Ahn, J. H., et al. (2010). Drosophila castor is regulated negatively by the Ubx and abdA genes, but positively by the AbdB gene. Int. J. Dev. Biol. 54(8-9): 1251-8. PubMed Citation: 20563987

Akbari, O.S., et al. (2007). The abdominal-B promoter tethering element mediates promoter-enhancer specificity at the Drosophila bithorax complex. Fly (Austin) 1(6): 337-9. PubMed Citation: 18504507

Akbari, O. S., et al. (2008). A novel promoter-tethering element regulates enhancer-driven gene expression at the bithorax complex in the Drosophila embryo. Development 135: 123-131. Medline abstract: 18045839

Ali, N. and Bienz, M. (1991). Functional dissection of Drosophila abdominal-B protein. Mech Dev 35: 55-64. PubMed Citation: 1683254

Alper, S. and Kenyon, C. (2001). REF-1, a protein with two bHLH domains, alters the pattern of cell fusion in C. elegans by regulating Hox protein activity. Development 128(10): 1793-804. 11311160

Alper, S. and Kenyon, C. (2002). The zinc finger protein REF-2 functions with the Hox genes to inhibit cell fusion in the ventral epidermis of C. elegans. Development 129: 3335-3348. 12091304

Alvares, L. E., et al. (2003). Intrinsic, Hox-dependent cues determine the fate of skeletal muscle precursors. Dev. Cell 5: 379-390. 12967558

Andrew, D. J., et al. (1994). Setting limits on homeotic gene function: restraint of Sex combs reduced activity by teashirt and other homeotic genes. EMBO J 13: 1132-44. PubMed Citation: 7907545

Andrew, D. J., et al. (1997). The Drosophila dCREB-A gene is required for dorsal/ventral patterning of the larval cuticle. Development 124: 181-193. PubMed Citation: 9006079

Apitz, H. and Salecker, I. (2016). Retinal determination genes coordinate neuroepithelial specification and neurogenesis modes in the Drosophila optic lobe. Development 143: 2431-2442. PubMed ID: 27381228

Arenas-Mena, C., Cameron, A. R. and Davidson, E. H. (2000). Spatial expression of Hox cluster genes in the ontogeny of a sea urchin. Development 127: 4631-4643. PubMed Citation: 11023866

Auken, K. V., et al. (2000). Caenorhabditis elegans embryonic axial patterning requires two recently discovered posterior-group Hox genes. Proc. Natl. Acad. Sci. 97: 4499-4503. PubMed Citation: 10781051

Averof, M. and Patel, N. H. (1997). Crustacean appendage evolution associated with changes in Hox gene expession. Nature 388: 682-686. PubMed Citation: 9262403

Ayton, P. M. and Cleary, M. L. (2003). Transformation of myeloid progenitors by MLL oncoproteins is dependent on Hoxa7 and Hoxa9. Genes Dev. 17: 2298-2307. 12952893

Bachiller, D., et al. (1994). Conservation of a functional hierarchy between mammalian and insect Hox/HOM genes. EMBO J 13: 1930-41. PubMed Citation: 7909514

Baird, S. E. and Ellazar, S. A. (1999). TGFbeta-like signaling and spicule development in Caenorhabditis elegans. Dev. Biol. 212(1): 93-100. PubMed Citation: 10419688

Banreti, A., Hudry, B., Sass, M., Saurin, A. J. and Graba, Y. (2013). Hox proteins mediate developmental and environmental control of autophagy. Dev Cell 28(1):56-69. PubMed ID: 24389064

Benitez S., et al. (2010). Both JNK and apoptosis pathways regulate growth and terminalia rotation during Drosophila genital disc development. Int. J. Dev. Biol. 54: 643-653. PubMed Citation: 20209437

Barges, S., et al. (2000). The Fab-8 boundary defines the distal limit of the bithorax complex iab-7 domain and insulates iab-7 from initiation elements and a PRE in the adjacent iab-8 domain. Development 127: 779-790. PubMed Citation: 10648236

Barna, M., et al. (2002). Plzf mediates transcriptional repression of HoxD gene expression through chromatin remodeling. Dev. Cell 3: 499-510. 12408802

Bantignies, F., et al. (2003). Inheritance of Polycomb-dependent chromosomal interactions in Drosophila. Genes Dev. 17: 2406-2420. 14522946

Baum, P. D., et al. (1999). The Caenorhabditis elegans gene ham-2 links hox patterning to migration of the HSN motor neuron. Genes Dev. 13(4): 472-83. PubMed Citation: 10049362

Bae, E., Calhoun, V. C., Levine, M., Lewis, E. B. and Drewell, R. A. (2002). Characterization of the intergenic RNA profile at abdominal-A and Abdominal-B in the Drosophila bithorax complex. Proc, Natl. Acad. Sci. 99(26): 16847-52. 12481037

Beckers, J., Gérard, M. and Duboule, D. (1996). Transgenic analysis of a potential Hoxd-11 limb regulatory element present in tetrapods and fish. Dev. Biol. 180: 543-553. PubMed Citation: 8954726

Beisel, C., et al. (2007). Comparing active and repressed expression states of genes controlled by the Polycomb/Trithorax group proteins. Proc. Natl. Acad. Sci. 104(42): 16615-16620. Medline abstract: 17921257

Beh, C. Y., El-Sharnouby, S., Chatzipli, A., Russell, S., Choo, S. W. and White, R. (2016). Roles of cofactors and chromatin accessibility in Hox protein target specificity. Epigenetics Chromatin 9: 1. PubMed ID: 26753000

Bel, S., et al. (1998). Genetic interactions and dosage effects of Polycomb group genes in mice. Development 125(18): 3543-3551. PubMed Citation: 9716520

Bel-Vialar, S., et al. (2000). Altered retinoic acid sensitivity and temporal expression of Hox genes in Polycomb-M33-deficient mice. Dev. Biol. 224: 238-249. PubMed Citation: 10926763

Bel-Vialar, S., Itasaki, N. and Krumlauf, R. (2002). Initiating Hox gene expression: in the early chick neural tube differential sensitivity to FGF and RA signaling subdivides the HoxB genes in two distinct groups. Development 129: 5103-5115. 12399303

Benson, G. V., et al. (1996). Mechanisms of reduced fertility in Hoxa-10 mutant mice: uterine homeosis and loss of maternal Hoxa-10 expression. Development 122: 2687-96. PubMed Citation: 8787743

Berger, C., Pallavi, S. K., Prasad, M., Shashidhara, L. S. and Technau, G. M. (2005). A critical role for cyclin E in cell fate determination in the central nervous system of Drosophila melanogaster. Nat. Cell Biol. 7(1): 56-62. Medline abstract: 15580266

Bing, X., Rzezniczak, T. Z., Bateman, J. R. and Merritt, T. J. (2014). Transvection-based gene regulation in Drosophila is a complex and plastic trait. G3 (Bethesda) 4(11):2175-87. PubMed ID: 25213691

Birve, A., et al. (2001). Su(z)12, a novel Drosophila Polycomb group gene that is conserved in vertebrates and plants. Development 128: 3371-3379. 11546753

Blanco, M. J., Misof, B. Y. and Wagner, G. P. (1998). Heterochronic differences of Hoxa-11 expression in Xenopus fore- and hind limb development: evidence for lower limb identity of the anuran ankle bones. Dev. Genes Evol. 208(4): 175-87. PubMed Citation: 9634484

Blastyak, A., Mishra, R. K., Karch, F. and Gyurkovics, H. (2006). Efficient and specific targeting of Polycomb group proteins requires cooperative interaction between Grainyhead and Pleiohomeotic. Mol. Cell. Biol. 26(4): 1434-44. 16449654

Boulet, A. M. Lloyd, A. and Sakonju, S. (1991). Molecular definition of the morphogenetic and regulatory functions and the cis-regulatory elements of the Drosophila Abd-B homeotic gene. Development 111: 393-405. PubMed Citation: 1680045

Boulet, A. M. and Capecchi, M. R. (2002). Duplication of the Hoxd11 gene causes alterations in the axial and appendicular skeleton of the mouse. Dev. Bio. 249: 96-107. 12217321

Boulet, A. M. and Capecchi, M. R. (2004). Multiple roles of Hoxa11 and Hoxd11 in the formation of the mammalian forelimb zeugopod. Development 131: 299-309. 14668414

Boyle, M. and DiNardo, S. (1995). Specification, migration and assembly of the somatic cells of the Drosophila gonad. Development 121: 1815-25. PubMed Citation: 7600996

Branford, W. W., et al. (2000). Characterization of Hoxa-10/Hoxa-11 transheterozygotes reveals functional redundancy and regulatory interactions. Dev. Biol. 224: 373-387. PubMed Citation: 10926774

Breen, T. R. and Harte, P. J. (1993). Trithorax regulates multiple homeotic genes in the bithorax and Antennapedia complexes and exerts different tissue-specific, parasegment-specific and promoter-specific effects on each. Development 117: 119-34. PubMed Citation: 7900984

Breiling, A., et al. (2001). General transcription factors bind promoters repressed by Polycomb group proteins. Nature 412: 651-655. 11493924

Brendolan, A., et al. (2005). A Pbx1-dependent genetic and transcriptional network regulates spleen ontogeny. Development 132: 3113-3126. 15944191

Broihier, H. T., Kuzin, A., Zhu, Y., Odenwald, W. and Skeath, J. B. (2004). Drosophila homeodomain protein Nkx6 coordinates motoneuron subtype identity and axonogenesis. Development 131: 5233-5242. 15456721

Bromleigh, V. C. and Freedman, L. P. (2000). p21 is a transcriptional target of HOXA10 in differentiating myelomonocytic cells. Genes Dev. 14: 2581-2586. PubMed Citation: 11040212

Brown, J. L., Fritsch, C., Mueller, J. and Kassis, J. A. (2003). The Drosophila pho-like gene encodes a YY1-related DNA binding protein that is redundant with pleiohomeotic in homeotic gene silencing. Development 130: 285-294. 12466196

Bruneau, S., et al. (2001). The mouse Hoxd13spdh mutation, a polyalanine expansion similar to human type II synpolydactyly (SPD), disrupts the function but not the expression of other Hoxd genes. Dev. Bio. 237: 345-353. 11543619

Burke, T. W. and Kadonaga, J. T. (1996). Drosophila TFIID binds to a conserved downstream basal promoter element that is present in many TATA-box-deficient promoters. Genes Dev. 10: 711-724. PubMed Citation: 8598298

Bussell, J. J., Yapici, N., Zhang, S. X., Dickson, B. J., Vosshall, L. B. (2014) Abdominal-B neurons control Drosophila virgin female receptivity. Curr Biol 24(14): 1584-95. PubMed ID: 24998527

Busturia, A. and Bienz, M. (1993). Silencers in Abdominal-B, a homeotic Drosophila gene. EMBO J 12: 1415-25. PubMed Citation: 8096812

Busturia, A., Wightman, C. D. and Sakonju, S. (1997). A silencer is required for maintenance of transcriptional repression throughout Drosophila development. Development 124(21): 4343-4350. PubMed Citation: 9334282

Busturia, A., et al. (2001), The MCP silencer of the Drosophila Abd-B gene requires both Pleiohomeotic and GAGA factor for the maintenance of repression. Development 128: 2163-2173. 11493537

Camino, E. M., Butts, J. C., Ordway, A., Vellky, J. E., Rebeiz, M. and Williams, T. M. (2015). The evolutionary origination and diversification of a dimorphic gene regulatory network through parallel innovations in cis and trans. PLoS Genet 11: e1005136. PubMed ID: 25835988

Canudas, S., et al. (2005). dSAP18 and dHDAC1 contribute to the functional regulation of the Drosophila Fab-7 element. Nuc. Acids Res. 33(15): 4857-64. 16135462

Carapuco, M., Novoa, A., Bobola, N. and Mallo, M. (2005). Hox genes specify vertebral types in the presomitic mesoderm. Genes Dev. 19: 2116-2121. 16166377

Carlson, M. R. J., et al. (2001). Expression of Hoxb13 and Hoxc10 in developing and regenerating axolotl limbs and tails. Dev. Bio. 229: 396-406. 11150241

Caronia, G., et al. (2003). An I47L substitution in the HOXD13 homeodomain causes a novel human limb malformation by producing a selective loss of function. Development 130: 1701-1712. 12620993

Carpenter, E. M., et al. (1997). Targeted disruption of Hoxd-10 affects mouse hindlimb development. Development 124(22): 4505-4514. PubMed Citation: 9409668

Casanova, J. Sanchez-Herrero, E. and Morata, G. (1986). Identification and characterization of a parasegment specific regulatory element of the Abdominal-B gene of Drosophila. Cell 47: 627-636. PubMed Citation: 2877742

Casares, F. and Sanchez-Herrero, E. (1995). Regulation of the infraabdominal regions of the bithorax complex of Drosophila by gap genes. Development 121: 1855-1866. 87051733

Casares, F., et al. (1997). The genital disc of Drosophila melanogaster. I. Segmental and compartmental organization. Dev. Genes Evol. 207: 216-228

Castelli-Gair, J., et al. (1994). Dissecting the temporal requirements for homeotic gene function. Development 120: 1983-1995. PubMed Citation: 7925003

Castelli-Gair, J. (1998). The lines gene of Drosophila is required for specific functions of the Abdominal-B HOX protein. Development 125: 1269-1274. Medline abstract: 9477325

Cavalli, G. and Paro, R. (1999). Epigenetic inheritance of active chromatin after removal of the main transactivator. Science 286(5441): 955-8. PubMed Citation: 10542150

Celniker, S. E., Keelan, D. J. and Lewis, E. B. (1989). The molecular genetics of the bithorax complex of Drosophila: characterization of the products of the Abdominal-B domain. Genes Dev 3: 1424-36. PubMed Citation: 2575066

Chamberlin, H. M. and Thomas, T. H. (2000). The bromodomain protein LIN-49 and trithorax-related protein LIN-59 affect development and gene expression in Caenorhabditis elegans. Development 127: 713-723. PubMed Citation: 10648230

Chen, F. and Capecchi, M. R. (1999). Paralogous mouse hox genes, hoxa9, hoxb9, and hoxd9, function together to control development of the mammary gland in response to pregnancy. Proc. Natl. Acad. Sci. 96(2): 541-6. Medline abstract: 9892669

Chen, Y., et al. (2004). Direct interaction with Hoxd proteins reverses Gli3-repressor function to promote digit formation downstream of Shh. Development 131: 2339-2347. 15102708

Chiang, C. and Beachy, C. A. (1995a). Expression of a novel Toll-like gene spans the parasegment boundary and contributes to hedgehog function in the adult eye of Drosophila. Mech. Dev. 47(3): 225--239. PubMed Citation: 7848870

Chiang, C., Young, K. E. and Beachy, P. A. (1995b). Control of Drosophila tracheal branching by the novel homeodomain gene unplugged, a regulatory target for genes of the bithorax complex. Development 121: 3901-3912. PubMed Citation: 8582298

Chopra, V. S., Hong, J. W. and Levine, M. (2009a). Regulation of Hox gene activity by transcriptional elongation in Drosophila. Curr. Biol. 19: 688-693. PubMed Citation: 19345103

Chopra, V. S., Cande, J., Hong, J. W. and Levine, M. (2009b). Stalled Hox promoters as chromosomal boundaries. Genes Dev. 23(13): 1505-9. PubMed Citation: 19515973

Cleard, F., Moshkin, Y., Karch, F. and Maeda, R. K. (2006). Probing long-distance regulatory interactions in the Drosophila melanogaster bithorax complex using Dam identification. Nat. Genet. 38(8): 931-5. 16823379

Cleard, F., Wolle, D., Taverner, A. M., Aoki, T., Deshpande, G., Andolfatto, P., Karch, F. and Schedl, P. (2016). Different evolutionary strategies to conserve chromatin boundary function in the Bithorax complex. Genetics [Epub ahead of print]. PubMed ID: 28007886

Cohn, M. J., et al. (1997). Hox9 genes and vertebrate limb specification. Nature 387 (6628): 97-101. PubMed Citation: 9139829

Copf, T., et al. (2003). Posterior patterning genes and the identification of a unique body region in the brine shrimp Artemia franciscana. Development 130: 5915-5927. 14561635

Crosby, M. A., et al. (1993). The 3' regulatory region of the Abdominal-B gene: genetic analysis supports a model of reiterated and interchangeable regulatory elements. Genetics 134: 809-24. PubMed Citation: 8349112

Curt, J. R., de Navas, L. F. and Sanchez-Herrero, E. (2013). Differential activity of Drosophila Hox genes induces myosin expression and can maintain compartment boundaries. PLoS One 8: e57159. PubMed ID: 23451173

Daubresse, G., Deuring, R., Moore, L., Papoulas, O., Zakrajsek, I., Waldrip, W. R., Scott, M. P., Kennison, J. A. and Tamkun, J. W. (1999). The Drosophila kismet gene is related to chromatin-remodeling factors and is required for both segmentation and segment identity. Development 126: 1175-1187. 10021337

DeFalco, T., Le Bras, S. and Van Doren, M. (2004). Abdominal-B is essential for proper sexually dimorphic development of the Drosophila gonad. Mech. Dev. 121(11): 1323-33. 15454263

Dejardin, J., Rappaillles, A., Cuvier, O., Grimaud, C., Decoville, M., Locker, D. and Cavalli, G. (2005). Recruitment of Drosophila Polycomb group proteins to chromatin by DSP1. Nature 434: 533-538. 15791260

de la Cruz, C. C., et al. (1999). Targeted disruption of Hoxd9 and Hoxd10 alters locomotor behavior, vertebral identity, and peripheral nervous system development. Dev. Biol. 216(2): 595-610. PubMed Citation: 10642795

de Lorenzi, M., Ali, N., Saari, G. Henry, C. Wilcox, M.E. and Bienz, M. (1988). Evidence that the Abdominal-B r element function is conferred by a trans-regulatory homeoprotein. EMBO J. 7: 3223-3231. PubMed Citation: 2903049

de Lorenzi, M. and Bienz, M. (1990a). Expression of Abdominal-B homeoproteins in Drosophila embryos. Development 108: 323-9. PubMed Citation: 1972049

de Lorenzi, M., et al. (1990b). Evidence that the Abdominal-B r element function is conferred by a trans-regulatory homeoprotein. EMBO J 7: 3223-31. PubMed Citation: 2903049

de Santa Barbaram, P. and Roberts, D. J. (2002). Tail gut endoderm and gut/genitourinary/tail development: a new tissue-specific role for Hoxa13. Development 129: 551-561. 11830557

Dolle, P., Fraulob, V. and Duboule, D. (1994). Developmental expression of the mouse Evx-2 gene: relationship with the evolution of the HOM/Hox complex. Dev. Suppl. 143-53. PubMed Citation: 9202392

Economides, K. D. and Capecchi, M. R. (2003a). Hoxb13 is required for normal differentiation and secretory function of the ventral prostate. Development 130: 2061-2069. 12668621

Economides, K. D. Zeltser, L. and Capecchi, M. R. (2003b). Hoxb13 mutations cause overgrowth of caudal spinal cord and tail vertebrae. Dev. Biol. 256: 317-330. 12679105

Ekker, S. C., et al. (1994). The degree of variation in DNA sequence recognition among four Drosophila homeotic proteins. EMBO J 13: 3551-3560. PubMed Citation: 7914870

Estrada, B. and Sánchez-Herrero, E. (2001). The Hox gene Abdominal-B antagonizes appendage development in the genital disc of Drosophila. Development 128: 331-339. 11152632

Estrada, B., et al. (2002). Genetic and molecular characterization of a novel iab-8 regulatory domain in the Abdominal-B gene of Drosophila melanogaster. Development 129: 5195-5204. 12399311

Faucheux, M., et al. (2003). batman interacts with Polycomb and trithorax group genes and encodes a BTB/POZ protein that is included in a complex containing GAGA factor. Molec. Cell. Bio. 23: 1181-1195. 12556479

Ferreira, H. B., et al. (1999). Patterning of Caenorhabditis elegans posterior structures by the Abdominal-B homolog, egl-5. Dev. Biol. 207(1): 215-228. PubMed Citation: 10049576

Ferri, A. L., et al. (2007). Foxa1 and Foxa2 regulate multiple phases of midbrain dopaminergic neuron development in a dosage-dependent manner. Development 134: 2761-2769. PubMed Citation: 17596284

Fisher, D. and Méchali, M. (2003). Vertebrate HoxB gene expression requires DNA replication. EMBO J. 22: 3737-3748. 12853488

Foronda, D., Estrada, B., de Navas, L. and Sanchez-Herrero, E. (2006). Requirement of Abdominal-A and Abdominal-B in the developing genitalia of Drosophila breaks the posterior downregulation rule. Development 133(1): 117-27. 16319117

Foronda, D., Martín, P., Sánnchez-Herrero, E. (2012). Drosophila Hox and sex-determination genes control segment elimination through EGFR and extramacrochetae activity. PLoS Genet. 8(8): e1002874. PubMed Citation: 22912593

Formosa, T., Eriksson, P., Wittmeyer, J., Ginn, J., Yu, Y., and Stillman, D.J. (2001). Spt16-Pob3 and the HMG protein Nhp6 combine to form the nucleosome-binding factor SPN. EMBO J. 20: 3506-3517. 11432837

Forrester, W. C., Kim, C. and Garriga, G. (2004). The Caenorhabditis elegans Ror RTK CAM-1 inhibits EGL-20/Wnt signaling in cell migration. Genetics 168(4): 1951-62. 15371357

Fyodorov, D. V., Blower, M. D., Karpen, G. H. and Kadonaga, J. T. (2004). Acf1 confers unique activities to ACF/CHRAC and promotes the formation rather than disruption of chromatin in vivo. Genes Dev. 18(2): 170-83. Medline abstract: 14752009

Gabellini, D., et al. (2003). Early mitotic degradation of the homeoprotein HOXC10 is potentially linked to cell cycle progression. EMBO J. 22(14): 3715-24. 12853486

Gaunt, S. J., et al. (1999). Evidence that Hoxa expression domains are evolutionarily transposed in spinal ganglia, and are established by forward spreading in paraxial mesoderm. Mech. Dev. 82(1-2): 109-118. PubMed Citation: 10354475

Gavory, G., Baril, C., Laberge, G., Bidla, G., Koonpaew, S., Sonea, T., Sauvageau, G. and Therrien, M. (2021). A genetic screen in Drosophila uncovers the multifaceted properties of the NUP98-HOXA9 oncogene. PLoS Genet 17(8): e1009730. PubMed ID: 34383740

Ghavi-Helm, Y., Klein, F. A., Pakozdi, T., Ciglar, L., Noordermeer, D., Huber, W., Furlong, E. E. (2014) Enhancer loops appear stable during development and are associated with paused polymerase. Nature 512(7512): 96-100. PubMed ID: 25043061

Gilchrist, D. A., et al. (2008). NELF-mediated stalling of Pol II can enhance gene expression by blocking promoter-proximal nucleosome assembly. Genes Dev. 22: 1921-1933. PubMed Citation: 18628398

Goff, D. J. and Tabin, C. J. (1997). Analysis of Hoxd-13 and Hoxd-11 misexpression in chick limb buds reveals that Hox genes affect both bone condensation and growth. Development 124, 627-636. PubMed Citation: 9043077

Graba, Y., et al. (1992). Homeotic control in Drosophila; the scabrous gene is an in vivo target of Ultrabithorax proteins. EMBO J 11: 3375-84. PubMed Citation: 1505521

Grewal, S. I. and Rice, J. C. (2004). Regulation of heterochromatin by histone methylation and small RNAs, Curr. Opin. Cell Biol. 16: 230-238. 15145346

Grimaud, C., Bantignies, F., Pal-Bhadra, M., Ghana, P., Bhadra, U. and Cavalli, G. (2006). RNAi components are required for nuclear clustering of Polycomb group response elements. Cell 124(5): 957-71. 16530043

Grienenberger. A., et al. (2002). The MYST domain acetyltransferase Chameau functions in epigenetic mechanisms of transcriptional repression. Curr. Biol. 12(9): 762-6. 12007422

Gutierrez, A., Knoch, L., Witte, H. and Sommer, R. J. (2003). Functional specificity of the nematode Hox gene mab-5. Development 130: 983-993. 12538523

Hagstrom, K., Muller, M. and Schedl, P. (1996). Fab-7 functions as a chromatin domain boundary to ensure proper segmentation specification by the Drosophila bithorax complex. Genes Dev. 10: 3203-15

Hagstrom, K., Muller, M. and Schedl, P. (1997). A Polycomb and GAGA dependent silencer adjoins the Fab-7 boundary in the Drosophila bithorax complex. Genetics 146(4): 1365-1380

Hashimoto, K., et al. (1999). Distinct signaling molecules control Hoxa-11 and Hoxa-13 expression in the muscle precursor and mesenchyme of the chick limb bud. Development 126(12): 2771-2783. Medline abstract: 10331987

Hendrickson, J. E. and Sakonju, S. (1995). Cis and trans interactions between the iab regulatory regions and abdominal-A and abdominal-B in Drosophila melanogaster. Genetics 139: 835-848

Hérault, Y., et al. (1996). Function of the Evx-2 in the morphogenesis of vertebrate limbs. EMBO J. 15: 6727-38

Hérault, Y., et al. (1997). Ulnaless (Ul), a regulatory mutation inducing both loss-of-function and gain-of-function of posterior Hoxd genes. Development 124: 3493-3500.

Hèrault, Y., et al. (1998). Genetic analysis of a Hoxd-12 regulatory element reveals global versus local modes of controls in the HoxD complex. Development 125: 1669-1677

Hérault, Y., et al. (1999). Hox gene expression in limbs: colinearity by opposite regulatory controls. Dev. Biol. 208(1): 157-65

Herranz, H. and Morata, G. (2001). The functions of pannier during Drosophila embryogenesis. Development 128: 4837-4846. 11731463

Hirth, F., Hartmann, B. and Reichert, H. (1998). Homeotic gene action in embryonic brain development of Drosophila. Development 125: 1579-1589

Hittinger, C. T. and Carroll, S. B. (2007). Gene duplication and the adaptive evolution of a classic genetic switch. Nature 449: 677-681. PubMed Citation: 17928853

Hogga, I., et al. (2001). Replacement of Fab-7 by the gypsy or scs insulator disrupts long-distance regulatory interactions in the Abd-B gene of the bithorax complex. Molec. Cell 8: 1145-1151. 11741549

Holohan, E. E., et al.. (2007). CTCF genomic binding sites in Drosophila and the Organisation of the Bithorax Complex. PLoS Genet. 3(7): e112. Medline abstract: 17616980

Hopmann, R., Duncan, D. and Duncan, I. (1995). Transvection in the iab-5,6,7 region of the bithorax complex of Drosophila: homology independent interactions in trans. Genetics 139: 815-833

Hostikka, S. L. and Capecchi, M. R. (1998). The mouse Hoxc11 gene: genomic structure and expression pattern. Mech. Dev. 70: 133-145

Hu, N. and Castelli-Gair, J. (1999). Study of the posterior spiracles of Drosophila as a model to understand the genetic and cellular mechanisms controlling morphogenesis. Dev. Biol. 214(1): 197-210

Hughes, C. L. and Kaufman, T. C. (2002). Exploring the myriapod body plan: expression patterns of the ten Hox genes in a centipede. Development 129: 1225-1238. 11874918

Hullinger, T. G., et al. (2001). TGFbeta and BMP-2 activation of the OPN promoter: roles of smad- and hox-binding elements. Exp. Cell Res. 262(1): 69-74. 11120606

Hunter, C. P., et al. (1999). Hox gene expression in a single Caenorhabditis elegans cell is regulated by a caudal homolog and intercellular signals that inhibit Wnt signaling. Development 126(4): 805-814. Medline abstract: 9895327

Ikuta, T., Satoh, N. and Saiga, H. (2010). Limited functions of Hox genes in the larval development of the ascidian Ciona intestinalis. Development 137(9): 1505-13. PubMed Citation: 20335361

Jacob, J., et al. (2007). Transcriptional repression coordinates the temporal switch from motor to serotonergic neurogenesis. Nat. Neurosci. 10: 1433-1439. PubMed Citation: 17922007

Jeong, S., Rokas, A. and Carroll, S. B. (2006). Regulation of body pigmentation by the Abdominal-B Hox protein and its gain and loss in Drosophila evolution. Cell 125(7): 1387-99. 16814723

Jia, S., Noma, K. and Grewal, S. I. (2004). RNAi-independent heterochromatin nucleation by the stress-activated ATF/CREB family proteins. Science 304: 1971-1976. 15218150

Jiang, L. I. and Sternberg, P. W. (1998). Interactions of EGF, Wnt and HOM-C genes specify the P12 neuroectoblast fate in C. elegans. Development 125(12): 2337-2347

Jiang, N., Emberly, E., Cuvier, O. and Hart, C. M. (2009). Genome-wide mapping of BEAF binding sites in Drosophila links BEAF to transcription. Mol. Cell. Biol. 29(13): 3556-68. PubMed Citation: 19380483

Jones, B. and McGinnis, W. (1993). The regulation of empty spiracles by Abdominal-B mediates an abdominal segment identity function. Genes Dev 7: 229-40

Jung, H., Lacombe, J., Mazzoni, E. O., Liem, K. F., Jr., Grinstein, J., Mahony, S., Mukhopadhyay, D., Gifford, D. K., Young, R. A., Anderson, K. V., Wichterle, H. and Dasen, J. S. (2010). Global control of motor neuron topography mediated by the repressive actions of a single hox gene. Neuron 67: 781-796. PubMed ID: 20826310

Jung, H., Mazzoni, E. O., Soshnikova, N., Hanley, O., Venkatesh, B., Duboule, D. and Dasen, J. S. (2014). Evolving Hox activity profiles govern diversity in locomotor systems. Dev Cell 29: 171-187. PubMed ID: 24746670; Graphical Abstract

Kagoshima, H., Cassata, G. and Burglin, T. R. (1999). A Caenorhabditis elegans homeobox gene expressed in the male tail, a link between pattern formation and sexual dimorphism? Dev. Genes Evol. 209(1): 59-62.

Kang, S. Y., Kim, S. N., Kim, S. H. and Jeon, S. H. (2006). Temporal and spatial expression of homeotic genes is important for segment-specific neuroblast 6-4 lineage formation in Drosophila. Mol. Cells 21(3): 436-42. Medline abstract: 16819308

Kanzler, B., et al. (1997). CHOXC-8 and CHOXD-13 expression in embryonic chick skin and cutaneous appendage specification. Dev. Dyn. 210(3): 274-287

Kaplan, C. D., Morris, J. R., Wu, C. and Winston, F. (2000). Spt5 and spt6 are associated with active transcription and have characteristics of general elongation factors in D. melanogaster. Genes Dev. 14: 2623-2634. PubMed Citation: 11040216

Karch, F., et al. (1994), Mcp and Fab-7: molecular analysis of putative boundaries of cis-regulatory domains in the bithorax complex of Drosophila melanogaster. Nucleic Acids Res 22: 3138-3146

Kawakami, Y., et al. (2006). Wnt/β-catenin signaling regulates vertebrate limb regeneration. Genes Dev. 20: 3232-3237. Medline abstract: 17114576

Kawakami, Y., et al. (2009). Sall genes regulate region-specific morphogenesis in the mouse limb by modulating Hox activities. Development 136(4): 585-94. PubMed Citation: 19168674

Kaye, E. G., Kurbidaeva, A., Wolle, D., Aoki, T., Schedl, P. and Larschan, E. (2017). Drosophila dosage compensation loci associate with a boundary forming insulator complex. Mol Cell Biol. [Epub ahead of print] PubMed ID: 28784719

Kim, K. H. and Yoo, S. (2013). Sequence-specific interaction between ABD-B homeodomain and castor gene in Drosophila. BMB Rep. Epub ahead of print] PubMed ID: 24219869

Kmita, M., et al. (2002). Serial deletions and duplications suggest a mechanism for the collinearity of Hoxd genes in limbs. Nature 420: 145-150. 12432383

Knezevic, V., et al. (1997). Hoxd-12 differentially affects preaxial and postaxial chondrogenic branches in the limb and regulates Sonic hedgehog in a positive feedback loop. Development 124(22): 4523-4536

Knosp, W. M., et al. (2004). HOXA13 regulates the expression of bone morphogenetic proteins 2 and 7 to control distal limb morphogenesis. Development 131: 4581-4592. 15342482

Kondo, T., et al. (1996). Function of posterior HoxD genes in the morphogenesis of the anal sphincter. Development 122: 2651-59

Kondo, T. and Duboule, D. (1999). Breaking colinearity in the mouse HoxD complex. Cell 97(3): 407-17

Kopp, A., Duncan, I. and Carroll, S. B. (2000). Genetic control and evolution of sexually dimorphic characters in Drosophila. Nature 408: 553-559. 11117736

Kopp, A., and Duncan, I. (2002). Anteroposterior patterning in adult abdominal segments of Drosophila. Dev. Bio. 242: 15-30

Korswagen, H. C., et al. (2002). The Axin-like protein PRY-1 is a negative regulator of a canonical Wnt pathway in C. elegans. Genes Dev. 16: 1291-1302. 12023307

Kroon, E., et al. (1998). Hoxa9 transforms primary bone marrow cells through specific collaboration with Meis1a but not Pbx1b. EMBO J. 17(13): 3714-3725.

Kuhn, D. T., et al. (1995). Analysis of the genes involved in organizing the tail segments of the Drosophila melanogaster embryo. Mech. Dev. 53: 3-13

Kuranaga, E., et al. (2011). Apoptosis controls the speed of looping morphogenesis in Drosophila male terminalia. Development 138(8): 1493-9. PubMed Citation: 21389055

Kuzin, A., Brody, T., Moore, A. W. and Odenwald, W. F. (2005). Nerfin-1 is required for early axon guidance decisions in the developing Drosophila CNS. Dev. Biol. 277: 347-365. PubMed Citation: 15617679

Kuziora, M. A. (1993). Abdominal-B protein isoforms exhibit distinct cuticular transformations and regulatory activities when ectopically expressed in Drosophila embryos. Mech Dev 42: 125-37

Kyrchanova, O., Toshchakov, S., Podstreshnaya, Y., Parshikov, A. and Georgiev, P. (2008). Functional interaction between the Fab-7 and Fab-8 boundaries and the upstream promoter region in the Drosophila Abd-B gene. Mol. Cell. Biol. 28(12): 4188-95. PubMed Citation: 18426914

Kyrchanova, O., Zolotarev, N., Mogila, V., Maksimenko, O., Schedl, P. and Georgiev, P. (2017). Architectural protein Pita cooperates with dCTCF in organization of functional boundaries in Bithorax Complex. Development [Epub ahead of print]. PubMed ID: 28619827

Lamka, M. L., Boulet, A. M. and Sakonju, S. (1992). Ectopic expression of UBX and ABD-B proteins during Drosophila embryogenesis: competition, not a functional hierarchy, explains phenotypic suppression. Development 116: 841-54

Lance-Jones, C., et al. (2001). Hoxd10 induction and regionalization in the developing lumbosacral spinal cord. Development 128: 2255-2268

Lanzuolo, C., et al. (2007). Polycomb response elements mediate the formation of chromosome higher-order structures in the bithorax complex. Nat. Cell Biol. 9: 1167-1174. PubMed Citation: 17828248

LaRonde-LeBlanc, N. A. and Wolberger, C. (2003). Structure of HoxA9 and Pbx1 bound to DNA: Hox hexapeptide and DNA recognition anterior to posterior. Genes Dev. 17: 2060-2072. 12923056

Laurent, A., et al. (2007). Identification of a new type of PBX1 partner that contains zinc finger motifs and inhibits the binding of HOXA9-PBX1 to DNA. Mech. Dev. 124: 364-376. Medline abstract: 17353115

Lee, C., et al. (2008). NELF and GAGA factor are linked to promoter-proximal pausing at many genes in Drosophila. Mol. Cell. Biol. 28: 3290-3300. PubMed Citation: 18332113

Lee, N., Maurange, C., Ringrose, L. and Paro, R. (2005). Suppression of Polycomb group proteins by JNK signalling induces transdetermination in Drosophila imaginal discs. Nature 438(7065): 234-7. 16281037

Li, M., Belozerov, V. E. and Cai, H. N. (2009). Analysis of chromatin boundary activity in Drosophila cells. BMC Mol. Biol. 9: 109. PubMed Citation: 19077248

Liu, J. P., Laufer, E. and Jessell, T. M. (2001). Assigning the positional identity of spinal motor neurons: Rostrocaudal patterning of Hox-c Expression by FGFs, Gdf11, and retinoids. Neuron 32: 997-1012. 11754833

Lin, Q., Wu, D. and Zhou, J. (2003). The promoter targeting sequence facilitates and restricts a distant enhancer to a single promoter in the Drosophila embryo. Development 130: 519-526. 12490558

Lin, Q., Chen, Q., Lin, L. and Zhou, J. (2004). The Promoter Targeting Sequence mediates epigenetically heritable transcription memory. Genes Dev. 18(21): 2639-51. 15520283

Lin, Q., Lin, L. and Zhou, J. (2010). Chromatin insulator and the promoter targeting sequence modulate the timing of long-range enhancer-promoter interactions in the Drosophila embryo. Dev. Biol. 339(2): 329-37. PubMed Citation: 20045684

Lints, R. and Emmons, S. W. (1999). Patterning of dopaminergic neurotransmitter identity among Caenorhabditis elegans ray sensory neurons by a TGFbeta family signaling pathway and a Hox gene. Development 126: 5819-5831. Medline abstract: 10572056

Lo, P. C. H., Skeath, J. B., Gajewski, K. Schulz, R. A. and Frasch, M. (2002). Homeotic genes autonomously specify the anteroposterior subdivision of the Drosophila dorsal vessel into aorta and heart. Dev. Bio. 251: 307-319

Logan, M. and Tabin, C. J. (1999). Role of Pitx1 upstream of Tbx4 in specification of hindlimb identity. Science 283(5408): 1736-9

Lovegrove, B., Simoes, S., Rivas, M.L., Sotillos, S., Johnson, E., Knust, E., Jacinto, A., and Castelli-Gair Hombría, J. (2006). Co-ordinated control of cell adhesión, cell polarity and cytoskeleton underlies Hox-induced organogenesis in Drosophila. Curr. Biol. 16: 2206-2216. PubMed Citation: 17113384

Luo, L., et al. (2004). The cell-cycle regulator geminin inhibits Hox function through direct and polycomb-mediated interactions. Nature 427(6976): 749-53. 14973489

Lupo, R., et al. (2001). Drosophila chromosome condensation proteins Topoisomerase II and Barren colocalize with Polycomb and Maintain Fab-7 PRE silencing. Mol. Cell 7: 127-136. 11172718

Ma, L., et al. (1998). Abdominal B (AbdB) Hoxa genes: regulation in adult uterus by estrogen and progesterone and repression in mullerian duct by the synthetic estrogen diethylstilbestrol (DES). Dev. Biol. 197(2): 141-154

Macias, A., Casanova, J. and Morata, G. (1990). Expression and regulation of the abd-A gene of Drosophila. Development 110: 1197-207

Mack, J. A., Smith, R. D. and Kuhn, D. T. (1997). Mobile element 297 in the Abd-B gene of Drosophila melanogaster, not Delta 88, is responsible for the tuh-3 mutation. Genetics 147(2): 679-688

Magbanua, J. P., Runneburger, E., Russell, S. and White, R. (2015). A variably occupied CTCF binding site in the ultrabithorax gene in the Drosophila bithorax complex. Mol Cell Biol 35(1): 318-330. PubMed ID: 25368383

Mahmoudi, T., Zuijderduijn, L. M., Mohd-Sarip, A. and Verrijzer, C. P. (2003). GAGA facilitates binding of Pleiohomeotic to a chromatinized Polycomb response element. Nucleic Acids Res. 31: 4147-4156. 12853632

Maksimenko, O., Bartkuhn, M., Stakhov, V., Herold, M., Zolotarev, N., Jox, T., Buxa, M. K., Kirsch, R., Bonchuk, A., Fedotova, A., Kyrchanova, O., Renkawitz, R. and Georgiev, P. (2015). Two new insulator proteins, Pita and ZIPIC, target CP190 to chromatin. Genome Res 25(1): 89-99. PubMed ID: 25342723

Marchetti, M., et al. (2003). Differential expression of the Drosophila BX-C in polytene chromosomes in cells of larval fat bodies: a cytological approach to identifying in vivo targets of the homeotic Ubx, Abd-A and Abd-B proteins. Development 130: 3683-3689. 12835385

Martinez, P., et al. (1999). Organization of an echinoderm hox gene cluster. Proc. Natl. Acad. Sci. 96(4): 1469-74. Medline abstract: 9990047

Matharu, N. K., Hussain, T., Sankaranarayanan, R. and Mishra, R. K. (2010). Vertebrate homologue of Drosophila GAGA factor. J. Mol. Biol. 400: 434-447. PubMed Citation: 20471984

McCall, K., O'Connor, M. B. and Bender, W. (1994). Enhancer traps in the Drosophila bithorax complex mark parasegmental domains. Genetics 138: 387-399

Medina-Martinez, O., Bradley, A. and Ramirez-Solis, R. (2000). A large targeted deletion of Hoxb1-Hoxb9 produces a series of single-segment anterior homeotic transformations. Dev. Biol. 222: 71-83

Merabet, S., et al. (2002). A green fluorescent protein reporter genetic screen that identifies modifiers of Hox gene function in the Drosophila embryo. Genetics 162: 189-202. 12242233

Merabet, S., Hombria, J. C., Hu, N., Pradel, J. and Graba, Y. (2005). Hox-controlled reorganisation of intrasegmental patterning cues underlies Drosophila posterior spiracle organogenesis. Development 132(13): 3093-3102. 15930099

Meyer, C. A., et al. (2002). Drosophila p27Dacapo expression during embryogenesis is controlled by a complex regulatory region independent of cell cycle progression. Development 129: 319-328. 11807025

Michelson, A. M. (1994). Muscle pattern diversification in Drosophila is determined by the autonomous function of homeotic genes in the embryonic mesoderm. Development 120: 755-768

Miguel-Aliaga, I. and Thor, S. (2004). Segment-specific prevention of pioneer neuron apoptosis by cell-autonomous, postmitotic Hox gene activity. Development 131(24): 6093-105. 15537690

Miguel-Aliaga, I., Thor, S. and Gould, A. P. (2008). Postmitotic specification of Drosophila insulinergic neurons from pioneer neurons. PLoS Biol. 6(3): e58. PubMed Citation: 18336071

Mihaly, J., Mishra, R. K. and Karch, F. (1998). A conserved sequence motif in Polycomb-response element. Mol. Cell 1: 1065-1066. 9651590

Miller C, Sassoon DA., et al. (1998). Wnt-7a maintains appropriate uterine patterning during the development of the mouse female reproductive tract. Development 125(16): 3201-3211

Milne, T. A., et al. (2002). MLL targets SET domain methyltransferase activity to hox gene promoters. Mol. Cell 10: 1107-1117. 12453418

Mishra, K., et al. (2003). Trl-GAGA directly interacts with lola like and both are part of the repressive complex of Polycomb group of genes. Mech. Dev. 120: 681-689. 12834867

Misulovin, Z., et al. (2008). Association of cohesin and Nipped-B with transcriptionally active regions of the Drosophila melanogaster genome. Chromosoma 117(1): 89-102. Medline abstract: 17965872

Mito, Y., Henikoff, J. G. and Henikoff, S. (2007). Histone replacement marks the boundaries of cis-regulatory domains. Science 315(5817): 1408-1411. Medline abstract: 17347439

Mohan, M., et al. (2007). The Drosophila insulator proteins CTCF and CP190 link enhancer blocking to body patterning. EMBO J. 26(19): 4203-14. Medline abstract: 17805343

Mohd-Sarip, A., Venturini, F., Chalkley, G.E. and Verrijzer, C.P. (2002). Pleiohomeotic can link polycomb to DNA and mediate transcriptional repression. Mol. Cell Biol. 22: 7473-7483. 12370294

Mohd-Sarip, A., et al. (2005). Synergistic recognition of an epigenetic DNA element by Pleiohomeotic and a Polycomb core complex. Genes Dev. 19: 1755-1760. 16077005

Monge, I., Kondoa, T. and Duboule D. (2003). An enhancer-titration effect induces digit-specific regulatory alleles of the hoxd cluster. Dev. Biol. 256: 212-220. 12679098

Moon, H., et al. (2005). CTCF is conserved from Drosophila to humans and confers enhancer blocking of the Fab-8 insulator. EMBO Rep. 6(2): 165-70. Medline abstract: 15678159

Morgan, E. A., et al. (2003). Loss of Bmp7 and Fgf8 signaling in Hoxa13-mutant mice causes hypospadia. Development 130: 3095-3109. 12783783

Moshkin, Y. M., et al. (2001). The Bithorax Complex of Drosophila melanogaster: Underreplication and morphology in polytene chromosomes. Proc. Natl. Acad. Sci. 98: 570-574. 11136231

Muller, M., et al. (1999). The Mcp element from the Drosophila melanogaster Bithorax Complex mediates long-distance regulatory interactions. Genetics 153: 1333-1356. Medline abstract: 10545463

Muragaki, Y., Mundlos, S., Upton, J. and Olsen, B. R. (1996). Altered growth and branching patterns in synpolydactyly caused by mutations in HOXD13. Science 272: 548-55

Nakamura, T., et al. (2002). ALL-1 is a histone methyltransferase that assembles a supercomplex of proteins involved in transcriptional regulation. Mol. Cell 10: 1119-1128. 12453419

Nakamura, T., Gehrke, A. R., Lemberg, J., Szymaszek, J. and Shubin, N. H. (2016). Digits and fin rays share common developmental histories. Nature 537: 225-228. PubMed ID: 27533041

Nguyen, D. X., et al. (2009). WNT/TCF signaling through LEF1 and HOXB9 mediates lung adenocarcinoma metastasis. Cell 138(1): 51-62. PubMed Citation: 19576624

Nishimoto, S., Minguillon, C., Wood, S. and Logan, M. P. (2014). A combination of activation and repression by a colinear hox code controls forelimb-restricted expression of tbx5 and reveals hox protein specificity. PLoS Genet 10: e1004245. PubMed ID: 24651482

Noma, K., et al. (2004). RITS acts in cis to promote RNA interference-mediated transcriptional and post-transcriptional silencing, Nat. Genet. 36: 1174-1180. 15475954

Norton, W. H., et al. (2005). Monorail/Foxa2 regulates floorplate differentiation and specification of oligodendrocytes, serotonergic raphe neurones and cranial motoneurones. Development 132(4): 645-58. PubMed Citation: 15677724

Novotny, E., et al. (2009). In vitro hematopoietic differentiation of mouse embryonic stem cells requires the tumor suppressor menin and is mediated by Hoxa9. Mech. Dev. 126(7): 517-22. PubMed Citation: 19393316

Ohtsuki, S., Levine, M. and Cai, H. N. (1998). Different core promoters possess distinct regulatory activities in the Drosophila embryo. Genes Dev. 12: 547-556. PubMed Citation: 9472023

Okulski, H., Druck, B., Bhalerao, S. and Ringrose, L. (2011). Quantitative analysis of polycomb response elements (PREs) at identical genomic locations distinguishes contributions of PRE sequence and genomic environment. Epigenetics Chromatin 4: 4. PubMed Citation: 21410956

Omelchenko, N. and Lance-Jones, C. (2003). Programming neural Hoxd10: in vivo evidence that early node-associated signals predominate over paraxial mesoderm signals at posterior spinal levels. Dev. Biol. 261: 99-115. 12941623

Orlando, V. and Paro, R. (1993). Mapping Polycomb-repressed domains in the bithorax complex using in vivo formaldehyde cross-linked chromatin. Cell 75: 1187-98. PubMed Citation: 7903220

Orphanides, G., Wu, W.H., Lane, W.S., Hampsey, M., and Reinberg, D. (1999). The chromatin-specific transcription elongation factor FACT comprises human SPT16 and SSRP1 proteins. Nature 400: 284-288. 10421373

Pal-Bhadra, M., Bhadra, U. and Birchler, J. A. (1997). Cosuppression in Drosophila: gene silencing of Alcohol dehydrogenase by white-Adh transgenes is Polycomb dependent, Cell 90: 479-490. 9267028

Pal-Bhadra, M., Bhadra, U. and Birchler, J. A. (1999). Cosuppression of nonhomologous transgenes in Drosophila involves mutually related endogenous sequences, Cell 99: 35-46. 10520992

Pal-Bhadra, M., Bhadra, U. and Birchler, J. A. (2002). RNAi related mechanisms affect both transcriptional and posttranscriptional transgene silencing in Drosophila' Mol. Cell 9: 315-327. 11864605

Pal-Bhadra, M., et al. (2004). Heterochromatic silencing and HP1 localization in Drosophila are dependent on the RNAi machinery, Science 303: 669-672. 14752161

Papenbrock, T., et al. (1998). Murine Hoxc-9 gene contains a structurally and functionally conserved enhancer. Dev. Dyn. 212(4): 540-7. PubMed Citation: 9707327

Papenbrock, T., Visconti, R. P. and Awgulewitsch, A. (2000). Loss of fibula in mice overexpressing Hoxc11. Mech. Dev. 92: 113-123. PubMed Citation: 10727851

Parrish, J. Z., et al. (2007). Polycomb genes interact with the tumor suppressor genes hippo and warts in the maintenance of Drosophila sensory neuron dendrites. Genes Dev. 21: 956-972. Medline abstract: 17437999

Peichel, C. L., Prabhakaran, B. and Vogt, T. F. (1997). The mouse Ulnaless mutation deregulates posterior HoxD gene expression and alters appendicular patterning. Development 124: 3481-3492

Peterson, M. D., et al. (1999). The embryonic expression pattern of labial, posterior homeotic complex genes and the teashirt homologue in an apterygote insect. Dev. Genes Evol. 209: 77-90

Phelan, M. L. and Featherstone, M. S. (1997). Distinct HOX N-terminal arm residues are responsible for specificity of DNA recognition by HOX monomers and HOX.PBX heterodimers. J. Biol. Chem. 272 (13): 8635-8643

Pinto, P.B., Espinosa-Vázquez, J.M., Rivas, M.L. and Hombría, J.C. (2015). JAK/STAT and Hox dynamic interactions in an organogenetic gene cascade. PLoS Genet 11: e1005412. PubMed ID: 26230388

Post, L. C., et al. (2000). Severe limb defects in hypodactyly mice result from the expression of a novel, mutant HOXA13 protein. Dev. Biol. 217: 290-300

Postika, N., Metzler, M., Affolter, M., Muller, M., Schedl, P., Georgiev, P. and Kyrchanova, O. (2018). Boundaries mediate long-distance interactions between enhancers and promoters in the Drosophila Bithorax complex. PLoS Genet 14(12): e1007702. PubMed ID: 30540750

Reinitz, J. and Levine, M. (1990). Control of the initiation of homeotic gene expression by the gap genes giant and tailless in Drosophila. Dev. Biol. 140: 57-72

Ringrose, L., Rehmsmeier, M., Dura, J. M. and Paro, R. (2003). Genome-wide prediction of Polycomb/Trithorax response elements in Drosophila melanogaster. Dev. Cell 5: 759-771. 14602076

Rinn, J. L., et al. (2007). Functional demarcation of active and silent chromatin domains in human HOX loci by noncoding RNAs. Cell 129(7): 1311-23. Medline abstract: 17604720

Rogers, W. A., Salomone, J. R., Tacy, D. J., Camino, E. M., Davis, K. A., Rebeiz, M. and Williams, T. M. (2013). Recurrent modification of a conserved cis-regulatory element underlies fruit fly pigmentation diversity. PLoS Genet 9: e1003740. PubMed ID: 24009528

Rogers, W. A., Grover, S., Stringer, S. J., Parks, J., Rebeiz, M. and Williams, T. M. (2014). A survey of the trans-regulatory landscape for Drosophila melanogaster abdominal pigmentation. Dev Biol 385: 417-432. PubMed ID: 24269556

Ross, J. M. and Zarkower, D. (2003). Polycomb group regulation of Hox gene expression in C. elegans. Dev. Cell 4: 891-901. 12791273

Rousset, R., Carballes, F., Parassol, N., Schaub, S., Cerezo, D. and Noselli, S. (2017). Signalling crosstalk at the leading edge controls tissue closure dynamics in the Drosophila embryo. PLoS Genet 13(2): e1006640. PubMed ID: 28231245

Salvaing, J., et al. (2008a). The enhancer of trithorax and polycomb corto interacts with cyclin G in Drosophila. PLoS ONE 3(2): e1658. PubMed Citation: 18286205

Salvaing, J., et al. (2008b). Regulation of Abd-B expression by Cyclin G and Corto in the abdominal epithelium of Drosophila. Hereditas 145(3): 138-46. PubMed Citation: 18667003

Sambrani, N., Hudry, B., Maurel-Zaffran, C., Zouaz, A., Mishra, R., Merabet, S. and Graba, Y. (2013a). Distinct molecular strategies for Hox-mediated limb suppression in Drosophila: from cooperativity to dispensability/antagonism in TALE partnership. PLoS Genet 9: e1003307. PubMed ID: 23505377

Sambrani, N., Pradel, J. and Graba, Y. (2013b). Distinct genetic requirements for BX-C mediated specification of abdominal denticles. Dev Dyn. PubMed ID: 24155218

Sánchez, L., et al. (1997). The genital disc of Drosophila melanogaster II. Role of the genes hedgehog, decapentaplegic and wingless. Dev. Genes Evol. 207: 229-241

Sanchez-Herrero, E. (1991). Control of the expression of the bithorax complex genes abdominal-A and Abdominal-B by cis-regulatory regions in Drosophila embryos. Development 111: 437-49

Saunders, A., Core, L. J. and Lis, J. T. (2006). Breaking barriers to transcription elongation. Nat Rev Mol Cell Biol 7: 557-567. PubMed Citation: 16936696

Sato, K., et al. (2007). Specification of cell fate along the proximal-distal axis in the developing chick limb bud. Development 134: 1397-1406. Medline abstract: 17329359

Schweinsberg, S E. and Schedl, P. (2004a). Developmental modulation of Fab-7 boundary function. Development 131: 4743-4749. 15329342

Schweinsberg, S., Hagstrom, K., Gohl, D., Schedl, P., Kumar, R. P., Mishra, R. and Karch, F. (2004b). The enhancer-blocking activity of the Fab-7 boundary from the Drosophila bithorax complex requires GAGA-factor-binding sites. Genetics 168(3): 1371-84. 15579691

Shen, W. F., et al. (1997). AbdB-like Hox proteins stabilize DNA binding by the Meis1 homeodomain proteins. Mol. Cell. Biol. 17(11): 6448-6458

Shimizu, T., Bae, Y.-K. and Hibi, M. (2006). Cdx-Hox code controls competence for responding to Fgfs and retinoic acid in zebrafish neural tissue. Development 133: 4709-4719. Medline abstract: 17079270

Shimojima, T., et al. (2003). Drosophila FACT contributes to Hox gene expression through physical and functional interactions with GAGA factor. Genes Dev. 17: 1605-1616. 12815073

Shiotsugu, J., et al. (2004). Multiple points of interaction between retinoic acid and FGF signaling during embryonic axis formation. Development 131: 2653-2667. 15128657

Shubin, N., Tabin, C. and Carroll, S. (1997). Fossils, genes and the evolution of animal limbs. Nature 388:639-648

Singh, N. P. and Mishra, R. K. (2015). Specific combinations of boundary element and Polycomb response element are required for the regulation of the Hox genes in Drosophila melanogaster. Mech Dev [Epub ahead of print]. PubMed ID: 26254901

Singhvi, A., Frank, C. A. and Garriga, G. (2008). The T-box gene tbx-2, the homeobox gene egl-5 and the asymmetric cell division gene ham-1 specify neural fate in the HSN/PHB lineage. Genetics 179(2): 887-98. PubMed Citation: 18505863

Sipos, L., Mihaly, J., Karch, F., Schedl, P., Gausz, J. and Gyurkovics, H. (1998). Transvection in the Drosophila Abd-B domain: extensive upstream sequences are involved in anchoring distant cis-regulatory regions to the promoter. Genetics 149: 1031-1050. PubMed: 9611211

Small, K. M. and Potter, S. S. (1993). Homeotic transformations and limb defects in Hox A11 mutant mice. Genes Dev 7: 2318-28

Sordino, P., Duboule, D. and Kondo, T. (1996). Zebrafish Hoxa and Evx-2 genes: cloning, developmental expression and implications for the functional evolution of posterior Hox genes. Mech. Dev. 59(2): 165-175

Spitz, F., Gonzalez, F. and Duboule, D. (2003). A global control region defines a chromosomal regulatory landscape containing the HoxD cluster. Cell 113: 405-417. 12732147

Srinivasan, S., et al. (2005). The Drosophila trithorax group protein Kismet facilitates an early step in transcriptional elongation by RNA Polymerase II. Development 132: 1623-1635. 15728673

Stadler, H. S., Higgins, K. M. and Capecchi, M. R. (2001). Loss of Eph-receptor expression correlates with loss of cell adhesion and chondrogenic capacity in Hoxa13 mutant limbs. Development 128: 4177-4188. 11684655

Strutt, H., Cavalli, G. and Paro, R. (1997a). Co-localization of Polycomb protein and GAGA factor on regulatory elements responsible for the maintenance of homeotic gene expression. EMBO J. 16:3621-3632

Strutt, H. and Paro, R. (1997b). The polycomb group protein complex of Drosophila melanogaster has different compositions at different target genes. Mol. Cell. Biol. 17(12): 6773-6783

Sund, N. J., et al. (2001). Tissue-specific deletion of Foxa2 in pancreatic beta cells results in hyperinsulinemic hypoglycemia. Genes Dev. 15: 1706-1715. PubMed Citation: 11445544

Suska, A., Miguel-Aliaga, I. and Thor, S. (2011). Segment-specific generation of Drosophila Capability neuropeptide neurons by multi-faceted Hox cues. Dev. Biol. 353(1): 72-80. PubMed Citation: 21354130

Suzanne M., et al. (2010). Coupling of apoptosis and L/R patterning controls stepwise organ looping. Curr. Biol. 20: 1773-1778. PubMed Citation: 20832313

Teng, Y., Girard, L., Ferreira, H. B., Sternberg, P. W. and Emmons, S. W. (2004). Dissection of cis-regulatory elements in the C. elegans Hox gene egl-5 promoter. Dev. Biol. 276(2): 476-92. 15581880

Thummel, R., et al. (2004). Differences in expression pattern and function between zebrafish hoxc13 orthologs: recruitment of Hoxc13b into an early embryonic role. Dev. Biol. 274: 318-333. 15385162

Taylor, H. S. (1998). A regulatory element of the empty spiracles homeobox gene is composed of three distinct conserved regions that bind regulatory proteins. Molec. Reprod. Dev. 49: 246-253. 9491376

Toker, A. S., et al. (2003). The Caenorhabditis elegans spalt-like gene sem-4 restricts touch cell fate by repressing the selector Hox gene egl-5 and the effector gene mec-3. Development 130: 3831-3840. 12835398

Tolhuis, B., et al. (2011). Interactions among Polycomb domains are guided by chromosome architecture. PLoS Genet. 7(3): e1001343. PubMed Citation: 21455484

Torok, M. A., et al. (1998). Expression of HoxD genes in developing and regenerating axolotl limbs. Dev. Biol. 200(2): 225-233

van der Knaap, J.A., Kumar, B. R. P., Moshkin, Y. M., Langenberg, K., Krijgsveld, J., Heck, A. J. R., Karch, F. and Verrijzer, C. P. (2005). GMP synthetase stimulates histone H2B deubiquitylation by the epigenetic silencer USP7. Mol. Cell 17: 695-707. 15749019

Vargesson, N., et al. (1997). Cell fate in the chick limb bud and relationship to gene expression. Development 124: 1909-1918

Vazquez, J., Muller, M., Pirrotta, V., Sedat, J. W. (2006). The Mcp element mediates stable long-range chromosome-chromosome interactions in Drosophila. Mol. Biol. Cell. 17(5): 2158-65. 16495335

Verdel, A. et al. (2004). RNAi-mediated targeting of heterochromatin by the RITS complex, Science 303: 672-676. 14704433

Vigano, M. A., et al., (1998). Definition of the transcriptional activation domains of three human HOX proteins depends on the DNA-binding context. Mol. Cell. Biol. 18(11): 6201-12. PubMed Citation: 9774637

Vinagre, T., et al. (2010). Evidence for a myotomal Hox/Myf cascade governing nonautonomous control of rib specification within global vertebral domains. Dev Cell. 18(4): 655-61. PubMed Citation: 20412779

Vasanthi, D., Anant, M., Srivastava, S. and Mishra, R. K. (2010). A functionally conserved boundary element from the mouse HoxD locus requires GAGA factor in Drosophila. Development 137(24): 4239-47. PubMed Citation: 21098566

Wada, T., et al. (1998). DSIF, a novel transcription elongation factor that regulates RNA polymerase II processivity, is composed of human Spt4 and Spt5 homologs. Genes Dev. 12: 343-356. PubMed Citation: 9450929

Wahba, G. M., Hostikka, S. L. and Carpenter, E. M. (2001). The paralogous Hox genes Hoxa10 and Hoxd10 interact to pattern the mouse hindlimb peripheral nervous system and skeleton. Dev. Bio. 231: 87-102. 11180954

Wan, M., et al. (2001). Transcriptional mechanisms of BMP-induced osteoprotegrin gene expression. J. Biol. Chem. 276: -/-. 11139569

Wang, G. G., Pasillas, M. P. and Kamps, M. P. (2006). Persistent transactivation by meis1 replaces hox function in myeloid leukemogenesis models: evidence for co-occupancy of meis1-pbx and hox-pbx complexes on promoters of leukemia-associated genes. Mol. Cell. Biol. 26(10): 3902-16. Medline abstract: 16648484

Wang, H. B., Wang, L. J., Erdjument-Bromage, H., Vidal, M., Tempst, P., Jones, R. S. and Zhang, Y. (2004). Role of histone H2A ubiquitination in polycomb silencing. Nature 431: 873-878. 15386022

Wang, S., Tulina, N., Carlin, D. L. and Rulifson, E. J. (2007). The origin of islet-like cells in Drosophila identifies parallels to the vertebrate endocrine axis. Proc. Natl. Acad. Sci. 104: 19873-19878. PubMed Citation: 18056636

Wang, W. and Yoder, J. H. (2012). Hox-mediated regulation of doublesex sculpts sex-specific abdomen morphology in Drosophila. Dev. Dyn. 241(6): 1076-90. PubMed Citation: 22488883

Warot, X., et al. (1997). Gene dosage-dependent effects of the Hoxa-13 and Hoxd-13 mutations on morphogenesis of the terminal parts of the digestive and urogenital tracts. Development 124(23): 4781-4791

Wellik, D. M., Hawkes, P. J. and Capecchi, M. R. (2002). Hox11 paralogous genes are essential for metanephric kidney induction. Genes Dev. 16: 1423-1432. 12050119

Wheeler, S. R., Kearney, J. B., Guardiola, A. R. and Crews, S. T. (2006). Single-cell mapping of neural and glial gene expression in the developing Drosophila CNS midline cells. Dev. Biol. 294: 509-524. PubMed Citation: 16631157

Williams, T. M., Williams, M. E. and Innis, J. W. (2005). Range of HOX/TALE superclass associations and protein domain requirements for HOXA13:MEIS interaction. Dev. Biol. 277(2): 457-71. 15617687

Williams, T. M., et al. (2008). The regulation and evolution of a genetic switch controlling sexually dimorphic traits in Drosophila. Cell 134: 610-623. PubMed Citation: 17928853

Wolle, D., Cleard, F., Aoki, T., Deshpande, G., Schedl, P. and Karch, F. (2015). Functional requirements for Fab-7 boundary activity in the Bithorax Complex. Mol Cell Biol. PubMed ID: 26303531

Woo, C. J., et al. (2010). A region of the human HOXD cluster that confers polycomb-group responsiveness. Cell 140(1): 99-110. PubMed Citation: 20085705

Wu, C. H., et al. (2005). Molecular characterization of Drosophila NELF. Nucleic Acids Res 33: 1269-1279. PubMed Citation: 15741180

Yamagishi T., et al. (2007). Evx2-hoxd13 intergenic region restricts enhancer association to hoxd13 promoter. PLoS ONE 2: e175. PubMed Citation: 17245451

Yamaguchi, Y., Wada, T. and Handa, H. (1998). Interplay between positive and negative elongation factors: Drawing a new view of DRB. Genes Cells 3: 9-15. PubMed Citation: 9581978

Yamamoto, M., et al. (1998). Coordinated expression of Hoxa-11 and Hoxa-13 during limb muscle patterning. Development 125(7): 1325-1335. PubMed Citation: 9477331

Yodera, J. H. and Carroll, S. B. (2006). The evolution of abdominal reduction and the recent origin of distinct Abdominal-B transcript classes in Diptera. Evol. Dev. 8: 241-51. 16686635

Young, T., et al. (2009). Cdx and Hox genes differentially regulate posterior axial growth in mammalian embryos. Dev. Cell 17(4): 516-26. PubMed Citation: 19853565

Zakany, J., et al. (1997). Deletion of a HoxD enhancer induces transcriptional heterochrony leading to transposition of the sacrum. EMBO J. 16(14): 4393-4402

Zavortink, M. and Sakonju, S. (1989). The morphogenetic and regulatory functions of the Drosophila Abdominal-B gene are encoded in overlapping RNAs transcribed from separate promoters. Genes Dev 3: 1969-81

Zhang, H. and Emmons, S. W. (2001). The novel C. elegans gene sop-3 modulates Wnt signaling to regulate Hox gene expression. Development 128: 767-777. 11171401

Zhang, H., et al. (2003). Global regulation of Hox gene expression in C. elegans by a SAM domain protein. Dev. Cell 4: 903-915. 12791274

Zhang, S., Pan, C., Lv, X., Wu, W., Chen, H., Wu, W., Wu, H., Zhang, L. and Zhao, Y. (2017). Repression of Abd-B by Polycomb is critical for cell identity maintenance in adult Drosophila testis. Sci Rep 7(1): 5101. PubMed ID: 28698559

Zhao, Y. and Potter, S. S. (2001). Functional specificity of the Hoxa13 homeobox. Development 128: 3197-3207. 11688568

Zhao, Y. and Potter, S. S. (2002). Functional comparison of the Hoxa 4, Hoxa 10, and Hoxa 11 homeoboxes. Dev. Biol. 244: 21-36. 11900456

Zhou, J., et al. (1996). The Fab-7 element of the bithorax complex attenuate enhancer-promoter interactions in the Drosophila embryo. Genes Dev. 10: 3195-3201

Zhou, J., et al. (1999a). Characterization of the transvection mediating region of the Abdominal-B locus in Drosophila. Development 126: 3057-3065. Medline abstract: 10375498

Zhou, J. and Levine, M. (1999b). A novel cis-regulatory element, the PTS, mediates an anti-insulator activity in the Drosophila embryo. Cell 99: 567-575

Zhu, A. and Kuziora, M. A. (1996). Homeodomain interaction with the ß subunit of the general transcription factor TFIIE. J. Biol. Chem. 271: 20993-96. PubMed Citation: 8702862

Zuniga, A, and Zeller, R. (1999). Gli3 (Xt) and formin (ld) participate in the positioning of the polarising region and control of posterior limb-bud identity. Development 126(1): 13-21. Medline abstract: 9834182

Abdominal-B: Biological Overview | Evolutionary Homologs | Promoter Structure | Transcriptional Regulation | Targets of activity | Protein Interactions | Developmental Biology | Effects of Mutation

date revised: 30 December 2023


Home page: The Interactive Fly © 1997 Thomas B. Brody, Ph.D.

The Interactive Fly resides on the
Society for Developmental Biology's Web server.