alexander, B., Perrimon, N. and Brückner, K. (2015) A systems-level interrogation identifies regulators of Drosophila blood cell lifespan. PLoS Genetics. 11(3):e1005056. PMID:25749252 PMCID: PMC4352040. PDF * SI Legend Table S1 Table S2 Table S3 Table S4 Table S5 Table S6 Table S7 Table S8 Fig S1 Fig S2 Fig S3 Fig S4 Fig S5 Fig S6 Fig S7 Fig S8 265) Chavez. A., Scheiman, J., Vora, S., Pruitt, B. W., Tuttle, M., Iyer, E., Lin, S., Kiani, S., Guzman, C. D., Wiegand, D. J., Ter-Ovanesyan, D., Braff, J. L., Davidsohn, N., Housden, B. E., Perrimon, N., Weiss, R., Aach, J., Collins, J. J. and Church, G. M. (2015). Higly efficient Cas9-mediated transcriptional programming. Nature Methods. 12: 326-328. PMID: 25730490 PMCID: PMC4393883. PDF ** Supplementary Materials 266) Kwon, Y., Song, W., Droujinine, I., Hu, Y., Asara, J. M. and Perrimon, N. (2015) Systemic organ wasting induced by localized expression of the secreted Insulin/IGF antagonist ImpL2. Developmental Cell. 33:36-46. PMID: 25850671 PDF ** 267) Fulga, T. A., McNeill, E. M., Binari, R., Yelick, J., Blanche, A., Booker, M., Streinkraus, B., Schnall-Levin, M., Zhao, Y., DeLucca, T., Bejarano, F., Han, Z., Lai, E. C., Wall, D., Perrimon, N., Van Vactor, D. (2015) A transgenic resource for conditional competitive inhibition of conserved Drosophila microRNAs. Nature Communications. 6:7279. PMID:26081261. PMCID: PMC4471878. PDF ** Supplementary Information Sup Data 1 Sup Data 2 Sup Data 3 Sup Data 4 Sup Data 5 268) Gordon, W. R., Zimmerman, B., He, L., Miles, L. J., Huang, J., Tiyanont, K., McArthur, D., Aster, J. C., Perrimon, N., Loparo, J. J. and Blacklow, S. C. (2015) Mechanical allostery: Evidence for a force requirement in the proteolytic activation of Notch. Developmental Cell. 33: 729-36. PMID:26051539. PMCID: PMC4481192. PDF + Sup ** 269) Hu, Y., Comjean, A., Perkins, L., Perrimon, N., and Mohr, S. E. (2015) GLAD: an Online Database of Gene List Annotation for Drosophila. J Genomics. 3:75-81. PMID:26157507. PMCID: PMC4495321. PDF 270) Mohr, S. E., Hu, Y., Rudd, K., Buckner, M., Gilly, Q., Foster, B., Sierzputowska, K., Comjean, A., Ye, B., Perrimon, N. (2015) Reagent and data resources for investigation of RNA binding protein functions in Drosophila melanogaster cultured cells. G3. (2015) pii: g3.115.019364. doi: 10.1534/g3.115.019364. PMID:26199285. PMCID: PMC4555228. PDF * Table S1 271) Lin, S., Ewen-Campen, B., Ni, X., Housden, B. E. and Perrimon, N. (2015) In vivo transcriptional activation using CRISPR-Cas9 in Drosophila. Genetics. doi:10.1534/genetics.115.181065. PMID:26245833. PDF ** Sup Information 272) Perkins, L. A., Holderbaum, L., Tao, R., Hu, Y., Sopko, R., McCall, K., Yang-Zhou, D., Flockhart, I., Binari, R., Shim, H-S., Miller, A., Housden, A., Foos, M., Randkelv, S., Kelley, C., Namgyal, P., Villalta, C., Liu, L-P., Jiang, X., Huan-Huan, Q., Xia, W., Fujiyama, A., Toyoda, A. , Ayers, K., Blum, A., Czech, B., Neumuller, R., Yan, D., Cavallaro, A., Hibbard, K., Hall, D., Cooley, L., Hannon, G. J., Lehmann, R., Parks, A., Mohr, S. E., Ueda, R., Kondo, S., Ni, J-Q., and Perrimon, N. (2015) The Transgenic RNAi Project at Harvard Medical School: Resources and Validation. Genetics. pii: genetics.115.180208. PMID:26320097. PDF ** Sup Information 273) Chen, C., Hu, Y., Udßeshi, N., Lau, T., He, L., Wirtz-Peitz, F., Ting, A. Y., Carr, S. and Perrimon, N. (2015) Proteomic mapping in live Drosophila tissues using an engineered ascorbate peroxidase. PNAS. pii: 201515623. PMID:26362788. PMCID: PMC4593093. PDF ** 274) Yan, D. and Perrimon, N. (2015) spenito is required for sex determination in Drosophila. PNAS. pii: 201515891. PMID:26324914. PMCID: PMC4577178. PDF ** 275) Housden, B. E., Valvezan, A., J., Kelley, C., Sopko, R., Hu, Y., Roesel, C., Lin, S., Buckner, M., Tao, R., Yilmazel, B., Mohr, S., Manning, B. D. and Perrimon, N. (2015) Identification of potential drug targets for tuberous sclerosis complex by synthetic screens combining CRISPR-based knockouts with RNAi. Science Signaling 8:rs9. PMID: 26350902. PDF ** Sup Figures Table S1 Table S2 Table S3 Table S4 Table S5 Table S6 Sup File 1 Sup File 2 276) Kuhn. H., Sopko R., Coughlin, M., Perrimon, N., Mitchison, T. (2015) The Atg1-Tor pathway regulates yolk catabolism in Drosophila embryos. Development. pii: dev.125419. PMID:26395483 PDF ** 277) Dequeant, ML., Fagegaltier, D., Hu, Y., Spirohn, K., Simcox, A., Hannon, G.J. and Perrimon. N. (2015) Discovery of progenitor cell signatures by time-series synexpression analysis during Drosophila embryonic cell immortalization. PNAS. pii: 201517729. PMID:26438832 PDF ** Sup Information 278) Jodoin, J. N., Coravos, J. S., Chanet, S., Vasquez, C. G., Tworoger, M., Kingston, E. R., Perkins, L.A., Perrimon, N. and Martin, A. C. (2015) Stable force balance between epithelial cells arises from F-Actin turnover. Developmental Cell. 35: 685-97. PMID:26688336 PDF Sup Information Table S1 Movie S1 Movie S2 Movie S3 Movie S4 Movie S5 Movie S6 Movie S7 279) Breitkopf, S. B., Yang, X., Begley, M., Kulkarni, M., Chiu, Y., Turke, A.B, Lauriol, J., Yuan, M., Qi, J., Engelman. J. A., Hong, P., Kontaridis, M.I., Cantley, L. C., Perrimon, N. and Asara, J. M. (2016) A cross-species study of PI3K protein-protein interactions reveals the direct interaction of P85 and SHP2 and its regulatory function. Scientific Reports 6:20471. doi: 10.1038/srep20471. PMID:26839216 PDF * Sup Data 1 Sup Data 2 Sup Data 3 Sup Data 4 Sup Data 5 280) Ma, M., Zhao, H., Zhao, H., Binari, R., Perrimon, N. and Li, Z. (2016) Wildtype adult stem cells, unlike tumor cells, are resistant to cellular damages in Drosophila. Dev Biol. 411:207-16. PMID:26845534 PDF Sup Information 281) Vinayagam, V., Gibson, T. E., Lee, H-J., Yilmazel, B., Roesel, C., Hu, Y., Kwon, Y., Sharma, A., Liu, Y-L., Perrimon, N. and Barabási, A-L. (2016) Controllability analysis of the directed human protein interaction network identifies disease genes and drug targets. PNAS. 113:4976-81. PMID:27091990 PDF *** 282) Chavez, A., Tuttle, M., Pruitt, B.W., Ewen-Campen, B., Chari, R., Ter-Ovanesyan, D., Haque, S, J., Cecchi, R, J., Kowal, E.J., Buchthal, J., Housden, B.E., Perrimon, N., Collins, J. J. and Church, G. (2016) Comparison of Cas9 activators in multiple species. Nat Methods. doi: 10.1038/nmeth.3871. PMID: 27214048 PDF *** Sup Information 283) Harris, K. P., Zhang, Y. V., Piccioli, Z. D., Perrimon, N. and Littleton, J. T. (2016) The postsynaptic t-SNARE Syntaxin 4 controls traffic of Neuroligin 1 and Synaptotagmin 4 to regulate retrograde signaling. Elife. 5. doi: 10.7554/eLife.13881.doi: 10.7554/eLife.13881. PMID:27223326 PDF * Sup Information 284) De Lella Ezcurra, A. L., Bertolin, A. P., Kim, K., Katz, M. J., Gándara, L., Misra, T., Luschnig, S., Perrimon, B., Melani, M., and Wappner, P. (2016) miR-190 enhances HIF-dependent responses to hypoxia in Drosophila by inhibiting the prolyl-4-hydroxylase Fatiga. PLoS Genetics. 12.e1006073. doi: 10.1371/journal.pgen.1006073. PMID: 27223464. PDF*** Table/Figure Key Table S1 Figure S1 Figure S2 Figure S3 Figure S4 Figure S5 Dataset S1 285) Hunter, G. L., Hadjivasiliou, Z., Bonin, H., He, L., Perrimon, N., Charras, G. and Baum, B. (2016) Coordinated control of Notch-Delta signalling and cell cycle progression drives lateral inhibition mediated tissue patterning. Development. pii: dev.134213. [Epub ahead of print]. PMID:27226324 PDF * 286) Ammeux, N., Housden, B. E., Hu, Y., and Perrimon, N. (2015) Mapping signaling pathways crosstalk in Drosophila cells. PNAS. In Press. 287) Parkhitko, A. P., Binari, R., Zhang, N., Asara, J. M., Demontis, F., Perrimon, N. (2016) Tissue specific downregulation of S-adenosyl-homocysteine via suppression of dAhcyL1/dAhcyL2 extends healthspan and lifespan in Drosophila. Genes and Development. In Press. 288) Kim, K., Hung, J-J. and Perrimon N. (2016) Regulation of epithelial sodium channel by miR-263a in Drosophila reveals the potential for miRNA-based treatment of cystic fibrosis. Submitted. 289) Rajan, A., Wirtz-Peitz, F., Housden, B., Vora, S., and Perrimon, N. (2016) A lipid associated hub couples energy sensing with adipokine secretion. Submitted. 290) Wang, H., Becuwe, M., Housden, B. E., Chitraju, C., Porras, A., Fröhlich, F., Hannibal-Bach, H-K., Upadhyayula, S., Perrimon, N., Betzig, E., Kirchhausen, T., Ejsing, C. S., Walther, T. C., Farese, Jr, R. V., (2016) Seipin organizes neutral lipid in the ER for initial lipid droplet formation. ELife. Submitted. 291) Song, W., Cheng, D., Hong, S., Sappe, B., Hu, Y., Wei, N., Zhu, C., O’Connor, M., Pissios, P. and Perrimon, N. (2016) Enteroendocrine cell-derived Activin-β potentiates glucagon-like action and causes hyperglycemia under high-caloric diet. Submitted. 292) Vinayagam, A., Kulkarni, M. M., Sopko, R., Sun, X., Hu, Y., Nand, A., Villalta, C., Moghimi, A., Mohr, S. E., Hong, P., Asara, A., and Perrimon, N. (2016) An integrative analysis of the InR/PI3K/Akt network identifies the dynamic response to Insulin signaling. Cell Reports. Submitted. 293) Hu, Y., Comjean, A., Perrimon, N. and Mohr, S. (2016) The Drosophila Gene Expression Tool (DGET) for expression analyses. BMC Bioinformatics. Submitted. 294) Fagegaltier, D., Castel, S., Falciatori, I., Czech, B., Perrimon, N., Simcox, A. and Hannon, G. J. (2016) Oncogenic transformation of Drosophila somatic cells induces a functional piRNA pathway. Submitted.
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