Imperial College London

ProfessorMichaelSternberg

Faculty of Natural SciencesDepartment of Life Sciences

Director Centre for Bioinformatics
 
 
 
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Contact

 

+44 (0)20 7594 5212m.sternberg Website

 
 
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Location

 

306Sir Ernst Chain BuildingSouth Kensington Campus

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Summary

 

Publications

Publication Type
Year
to

321 results found

Adzhubei AA, Sternberg MJE, Makarov AA, 2013, Polyproline-II Helix in Proteins: Structure and Function, JOURNAL OF MOLECULAR BIOLOGY, Vol: 425, Pages: 2100-2132, ISSN: 0022-2836

JOURNAL ARTICLE

Alexov E, Sternberg M, 2013, Understanding molecular effects of naturally occurring genetic differences., J Mol Biol, Vol: 425, Pages: 3911-3913

JOURNAL ARTICLE

Bryant WA, Sternberg MJE, Pinney JW, 2013, AMBIENT: Active Modules for Bipartite Networks - using high-throughput transcriptomic data to dissect metabolic response, BMC SYSTEMS BIOLOGY, Vol: 7, ISSN: 1752-0509

JOURNAL ARTICLE

Janin J, Sternberg MJE, 2013, Protein flexibility, not disorder, is intrinsic to molecular recognition., F1000 Biol Rep, Vol: 5, ISSN: 1757-594X

An 'intrinsically disordered protein' (IDP) is assumed to be unfolded in the cell and perform its biological function in that state. We contend that most intrinsically disordered proteins are in fact proteins waiting for a partner (PWPs), parts of a multi-component complex that do not fold correctly in the absence of other components. Flexibility, not disorder, is an intrinsic property of proteins, exemplified by X-ray structures of many enzymes and protein-protein complexes. Disorder is often observed with purified proteins in vitro and sometimes also in crystals, where it is difficult to distinguish from flexibility. In the crowded environment of the cell, disorder is not compatible with the known mechanisms of protein-protein recognition, and, foremost, with its specificity. The self-assembly of multi-component complexes may, nevertheless, involve the specific recognition of nascent polypeptide chains that are incompletely folded, but then disorder is transient, and it must remain under the control of molecular chaperones and of the quality control apparatus that obviates the toxic effects it can have on the cell.

JOURNAL ARTICLE

Lewis TE, Sillitoe I, Andreeva A, Blundell TL, Buchan DWA, Chothia C, Cuff A, Dana JM, Filippis I, Gough J, Hunter S, Jones DT, Kelley LA, Kleywegt GJ, Minneci F, Mitchell A, Murzin AG, Ochoa-Montano B, Rackham OJL, Smith J, Sternberg MJE, Velankar S, Yeats C, Orengo Cet al., 2013, Genome3D: a UK collaborative project to annotate genomic sequences with predicted 3D structures based on SCOP and CATH domains, NUCLEIC ACIDS RESEARCH, Vol: 41, Pages: D499-D507, ISSN: 0305-1048

JOURNAL ARTICLE

Mao C, Shukla M, Larrouy-Maumus G, Dix FL, Kelley LA, Sternberg MJ, Sobral BW, de Carvalho LPSet al., 2013, Functional assignment of Mycobacterium tuberculosis proteome revealed by genome-scale fold-recognition, TUBERCULOSIS, Vol: 93, Pages: 40-46, ISSN: 1472-9792

JOURNAL ARTICLE

Radivojac P, Clark WT, Oron TR, Schnoes AM, Wittkop T, Sokolov A, Graim K, Funk C, Verspoor K, Ben-Hur A, Pandey G, Yunes JM, Talwalkar AS, Repo S, Souza ML, Piovesan D, Casadio R, Wang Z, Cheng J, Fang H, Goughl J, Koskinen P, Toronen P, Nokso-Koivisto J, Holm L, Cozzetto D, Buchan DWA, Bryson K, Jones DT, Limaye B, Inamdar H, Datta A, Manjari SK, Joshi R, Chitale M, Kihara D, Lisewski AM, Erdin S, Venner E, Lichtarge O, Rentzsch R, Yang H, Romero AE, Bhat P, Paccanaro A, Hamp T, Kassner R, Seemayer S, Vicedo E, Schaefer C, Achten D, Auer F, Boehm A, Braun T, Hecht M, Heron M, Hoenigschmid P, Hopf TA, Kaufmann S, Kiening M, Krompass D, Landerer C, Mahlich Y, Roos M, Bjorne J, Salakoski T, Wong A, Shatkay H, Gatzmann F, Sommer I, Wass MN, Sternberg MJE, Skunca N, Supek F, Bosnjak M, Panov P, Dzeroski S, Smuc T, Kourmpetis YAI, van Dijk ADJ, ter Braak CJF, Zhou Y, Gong Q, Dong X, Tian W, Falda M, Fontana P, Lavezzo E, Di Camillo B, Toppo S, Lan L, Djuric N, Guo Y, Vucetic S, Bairoch A, Linial M, Babbitt PC, Brenner SE, Orengo C, Rost B, Mooney SD, Friedberg Iet al., 2013, A large-scale evaluation of computational protein function prediction, NATURE METHODS, Vol: 10, Pages: 221-227, ISSN: 1548-7091

JOURNAL ARTICLE

Sternberg MJE, Tamaddoni-Nezhad A, Lesk VI, Kay E, Hitchen PG, Cootes A, van Alphen LB, Lamoureux MP, Jarrelle HC, Rawlings CJ, Soo EC, Szymanski CM, Dell A, Wren BW, Muggleton SHet al., 2013, Gene Function Hypotheses for the Campylobacter jejuni Glycome Generated by a Logic-Based Approach, JOURNAL OF MOLECULAR BIOLOGY, Vol: 425, Pages: 186-197, ISSN: 0022-2836

JOURNAL ARTICLE

Yates CM, Sternberg MJE, 2013, Proteins and Domains Vary in Their Tolerance of Non-Synonymous Single Nucleotide Polymorphisms (nsSNPs), JOURNAL OF MOLECULAR BIOLOGY, Vol: 425, Pages: 1274-1286, ISSN: 0022-2836

JOURNAL ARTICLE

Yates CM, Sternberg MJE, 2013, The Effects of Non-Synonymous Single Nucleotide Polymorphisms (nsSNPs) on Protein Protein Interactions, JOURNAL OF MOLECULAR BIOLOGY, Vol: 425, Pages: 3949-3963, ISSN: 0022-2836

JOURNAL ARTICLE

David A, Kelley LA, Sternberg MJE, 2012, A new structural model of the acid-labile subunit: pathogenetic mechanisms of short stature-causing mutations, JOURNAL OF MOLECULAR ENDOCRINOLOGY, Vol: 49, Pages: 213-220, ISSN: 0952-5041

JOURNAL ARTICLE

David A, Razali R, Wass MN, Sternberg MJEet al., 2012, Protein-Protein Interaction Sites are Hot Spots for Disease-Associated Nonsynonymous SNPs, HUMAN MUTATION, Vol: 33, Pages: 359-363, ISSN: 1059-7794

JOURNAL ARTICLE

Di Fruscia P, Ho K-K, Laohasinnarong S, Khongkow M, Kroll SHB, Islam SA, Sternberg MJE, Schmidtkunz K, Jung M, Lam EW-F, Fuchter MJet al., 2012, The discovery of novel 10,11-dihydro-5H-dibenz[b,f]azepine SIRT2 inhibitors, MEDCHEMCOMM, Vol: 3, Pages: 373-378, ISSN: 2040-2503

JOURNAL ARTICLE

Lin D, Chen J, Watanabe H, Muggleton SH, Jain P, Sternberg MJE, Baxter C, Currie RA, Dunbar SJ, Earll M, Salazar JDet al., 2012, Does multi-clause learning help in real-world applications?, Pages: 221-237, ISSN: 0302-9743

The ILP system Progol is incomplete in not being able to generalise a single example to multiple clauses. This limitation is referred as single-clause learning (SCL) in this paper. However, according to the Blumer bound, incomplete learners such as Progol can have higher predictive accuracy while use less search than more complete learners. This issue is particularly relevant in real-world problems, in which it is unclear whether the unknown target theory or its approximation is within the hypothesis space of the incomplete learner. This paper uses two real-world applications in systems biology to study whether it is necessary to have complete multi-clause learning (MCL) methods, which is computationally expensive but capable of deriving multi-clause hypotheses that is in the systems level. The experimental results show that in both applications there do exist datasets, in which MCL has significantly higher predictive accuracies than SCL. On the other hand, MCL does not outperform SCL all the time due to the existence of the target hypothesis or its approximations within the hypothesis space of SCL. © 2012 Springer-Verlag Berlin Heidelberg.

CONFERENCE PAPER

Phan HTT, Sternberg MJE, 2012, PINALOG: a novel approach to align protein interaction networks-implications for complex detection and function prediction, BIOINFORMATICS, Vol: 28, Pages: 1239-1245, ISSN: 1367-4803

JOURNAL ARTICLE

Reynolds CR, Amini AC, Muggleton SH, Sternberg MJEet al., 2012, Assessment of a Rule-Based Virtual Screening Technology (INDDEx) on a Benchmark Data Set, JOURNAL OF PHYSICAL CHEMISTRY B, Vol: 116, Pages: 6732-6739, ISSN: 1520-6106

JOURNAL ARTICLE

Santos JCA, Nassif H, Page D, Muggleton SH, Sternberg MJEet al., 2012, Automated identification of protein-ligand interaction features using Inductive Logic Programming: a hexose binding case study, BMC BIOINFORMATICS, Vol: 13, ISSN: 1471-2105

JOURNAL ARTICLE

Wass MN, Barton G, Sternberg MJE, 2012, CombFunc: predicting protein function using heterogeneous data sources, NUCLEIC ACIDS RESEARCH, Vol: 40, Pages: W466-W470, ISSN: 0305-1048

JOURNAL ARTICLE

Wass MN, Stanway R, Blagborough AM, Lal K, Prieto JH, Raine D, Sternberg MJE, Talman AM, Tomley F, Yates J, Sinden REet al., 2012, Proteomic analysis of Plasmodium in the mosquito: progress and pitfalls, PARASITOLOGY, Vol: 139, Pages: 1131-1145, ISSN: 0031-1820

JOURNAL ARTICLE

Chambers JC, Zhang W, Sehmi J, Li X, Wass MN, Van der Harst P, Holm H, Sanna S, Kavousi M, Baumeister SE, Coin LJ, Deng G, Gieger C, Heard-Costa NL, Hottenga J-J, Kuehnel B, Kumar V, Lagou V, Liang L, Luan J, Vidal PM, Leach IM, O'Reilly PF, Peden JF, Rahmioglu N, Soininen P, Speliotes EK, Yuan X, Thorleifsson G, Alizadeh BZ, Atwood LD, Borecki IB, Brown MJ, Charoen P, Cucca F, Das D, de Geus EJC, Dixon AL, Doering A, Ehret G, Eyjolfsson GI, Farrall M, Forouhi NG, Friedrich N, Goessling W, Gudbjartsson DF, Harris TB, Hartikainen A-L, Heath S, Hirschfield GM, Hofman A, Homuth G, Hyppoenen E, Janssen HLA, Johnson T, Kangas AJ, Kema IP, Kuehn JP, Lai S, Lathrop M, Lerch MM, Li Y, Liang TJ, Lin J-P, Loos RJF, Martin NG, Moffatt MF, Montgomery GW, Munroe PB, Musunuru K, Nakamura Y, O'Donnell CJ, Olafsson I, Penninx BW, Pouta A, Prins BP, Prokopenko I, Puls R, Ruokonen A, Savolainen MJ, Schlessinger D, Schouten JNL, Seedorf U, Sen-Chowdhry S, Siminovitch KA, Smit JH, Spector TD, Tan W, Teslovich TM, Tukiainen T, Uitterlinden AG, Van der Klauw MM, Vasan RS, Wallace C, Wallaschofski H, Wichmann H-E, Willemsen G, Wuertz P, Xu C, Yerges-Armstrong LM, Abecasis GR, Ahmadi KR, Boomsma DI, Caulfield M, Cookson WO, van Duijn CM, Froguel P, Matsuda K, McCarthy MI, Meisinger C, Mooser V, Pietilainen KH, Schumann G, Snieder H, Sternberg MJE, Stolk RP, Thomas HC, Thorsteinsdottir U, Uda M, Waeber G, Wareham NJ, Waterworth DM, Watkins H, Whitfield JB, Witteman JCM, Wolffenbuttel BHR, Fox CS, Ala-Korpela M, Stefansson K, Vollenweider P, Voelzke H, Schadt EE, Scott J, Jarvelin M-R, Elliott P, Kooner JSet al., 2011, Genome-wide association study identifies loci influencing concentrations of liver enzymes in plasma, NATURE GENETICS, Vol: 43, Pages: 1131-1138, ISSN: 1061-4036

JOURNAL ARTICLE

Ehret GB, Munroe PB, Rice KM, Bochud M, Johnson AD, Chasman DI, Smith AV, Tobin MD, Verwoert GC, Hwang S-J, Pihur V, Vollenweider P, O'Reilly PF, Amin N, Bragg-Gresham JL, Teumer A, Glazer NL, Launer L, Zhao JH, Aulchenko Y, Heath S, Sober S, Parsa A, Luan J, Arora P, Dehghan A, Zhang F, Lucas G, Hicks AA, Jackson AU, Peden JF, Tanaka T, Wild SH, Rudan I, Igl W, Milaneschi Y, Parker AN, Fava C, Chambers JC, Fox ER, Kumari M, Go MJ, van der Harst P, Kao WHL, Sjogren M, Vinay DG, Alexander M, Tabara Y, Shaw-Hawkins S, Whincup PH, Liu Y, Shi G, Kuusisto J, Tayo B, Seielstad M, Sim X, Khanh-Dung HN, Lehtimaki T, Matullo G, Wu Y, Gaunt TR, Onland-Moret NC, Cooper MN, Platou CGP, Org E, Hardy R, Dahgam S, Palmen J, Vitart V, Braund PS, Kuznetsova T, Uiterwaal CSPM, Adeyemo A, Palmas W, Campbell H, Ludwig B, Tomaszewski M, Tzoulaki I, Palmer ND, Aspelund T, Garcia M, Chang Y-PC, O'Connell JR, Steinle NI, Grobbee DE, Arking DE, Kardia SL, Morrison AC, Hernandez D, Najjar S, McArdle WL, Hadley D, Brown MJ, Connell JM, Hingorani AD, Day INM, Lawlor DA, Beilby JP, Lawrence RW, Clarke R, Hopewell JC, Ongen H, Dreisbach AW, Li Y, Young JH, Bis JC, Kahonen M, Viikari J, Adair LS, Lee NR, Chen M-H, Olden M, Pattaro C, Bolton JAH, Koettgen A, Bergmann S, Mooser V, Chaturvedi N, Frayling TM, Islam M, Jafar TH, Erdmann J, Kulkarni SR, Bornstein SR, Graessler J, Groop L, Voight BF, Kettunen J, Howard P, Taylor A, Guarrera S, Ricceri F, Emilsson V, Plump A, Barroso IS, Khaw K-T, Weder AB, Hunt SC, Sun YV, Bergman RN, Collins FS, Bonnycastle LL, Scott LJ, Stringham HM, Peltonen L, Perola M, Vartiainen E, Brand S-M, Staessen JA, Wang TJ, Burton PR, Artigas MS, Dong Y, Snieder H, Wang X, Zhu H, Lohman KK, Rudock ME, Heckbert SR, Smith NL, Wiggins KL, Doumatey A, Shriner D, Veldre G, Viigimaa M, Kinra S, Prabhakaran D, Tripathy V, Langefeld CD, Rosengren A, Thelle DS, Corsi AM, Singleton A, Forrester T, Hilton G, McKenzie CA, Salako T, Iwai N, Kita Y, Ogihara T, Ohkubo T, Okamura T, Ueshimet al., 2011, Genetic variants in novel pathways influence blood pressure and cardiovascular disease risk, NATURE, Vol: 478, Pages: 103-109, ISSN: 0028-0836

JOURNAL ARTICLE

Mitson M, Kelley LA, Sternberg MJE, Higgs DR, Gibbons RJet al., 2011, Functional significance of mutations in the Snf2 domain of ATRX, HUMAN MOLECULAR GENETICS, Vol: 20, Pages: 2603-2610, ISSN: 0964-6906

JOURNAL ARTICLE

Muggleton SH, Chen J, Watanabe H, Dunbar SJ, Baxter C, Currie R, Salazar JD, Taubert J, Sternberg MJEet al., 2011, Variation of Background Knowledge in an Industrial Application of ILP, 20th International Conference on Inductive Logic Programming (ILP), Publisher: SPRINGER-VERLAG BERLIN, Pages: 158-170, ISSN: 0302-9743

CONFERENCE PAPER

Wass MN, David A, Sternberg MJE, 2011, Challenges for the prediction of macromolecular interactions, CURRENT OPINION IN STRUCTURAL BIOLOGY, Vol: 21, Pages: 382-390, ISSN: 0959-440X

JOURNAL ARTICLE

Chambers JC, Zhang W, Lord GM, van der Harst P, Lawlor DA, Sehmi JS, Gale DP, Wass MN, Ahmadi KR, Bakker SJL, Beckmann J, Bilo HJG, Bochud M, Brown MJ, Caulfield MJ, Connell JMC, Cook HT, Cotlarciuc I, Smith GD, de Silva R, Deng G, Devuyst O, Dikkeschei LD, Dimkovic N, Dockrell M, Dominiczak A, Ebrahim S, Eggermann T, Farrall M, Ferrucci L, Floege J, Forouhi NG, Gansevoort RT, Han X, Hedblad B, van der Heide JJH, Hepkema BG, Hernandez-Fuentes M, Hypponen E, Johnson T, de Jong PE, Kleefstra N, Lagou V, Lapsley M, Li Y, Loos RJF, Luan J, Luttropp K, Marechal C, Melander O, Munroe PB, Nordfors L, Parsa A, Peltonen L, Penninx BW, Perucha E, Pouta A, Prokopenko I, Roderick PJ, Ruokonen A, Samani NJ, Sanna S, Schalling M, Schlessinger D, Schlieper G, Seelen MAJ, Shuldiner AR, Sjogren M, Smit JH, Snieder H, Soranzo N, Spector TD, Stenvinkel P, Sternberg MJE, Swaminathan R, Tanaka T, Ubink-Veltmaat LJ, Uda M, Vollenweider P, Wallace C, Waterworth D, Zerres K, Waeber G, Wareham NJ, Maxwell PH, McCarthy MI, Jarvelin M-R, Mooser V, Abecasis GR, Lightstone L, Scott J, Navis G, Elliott P, Kooner JSet al., 2010, Genetic loci influencing kidney function and chronic kidney disease, NATURE GENETICS, Vol: 42, Pages: 373-375, ISSN: 1061-4036

JOURNAL ARTICLE

Chambers JC, Zhao J, Terracciano CMN, Bezzina CR, Zhang W, Kaba R, Navaratnarajah M, Lotlikar A, Sehmi JS, Kooner MK, Deng G, Siedlecka U, Parasramka S, El-Hamamsy I, Wass MN, Dekker LRC, de Jong JSSG, Sternberg MJE, McKenna W, Severs NJ, de Silva R, Wilde AAM, Anand P, Yacoub M, Scott J, Elliott P, Wood JN, Kooner JSet al., 2010, Genetic variation in SCN10A influences cardiac conduction, NATURE GENETICS, Vol: 42, Pages: 149-U80, ISSN: 1061-4036

JOURNAL ARTICLE

Chubb D, Jefferys BR, Sternberg MJE, Kelley LAet al., 2010, Sequencing delivers diminishing returns for homology detection: implications for mapping the protein universe, BIOINFORMATICS, Vol: 26, Pages: 2664-2671, ISSN: 1367-4803

JOURNAL ARTICLE

Fernandez-Recio J, Sternberg MJE, 2010, The 4th meeting on the Critical Assessment of PRedicted Interaction (CAPRI) held at the Mare Nostrum, Barcelona, PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS, Vol: 78, Pages: 3065-3066, ISSN: 0887-3585

JOURNAL ARTICLE

Jefferys BR, Kelley LA, Sternberg MJE, 2010, Protein Folding Requires Crowd Control in a Simulated Cell, JOURNAL OF MOLECULAR BIOLOGY, Vol: 397, Pages: 1329-1338, ISSN: 0022-2836

JOURNAL ARTICLE

Kay E, Lesk VI, Tamaddoni-Nezhad A, Hitchen PG, Dell A, Sternberg MJ, Muggleton S, Wren BWet al., 2010, Systems analysis of bacterial glycomes, BIOCHEMICAL SOCIETY TRANSACTIONS, Vol: 38, Pages: 1290-1293, ISSN: 0300-5127

JOURNAL ARTICLE

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