Hugh Shanahan - Publications

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63 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any innacuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2014 Shanahan HP, Owen AM, Harrison AP. Bioinformatics on the cloud computing platform Azure. Plos One. 9: e102642. PMID 25050811 DOI: 10.1371/journal.pone.0102642  1
2014 Chen D, Fu LY, Zhang Z, Li G, Zhang H, Jiang L, Harrison AP, Shanahan HP, Klukas C, Zhang HY, Ruan Y, Chen LL, Chen M. Dissecting the chromatin interactome of microRNA genes. Nucleic Acids Research. 42: 3028-43. PMID 24357409 DOI: 10.1093/nar/gkt1294  1
2014 Harrison A, Shanahan H. An overview of gene regulation Approaches in Integrative Bioinformatics: Towards the Virtual Cell. 21-70. DOI: 10.1007/978-3-642-41281-3_2  1
2013 Noir S, Bömer M, Takahashi N, Ishida T, Tsui TL, Balbi V, Shanahan H, Sugimoto K, Devoto A. Jasmonate controls leaf growth by repressing cell proliferation and the onset of endoreduplication while maintaining a potential stand-by mode. Plant Physiology. 161: 1930-51. PMID 23439917 DOI: 10.1104/pp.113.214908  1
2012 Shanahan HP, Memon FN, Upton GJ, Harrison AP. Normalized Affymetrix expression data are biased by G-quadruplex formation. Nucleic Acids Research. 40: 3307-15. PMID 22199258 DOI: 10.1093/nar/gkr1230  1
2011 Wang X, Roig-Villanova I, Khan S, Shanahan H, Quail PH, Martinez-Garcia JF, Devlin PF. A novel high-throughput in vivo molecular screen for shade avoidance mutants identifies a novel phyA mutation. Journal of Experimental Botany. 62: 2973-87. PMID 21398429 DOI: 10.1093/jxb/err062  1
2009 Shanahan HP. Can we improve on the identification of transcription factor binding sites? Proceedings of the Kdd-09 Workshop On Statistical and Relational Learning in Bioinformatics, Strebio '09. 39-40. DOI: 10.1145/1562090.1562099  1
2009 Woodley MA, Naish D, Shanahan HP. How many extant pinniped species remain to be described? Historical Biology. 20: 225-235. DOI: 10.1080/08912960902830210  1
2008 López-Juez E, Dillon E, Magyar Z, Khan S, Hazeldine S, de Jager SM, Murray JA, Beemster GT, Bögre L, Shanahan H. Distinct light-initiated gene expression and cell cycle programs in the shoot apex and cotyledons of Arabidopsis. The Plant Cell. 20: 947-68. PMID 18424613 DOI: 10.1105/tpc.107.057075  1
2005 Ferrer-Costa C, Shanahan HP, Jones S, Thornton JM. HTHquery: a method for detecting DNA-binding proteins with a helix-turn-helix structural motif. Bioinformatics (Oxford, England). 21: 3679-80. PMID 16030074 DOI: 10.1093/bioinformatics/bti575  1
2005 Shanahan HP, Thornton JM. Amino acid architecture and the distribution of polar atoms on the surfaces of proteins. Biopolymers. 78: 318-28. PMID 15898105 DOI: 10.1002/bip.20295  1
2004 Shanahan HP, Garcia MA, Jones S, Thornton JM. Identifying DNA-binding proteins using structural motifs and the electrostatic potential. Nucleic Acids Research. 32: 4732-41. PMID 15356290 DOI: 10.1093/nar/gkh803  1
2004 Shanahan HP, Thornton JM. An examination of the conservation of surface patch polarity for proteins. Bioinformatics (Oxford, England). 20: 2197-204. PMID 15073014 DOI: 10.1093/bioinformatics/bth218  1
2003 Jones S, Shanahan HP, Berman HM, Thornton JM. Using electrostatic potentials to predict DNA-binding sites on DNA-binding proteins. Nucleic Acids Research. 31: 7189-98. PMID 14654694 DOI: 10.1093/nar/gkg922  1
2003 Aoki S, Boyd G, Burkhalter R, Ejiri S, Fukugita M, Hashimoto S, Iwasaki Y, Kanaya K, Kaneko T, Kuramashi Y, Nagai K, Okawa M, Shanahan HP, Ukawa A, Yoshié T. Light hadron spectrum and quark masses from quenched lattice QCD Physical Review D. 67. DOI: 10.1103/PhysRevD.67.034503  1
2002 Ali Khan A, Aoki S, Boyd G, Burkhalter R, Ejiri S, Fukugita M, Hashimoto S, Ishizuka N, Iwasaki Y, Kanaya K, Kaneko T, Kuramashi Y, Manke T, Nagai K, Okawa M, ... Shanahan HP, et al. Light hadron spectroscopy with two flavors of dynamical quarks on the lattice Physical Review D. 65. DOI: 10.1103/PhysRevD.65.054505  1
2001 Yoshié T, Khan AA, Aoki S, Boyd G, Burkhalter R, Ejiri S, Fukugita M, Hashimoto S, Ishizuka N, Iwasaki Y, Kanaya K, Kaneko T, Kuramashi Y, Manke T, Nagai K, ... ... Shanahan HP, et al. Light hadron spectrum from quenched lattice QCD: Results from the CP-PACS Progress of Theoretical Physics. 105: 37-75. DOI: 10.1143/PTP.105.37  1
2001 Ali Khan A, Aoki S, Burkhalter R, Ejiri S, Fukugita M, Hashimoto S, Ishizuka N, Iwasaki Y, Kanaya K, Kaneko T, Kuramashi Y, Manke T, Nagai KI, Okamoto M, Okawa M, ... Shanahan HP, et al. Equation of state in finite-temperature QCD with two flavors of improved Wilson quarks Physical Review D. 64. DOI: 10.1103/PhysRevD.64.074510  1
2001 Khan A, Aoki S, Burkhalter R, Ejiri S, Fukugita M, Hashimoto S, Ishizuka N, Ivvasaki Y, Kanaya K, Kaneko T, Kuramashi Y, Manke T, Nagai K, Okawa M, Shanahan HP, et al. Decay constants of B and D mesons from improved relativistic lattice QCD with two flavors of sea quarks Physical Review D. 64. DOI: 10.1103/PhysRevD.64.034505  1
2001 Khan A, Aoki S, Aoki Y, Burkhalter R, Ejiri S, Fukugita M, Hashimoto S, Ishizuka N, Iwasaki Y, Izubuchi T, Kanaya K, Kaneko T, Kuramashi Y, Manke T, Nagai KI, ... ... Shanahan HP, et al. Chiral properties of domain-wall quarks in quenched QCD Physical Review D. 63. DOI: 10.1103/PhysRevD.63.114504  1
2001 Alford M, Drummond IT, Morgan RR, Shanahan H, Peardon M. Measuring the aspect ratio renormalization of anisotropic-Iattice gluons Physical Review D. 63. DOI: 10.1103/PhysRevD.63.074501  1
2001 Ali Khan A, Aoki S, Boyd G, Burkhalter R, Ejiri S, Fukugita M, Hashimoto S, Ishizuka N, Iwasaki Y, Kanaya K, Kaneko T, Kuramashi Y, Manke T, Nagai KI, Okawa M, ... Shanahan HP, et al. Full QCD light hadron spectrum and quark masses: Final results from CP-PACS Nuclear Physics B - Proceedings Supplements. 94: 229-232. DOI: 10.1016/S0920-5632(01)00961-6  1
2001 Ali Khan A, Aoki S, Burkhalter R, Ejiri S, Fukugita M, Hashimoto S, Ishizuka N, Iwasaki Y, Kanaya K, Kaneko T, Kuramashi Y, Nagai KI, Okamoto M, Okawa M, Shanahan HP, et al. Quenched charmonium spectrum on anisotropic lattices Nuclear Physics B - Proceedings Supplements. 94: 325-328. DOI: 10.1016/S0920-5632(01)00951-3  1
2001 Ali Khan A, Aoki S, Aoki Y, Burkhalter R, Ejiri S, Fukugita M, Hashimoto S, Ishizuka N, Iwasaki Y, Izubuchi T, Kanaya K, Kaneko T, Kuramashi Y, Nagai KI, Noaki J, ... ... Shanahan HP, et al. Kaon B-parameter from quenched domain-wall QCD Nuclear Physics B - Proceedings Supplements. 94: 287-290. DOI: 10.1016/S0920-5632(01)00934-3  1
2001 Ali Khan A, Aoki S, Aoki Y, Burkhalter R, Ejiri S, Fukugita M, Hashimoto S, Ishizuka N, Iwasaki Y, Izubuchi T, Kanaya K, Kaneko T, Kuramashi Y, Nagai KI, Noaki J, ... ... Shanahan HP, et al. Calculation of K → π matrix elements in quenched domain-wall QCD Nuclear Physics B - Proceedings Supplements. 94: 283-286. DOI: 10.1016/S0920-5632(01)00933-1  1
2001 Ali Khan A, Aoki S, Aoki Y, Burkhalter R, Ejiri S, Fukugita M, Hashimoto S, Ishizuka N, Iwasaki Y, Izubuchi T, Kanaya K, Kaneko T, Kuramashi Y, Manke T, Nagai KI, ... ... Shanahan HP, et al. Eigenvalues of the hermitian Wilson-Dirac operator and chiral properties of the domain-wall fermion Nuclear Physics B - Proceedings Supplements. 94: 725-728. DOI: 10.1016/S0920-5632(01)00897-0  1
2001 Ali Khan A, Aoki S, Burkhalter R, Ejiri S, Fukugita M, Hashimoto S, Ishizuka N, Iwasaki Y, Kanaya K, Kaneko T, Kuramashi Y, Manke T, Nagai K, Okawa M, Shanahan HP, et al. Topological susceptibility in lattice QCD with two flavors of dynamical quarks Physical Review D. 64.  1
2001 Ali Khan A, Aoki S, Aoki Y, Burkhalter R, Ejiri S, Fukugita M, Hashimoto S, Ishizuka N, Iwasaki Y, Izubuchi T, Kanaya K, Kaneko T, Kuramashi Y, Nagai KI, Okawa M, ... Shanahan HP, et al. Kaon B parameter from quenched domain-wall QCD Physical Review D. 64.  1
2001 Manke T, Ali Khan A, Aoki S, Burkhalter R, Ejiri S, Fukugita M, Hashimoto S, Ishizuka N, Iwasaki Y, Kanaya K, Kaneko T, Kuramashi Y, Nagai K, Okawa M, Shanahan HP, et al. Hybrid quarkonia with dynamical sea quarks Physical Review D. 64.  1
2001 Ali Khan A, Aoki S, Burkhalter R, Ejiri S, Fukugita M, Hashimoto S, Ishizuka N, Iwasaki Y, Kanaya K, Kaneko T, Kuramashi Y, Manke T, Nagai K, Okawa M, Shanahan HP, et al. B meson decay constants from two-flavor lattice QCD with nonrelativistic heavy quarks Physical Review D - Particles, Fields, Gravitation and Cosmology. 64: 545041-5450424.  1
2000 Khan AA, Aoki S, Boyd G, Burkhalter R, Ejiri S, Fukugita M, Hashimoto S, Ishizuka N, Iwasaki Y, Kanaya K, Kaneko T, Kuramashi Y, Manke T, Nagai K, Okawa M, ... Shanahan HP, et al. Dynamical quark effects on light quark masses Physical Review Letters. 85: 4674-7. PMID 11082624 DOI: 10.1103/PhysRevLett.85.4674  1
2000 Aoki S, Boyd G, Burkhalter R, Ejiri S, Fukugita M, Hashimoto S, Iwasaki Y, Kanaya K, Kaneko T, Kuramashi Y, Nagai K, Okawa M, Shanahan HP, Ukawa A, Yoshie T. Quenched light hadron spectrum Physical Review Letters. 84: 238-41. PMID 11015880  1
2000 Davis AC, Kibble TWB, Rajantie A, Shanahan HP. Topological defects in lattice gauge theories Journal of High Energy Physics. 4: 15-23.  1
2000 Manke T, Ali Khan A, Aoki S, Burkhalter R, Ejiri S, Fukugita M, Hashimoto S, Ishizuka N, Iwasaki Y, Kanaya K, Kaneko T, Kuramashi Y, Nagai K, Okawa M, Shanahan HP, et al. Sea quark effects on quarkonia Physical Review D - Particles, Fields, Gravitation and Cosmology. 62: 1-13.  1
2000 Bowler KC, Boyle P, Garden J, Kenway RD, Richards DG, Rowland PA, Ryan SM, Simma H, Michael C, Shanahan HP, Wittig H. Quenched QCD with O(a) improvement: The spectrum of light hadrons Physical Review D - Particles, Fields, Gravitation and Cosmology. 62: 1-19.  1
2000 Ali Khan A, Aoki S, Boyd G, Burkhalter R, Ejiri S, Fukugita M, Hashimoto S, Ishizuka N, Iwasaki Y, Kanaya K, Kaneko T, Kuramashi Y, Manke T, Nagai K, Okawa M, ... Shanahan HP, et al. Light hadron spectrum and quark masses in QCD with two flavors of dynamical quarks Nuclear Physics B - Proceedings Supplements. 83: 176-178.  1
2000 Ali Khan A, Aoki S, Burkhalter R, Ejiri S, Fukugita M, Hashimoto S, Ishizuka N, Iwasaki Y, Kanaya K, Kaneko T, Kuramashi Y, Manke T, Nagai K, Okawa M, Shanahan HP, et al. Heavy-light decay constants from clover heavy quark action in QCD with two flavors of dynamical quarks Nuclear Physics B - Proceedings Supplements. 83: 331-333.  1
2000 Ali Khan A, Aoki S, Burkhalter R, Ejiri S, Fukugita M, Hashimoto S, Ishizuka N, Iwasaki Y, Kanaya K, Kaneko T, Kuramashi Y, Manke T, Nagai K, Okawa M, Shanahan HP, et al. Heavy quarkonia from anisotropic and isotropic lattices Nuclear Physics B - Proceedings Supplements. 83: 319-321.  1
2000 Ali Khan A, Aoki S, Burkhalter R, Ejiri S, Fukugita M, Hashimoto S, Ishizuka N, Iwasaki Y, Kanaya K, Kaneko T, Kuramashi Y, Manke T, Nagai K, Okawa M, Shanahan HP, et al. Eta meson mass and topology in QCD with two light flavors Nuclear Physics B - Proceedings Supplements. 83: 162-164.  1
2000 Ali Khan A, Aoki S, Aoki Y, Burkhalter R, Ejiri S, Fukugita M, Hashimoto S, Ishizuka N, Iwasaki Y, Izubuchi T, Kanaya K, Kaneko T, Kuramashi Y, Manke T, Nagai K, ... ... Shanahan HP, et al. Quenched QCD with domain-wall fermions on coarse lattices Nuclear Physics B - Proceedings Supplements. 83: 591-593.  1
2000 Ali Khan A, Aoki S, Burkhalter R, Ejiri S, Fukugita M, Hashimoto S, Ishizuka N, Iwasaki Y, Kanaya K, Kaneko T, Kuramashi Y, Manke T, Nagai K, Okamoto M, Okawa M, ... Shanahan HP, et al. Equation of state in finite-temperature QCD with improved Wilson quarks Nuclear Physics B - Proceedings Supplements. 83: 360-362.  1
2000 Ali Khan A, Aoki S, Burkhalter R, Ejiri S, Fukugita M, Hashimoto S, Ishizuka N, Iwasaki Y, Kanaya K, Kaneko T, Kuramashi Y, Manke T, Nagai K, Okawa M, Shanahan HP, et al. Heavy-light spectrum and decay constant from NRQCD with two flavors of dynamical quarks Nuclear Physics B - Proceedings Supplements. 83: 265-267.  1
1999 Manke T, Shanahan HP, Ali Khan A, Aoki S, Burkhalter R, Ejiri S, Fukugita M, Hashimoto S, Ishizuka N, Iwasaki Y, Kanaya K, Kaneko T, Kuramashi Y, Nagai K, Okawa M, et al. Hybrid quarkonia on asymmetric lattices Physical Review Letters. 82: 4396-4399.  1
1999 Shanahan HP, Boyle P, Davies CTH, Newton H. A non-perturbative calculation of the mass of the Bc UKQCD collaboration Physics Letters, Section B: Nuclear, Elementary Particle and High-Energy Physics. 453: 289-294.  1
1999 Aoki S, Boyd G, Burkhalter R, Ejiri S, Fukugita M, Hashimoto S, Iwasaki Y, Kanaya K, Kaneko T, Kuramashi Y, Nagai K, Okawa M, Shanahan HP, Ukawa A, Yoshié T. Quenched light hadron spectrum with the Wilson quark action: Final results from CP-PACS Nuclear Physics B - Proceedings Supplements. 73: 189-191.  1
1999 Aoki S, Boyd G, Burkhalter R, Ejiri S, Fukugita M, Hashimoto S, Iwasaki Y, Kanaya K, Kaneko T, Kuramashi Y, Nagai K, Okawa M, Shanahan HP, Ukawa A, Yoshié T. Full QCD light hadron spectrum from the CP-PACS Nuclear Physics B - Proceedings Supplements. 73: 192-194.  1
1999 Aoki S, Burkhalter R, Ejiri S, Fukugita M, Hashimoto S, Iwasaki Y, Kanaya K, Kaneko T, Kuramashi Y, Nagai K, Okawa M, Shanahan HP, Ukawa A, Yoshié T. Heavy quark physics in Nf = 2 QCD Nuclear Physics B - Proceedings Supplements. 73: 375-377.  1
1999 Aoki S, Boyd G, Burkhalter R, Ejiri S, Fukugita M, Hashimoto S, Iwasaki Y, Kanaya K, Kaneko T, Kuramashi Y, Nagai K, Okawa M, Shanahan HP, Ukawa A, Yoshié T. The static quark potential in full QCD Nuclear Physics B - Proceedings Supplements. 73: 216-218.  1
1999 Drummond IT, Horgan RR, Manke T, Shanahan HP. NRQCD on an anisotropic lattice Nuclear Physics B - Proceedings Supplements. 73: 336-338.  1
1998 Shanahan HP, Davis AC. The Chern-Simons number as an order parameter: Classical sphaleron transitions for SU( 2)-Higgs field theories for mH ≈ 120 GeV Physics Letters, Section B: Nuclear, Elementary Particle and High-Energy Physics. 431: 135-140.  1
1998 Manke T, Drummond IT, Horgan RR, Shanahan HP. Heavy hybrid states from NRQCD Physical Review D - Particles, Fields, Gravitation and Cosmology. 57: R3829-R3832.  1
1998 Manke T, Drummond IT, Horgan RR, Shanahan HP. Hybrid quarkonia with high statistics from NRQCD Nuclear Physics B - Proceedings Supplements. 63: 332-334.  1
1998 Davies CTH, Lidsey AJ, Shanahan HP. A study of the quenched b̄c mass spectrum at β=6.2 Nuclear Physics B - Proceedings Supplements. 63: 323-325.  1
1997 Manke T, Drummond IT, Horgan RR, Shanahan HP. Y spectrum from NRQCD with improved action Physics Letters, Section B: Nuclear, Elementary Particle and High-Energy Physics. 408: 308-314.  1
1997 Shanahan HP, Davies CTH, Bowler KC, Kenway RD, Richards DG, Rowland PA, Ryan SM, Lacock P, Michael C, Burford DR, Stella N, Wittig H. Effect of tree-level and mean-field improvement on the light-hadron spectrum in quenched QCD Physical Review D - Particles, Fields, Gravitation and Cosmology. 55: 1548-1558.  1
1996 Michael C, Shanahan H. Masses and decay constants of the light mesons in the quenched approximation using the tadpole-improved SW-clover action Nuclear Physics B - Proceedings Supplements. 47: 337-344. DOI: 10.1016/0920-5632(96)00069-2  1
1996 Flynn JM, Nieves J, Bowler KC, Hazel NM, Henty DS, Hoeber H, Kenway RD, Richards DG, Gough BJ, Lellouch LP, Shanahan HP. Lattice study of the decay B̄0 → p+l-v̄l: Model-independent determination of |Vub| Nuclear Physics B. 461: 327-349.  1
1995 Bowler KC, Hazel NM, Henty DS, Hoeber H, Kenway RD, Richards DG, Shanahan HP, Simone JN, Lellouch L, Nieves J, Sachrajda CT, Wittig H. Lattice study of semileptonic B decays: B̄→Dlν̄ decays Physical Review D. 52: 5067-5094. DOI: 10.1103/PhysRevD.52.5067  1
1995 Bowler KC, Hazel NM, Henty DS, Hoeber H, Kenway RD, Richards DG, Shanahan HP, Simone JN, Flynn JM, Gough BJ. Lattice calculation of the branching ratio for some of the exclusive modes of b→sγ Physical Review D. 51: 4955-4970. DOI: 10.1103/PhysRevD.51.4955  1
1995 Burford DR, Duong HD, Flynn JM, Gough BJ, Hazel NM, Nieves J, Shanahan HP. Form factors for B → πlνl and B → K*γ decays on the lattice Nuclear Physics, Section B. 447: 425-437. DOI: 10.1016/0550-3213(95)00223-F  1
1994 Booth SP, Bowler KC, Hazel NM, Henty DS, Hoeber H, Kenway RD, Richards DG, Shanahan HP, Simone JN, Simpson AD, Lellouch L, Nieves J, Sachrajda CT, Wittig H. The Isgur-Wise function from the lattice. Physical Review Letters. 72: 462-465. PMID 10056439 DOI: 10.1103/PhysRevLett.72.462  1
1994 Baxter RM, Booth SP, Bowler KC, Collins S, Henty DS, Kenway RD, Richards DG, Shanahan HP, Simone JN, Simpson AD, Wilkes BE, Ewing AK, Lellouch L, Sachrajda CT, Wittig H. Quenched heavy-light decay constants. Physical Review D: Particles and Fields. 49: 1594-1605. PMID 10017135 DOI: 10.1103/PhysRevD.49.1594  1
1994 Bowler KC, Hazel NM, Henty DS, Hoeber H, Kenway RD, Richards DG, Shanahan HP, Simone JN, Flynn JM, Gough BJ. Lattice calculation of the penguin diagram decay B→K*γ Physical Review Letters. 72: 1398-1401. DOI: 10.1103/PhysRevLett.72.1398  1
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