1. Allen, B.L., Filla, M.S., and Rapraeger, A.C., Role of heparan sulfate as a tissue-specific regulator of FGF-4 and FGF receptor recognition, J Cell Biol, 2001 Nov 26; 155(5): 845-857. PMID: 11724824. (Featured Article)
  1. Motamed, K., Blake, D.J., Angello, J.G., Allen, B.L., Rapraeger, A.C., Hauschka, S.D., and Sage, E.H, Fibroblast Growth Factor Receptor-1 Mediates the Inhibition of Endothelial Cell Proliferation and the Promotion of Skeletal Myoblast Differentiation by SPARC: A Role for Protein Kinase A, J Cell Biochem, 2003 Oct 1; 90(2): 408-423. PMID: 14505356.
  1. Allen, B.L., and Rapraeger, A.C., Spatial and temporal expression of heparan sulfate in mouse development regulates FGF and FGF receptor assembly, J Cell Biol, 2003, Nov 10; 163 (3): 637-648. PMID: 14610064.
  1. Griffith, B.R., Allen, B.L., Rapraeger, A.C., and Kiessling, L.L., A Polymer Scaffold for Protein Oligomerization, J Am Chem Soc, 2004, Feb 18; 126 (6): 1608-1609. PMID: 14871072.
  1. Jasuja, R.*, Allen, B.L.*, Pappano, W.N.*, Rapraeger, A.C., and Greenspan, D.S., Cell-surface heparan sulfate proteoglycans potentiate chordin antagonism of bone morphogenetic protein signaling and are necessary for cellular uptake of chordin, J Biol Chem, 2004, Dec 3; 279 (49): 51289-51297. Epub 2004 Sep 20. PMID: 15381701.
  1. Tenzen, T., Allen, B.L., Cole, F., Kang, J.S., Krauss, R.S., and McMahon, A.P., The cell surface membrane proteins Cdo and Boc are components and targets of the Hedgehog signaling pathway and feedback networks in mice, Dev Cell, 2006, May; 10 (5): 647-656. Epub 2006 Apr 27. PMID: 16647304. 

See comment in: Cell, 2006 May 5; 125 (3): 435-438. PMID: 16678090. 

  1. Allen, B.L., Tenzen, T., and McMahon, A.P., The Hedgehog-binding proteins Gas1 and Cdo cooperate to positively regulate Shh signaling during mouse development, Genes Dev, 2007, May 15; 21 (10): 1244-1257. PMID: 17504941. (Cover Article) 

See comment in: Sci STKE, 2007 Sep 11; 2007 (403): pe50. PMID: 17848687. 

  1. Chamberlain, C.E., Jeong, J., Guo, C., Allen, B.L., and McMahon, A.P., Notochord-derived Shh concentrates in close association with the apically positioned basal body in neural target cells and forms a dynamic gradient during neural patterning, Development, 2008, Mar; 135 (6): 1097-1106. Epub 2008 Feb 13. PMID: 18272593. (Featured Article; Recommended by Faculty of 1000)
  1. Allen, B.L.‡, Song, J.Y., Izzi, L., Althaus, I.W., Kang, J.S., Charron, F., Krauss, R.S., and McMahon, A.P., Overlapping roles and collective requirement for the coreceptors GAS1, CDO, and BOC in SHH pathway function, Dev Cell, 2011, Jun 14; 20 (6):  775-787. PMCID:  PMC3121104.  
  1. Izzi, L., Lévesque, M., Morin, S., Laniel, D., Wilkes, B.C., Mille, F., Krauss, R.S., McMahon, A.P., Allen, B.L., and Charron, F., Boc and Gas1 each form distinct Shh receptor complexes with Ptch1 and are required for Shh-mediated cell proliferation, Dev Cell, 2011, Jun 14; 20 (6):  788-801.  PMCID:  PMC3432913.
  1. Holtz, A.M, Peterson, K.A., Nishi, Y., Morin, S., Song, J.Y., Charron, F., McMahon, A.P., and Allen, B.L. ‡, Essential role for ligand-dependent feedback antagonism of vertebrate Hedgehog signaling by PTCH1, PTCH2, and HHIP1 during neural patterning, Development, 2013, Aug 15; 140 (16):  3423-3434. PMCID:  PMC3737722. (Cover Article) 
  1. Mathew, E.*, Collins, M.A.*, Fernandez-Barrena, M.G., Holtz, A.M., Yan, W., Hogan, J.O., Tata, Z. Allen B.L., Fernandez-Zapico, M.E., and Pasca di Magliano, M., The Transcription Factor GLI1 Modulates the Inflammatory Response During Pancreatic Tissue Remodeling, J Biol Chem, 2014, Oct 3; 289 (40):  27727-27743. PMCID:  PMC4183809.
  1. Takao, D., Dishinger, J.F., Kee, H.L., Pinskey, J.M., Allen, B.L., and Verhey, K.J., A Novel Assay for Clogging the Ciliary Pore Complex Distinguishes Mechanisms of Cytosolic and Membrane Protein Entry, Curr Biol, 2014, Oct 6; 24 (19):  2288-2294. PMCID:  PMC4189977.
  1. Camp, D., Hatian He, B., Li, S., Althaus, I.W., Holtz, A.M., Allen, B.L.‡, Charron, F., and van Meyel, D.J., Ihog and Boi Elicit Hedgehog Signaling via Ptc but do not aid Ptc in Sequestering the Hh Ligand, Development, 2014, Oct 14; 141 (20):  3879-3888. PMCID:  PMC4197687.
  1. Mathew, E., Zhang, Y., Holtz, A.M., Kane, K.T., Song, J.Y., Allen B.L.,‡ and Pasca di Magliano, M., Dosage-Dependent Regulation of Pancreatic Cancer Growth and Angiogenesis by Hedgehog Signaling, Cell Rep, 2014, Oct 23; 9 (2):  484-494.  PMCID:  PMC4362534. (Recommended by Faculty of 1000)
  1. Kumari, A.*, Ermilov, A.N.*, Allen, B.L.‡, Bradley, R.M., Dlugosz, A.A., and Mistretta, C.M., Hedgehog pathway blockade with the cancer drug LDE225 disrupts taste organs and taste sensation, J Neurophysiol, 2015, Feb 1; 113 (3):  1034-1040. PMCID:  PMC4312875. (Featured Article; APSselect article, March 2015; Featured in Dermatology Times)
  1. Carpenter, B.S., Barry, R.L., Verhey, K.J., and Allen, B.L.†, The heterotrimeric kinesin-2 complex interacts with and regulates GLI protein function, J Cell Sci, 2015, Mar 1; 128 (5):  1034-1050. PMCID:  PMC4342584. (Featured Article; Cover Article)
  1. Holtz, A.M., Griffiths, S.C., Davis, S.J., Bishop, B., Siebold, C., and Allen, B.L.†, HHIP1 is a secreted, heparan sulfate-binding Hedgehog pathway antagonist, J Cell Biol, 2015, Jun 8; 209 (5):  739-758. PMCID:  PMC4460154. (Featured Article; Cover Article)
  1. Song, J.Y., Holtz, A.M., Pinskey, J.M., and Allen, B.L.†, Distinct structural requirements for CDON and BOC in the promotion of Hedgehog signaling, Dev Biol, 2015, Jun 15; 402 (2):  239-252. PMCID:  PMC4450140.
  1. Joiner A.M.*, Green, W.W.*, McIntyre, J.C., Allen, B.L., Schwob, J.E., and Martens, J.R., Primary Cilia on Horizontal Basal Cells Regulate Regeneration of the Olfactory Epithelium, J Neurosci, 2015, Oct 7; 35 (40):  13761-13772. PMCID:  PMC4595624.
  1. Gurdziel, K.*, Udager, A.M.*, Lorberbaum, D.S.*, Song, J.Y.*, Richards, N., Parker, D.S., Johnson, L.A., Allen, B.L.‡, Barolo, S., and Gumucio, D.L., Identification and validation of novel Hedgehog-responsive enhancers predicted by computational analysis of Ci/Gli binding site density, PLoS ONE, 2015, Dec 28; 10 (12):  e0145225. doi:10.1371/journal.pone.0145225. eCollection 2015. PMCID:  PMC4692483.
  1. Coffman, L.G., Choi, Y., Mclean, K., Allen, B.L., Pasca di Magliano, M., and Buckanovich, R.J., Human Carcinoma-Associated Mesenchymal Stem Cells Promote Ovarian Cancer Chemotherapy Resistance via a BMP4/HH signaling loop, Oncotarget, 2016, Feb 9; 7(6):  6916-6932. PMCID:  PMC4872758.
  1. Lorberbaum, D.S.*, Ramos, A.I.*, Peterson, K.A., Carpenter, B.S., De, S., Parker, D.S., Chiang, A.C.Y, Kassis, J.A., Allen, B.L., McMahon, A.P., and Barolo, S., An ancient yet flexible cis-regulatory architecture allows localized Hedgehog tuning by patched/PTCH1, eLife, 2016, May 5; 5. pii: e13550. doi: 10.7554/eLife.13550. PMCID:  PMC4887206.
  1. Ermilov, A.N.*, Kumari, A.*, Li, L., Joiner, A.M., Grachtchouk, M.A., Allen, B.L., Dlugosz, A.A., and Mistretta, C.M., Maintenance of Taste Organs is Strictly Dependent on Epithelial Hedgehog/GLI Signaling, PLoS Genet, 2016, Nov 28; 12(11):e1006442. doi:  10.1371/journal.pgen.1006442. eCollection 2016. PMCID:  PMC5125561.
  1. Zhang, H., Kamiya, N., Tsuji, T., Takeda, H., Scott, G., Rajderkar, S., Ray, M.K., Mochida, Y., Allen, B., Lefebvre, V., Hung, I.H., Ornitz, D.M., Kunieda, T., and Mishina, Y., Elevated Fibroblast Growth Factor Signaling is critical for the pathogenesis of the dwarfism in Evc2/Limbin mutant mice, PLoS Genet, 2016, Dec 27; 12(12): e1006510. doi:  10.1371/journal.pgen.1006510. eCollection 2016. PMCID:  PMC5189957.  
  1. Pinskey, J.M., Franks, N.E., McMellen, A.N., Giger, R.J., and Allen, B.L.†, Neuropilin-1 promotes Hedgehog signaling through a novel cytoplasmic motif, J Biol Chem, 2017, Jun 30; pii: jbc.M117.783845. doi: 10.1074/jbc.M117.783845.  PMCID:  PMC5602381.
  1. Hong, M., Srivastava, K., Kim, S., Allen, B.L., Leahy, D.J., Hu, P., Roessler, E., Krauss, R.S., and Muenke, M., BOC is a Modifier Gene in Holoprosencephaly, Hum Mutat, 2017, Jul 4. doi:  10.1002/humu.23286. PMCID:  PMC5673120.
  1. Kumari, A., Ermilov, A.E., Grachtchouk, M.A., Dlugosz, A.A., Allen, B.L., Bradley, R.M., and Mistretta, C.M., Recovery of taste organs and sensory function after severe loss from Hedgehog/Smoothened inhibition with cancer drug sonidegib, Proc Natl Acad Sci USA, 2017, Nov 28; 114(48):  E10369-E10378. PMCID:  PMC5715770.  
  1. Orchard, P., White, J.S., Thomas, P.E., Mychalowych, A., Kiseleva, A., Hensley, J., Allen, B., Parker, S.C.J., and Keegan, C.E., Genome-wide chromatin accessibility and transcriptome profiling show minimal epigenome changes and coordinated transcriptional dysregulation of hedgehog signaling in Danforth’s short tail mice, Hum Mol Genet., 2018, Oct 31; doi: 10.1093/hmg/ddy378. [Epub ahead of print]. PMID:  30380057.
  1. Razumilava, N., Shiota, J., Mohamad Zaki, N.H., Ocadiz-Ruiz, R., Cieslak, C.M., Zakharia, K., Allen, B.L., Gores, G.J., Samuelson, L.C., and Merchant, J.L., Hedgehog signaling modulates Interluekin-33-dependent extrahepatic bile duct epithelial cell proliferation in mice, Hepatol Commun., 2018, Dec 11; 3(2):  277-292. Doi:  10.1002/hep4. 1295. eCollection 2019 Feb. PMCID:  PMC6357834.
  1. Engelke, M.F., Waas, B., Kearns, S.E., Suber, A., Boss, A., Allen, B.L., and Verhey, K.J., Acute inhibition of heterotrimeric kinesin-2 function reveals mechanisms of intraflagellar transport in mammalian cilia, Curr Biol.  2019 Apr 1;29(7):1137-1148.e4. doi: 10.1016/j.cub.2019.02.043. Epub 2019 Mar 21. PMCID:  PMC6445692.
  1. Oh, Y.S., Wang, E.J., Gailey, C.D., Brautigan, D.L., Allen, B.L., and Fu, Z., Ciliopathy-Associated Protein Kinase ICK Requires Its Non-Catalytic Carboxyl-Terminal Domain for Regulation of Ciliogenesis, Cells.  2019 Jul 4;8(7). pii: E677. doi: 10.3390/cells8070677. PMCID:  PMC6678984.
  1. Garcia, P.E., Adoumie, M., Kim, E.C., Zhang, Y., Scales, M.K., El-Tawil, Y.S., Shaikh, A.Z., Wen, H.J., Bednar, F., Allen, B.L., Wellik, D.M., Crawford, H.C., Pasca di Magliano, M., Differential Contribution of Pancreatic Fibroblasts Subsets to the Pancreatic Cancer Stroma, Cell Mol Gastroenterol Hepatol. 2020;10(3):581-599. doi: 10.1016/j.jcmgh.2020.05.004. Epub 2020 May 23. PMCID: PMC7399194.
  1. Echevarria-Andino, M.L., and Allen, B.L.‡, The Hedgehog Co-Receptor BOC Differentially Regulates SHH Signaling During Craniofacial Development, Development. 2020, Dec 14; 147(23):dev189076. doi: 10.1242/dev.189076. PMID:  33060130. PMCID:  PMC7758635.
  1. Steele, N.G.*, Carpenter E,.S.*, Kemp S.B.*, Sirihorachai V.*, The, S., Delrosario, L., Lazarus, J., Amir, E.D., Gunchick, V., Espinoza, C., Bell, S., Harris, L., Lima, F., Irizarry-Negron, V., Paglia, D., Macchia, J., Chu, A.K.Y., Schofield, H., Wamsteker, E.J., Kwon, R., Schulman, A., Prabhu, A., Law, R., Sondhi, A., Yu, J., Patel, A., Donahue, K., Nathan, H., Cho, C., Anderson, M.A., Sahai, V., Lyssiotis, C.A., Zou, W., Allen B.L., Rao, A., Crawford, H.C., Bednar, F., Frankel, T.L., Pasca di Magliano, M.‡, Multimodal Mapping of the Tumor and Peripheral Blood Immune Landscape in Human Pancreatic Cancer, Nat Cancer. 2020, Nov; 1(11):  1097-1112. doi: 10.1038/s43018-020-00121-4. Epub 2020 Oct 26. PMCID: PMC8294470.
  1. Steele, N.G.*, Biffi, G.*, Kemp, S.B., Zhang, Y., Drouillard, D., Syu, L, Hao, Y, Oni, T.E., Brosnan, E. , Elyada, E., Doshi, A., Hansma, C., Espinoza, C., Abbas, A., The, S., Irizarry-Negron, V., Halbrook, C.J., Franks, N.E., Hoffman, M.T., Brown, K., Carpenter, E.S., Nwosu, Z., Johnson, C., Lima, F., Anderson, M.A., Park, Y., Crawford, H.C., Lyssiotis, C.A., Frankel, T.L., Rao, A., Bednar, F., Dlugosz, A.A., Preall, J.B., Tuveson, D.A., Allen, B.L., Pasca di Magliano, M.‡, Inhibition of Hedgehog signaling alters fibroblast composition in pancreatic cancer, Clin Cancer Res. 2021 Apr 1;27(7):2023-2037. doi: 10.1158/1078-0432.CCR-20-3715. Epub 2021 Jan 25. PMCID:  PMC8026631. (Cover Article)
  1. Marczenke, M., Yumi Sunaga-Franze, D., Popp, O., Althaus, I.W., Sauer, S., Mertins, P., Christ, A., Allen, B.L., and Willnow, T., GAS1 is required for Notch-dependent facilitation of SHH signaling in neuroepithelial cells, Development, 2021 Nov 1; 148 (21):dev2000080. Doi:  10.1242/dev.200080. Epub Nov 11. PMCID:  PMC8627604.
  • Kumari, A., Li, L., Ermilov, A.N., Franks, N.E., Dlugosz, A.A., Allen, B.L. ‡, and Mistretta, C.M. ‡, Unique lingual expression of the Hedgehog pathway antagonist Hedgehog-interacting protein in filiform papillae during homeostasis and ectopic expression in fungiform papillae during Hedgehog signaling inhibition, Dev Dyn, 2022 Jan 19; doi: 10.1002/dvdy.456. Online ahead of print. PMID: 35048440.
  1. Velez-Delgado, A., Donahue, K.L.,, Brow, K.L., Du, W., Irizarry-Negron, V., Menjivar, R., Lasse Opsahl, E.L., Steele, N.G., The, S., Lazarus, J., Sirihorachai, V.R., Yan, W., Kemp, S.B., Kerk, S.A., Bollampally, M., Yang, S., Scales, M.K., Avritt, F.R., Lima, F., Lyssiotis, C.A., Rao, A., Crawford, H.C., Bednar, F., Frankel, T.L., Allen, B.L., Zhang, Y., and Pasca di Magliano, M.,  Extrinsic KRAS signaling shapes the pancreatic microenvironment through fibroblast reprogramming, Cell Mol Gastroenterol Hepatol, 2022 Mar 1; S2352-345X(22)00043-1. doi: 10.1016/j.jcmgh.2022.02.016. Online ahead of print. PMID: 35245687.
  1. Mohamad Zaki, N.H., Shiota, J., Calder, A.N., Keeley, T.M., Allen, B.L., Nakao, K., Samuelson, L.C., and Razumilava, N., C-X-C motif chemokine ligand 1 induced by Hedgehog signaling promotes mouse extrahepatic bile duct repair after acute injury, Hepatology, 2022 Apr 7; doi:  10.1002/hep.32492. Online ahead of print. PMID:  35388502.

Review and Preview Articles

  1. Wang, Y.*, McMahon, A.P., and Allen, B.L.*, Shifting paradigms in Hedgehog signaling, Curr Opin Cell Biol, 2007, Apr; 19(2): 159-165. Epub 2007 Feb 15. PMID: 17303409.
  1. Allen, B.L.†, Spinal Cords Built to Scale, Dev Cell, 2016, Apr 18; 37(2):  108-109; doi:  10.1016/j.devcel.2016.04.007. PMID:  27093078.
  1. Garcia, P.E.*, Scales, M.K.*, Allen, B.L., and Pasca di Magliano, M., Pancreatic fibroblast heterogeneity: from development to cancer, Invited Review, Cells, 2020, Nov 12; 9(11):  2464. doi:  10.3390/cells9112464. PMID:  33198201. PMCID:  PMC7698149.