Publications

    2017

  1. Landscape of nuclear transport receptor cargo specificity
    Mackmull MT, Klaus B, Heinze I, Chokkalingam M, Beyer A, Russell RB, Ori A, Beck M Mol Syst Biol Accepted, 2017
  2. Natural genetic variants affecting equivalent protein family positions reflect human diversity
    Raimondi F, Betts MJ, Lu Q, Inoue A, Gutkind JS, Russell RB* Sci Rep 7, 12771, 2017
  3. Capturing protein communities by structural proteomics in a thermophilic eukaryote
    Kastritis PL, O'Reilly FJ, Bock T, Romanov N, Rogon MZ, Betts MJ, Bui KH, Hagen WJ, Hennrich ML, Mackmull MT, Russell RB, Bork P, Beck M, Gavin AC Mol Sys Biol 13, 936, 2017
  4. CiliaCarta: an integrated and validated comopendium of ciliary genes
    van Dam TJP, Kennedy J, van der Lee R, de Vrieze E, Wunderlich KA, Rix S, Dougherty GW, Lambacher NJ, Li C, Jensen VI, Leroux MR, Hjeij R, Horn N, Texier Y, Wissinger Y, van Reeuwijk J, Wheway G, Knapp B, Scheel JF, Franco B, Mans DA, van Wijk E, Kepes F, Slaats GG, Todet G, Kremer H, Omran H, Szymanska K, Koutroumpas K, Ueffing M, Nguyen TT, Letteboer SJF, Oud M, van Beersum SEC, Schmidts M, Beales P, Lu Q, Giles RH, Szklarczyk R, Russell RB, Gibson TJ, Johnson CA, Blacque OE, Wolfrum U, Boldt K, Roepman R, Hernandez-Hernandez V, Huynen MA, bioRxiv 123455, 2017
  5. Systematic identification of phosphorylation mediated protein interaction switches
    Betts MJ, Wichmann O, Utz M, Andre T, Petsalaki E, Minguez P, Parca L, Roth FP, Gavin AC, Bork P, Russell RB* PLoS Comp Biol 2017

  6. 2016

  7. Insights into cancer severity from biomolecular interaction mechanisms Raimondi F*, Singh G*, Betts MJ, Apic G, Vukotic R, Andreone P, Stein L, Russell RB Sci. Rep. 2016
  8. Mutagenesis of N-terminal residues of feline foamy virus Gag reveals entirely distinct functions during capsid formation, particle assembly, Gag processing and budding Liu Y, Betts MJ, Lei J, Wei G, Bao Q, Kehl T, Russell RB, Löchelt M Retrovirology 2016
  9. An organelle-specific protein landscape identifies novel diseases and molecular mechanisms
    Boldt K*, van Reeuwijk J*, Lu Q*, Koutroumpas K*, Nguyen TT, Texier Y, van Beersum SEC, Horn N, Willer JR, Mans DA, Dougherty G, Lamers IJ, Coene KLM, Arts HH, Betts MJ, Beyer T, Bolat E, Haidari K, Hetterschijt L, Iaconis D, Jenkins D, Klose F, Knapp B, Latour B, Letteboer SJF, Marcelis CL, Mitic D, Morleo M, Oud MW, Riemersma M, Rix S, Terhal PA, Toedt G, van Dam TJP, de Vrieze E, Wissinger Y, Wu KM, UK10K Consortium, Apic G, Beales PL, Blacque OE, Gibson TJ, Huynen MA, Katsanis N, Kremer H, Omran H, van Wijk E, Wolfrum U, Kepes F, Davis EE, Franco B, Giles RH, Ueffing M*, Russell RB*, Roepman R* Nat Commun 2016
  10. Genes encoding members of the JAK-STAT pathway or epigenetic regulators are recurrently mutated in T-cell prolymphocytic leukaemia
    Lopez C, Bergmann AK, Paul U, Murga-Penas EM, Nagel I, Betts MJ, Johansson P, Ritgen M, Baumann T, Aymerich M, Jayne S, Russell RB, Campo E, Dyer MJS, Duerig J, Siebert R Brit J Haematol. 2016

  11. 2015

  12. KIAA0556 is a novel ciliary basal body component mutated in Joubert syndrome
    Sanders AA, de Vrieze E, Alazami AM, Alzahrani F, Malarkey EB, Sorusch N, Tebbe L, Kuhns S, van Dam TJ, Alhashem A, Tabarki B, Lu Q, Lambacher NJ, Kennedy JE, Bowie RV, Hetterschijt L, van Beersum S, van Reeuwijk J, Boldt K, Kremer H, Kesterson RA, Monies D, Abouelhoda M, Roepman R, Huynen MH, Ueffing M, Russell RB, Wolfrum U, Yoder BK, van Wijk E, Alkuraya FS, Blacque OE Genome Biol.. 2015
  13. DNA methylome analysis in Burkitt and follicular lymphomas identifies differentially methylated regions linked to somatic mutation and transcriptional control
    Kretzmer H, Bernhart SH, Wang W, Haake A, Weniger MA, Bergmann AK, Betts MJ, Carrillo-de-Santa-Pau E, Doose G, Gutwein J, Richter J, Hovestadt V, Huang B, Rico D, Jühling F, Kolarova J, Lu Q, Otto C, Wagener R, Arnolds J, Burkhardt B, Claviez A, Drexler HG, Eberth S, Eils R, Flicek P, Haas S, Hummel M, Karsch D, Kerstens HH, Klapper W, Kreuz M, Lawerenz C, Lenze D, Loeffler M, López C, MacLeod RA, Martens JH, Kulis M, Martín-Subero JI, Möller P, Nagel I, Picelli S, Vater I, Rohde M, Rosenstiel P, Rosolowski M, Russell RB, Schilhabel M, Schlesner M, Stadler PF, Szczepanowski M, Trümper L, Stunnenberg HG; ICGC MMML-Seq project; BLUEPRINT project, Küppers R, Ammerpohl O, Lichter P, Siebert R, Hoffmann S, Radlwimmer B Nat Genet.. 2015
  14. The PCBP1 gene encoding poly(rc) binding protein I is recurrently mutated in Burkitt lymphoma.
    Wagener R, Aukema SM, Schlesner M, Haake A, Burkhardt B, Claviez A, Drexler HG, Hummel M, Kreuz M, Loeffler M, Rosolowski M, Lopez C, Moeller P, Richter J, Rhode M, Betts MJ, Russell RB, Bernhart sh, Hoffmann S, Rosenstiel P, Shihabel M, Szczepanowski M, Truemper L, Klapper W, Siebert R. Genes Chromosomes Cancer. 2015
  15. Mechismo: predicting the mechanistic impact of mutations and modifications on molecular interactions.
    Betts MJ, Lu Q, Jiang Y, Drusko A, Wichmann O, Utz M, Valtierra-Gutiérrez IA, Schlesner M, Jaeger N, Jones DT, Pfister S, Lichter P, Eils R, Siebert R, Bork P, Apic G, Gavin AC, Russell RB. Nucl Acids Res. 2015

  16. 2014

  17. Characterizing Protein Interactions Employing a Genome-Wide siRNA Cellular Phenotyping Screen
    Suratanee A, Schaefer MH, Betts MJ, Soons Z, Mannsperger H, Harder N, Oswald M, Gipp M, Ramminger E, Marcus G, Männer R, Rohr K, Wanker E, Russell RB, Andrade-Navarro MA, Eils R, König R PLoS Comput Biol. 2014
  18. The mutational pattern of primary lymphoma of the central nervous system determined by whole exome sequencing
    Vater I, Montesinos-Rongen M, Schlesner M, Haake A, Purschke F, Sprute R, Mettenmeyer N, Nazzal I, Nagel I, Gutwein J, Richter J, Buchhalter I, Russell RB, Wiestler OD, Eils R, Deckert M, Siebert R. Leukemia. 2014
  19. SMARCA4-mutated atypical teratoid/rhabdoid tumors are associated with inherited germline alterations and poor prognosis
    Hasselblatt M, Nagel I, Oyen F, Bartelheim K, Russell RB, Schüller U, Junckerstorff R, Rosenblum M, Alassiri AH, Rossi S, Schmid I, Gottardo NG, Toledano H, Viscardi E, Balbin M, Witkowski L, Lu Q, Betts MJ, Foulkes WD, Siebert R, Frühwald MC, Schneppenheim R Acta Neuropathol)
  20. Recurrent RHOA mutations in pediatric Burkitt lymphoma treated according to the NHL-BFM protocols
    Rohde M, Richter J, Schlesner M, Betts MJ, Claviez A, Bonn BR, Zimmermann M, Damm-Welk C, Russell RB, Borkhardt A, Eils R, Hoell JI, Szczepanowski M, Oschlies I, Klapper W, Burkhardt B, Siebert R; German ICGC MMML-Seq-Project and the NHL-BFM Study Group Genes Chromosomes Cancer
  21. RNAi screen identifies KIF15 as a novel regulator of integrin endocytic trafficking. Eskova A, Knapp B, Matelska D, Reusing S, Arjonen A, Lisauskas T, Pepperkok R, Russell R, Eils R, Ivaska J, Kaderali L, Erfle H, Starkuviene V. J Cell Sci, 2014.
  22. Recurrent mutation of JAK3 in T-cell prolymphocytic leukemia. Bergmann AK, Schneppenheim S, Seifert M, Betts MJ, Haake A, Lopez C, Maria Murga Penas E, Vater I, Jayne S, Dyer MJ, Schrappe M, Dührsen U, Ammerpohl O, Russell RB, Küppers R, Dürig J, Siebert R Genes Chromosomes Cancer, 53,309-16, 2014.
  23. A recurrent 11q aberration pattern characterizes a subset of MYC-negative high-grade B-cell lymphomas resembling Burkitt lymphoma. Salaverria I, Martin-Guerrero I, Wagener R, Kreuz M, Kohler CW, Richter J, Pienkowska-Grela B, Adam P, Burkhardt B, Claviez A, Damm-Welk C, Drexler HG, Hummel M, Jaffe ES, Küppers R, Lefebvre C, Lisfeld J, Löffler M, Macleod RA, Nagel I, Oschlies I, Rosolowski M, Russell RB, Rymkiewicz G, Schindler D, Schlesner M, Scholtysik R, Schwaenen C, Spang R, Szczepanowski M, Trümper L, Vater I, Wessendorf S, Klapper W, Siebert R Blood, 123,1187-98, 2014.

  24. 2013

  25. Molecular dissection of human Argonaute proteins by DNA shuffling
    Schurmann N, Trabuco LG, Bender C, Russell RB, Grimm D Nat Struct Mol Biol 20, 818-26, 2013.
  26. Recurrent mutation of the ID3 gene in Burkitt lymphoma identified by integrated genome, exome and transcriptome sequencing
    the ICGC MMML-Seq Project, Richter J, Schlesner M, Hoffmann S, Kreuz M, Leich E, Burkhardt B, Rosolowski M, Ammerpohl O, Wagener R, Bernhart SH, Lenze D, Szczepanowski M, Paulsen M, Lipinski S, Russell RB, Adam-Klages S, Apic G, Claviez A, Hasenclever D, Hovestadt V, Hornig N, Korbel JO, Kube D, Langenberger D, Lawerenz C, Lisfeld J, Meyer K, Picelli S, Pischimarov J, Radlwimmer B, Rausch T, Rohde M, Schilhabel M, Scholtysik R, Spang R, Trautmann H, Zenz T, Borkhardt A, Drexler HG, Möller P, Macleod RA, Pott C, Schreiber S, Trümper L, Loeffler M, Stadler PF, Lichter P, Eils R, Küppers R, Hummel M, Klapper W, Rosenstiel P, Rosenwald A, Brors B, Siebert R. Nat Genet 44, 1316-20, 2013.

  27. 2012

  28. Negative protein-protein interaction datasets derived from large-scale two-hybrid experiments.
    Trabujo LG, Betts MJ, Russell RB. Methods 58, 343-8, 2012.
  29. Computational Identification of Novel Amino-Acid Interactions in HIV Gag via Correlated Evolution.
    Kalinina OV, Oberwinkler H, Glass B, Kraueslich HG, Russell RB, Briggs JA. PLoS One 7, e42468, 2012.
  30. Dissecting the genomic complexity underlying medulloblastoma.
    Jones DT, Jär N, Kool M, Zichner T, Hutter B, Sultan M, Cho YJ, Pugh TJ, Hovestadt V, Stü, Rausch T, Warnatz HJ, Ryzhova M, Bender S, Sturm D, Pleier S, Cin H, Pfaff E, Sieber L, Wittmann A, Remke M, Witt H, Hutter S, Tzaridis T, Weischenfeldt J, Raeder B, Avci M, Amstislavskiy V, Zapatka M, Weber UD, Wang Q, Lasitschka B, Bartholomae CC, Schmidt M, von Kalle C, Ast V, Lawerenz C, Eils J, Kabbe R, Benes V, van Sluis P, Koster J, Volckmann R, Shih D, Betts MJ, Russell RB, Coco S, Tonini GP, SchüU, Hans V, Graf N, Kim YJ, Monoranu C, Roggendorf W, Unterberg A, Herold-Mende C, Milde T, Kulozik AE, von Deimling A, Witt O, Maass E, Röer J, Ebinger M, Schuhmann MU, Frü MC, Hasselblatt M, Jabado N, Rutkowski S, von Bueren AO, Williamson D, Clifford SC, McCabe MG, Collins VP, Wolf S, Wiemann S, Lehrach H, Brors B, Scheurlen W, Felsberg J, Reifenberger G, Northcott PA, Taylor MD, Meyerson M, Pomeroy SL, Yaspo ML, Korbel JO, Korshunov A, Eils R, Pfister SM, Lichter P. Nature 488, 100-105, 2012.
  31. PepSite: prediction of peptide-binding sites from protein surfaces.
    Trabuco LG, Lise S, Petsalaki E, Russell RB. Nucleic Acids Res. 40, W423-W427, 2012.
  32. Topic Pages: PLoS Computational Biology Meets Wikipedia.
    Wodak SJ, Mietchen D, Collings AM, Russell RB, Bourne PE. PLoS Comput Biol. 8, e1002446, 2012.
  33. Cross-talk between phosphorylation and lysine acetylation in a genome-reduced bacterium.
    van Noort V, Seebacher J, Bader S, Mohammed S, Vonkova I, Betts MJ, Kühner S, Kumar R, Maier T, O'Flaherty M, Rybin V, Schmeisky A, Yus E, Stülke J, Serrano L, Russell RB, Heck AJ, Bork P, Gavin AC. Mol Syst Biol. 8,571, 2012.
  34. ProtChemSI: a network of protein-chemical structural interactions
    Kalinina OV, Wichmann O, Apic G, Russell RB, Nucleic Acids Res 40,D549-D553, 2012
  35. 2011

  36. Content disputes in Wikipedia reflect geopolitical instability
    Apic G, Betts MJ, Russell RB, PLoS ONE 6, e20902, 2011
  37. Combinations of protein-chemical complex structures reveal new targets for established drugs
    Kalinina OV, Wichmann O, Apic G, Russell RB PLoS Comput Biol 7, e1002043, 2011
  38. The three-dimensional molecular structure of the desmosomal plaque
    Al-Amoudi A, Castano-Diez D, Devos DP, Russell RB, Johnson GT, Frangakis AS, PNAS, 108, 6480-5, 2011
  39. 2010

  40. A Systematic Screen for Protein-Lipid Interactions in Saccharomyces cerevisiae
    Gallego O, Betts MJ, Gvozdenovic-Jeremic J, Maeda K, Matezki C, Aguilar-Gurrieri C, Beltran-Alvarez P, Bonn S, Fernandez-Tornero C, Jensen LJ, Kuhn M, Trott J, Rybin V, Mueller CW, Bork P, Kaksonen M, Russell RB, Gavin AC, Mol Sys Biol, 6, 430, 2010.
  41. Domain recombination: a workhorse for evolutionary innovation.
    Apic G, Russell RB, Sci Signal. 2010 Sep 14;3(139):pe30.
  42. An automated stochastic approach to the identification of the protein specificity determinants and functional subfamilies.
    Mazin PV, Gelfand MS, Mironov AA, Rakhmaninova AB, Rubinov AR, Russell RB, Kalinina OV. Algorithms Mol Biol. 2010 Jul 15;5:29.
  43. WD40 proteins propel cellular networks.
    Stirnimann CU, Petsalaki E, Russell RB, Müller CW. Trends Biochem Sci. 2010 May 5.
  44. Modular architecture of nucleotide-binding pockets.
    Gherardini PF, Ausiello G, Russell RB, Helmer-Citterich M. Nucleic Acids Res. 2010 Jun 1;38(11):3809-16.
  45. 2009

  46. Impact of genome reduction on bacterial metabolism and its regulation.
    Yus E, Maier T, Michalodimitrakis K, van Noort V, Yamada T, Chen WH, Wodke JA, Güell M, Martínez S, Bourgeois R, Kühner S, Raineri E, Letunic I, Kalinina OV, Rode M, Herrmann R, Gutiérrez-Gallego R, Russell RB, Gavin AC, Bork P, Serrano L. Science. 2009 Nov 27;326(5957):1263-8.
  47. Proteome organization in a genome-reduced bacterium.
    Kühner S, van Noort V, Betts MJ, Leo-Macias A, Batisse C, Rode M, Yamada T, Maier T, Bader S, Beltran-Alvarez P, Castaño-Diez D, Chen WH, Devos D, Güell M, Norambuena T, Racke I, Rybin V, Schmidt A, Yus E, Aebersold R, Herrmann R, Böttcher B, Frangakis AS, Russell RB, Serrano L, Bork P, Gavin AC. Science. 2009 Nov 27;326(5957):1235-40.
  48. A more structured metabolome.
    Betts MJ, Russell RB. Nat Struct Mol Biol. 2009 Nov;16(11):1125-6.
  49. Hb M Dothan [beta 25/26 (B7/B8)/(GGT/GAG-->GAG//Gly/Glu-->Glu]; a new mechanism of unstable methemoglobin variant and molecular characteristics.
    Kutlar F, Hilliard LM, Zhuang L, Patel N, Eroglu B, Meiler SE, Carmichael H, Russell RB, Kutlar A. Blood Cells Mol Dis. 2009 Nov-Dec;43(3):235-8.
  50. Combining specificity determining and conserved residues improves functional site prediction.
    Kalinina OV, Gelfand MS, Russell RB. BMC Bioinformatics. 2009 Jun 9;10:174.
  51. Accurate prediction of peptide binding sites on protein surfaces.
    Petsalaki E, Stark A, García-Urdiales E, Russell RB. PLoS Comput Biol. 2009 Mar;5(3):e1000335.
  52. 2008

  53. Targeting and tinkering with interaction networks.
    Russell RB, Aloy P. Nat Chem Biol. 2008 Nov;4(11):666-73. Review.
  54. Interactions between the Fyn SH3-domain and adaptor protein Cbp/PAG derived ligands, effects on kinase activity and affinity.
    Solheim SA, Petsalaki E, Stokka AJ, Russell RB, Taskén K, Berge T. FEBS J. 2008 Oct;275(19):4863-74.
  55. Peptide-mediated interactions in biological systems: new discoveries and applications.
    Petsalaki E, Russell RB. Curr Opin Biotechnol. 2008 Aug;19(4):344-50.
  56. Subunit architecture of intact protein complexes from mass spectrometry and homology modeling.
    Taverner T, Hernández H, Sharon M, Ruotolo BT, Matak-Vinković D, Devos D, Russell RB, Robinson CV. Acc Chem Res. 2008 May;41(5):617-27.
  57. A careful disorderliness in the proteome: sites for interaction and targets for future therapies.
    Russell RB, Gibson TJ. FEBS Lett. 2008 Apr 9;582(8):1271-5.
  58. SuperTarget and Matador: resources for exploring drug-target relationships.
    Günther S, Kuhn M, Dunkel M, Campillos M, Senger C, Petsalaki E, Ahmed J, Urdiales EG, Gewiess A, Jensen LJ, Schneider R, Skoblo R, Russell RB, Bourne PE, Bork P, Preissner R. Nucleic Acids Res. 2008 Jan;36(Database issue):D919-22.
  59. 2007

  60. A more complete, complexed and structured interactome.
    Devos D, Russell RB. Curr Opin Struct Biol. 2007 Jun;17(3):370-7.
  61. Systematic discovery of in vivo phosphorylation networks.
    Linding R, Jensen LJ, Ostheimer GJ, van Vugt MA, Jørgensen C, Miron IM, Diella F, Colwill K, Taylor L, Elder K, Metalnikov P, Nguyen V, Pasculescu A, Jin J, Park JG, Samson LD, Woodgett JR, Russell RB, Bork P, Yaffe MB, Pawson T. Cell. 2007 Jun 29;129(7):1415-26.
  62. The hard cell: from proteomics to a whole cell model.
    Betts MJ, Russell RB. FEBS Lett. 2007 Jun 19;581(15):2870-6.
  63. [Computational method for prediction of protein functional sites using specificity determinants]
    Kalinina OV, Rassel RB, Rakhmaninova AB, Gel'fand MS. Mol Biol (Mosk). 2007 Jan-Feb;41(1):151-62. Russian.
  64. Differential localization of coatomer complex isoforms within the Golgi apparatus.
    Moelleken J, Malsam J, Betts MJ, Movafeghi A, Reckmann I, Meissner I, Hellwig A, Russell RB, Söllner T, Brügger B, Wieland FT. Proc Natl Acad Sci U S A. 2007 Mar 13;104(11):4425-30.
  65. A shortcut to peptides to modulate platelets.
    Apic G, Russell RB. Nat Chem Biol. 2007 Feb;3(2):83-4.
  66. Proline-rich regions in transcriptional complexes: heading in many directions.
    Neduva V, Russell RB. Sci STKE. 2007 Jan 16;2007(369):pe1.
  67. 2006

  68. Harry Potter and the structural biologist's (Key)stone.
    Devos D, Kalinina OV, Russell RB. Genome Biol. 2006;7(12):333.
  69. Peptides mediating interaction networks: new leads at last.
    Neduva V, Russell RB. Curr Opin Biotechnol. 2006 Oct;17(5):465-71.
  70. DILIMOT: discovery of linear motifs in proteins.
    Neduva V, Russell RB. Nucleic Acids Res. 2006 Jul 1;34(Web Server issue):W350-5.
  71. Structural systems biology: modelling protein interactions.
    Aloy P, Russell RB. Nat Rev Mol Cell Biol. 2006 Mar;7(3):188-97. Review.
  72. Proteome survey reveals modularity of the yeast cell machinery.
    Gavin AC, Aloy P, Grandi P, Krause R, Boesche M, Marzioch M, Rau C, Jensen LJ, Bastuck S, Dümpelfeld B, Edelmann A, Heurtier MA, Hoffman V, Hoefert C, Klein K, Hudak M, Michon AM, Schelder M, Schirle M, Remor M, Rudi T, Hooper S, Bauer A, Bouwmeester T, Casari G, Drewes G, Neubauer G, Rick JM, Kuster B, Bork P, Russell RB, Superti-Furga G. Nature. 2006 Mar 30;440(7084):631-6.
  73. 2005

  74. Animal MicroRNAs confer robustness to gene expression and have a significant impact on 3'UTR evolution.
    Stark A, Brennecke J, Bushati N, Russell RB, Cohen SM. Cell. 2005 Dec 16;123(6):1133-46.
  75. Systematic discovery of new recognition peptides mediating protein interaction networks.
    Neduva V, Linding R, Su-Angrand I, Stark A, de Masi F, Gibson TJ, Lewis J, Serrano L, Russell RB. PLoS Biol. 2005 Dec;3(12):e405.
  76. Linear motifs: evolutionary interaction switches.
    Neduva V, Russell RB. FEBS Lett. 2005 Jun 13;579(15):3342-5.
  77. Structural similarity to bridge sequence space: finding new families on the bridges.
    Shah PK, Aloy P, Bork P, Russell RB. Protein Sci. 2005 May;14(5):1305-14.
  78. Illuminating drug discovery with biological pathways.
    Apic G, Ignjatovic T, Boyer S, Russell RB. FEBS Lett. 2005 Mar 21;579(8):1872-7. Review.
  79. Structure-based systems biology: a zoom lens for the cell.
    Aloy P, Russell RB. FEBS Lett. 2005 Mar 21;579(8):1854-8. Review.
  80. Principles of microRNA-target recognition.
    Brennecke J, Stark A, Russell RB, Cohen SM. PLoS Biol. 2005 Mar;3(3):e85.
  81. Protein complexes: structure prediction challenges for the 21st century.
    Aloy P, Pichaud M, Russell RB. Curr Opin Struct Biol. 2005 Feb;15(1):15-22. Review.
  82. 3did: interacting protein domains of known three-dimensional structure.
    Stein A, Russell RB, Aloy P. Nucleic Acids Res. 2005 Jan 1;33(Database issue):D413-7.
  83. 2004

  84. Ten thousand interactions for the molecular biologist.
    Aloy P, Russell RB. Nat Biotechnol. 2004 Oct;22(10):1317-21.
  85. Finding functional sites in structural genomics proteins.
    Stark A, Shkumatov A, Russell RB. Structure. 2004 Aug;12(8):1405-12.
  86. Geminate structures of African cassava mosaic virus.
    Böttcher B, Unseld S, Ceulemans H, Russell RB, Jeske H. J Virol. 2004 Jul;78(13):6758-65.
  87. A structural perspective on protein-protein interactions.
    Russell RB, Alber F, Aloy P, Davis FP, Korkin D, Pichaud M, Topf M, Sali A. Curr Opin Struct Biol. 2004 Jun;14(3):313-24. Review.
  88. Fast fitting of atomic structures to low-resolution electron density maps by surface overlap maximization.
    Ceulemans H, Russell RB. J Mol Biol. 2004 May 7;338(4):783-93.
  89. Systematic searches for molecular synapomorphies in model metazoan genomes give some support for Ecdysozoa after accounting for the idiosyncrasies of Caenorhabditis elegans.
    Copley RR, Aloy P, Russell RB, Telford MJ. Evol Dev. 2004 May-Jun;6(3):164-9.
  90. Taking the mystery out of biological networks.
    Aloy P, Russell RB. EMBO Rep. 2004 Apr;5(4):349-50.
  91. Structure-based assembly of protein complexes in yeast.
    Aloy P, Böttcher B, Ceulemans H, Leutwein C, Mellwig C, Fischer S, Gavin AC, Bork P, Superti-Furga G, Serrano L, Russell RB. Science. 2004 Mar 26;303(5666):2026-9.
  92. 2003

  93. Identification of Drosophila MicroRNA targets.
    Stark A, Brennecke J, Russell RB, Cohen SM. PLoS Biol. 2003 Dec;1(3):E60.
  94. Understanding and predicting protein assemblies with 3D structures.
    Aloy P, Russell RB. Comp Funct Genomics. 2003;4(4):410-5.
  95. Protein disorder prediction: implications for structural proteomics.
    Linding R, Jensen LJ, Diella F, Bork P, Gibson TJ, Russell RB. Structure. 2003 Nov;11(11):1453-9.
  96. Predictions without templates: new folds, secondary structure, and contacts in CASP5.
    Aloy P, Stark A, Hadley C, Russell RB. Proteins. 2003;53 Suppl 6:436-56.
  97. The relationship between sequence and interaction divergence in proteins.
    Aloy P, Ceulemans H, Stark A, Russell RB. J Mol Biol. 2003 Oct 3;332(5):989-98.
  98. Crystal structure of an archaeal class I aldolase and the evolution of (betaalpha)8 barrel proteins.
    Lorentzen E, Pohl E, Zwart P, Stark A, Russell RB, Knura T, Hensel R, Siebers B. J Biol Chem. 2003 Nov 21;278(47):47253-60.
  99. GlobPlot: Exploring protein sequences for globularity and disorder.
    Linding R, Russell RB, Neduva V, Gibson TJ. Nucleic Acids Res. 2003 Jul 1;31(13):3701-8.
  100. Annotation in three dimensions. PINTS: Patterns in Non-homologous Tertiary Structures.
    Stark A, Russell RB. Nucleic Acids Res. 2003 Jul 1;31(13):3341-4.
  101. bantam encodes a developmentally regulated microRNA that controls cell proliferation and regulates the proapoptotic gene hid in Drosophila.
    Brennecke J, Hipfner DR, Stark A, Russell RB, Cohen SM. Cell. 2003 Apr 4;113(1):25-36.
  102. A model for statistical significance of local similarities in structure.
    Stark A, Sunyaev S, Russell RB. J Mol Biol. 2003 Mar 7;326(5):1307-16. Review.
  103. InterPreTS: protein interaction prediction through tertiary structure.
    Aloy P, Russell RB. Bioinformatics. 2003 Jan;19(1):161-2.
  104. Getting the most from your protein sequence.
    Copley RR, Russell RB. Methods Mol Biol. 2003;211:411-30.
  105. 2002

  106. The third dimension for protein interactions and complexes.
    Aloy P, Russell RB. Trends Biochem Sci. 2002 Dec;27(12):633-8. Review.
  107. A dynamic structural model for estrogen receptor-alpha activation by ligands, emphasizing the role of interactions between distant A and E domains.
    Métivier R, Stark A, Flouriot G, Hübner MR, Brand H, Penot G, Manu D, Denger S, Reid G, Kos M, Russell RB, Kah O, Pakdel F, Gannon F. Mol Cell. 2002 Nov;10(5):1019-32.
  108. Potential artefacts in protein-interaction networks.
    Aloy P, Russell RB. FEBS Lett. 2002 Oct 23;530(1-3):253-4.
  109. Genomics, proteomics and bioinformatics: all in the same boat.
    Russell RB. Genome Biol. 2002 Sep 24;3(10):REPORTS4034.
  110. A complex prediction: three-dimensional model of the yeast exosome.
    Aloy P, Ciccarelli FD, Leutwein C, Gavin AC, Superti-Furga G, Bork P, Bottcher B, Russell RB. EMBO Rep. 2002 Jul;3(7):628-35.
  111. Evolutionary relationship between the bacterial HPr kinase and the ubiquitous PEP-carboxykinase: expanding the P-loop nucleotidyl transferase superfamily.
    Russell RB, Márquez JA, Hengstenberg W, Scheffzek K. FEBS Lett. 2002 Apr 24;517(1-3):1-6.
  112. Fold recognition without folds.
    Koretke KK, Russell RB, Lupas AN. Protein Sci. 2002 Jun;11(6):1575-9.
  113. The natural history of protein domains.
    Ponting CP, Russell RR. Annu Rev Biophys Biomol Struct. 2002;31:45-71. Review.
  114. Interrogating protein interaction networks through structural biology.
    Aloy P, Russell RB. Proc Natl Acad Sci U S A. 2002 Apr 30;99(9):5896-901.
  115. Structural similarity to link sequence space: new potential superfamilies and implications for structural genomics.
    Aloy P, Oliva B, Querol E, Aviles FX, Russell RB. Protein Sci. 2002 May;11(5):1101-16.
  116. Structure of the full-length HPr kinase/phosphatase from Staphylococcus xylosus at 1.95 A resolution: Mimicking the product/substrate of the phospho transfer reactions.
    Márquez JA, Hasenbein S, Koch B, Fieulaine S, Nessler S, Russell RB, Hengstenberg W, Scheffzek K. Proc Natl Acad Sci U S A. 2002 Mar 19;99(6):3458-63.
  117. Classification of protein folds.
    Russell RB. Mol Biotechnol. 2002 Jan;20(1):17-28. Review.
  118. CASH--a beta-helix domain widespread among carbohydrate-binding proteins.
    Ciccarelli FD, Copley RR, Doerks T, Russell RB, Bork P. Trends Biochem Sci. 2002 Feb;27(2):59-62.
  119. 2001

  120. Fold recognition from sequence comparisons.
    Koretke KK, Russell RB, Lupas AN. Proteins. 2001;Suppl 5:68-75.
  121. Predicting function from structure: examples of the serine protease inhibitor canonical loop conformation found in extracellular proteins.
    Jackson RM, Russell RB. Comput Chem. 2001 Dec;26(1):31-9.
  122. GABA(B2) is essential for g-protein coupling of the GABA(B) receptor heterodimer.
    Robbins MJ, Calver AR, Filippov AK, Hirst WD, Russell RB, Wood MD, Nasir S, Couve A, Brown DA, Moss SJ, Pangalos MN. J Neurosci. 2001 Oct 15;21(20):8043-52.
  123. Exon structure conservation despite low sequence similarity: a relic of dramatic events in evolution?
    Betts MJ, Guigó R, Agarwal P, Russell RB. EMBO J. 2001 Oct 1;20(19):5354-60.
  124. On the evolution of protein folds: are similar motifs in different protein folds the result of convergence, insertion, or relics of an ancient peptide world?
    Lupas AN, Ponting CP, Russell RB. J Struct Biol. 2001 May-Jun;134(2-3):191-203. Review.
  125. Sialidase-like Asp-boxes: sequence-similar structures within different protein folds.
    Copley RR, Russell RB, Ponting CP. Protein Sci. 2001 Feb;10(2):285-92.
  126. Identification of distant homologues of fibroblast growth factors suggests a common ancestor for all beta-trefoil proteins.
    Ponting CP, Russell RB. J Mol Biol. 2000 Oct 6;302(5):1041-7.
  127. The C-terminal domains of the GABA(b) receptor subunits mediate intracellular trafficking but are not required for receptor signaling.
    Calver AR, Robbins MJ, Cosio C, Rice SQ, Babbs AJ, Hirst WD, Boyfield I, Wood MD, Russell RB, Price GW, Couve A, Moss SJ, Pangalos MN. J Neurosci. 2001 Feb 15;21(4):1203-10.
  128. 2000

  129. New roles for structure in biology and drug discovery.
    Russell RB, Eggleston DS. Nat Struct Biol. 2000 Nov;7 Suppl:928-30.
  130. Classification of protein folds.
    Russell RB. Methods Mol Biol. 2000;143:305-24.
  131. Changes in mitochondrial genetic codes as phylogenetic characters: two examples from the flatworms.
    Telford MJ, Herniou EA, Russell RB, Littlewood DT. Proc Natl Acad Sci U S A. 2000 Oct 10;97(21):11359-64.
  132. Analysis and prediction of functional sub-types from protein sequence alignments.
    Hannenhalli SS, Russell RB. J Mol Biol. 2000 Oct 13;303(1):61-76.
  133. The serine protease inhibitor canonical loop conformation: examples found in extracellular hydrolases, toxins, cytokines and viral proteins.
    Jackson RM, Russell RB. J Mol Biol. 2000 Feb 18;296(2):325-34.
  134. 1999

  135. A lipid-binding domain in Wnt: a case of mistaken identity?
    Barnes MR, Russell RB, Copley RR, Ponting CP, Bork P, Cumberledge S, Reichsman F, Moore HM. Curr Biol. 1999 Oct 7;9(19):R717-9.
  136. Fold recognition using sequence and secondary structure information.
    Koretke KK, Russell RB, Copley RR, Lupas AN. Proteins. 1999;Suppl 3:141-8.
  137. Functional analysis of H-Ryk, an atypical member of the receptor tyrosine kinase family.
    Katso RM, Russell RB, Ganesan TS. Mol Cell Biol. 1999 Sep;19(9):6427-40.
  138. 1998

  139. Misleading local sequence alignments: implications for comparative protein modelling.
    Saqi MA, Russell RB, Sternberg MJ. Protein Eng. 1998 Aug;11(8):627-30.
  140. Supersites within superfolds. Binding site similarity in the absence of homology.
    Russell RB, Sasieni PD, Sternberg MJ. J Mol Biol. 1998 Oct 2;282(4):903-18.
  141. Protein fold irregularities that hinder sequence analysis.
    Russell RB, Ponting CP. Curr Opin Struct Biol. 1998 Jun;8(3):364-71. Review.
  142. Detection of protein three-dimensional side-chain patterns: new examples of convergent evolution.
    Russell RB. J Mol Biol. 1998 Jun 26;279(5):1211-27.
  143. Recognition of analogous and homologous protein folds--assessment of prediction success and associated alignment accuracy using empirical substitution matrices.
    Russell RB, Saqi MA, Bates PA, Sayle RA, Sternberg MJ. Protein Eng. 1998 Jan;11(1):1-9.
  144. 1997

  145. Recognition of analogous and homologous protein folds: analysis of sequence and structure conservation.
    Russell RB, Saqi MA, Sayle RA, Bates PA, Sternberg MJ. J Mol Biol. 1997 Jun 13;269(3):423-39.
  146. Two new examples of protein structural similarities within the structure-function twilight zone.
    Russell RB, Sternberg MJ. Protein Eng. 1997 Apr;10(4):333-8.
  147. 1996

  148. Protein fold recognition by mapping predicted secondary structures.
    Russell RB, Copley RR, Barton GJ. J Mol Biol. 1996 Jun 14;259(3):349-65.
  149. A novel binding site in catalase is suggested by structural similarity to the calycin superfamily.
    Russell RB, Sternberg MJ. Protein Eng. 1996 Feb;9(2):107-11.
  150. 1995

  151. Swaposins: circular permutations within genes encoding saposin homologues.
    Ponting CP, Russell RB. Trends Biochem Sci. 1995 May;20(5):179-80. Review.
  152. Structure prediction. How good are we?
    Russell RB, Sternberg MJ. Curr Biol. 1995 May 1;5(5):488-90. Review.
  153. Towards an intelligent system for the automatic assignment of domains in globular proteins.
    Sternberg MJ, Hegyi H, Islam SA, Luo J, Russell RB. Proc Int Conf Intell Syst Mol Biol. 1995;3:376-83.
  154. 1994

  155. Structural features can be unconserved in proteins with similar folds. An analysis of side-chain to side-chain contacts secondary structure and accessibility.
    Russell RB, Barton GJ. J Mol Biol. 1994 Dec 2;244(3):332-50.
  156. Domain insertion.
    Russell RB. Protein Eng. 1994 Dec;7(12):1407-10. Review.
  157. Structural similarity between the p17 matrix protein of HIV-1 and interferon-gamma.
    Matthews S, Barlow P, Boyd J, Barton G, Russell R, Mills H, Cunningham M, Meyers N, Burns N, Clark N, et al. Nature. 1994 Aug 25;370(6491):666-8.
  158. 1993

  159. The limits of protein secondary structure prediction accuracy from multiple sequence alignment.
    Russell RB, Barton GJ. J Mol Biol. 1993 Dec 20;234(4):951-7.
  160. An SH2-SH3 domain hybrid.
    Russell RB, Barton GJ. Nature. 1993 Aug 26;364(6440):765.
  161. Protein structure prediction.
    Barton GJ, Russell RB. Nature. 1993 Feb 11;361(6412):505-6.
  162. 1992

  163. Multiple protein sequence alignment from tertiary structure comparison: assignment of global and residue confidence levels.
    Russell RB, Barton GJ. Proteins. 1992 Oct;14(2):309-23.
  164. Conservation analysis and structure prediction of the SH2 family of phosphotyrosine binding domains.
    Russell RB, Breed J, Barton GJ. FEBS Lett. 1992 Jun 8;304(1):15-20.
  165. 1991

  166. Consequences of intramolecular ionic interactions for the activation rate of human pepsinogens A and C as revealed by molecular modelling.
    Bank RA, Russell RB, Pals G, James MN. Adv Exp Med Biol. 1991;306:101-5.
  167. Molecular biology of human renin and its gene.
    Baxter JD, Duncan K, Chu W, James MN, Russell RB, Haidar MA, DeNoto FM, Hsueh W, Reudelhuber TL. Recent Prog Horm Res. 1991;47:211-57; discussion 257-8. Review.