Publications
Jory A, Estella C, Giorgianni MW, Slattery M, Laverty TR, Rubin GM, Mann RS. A Survey of 6,300 Genomic Fragments for cis-Regulatory Activity in the Imaginal Discs of Drosophila melanogaster. Cell Rep. 2012 Oct 25;2(4):1014-24.
Lelli KM, Slattery M, Mann RS. Disentangling the many layers of eukaryotic transcriptional regulation. Annu Rev Genet. 2012 Dec 15;46:43-68. doi: 10.1146/annurev-genet-110711-155437.
Nagaraj R, Gururaja-Rao S, Jones KT, Slattery M, Negre N, Braas D, Christofk H, White KP, Mann R, Banerjee U. Control of mitochondrial structure and function by the Yorkie/YAP oncogenic pathway. Genes Dev. 2012 Sep 15;26(18):2027-37.
Agelopoulos, M., McKay, D., and Mann, RS. Developmental regulation of chromatin conformation by Hox proteins in Drosophila. Cell Rep. 2012 Apr 5;1(4):350-359.
Fujioka M, Gebelein B, Cofer ZC, Mann RS, Jaynes JB. Engrailed cooperates directly with Extradenticle and Homothorax on a distinct class of homeodomain binding sites to repress sloppy paired. Dev Biol. 2012 Jun 15;366(2):382-92. Epub 2012 Apr 20.
Estella C, Voutev R, Mann RS. A dynamic network of morphogens and transcription factors patterns the fly leg. Curr Top Dev Biol. 2012;98:173-98.
Lelli KM, Noro B, Mann RS. Variable motif utilization in homeotic selector (Hox)-cofactor complex formation controls specificity. Proc Natl Acad Sci U S A. 2011 Dec 27;108(52):21122-7.
Slattery M, Riley T, Liu P, Abe N, Gomez-Alcala P, Dror I, Zhou T, Rohs R, Honig B, Bussemaker HJ, Mann RS. Cofactor binding evokes latent differences in DNA binding specificity between Hox proteins. Cell. 2011 Dec 9;147(6):1270-82.
Noro B, Lelli K, Sun L, Mann RS. Competition for cofactor-dependent DNA binding underlies Hox phenotypic suppression. Genes Dev. 2011 Nov 15;25(22):2327-32. doi: 10.1101/gad.175539.111.
Bishop EP, Rohs R, Parker SC, West SM, Liu P, Mann RS, Honig B, Tullius TD. A map of minor groove shape and electrostatic potential from hydroxyl radical cleavage patterns of DNA. ACS Chem Biol. 2011 Dec 16;6(12):1314-20.
Slattery, M. Négre, N. Ma, L., White, KP, and Mann, RS. Genome-wide tissue-specific occupancy of the Hox protein Ultrabithorax and Hox cofactor Homothorax in Drosophila. PLoS ONE 2011:6(4): e14686. doi:10.1371/journal.pone.0014686 http://www.plosone.org/article/info%3Adoi%2F10.1371%2Fjournal.pone.0014686.
Giorgianni, M. and Mann, RS. Establishment of medial fates along the proximodistal axis of the Drosophila leg through direct activation of dachshund by Distalless. Dev Cell. 2011 Apr 19;20(4):455-68.
West SM, Rohs R, Mann RS, Honig B. Electrostatic interactions between arginines and the minor groove in the nucleosome. J Biomol Struct Dyn. 2010 Jun;27(6):861-6.
Rohs, R., Jin, X., West, S. Joshi, R., Honig, B. and Mann, RS. Origins of Specificity in Protein-DNA Recognition. Annual Review of Biochemistry (2010), Volume 79:233-269.
PDF: Rohs et al., AnnRev
Joshi, R., Sun, L. and Mann, RS. Dissecting the functional specificities of two Hox proteins. Genes Dev. 2010:24(14); 1533-1545.
PDF: Joshi et al G&D
Estella, C. and Mann, R.S. Non-redundant selector and growth-promoting functions of two sister genes, buttonhead and Sp1, in Drosophila leg development. PLoS Genet. 2010 Jun 24;6(6):e1001001.
Crickmore M, Mann RS. A new chisel for sculpting Darwin’s endless forms. Nat Cell Biol. 2010 Jun;12(6):528-9.
Baek M, Mann RS. Lineage and birth date specify motor neuron targeting and dendritic architecture in adult Drosophila. J Neurosci. (2009) May 27;29(21):6904-16.
PDF: Baek and Mann JNeuro
McKay, D., Estella, C. and Mann R.S. The origins of the Drosophila leg as revealed by the cis-regulatory architecture of the Distalless gene. Development. 2009 Jan;136(1):61-71.
PDF: McKay_etal
Peng, W., Slattery, M. and Mann RS. Transcription factor choice in the Hippo signaling pathway: homothorax and yorkie regulation of the microRNA bantam in the progenitor domain of the Drosophila eye imaginal disc. Genes Dev (2009) 23(19):2307-19.
PDF: Peng et al_G&D
Crickmore MA, Ranade V, Mann RS. Regulation of Ubx expression by epigenetic enhancer silencing in response to Ubx levels and genetic variation. PLoS Genet. 2009 Sep;5(9):e1000633.
PDF: Crickmore etalPG
Rohs, R., West, S., Sosinsky, A., Liu, P. Mann, RS, and Honig, B. The role of DNA shape in protein-DNA recognition. Nature (article) (2009) 461(7268):1248-53.
PDF: Rohs et al_Nature
Mann RS, Lelli KM, Joshi R. Hox specificity: unique roles for cofactors and collaborators. Curr Top Dev Biol. 2009;88:63-101
Estella, C., McKay, D., and Mann, R.S. Direct integrations of Wingless, Decapentaplegic, and autoregulatory inputs into Distalless during Drosophila leg development. Dev. Cell, (2008) 14:86-96.
PDF: Estella et al PLoSG
Affolter, M., Slattery, M., and Mann, R.S. A lexicon for homeodomain-DNA recognition. Cell (2008) 133:1133-1135.
Estella, C. and Mann, R.S. Logic of Wg and Dpp induction of distal and medial fates in the Drosophila leg. Development, (2008), 135:627-636.
PDF: EstellaMannDev
Crickmore MA, Mann RS. The control of size in animals: insights from selector genes. Bioessays. 2008 Sep;30(9):843-53.
Joshi, R. Passner, J., Rohs, R., Jain, R. Sosinsky, A., Crickmore, M.A., Jacob, V., Aggarwal, A.K., Honig, B. and Mann, RS. Functional specificity of a Hox protein mediated by the recognition of minor groove structure. Cell. (2007) 131(3):530-43.
PDF: joshi_etal
Sosinsky, A., Honig, B., Mann, R.S., and Califano, A. Discovering transcriptional regulatory regions in Drosophila by a nonalignment method for phylogenetic footprinting. Proc Natl Acad Sci U S A, 2007. 104(15): p. 6305-10.
PDF: EDGI_PNAS
Zirin, JD and Mann, RS. Nubbin and Teashirt mark barriers to clonal growth along the proximal-distal axis of the Drosophila wing. Dev Biol. 2007 Apr 15;304(2):745-58.
Gebelein B, Mann RS. Compartmental modulation of abdominal Hox expression by engrailed and sloppy-paired patterns the fly ectoderm. Dev Biol. 2007 Aug 15;308(2):593-605.
Stevens KE, Mann RS. A balance between two nuclear localization sequences and a nuclear export sequence governs extradenticle subcellular localization. Genetics. 2007 Apr;175(4):1625-36.
Crickmore, MA and R.S. Mann (2006) Hox Control of Organ Size by Regulation of Morphogen Production and Mobility. Science (Article), 313(5783):63-8.
Crickmore MA, Mann RS. (2006) Hox control of morphogen mobility and organ development through regulation of glypican expression. Development. 2007 Jan;134(2):327-34.
PDF: Crickmore+MannDev
Noro B, Culi J, McKay DJ, Zhang W, Mann RS. Distinct functions of homeodomain-containing and homeodomain-less isoforms encoded by homothorax. Genes Dev. 2006 Jun 15;20(12):1636-50.
Culi J, Aroca P, Modolell J, Mann RS. jing is required for wing development and to establish the proximo-distal axis of the leg in Drosophila melanogaster. Genetics. 2006 May;173(1):255-66.
Wildonger J, Mann RS. Evidence that nervy, the Drosophila homolog of ETO/MTG8, promotes mechanosensory organ development by enhancing Notch signaling. Dev Biol. 2005 Oct 15;286(2):507-20.
Ice RJ, Wildonger J, Mann RS, Hiebert SW. Comment on “Nervy links protein kinase A to plexin-mediated semaphorin repulsion”. Science. 2005 Jul 22;309(5734):558
Wildonger J, Sosinsky A, Honig B, Mann RS. Lozenge directly activates argos and klumpfuss to regulate programmed cell death. Genes Dev. 2005 May 1;19(9):1034-9.
Mann RS, Culi J. Developmental biology: morphogens hitch a greasy ride. Nature. 2005 May 5;435(7038):30-3.
Wildonger J, Mann RS. The t(8;21) translocation converts AML1 into a constitutive transcriptional repressor. Development. 2005 May;132(10):2263-72.
Zirin JD, Mann RS. Differing strategies for the establishment and maintenance of teashirt and homothorax repression in the Drosophila wing. Development. 2004 Nov;131(22):5683-93.
Gebelein B, McKay DJ, Mann RS. Direct integration of Hox and segmentation gene inputs during Drosophila development. Nature. 2004 Oct 7;431(7009):653-9.
Bonin CP, Mann RS. A piggyBac transposon gene trap for the analysis of gene expression and function in Drosophila. Genetics. 2004 Aug;167(4):1801-11.
Culi J, Springer TA, Mann RS. Boca-dependent maturation of beta-propeller/EGF modules in low-density lipoprotein receptor proteins. EMBO J. 2004 Mar 24;23(6):1372-80.
Mann RS. Two Pax are better than one. Nat Genet. 2004 Jan;36(1):10-1.
Sosinsky A., Bonin K., Mann R.S., Honig B. (2003) Target Explorer: an automated tool for the identification of new target genes for a specified set of transcription factors. NAR, 31:3589-92.
Wang Z, Mann RS. Requirement for two nearly identical TGIF-related homeobox genes in Drosophila spermatogenesis. Development. 2003 Jul;130(13):2853-65.
Culi J, Mann RS. Boca, an endoplasmic reticulum protein required for wingless signaling and trafficking of LDL receptor family members in Drosophila. Cell. 2003 Feb 7;112(3):343-54.
Kobayashi M, Fujioka M, Tolkunova EN, Deka D, Abu-Shaar M, Mann RS, Jaynes JB. Engrailed cooperates with extradenticle and homothorax to repress target genes in Drosophila. Development. 2003 Feb;130(4):741-51.
Gebelein B, Culi J, Ryoo HD, Zhang W, Mann RS. Specificity of Distalless repression and limb primordia development by abdominal Hox proteins. Dev Cell. 2002 Oct;3(4):487-98.
Mann RS, Carroll SB. Molecular mechanisms of selector gene function and evolution. Curr Opin Genet Dev. 2002 Oct;12(5):592-600.
Mann RS, Casares F. Developmental biology: signalling legacies. Nature. 2002 Aug 15;418(6899):737-9.
Bessa J, B. Gebelein, F. Pichaud, F. Casares, and R.S. Mann (2002) Combinatorial control of Drosophila eye development by Eyeless, Homothorax, and Teashirt. Genes Dev. 16:2415-2427.
Casares F, Mann RS. The ground state of the ventral appendage in Drosophila. Science. 2001 Aug 24;293(5534):1477-80.
Mann RS, Morata G. The developmental and molecular biology of genes that subdivide the body of Drosophila. Annu Rev Cell Dev Biol. 2000;16:243-71.
Casares F, Mann RS. A dual role for homothorax in inhibiting wing blade development and specifying proximal wing identities in Drosophila. Development. 2000 Apr;127(7):1499-508.
Ryoo HD, Marty T, Casares F, Affolter M, Mann RS. Regulation of Hox target genes by a DNA bound Homothorax/Hox/Extradenticle complex. Development. 1999 Nov;126(22):5137-48.
Ryoo HD, Mann RS. The control of trunk Hox specificity and activity by Extradenticle. Genes Dev. 1999 Jul 1;13(13):1704-16.
Abu-Shaar M, Ryoo HD, Mann RS. Control of the nuclear localization of Extradenticle by competing nuclear import and export signals. Genes Dev. 1999 Apr 15;13(8):935-45.
Passner JM, Ryoo HD, Shen L, Mann RS, Aggarwal AK. Structure of a DNA-bound Ultrabithorax-Extradenticle homeodomain complex. Nature. 1999 Feb 25;397(6721):714-9.
Mann RS, Affolter M. Hox proteins meet more partners. Curr Opin Genet Dev. 1998 Aug;8(4):423-9.
Abu-Shaar M, Mann RS. Generation of multiple antagonistic domains along the proximodistal axis during Drosophila leg development. Development. 1998 Oct;125(19):3821-30.
González-Crespo S, Abu-Shaar M, Torres M, Martínez-A C, Mann RS, Morata G. Antagonism between extradenticle function and Hedgehog signalling in the developing limb. Nature. 1998 Jul 9;394(6689):196-200.
Casares F, Mann RS. Control of antennal versus leg development in Drosophila. Nature. 1998 Apr 16;392(6677):723-6.
Grieder NC, Marty T, Ryoo HD, Mann RS, Affolter M. Synergistic activation of a Drosophila enhancer by HOM/EXD and DPP signaling. EMBO J. 1997 Dec 15;16(24):7402-10.
Rieckhof GE, Casares F, Ryoo HD, Abu-Shaar M, Mann RS. Nuclear translocation of extradenticle requires homothorax, which encodes an extradenticle-related homeodomain protein. Cell. 1997 Oct 17;91(2):171-83.
Mann RS. Why are Hox genes clustered? Bioessays. 1997 Aug;19(8):661-4.
Maconochie MK, Nonchev S, Studer M, Chan SK, Pöpperl H, Sham MH, Mann RS, Krumlauf R. Cross-regulation in the mouse HoxB complex: the expression of Hoxb2 in rhombomere 4 is regulated by Hoxb1. Genes Dev. 1997 Jul 15;11(14):1885-95.
Jaffe L, Ryoo HD, Mann RS. A role for phosphorylation by casein kinase II in modulating Antennapedia activity in Drosophila. Genes Dev. 1997 May 15;11(10):1327-40.
Chan SK, Ryoo HD, Gould A, Krumlauf R, Mann RS. Switching the in vivo specificity of a minimal Hox-responsive element. Development. 1997 May;124(10):2007-14.
Mann RS, Abu-Shaar M. Nuclear import of the homeodomain protein extradenticle in response to Wg and Dpp signalling. Nature. 1996 Oct 17;383(6601):630-3.
Mann RS, Chan SK. Extra specificity from extradenticle: the partnership between HOX and PBX/EXD homeodomain proteins. Trends Genet. 1996 Jul;12(7):258-62.
Chan SK, Mann RS. A structural model for a homeotic protein-extradenticle-DNA complex accounts for the choice of HOX protein in the heterodimer. Proc Natl Acad Sci U S A. 1996 May 28;93(11):5223-8.
Chan SK, Pöpperl H, Krumlauf R, Mann RS. An extradenticle-induced conformational change in a HOX protein overcomes an inhibitory function of the conserved hexapeptide motif. EMBO J. 1996 May 15;15(10):2476-87.
Mann RS. The specificity of homeotic gene function. Bioessays. 1995 Oct;17(10):855-63.
Pöpperl H, Bienz M, Studer M, Chan SK, Aparicio S, Brenner S, Mann RS, Krumlauf R. Segmental expression of Hoxb-1 is controlled by a highly conserved autoregulatory loop dependent upon exd/pbx. Cell. 1995 Jun 30;81(7):1031-42.
Feinstein PG, Kornfeld K, Hogness DS, Mann RS. Identification of homeotic target genes in Drosophila melanogaster including nervy, a proto-oncogene homologue. Genetics. 1995 Jun;140(2):573-86.
Mann, RS. Engrailed-mediated repression of Ultrabithorax is necessary for the parasegment 6 identity in Drosophila. Development. 1994 Nov;120(11):3205-12.
Chan SK, Jaffe L, Capovilla M, Botas J, Mann RS. The DNA binding specificity of Ultrabithorax is modulated by cooperative interactions with extradenticle, another homeoprotein. Cell. 1994 Aug 26;78(4):603-15.
Chan SK, Mann RS. The segment identity functions of Ultrabithorax are contained within its homeo domain and carboxy-terminal sequences. Genes Dev. 1993 May;7(5):796-811.
Irvine KD, Botas J, Jha S, Mann RS, Hogness DS. Negative autoregulation by Ultrabithorax controls the level and pattern of its expression. Development. 1993 Jan;117(1):387-99.
Mann RS, Hogness DS. Functional dissection of Ultrabithorax proteins in D. melanogaster. Cell. 1990 Feb 23;60(4):597-610.
Additional PDFs:
