Publications from Prof. Dr. D Frishman

Books

  1. Frishman D, ed. (2009) Structural bioinformatics of membrane proteins. Springer, Wien
  2. Frishman D and Valencia A, eds. (2009) Modern Genome Annotation. The BioSapiens Network. Springer, Wien

Articles

  1. Neumann S, Hartmann H, Martin-Galiano A, Fuchs A and Frishman D (2011) CAMPS 2.0: exploring the sequence and structure space of prokaryotic, eukaryotic and viral membrane proteins. Proteins in press
  2. Chursov A, Walter MC, Schmidt T, Mironov A, Shneider A and Frishman D (2011) Sequence-structure relationships in yeast mRNAs. Nucleic Acids Res in press
  3. Theis F, Latif N, Wong P and Frishman D (2011) Complex principal component and correlation structure of 16 yeast genomic variables. Mol Biol Evol 28(9):2501–12
  4. Kuravsky ML, Aleshin VV, Frishman D and Muronetz VI (2011) Testis-specific glyceraldehyde-3-phosphate dehydrogenase: origin and evolution. BMC Evol Biol 11: 160
  5. Mewes HW, Ruepp A, Theis F, Rattei T, Walter M, Frishman D, et al (2011) MIPS: curated databases and comprehensive secondary data resources in 2010. Nucleic Acids Res 39 (Database issue): D220–4
  6. Luo Q, Pagel P, Vilne B and Frishman D (2011) DIMA 3.0: Domain Interaction Map. Nucleic Acids Res 39 (Database issue): D724–9
  7. Gershoni M, Fuchs A, Shani N, Fridman Y, Corral-Debrinski M, Aharoni A, Frishman D and Mishmar D (2010) Co-evolution predicts direct interactions between mtDNA and nuclear DNA-encoded subunits of oxidative phosphorylation complex I. J Mol Biol 404:158–71
  8. Kowarsch A, Fuchs A, Frishman D and Pagel P (2010) Correlated mutations: a hallmark of phenotypic amino acid substitutions. PLoS Comput Biol 6(9)
  9. Sturm M, Hackenberg M, Langenberger D and Frishman D (2010) TargetSpy: a supervised machine learning approach for microRNA target prediction. BMC Bioinformatics 11:292
  10. Fuchs A and Frishman D (2010) Structural comparison and classification of alpha-helical transmembrane domains based on helix interaction patterns. Proteins 78:2587–99
  11. Neumann S, Fuchs A, Mulkidjanian A and Frishman D (2010) Current status of membrane protein structure classification. Proteins 78:1760–73
  12. Herrmann JR, Fuchs A, Panitz JC, Eckert T, Unterreitmeier S, Frishman D and Langosch D (2010) Ionic interactions promote transmembrane helix-helix association depending on sequence context. J Mol Biol 396:452–61
  13. Smialowski P, Frishman D and Kramer S (2010) Pitfalls of supervised feature selection. Bioinformatics 26:440–3
  14. Smialowski P and Frishman D (2010) Protein crystallizability. Methods Mol Biol 609:385–400
  15. Smialowski P, Pagel P, Wong P, Brauner B, Dunger I, Fobo G, Frishman G, Montrone C, Rattei T, Frishman D and Ruepp A (2010) The Negatome Database - a reference set of non-interacting protein pairs. Nucleic Acids Res 38:D540–4
  16. Ilyinskii P, Schmidt T, Lukashev D, Meriin A, Thoidi G, Frishman D and Shneider A (2009) Importance of mRNA structural elements for the expression of Influenza virus genes. OMICS 13(5):421–30
  17. Loewenstein Y, Raimondo D, Redfern OC, Watson J, Frishman D, Linial M, Orengo C, Thornton and Tramontano A (2009) Protein function annotation by homology based inference. Genome Biol 10:207
  18. Fuchs A, Kirschner A and Frishman D (2009) Prediction of helix-helix contacts and interacting helices in polytopic membrane proteins using neural networks. Proteins 74(4):857–71
  19. Herrmann JR, Panitz JC, Unterreitmeier S, Fuchs A, Frishman D and Langosch D (2009) Complex Patterns of Histidine, Hydroxylated Amino Acids and the GxxxG Motif Mediate High-affinity Transmembrane Domain Interactions. J Mol Biol 385(3):912–3
  20. Antranikian G, Ruepp A, Gordon PM, Ballschmiter M, Zibat A, Stark M, Sensen CW, Frishman D, Liebl W and Klenk HP (2009) Rapid access to genes of biotechnologically useful enzymes by partial genome sequencing: the thermoalkaliphile Anaerobranca gottschalkii. J Mol Microbiol Biotechnol 16:81–90
  21. Walter MC, Rattei T, Arnold R, Güldener U, Münsterkötter M, Nenova K, Kastenmüller G, Tischler P, Wölling A, Volz A, Pongratz N, Jost R, Mewes HW and Frishman D (2009) PEDANT covers all complete RefSeq genomes. Nucleic Acids Res 37 (Database issue):D408–11
  22. Wong P, Althammer S, Hildebrand A, Kirschner A, Pagel P, Geissler B, Smialowski P, Bloechl, M, Oesterheld M, Schmidt T, Strack N, Theis F, Ruepp A and Frishman D (2008) An evolutionary and structural characterization of mammalian protein complex organization. BMC Genomics 9(1):629
  23. Schmidt T and Frishman D (2008) Assignment of isochores for all completely sequenced vertebrate genomes using a consensus. Genome Biol 9(6):R104
  24. Kirschner A and Frishman D (2008) Prediction of ß-turns and ß-turn types by a novel bidirectional Elman-type recurrent neural network with multiple output Layers (MOLEBRNN). Gene 422:22–9
  25. Frishman D, Albrecht M, Blankenburg H, Bork P, Harrington ED, Hermjakob H, Jensen LJ, Juan DA, Lengauer T, Pagel P, Schachter V and Valencia A (2008) Protein-protein interactions: analysis and prediction. In Frishman D and Valencia A, eds. Modern genome annotation. The BioSapiens network of excellence. Springer, Vienna, p 348–412
  26. Artamonova I, Kramer S and Frishman D (2008) Data mining in genome annotation. In Frishman D and Valencia A, eds. Modern genome annotation. The BioSapiens network of excellence. Springer, Vienna, p 191–212
  27. Wong P and Frishman D (2008) Designability and disease. Methods Mol Biol 484:491–504
  28. Smialowski P and Frishman D (2008) Protein cristallizability. In Carugo O and Eisenhaber F, eds. Biological data mining. Methods in Molecular Biology, Humana Press
  29. Martin-Galiano AJ, Smialowski P and Frishman D (2007) Predicting experimental properties of integral membrane proteins by a naive bayes approach. Proteins 70:1243–56
  30. Ishihama Y, Schmidt T, Rappsilber J, Mann M, Hartl FU, Kerner MJ and Frishman D (2008) Protein abundance profiling of the Escherichia coli cytosol. BMC Genomics 9:102
  31. Grimm M, Stephan R, Iversen C, Manzardo GGG, Rattei T, Riedel K, Ruepp A, Frishman D and Lehner A (2007) Cellulose as an extra-cellular matrix component present in Enterobacter sakazakii biofilms. J Food Protection 71:13–8
  32. Mewes HW, Dietmann S, Frishman D, Gregory R, Mannhaupt G, Mayer KF, Münsterkötter M, Ruepp A, Spannagl M, Stümpflen V and Rattei T (2008) MIPS: analysis and annotation of genome information in 2007. Nucleic Acids Res 36:D196–D201
  33. Pagel P, Oesterheld M, Tovstukhina O, Strack N, Stuempflen V and Frishman D (2008) DIMA 2.0: Predicted and Known Domain Interactions. Nucleic Acids Res 36:D651–5
  34. Unterreitmeier S, Fuchs A, Schaeffler T, Heym RG, Frishman D and Langosch D (2007) Phenylalanine promotes interaction of transmembrane domains via GxxxG motifs. J Mol Biol 374(3):705–18
  35. Fuchs A, Martin-Galiano AJ, Kalman M, Fleishman S, Ben-Tal S and Frishman D (2007) Co-Evolving Residues in Membrane Proteins. Bioinformatics 23:3312–9
  36. Artamonova I, Frishman G and Frishman D (2007) Applying negative rule mining to improve genome annotation. BMC Bioinformatics 8:261
  37. Frishman D (2007) Protein annotation at genomic scale: the current status. Chem Rev 107:3448–66
  38. Pagel P, Strack N, Oesterheld M, Stümpflen V and Frishman D (2007) Computational prediction of domain interactions. Methods Mol Biol 396:3–15
  39. Smialowski P, Martin-Galiano AJ, Mikolajka A, Girschick T, Holak TA and Frishman D (2007) Protein solubility: sequence based prediction and experimental verification. Bioinformatics 23:2536–42
  40. Smialowski P, Martin-Galiano AJ, Cox J and Frishman D (2007) Predicting experimental properties of proteins from sequence by machine learning. Curr Prot Pept Sci 8:121–33
  41. Riley L, Schmidt T, Wagner C, Volz A, Artamonova I,Heumann K, Mewes HW and Frishman D (2007) PEDANT genome database: ten years online. Nucleic Acids Res 35 (Database issue):D354–7
  42. Lehner A, Grimm M, Rattei T, Ruepp A, Frishman D, Manzardo GG and Stephan R (2006) Cloning and characterization of Enterobacter sakazakii pigment genes and in situ spectroscopic analysis of the pigment. FEMS Microbiol Lett 265:244–8
  43. Lehner A, Riedel K, Rattei T, Ruepp A, Frishman D, Breeuwer P, Diep B, Eberl L and Stephan R (2006) Molecular characterization of the alpha-glucosidase activity in Enterobacter sakazakii reveals the presence of a putative gene cluster for palatinose metabolism. Syst Appl Microbiol 29:609–25
  44. Martin-Galiano AJ and Frishman D (2006) Defining the fold space of membrane proteins: the CAMPS database. Proteins 64:906–22
  45. Schmidt T and Frishman D (2006) PROMPT: A protein mapping and comparison tool. BMC Bioinformatics 7(1):331
  46. Strous M et al (2006) Deciphering the evolution and metabolism of an anammox bacterium from a community genome. Nature 440:790–4
  47. Frishman D, Heumann K and Mewes H-W (2006) The PEDANT genome database. In Mulder N, ed. In Silico Genomics and Proteomics: Functional Annotation of Genomes and Proteins, Nova Science Publishers, Inc, New York
  48. Martin-Galiano AJ and Frishman D (2006) Defining the fold space of membrane proteins: The CAMPS database. Proteins 64(4):906–22
  49. Wong P and Frishman D (2006) Fold designability, distribution and disease. PLoS Comput Biol 2(5):e40
  50. Lehner A, Riedel K, Rattei T, Ruepp A, Frishman D, Breeuwer P, Diep B, Eberl L and Stephan R (2006) Molecular characterization of the alpha glucosidase activity in Enterobacter sakazakii reveals the presence of a putative gene cluster for palatinose metabolism. Syst Appl Microbiol 29(8):609–25
  51. Pagel P, Oesterheld M, Stuempflen V and Frishman D (2006) The DIMA Web Resource — Exploring the Protein Domain Network. Bioinformatics 22:997–8
  52. Mewes HW, Frishman D, Mayer KF, Münsterkötter M, Nobibou O, Pagel P, Rattei T, Oesterheld M, Ruepp A and Stümpflen V (2006) MIPS: analysis and annotation of proteins from whole genomes in 2005. Nucleic Acids Res 34:D169–72
  53. Ruepp A, Doudieu ON, van den Oever J, Brauner B, Dunger-Kaltenbach I, Fobo G, Frishman G, Montrone C, Skornia C, Wanka S, Rattei T, Pagel P, Riley L, Frishman D, Surmeli D, Tetko I, Oesterheld M, Stümpflen V and Mewes HW (2006) The Mouse Functional Genome Database (MfunGD): functional annotation of proteins in the light of their cellular context. Nucleic Acids Res 34:D568–71
  54. Neverov AD, Artamonova II, Nurtdinov RN, Frishman D, Gelfand MS and Mironov AA (2005) Alternative splicing and protein function. BMC Bioinformatics 6:266
  55. Frishman D (2005) Target selection for structural genomics. In Jorde LB, Little PFR, Dunn MJ and Subramaniam S, eds. Encyclopedia of Genetics, Genomics, Proteomics and Bioinformatics. John Wiley & Sons Ltd, Chichester, pp 2552–64
  56. Borodovsky M, Rzhetsky A and Frishman D (2005) The Fifth Georgia Tech—Oak Ridge National Laboratory International Conference in Bioinformatics: in silico Biology, Computational Genomics and Evolutionary Biology. Bioinformatics 21:Suppl_3:iii1
  57. Artamonova II, Frishman G, Gelfand MS and Frishman D (2005) Mining sequence annotation databanks for association patterns. Bioinformatics 21:Suppl_3:iii49–iii57
  58. Smialowski P, Schmidt T, Cox J, Kirschner A and Frishman D (2005) Will my protein crystallize? A sequence-based predictor. Proteins 62:343–55
  59. Wong P, Fritz A and Frishman D (2005) Designability, aggregation propensity and duplication of disease-associated proteins. Protein Eng Des Sel 18(10):503–8
  60. Kerner MJ, Naylor DJ, Ishihama Y, Maier T, Chang HC, Stines AP, Georgopoulos C, Frishman D, Hayer-Hartl M, Mann M and Hartl FU (2005) Proteome-wide analysis of chaperonin-dependent protein folding in Escherichia coli. Cell 22:209–20
  61. Pagel P, Kovac S, Oesterheld M, Brauner B, Dunger-Kaltenbach I, Frishman G, Montrone C, Mark P, Stumpflen V, Mewes HW, Ruepp A and Frishman D (2005) The MIPS mammalian protein-protein interaction database. Bioinformatics 21:832–4
  62. Riley ML, Schmid T, Wagner C, Mewes HW and Frishman D (2005) The PEDANT genome database in 2005. Nucleic Acids Res 33:D308–10
  63. Pagel P, Wong P and Frishman D (2004) A domain interaction network based on phylogenetic profiling. J Mol Biol 344:1331–46
  64. Huang Y, Frishman D and Muchnik I (2004) Predicting Protein-Protein Interactions by a Supervised Learning Classifier. Comput Biol Chem 28:291–301
  65. Meyer TE, Tsapin AI, Vandenberghe I, De Smet L, Frishman D, Nealson KH, Cusanovich MA and Van Beeumen JJ (2004) Identification of 42 Possible Cytochrome C Genes in the Shewanella oneidensis Genome and Characterization of Six Soluble Cytochromes. OMICS 8:57–77
  66. Offman M, Nurtdinov RN, Gelfand MS and Frishman D (2004) No statistical support for correlation between the positions of protein interaction sites and alternatively spliced regions. BMC Bioinformatics 19:41
  67. Heinig M and Frishman D (2004) STRIDE: a Web server for secondary structure assignment from known atomic coordinates of proteins. Nucleic Acids Res 32:W500–2
  68. Kolker E, Makarova K, Shabalina S, Picone A, Purvine S, Holzman T, Cherny T, Armbruster D, Munson R, Kolesov G, Frishman D and Galperin M (2004) Identification and Functional Analysis of "Conserved Hypothetical" Genes Expressed in Haemophilus influenzae. Nucleic Acids Res 32:2353–61
  69. Horn M, Collingro A, Schmitz-Esser S, Beier CL, Purkhold U, Fartmann B, Brandt P, Byakatura GJ, Droege M, Frishman D, Rattei T, Mewes HW and Wagner M (2004) Illuminating the evolutionary history of Chlamydiae via genomic analysis of a Chlamydia-related symbiont of amoebae. Science 304:728–30
  70. Frishman D (2005) Target selection for structural genomics. In Dunn MJ, Jorde LB, Little PFR and Subramaniam S, eds. Genetics, Genomics, Proteomics and Bioinformatics, John Wiley & Sons, Hoboken
  71. Pagel P, Mewes HW and Frishman D (2004) Conservation of protein-protein interactions — lessons from ascomycota. Trends Genet 20:72–6
  72. Mewe HW, Amid C, Arnold R, Frishman D, Gueldener U, Mannhaupt G, Muensterkoetter M, Pagel P, Strack N, Stuempflen V, Warfsmann J and Ruepp A (2004) MIPS: analysis and annotation of proteins from whole genomes.Nucleic Acids Res 32:D41–D44
  73. Frishman D (2003) What We Have Learned about Prokaryotes from Structural Genomics. OMICS 7:211–24
  74. Galagan JE et al (2003) The Genome Sequence of the Filamentous Fungus Neurospora crassa. Nature 422:859–68
  75. Wong P, Kolesov G, Frishman D and Houry WA (2003) Phylogenetic Web Profiler. Bioinformatics 19:782–3
  76. Frishman D, Mokrejs M, Kosykh D, Kastenmueller G, Kolesov G, Zubrzycki I, Gruber C, Geier B, Kaps A, Albermann K, Volz A, Wagner C, Fellenberg M, Heumann K and Mewes HW (2003) The PEDANT genome database. Nucleic Acids Res 31:207–11
  77. Kolesov G, Mewes HW and Frishman D (2002) SNAPper: gene order predicts gene function. Bioinformatics 18:1017–9
  78. Mewes HW, Frishman D, Guldener U, Mannhaupt G, Mayer K, Mokrejs M, Morgenstern B, Munsterkotter M, Rudd S and Weil B (2002) MIPS: a database for genomes and protein sequences. Nucleic Acids Res 30:31–4
  79. Frishman D (2001) Knowledge-based selection of targets for structural genomics. Protein Eng 15:169–83
  80. Kolesov G, Mewes HW and Frishman D (2002) SNAPping functionally related genes based on context information: a collinearity-free approach. In Mewes HW, Weiss B, Seidel H, eds. Ernst Schering Research Foundation Workshop Volume 38: Bioinformatics and Genome Analysis. Springer-Verlag, Berlin Heidelberg, p 29–63
  81. Kolesov G, Mewes HW and Frishman D (2001) SNAPping up functionally related genes based on context information: a colinearity-free approach. J Mol Biol 311:639–56
  82. Frishman D, Albermann K, Hani J, Heumann K, Metanomski A, Zollner A and Mewes HW (2001) Functional and structural genomics using PEDANT. Bioinformatics 17:44–57
  83. The Arabidopsis Genome Initiative (2000) Analysis of the genome sequence of the flowering plant Arabidopsis thaliana. Nature 408:796–815
  84. Ruepp A, Graml W, Santos-Martinez ML, Koretke KK, Volker C, Mewes HW, Frishman D, Stocker S, Lupas AN and Baumeister W (2000) The genome of the thermoacidophilic scavenger Thermoplasma acidophilum. Nature 407:508–13
  85. Frishman D, Goldstein RA and Pollock DD (2000) Protein evolution and structural genomics. Pac Symp Biocomput 12:3–5
  86. Mewes HW et al (2000) MIPS: a database for genomes and protein sequences. Nucleic Acids Res 28:37–40
  87. Wambutt R et al (2000) Progress in Arabidopsis genome sequencing and functional genomics. J Biotechnol 78:281–92
  88. Frishman D, Goldstein RA and Pollock DD (2000) Protein Evolution and Structural Genomics. Pac Symp Biocomput p 3
  89. Mayer K et al (1999) Sequence and analysis of chromosome 4 of the plant Arabidopsis thaliana. Nature 402:769–77
  90. Houry WA, Frishman D, Eckerskorn C, Lottspeich F and Hartl FU (1999) Identification of in vivo substrates of the chaperonin GroEL. Nature 402:147–54
  91. Frishman D, Mironov A and Gelfand M (1999). Starts of bacterial genes: estimating the reliability of computer predictions. Gene 234:257–65
  92. Frishman D and Mewes HW (1999) Genome-based structural biology. Prog Biophys Mol Biol 72:1–17
  93. Frishman D, Mironov A and Gelfand M (1999) Starts of bacterial genes: estimating the reliability of computer predictions. Gene 234:257–65
  94. Mewes HW, Heumann K, Kaps A, Mayer K, Pfeiffer F, Stocker S and Frishman D (1999) MIPS: a database for genomes and protein sequences. Nucleic Acids Res 27:44–8
  95. Mironov AA, Frishman D and Gelfand MS (1999) Computer analysis of regulatory signals in complete bacterial genomes. Participation of ribosome binding. Mol Biol (Mosk) 33:133–40
  96. Frishman D, Mironov A, Mewes HW and Gelfand M (1998) Combining diverse evidence for gene recognition in completely sequenced bacterial genomes. Nucleic Acids Res 26:2941–7
  97. Hartung K, Frishman D, Hinnen A and Wolfl S (1998) Single-read sequence tags of a limited number of genomic DNA fragments provide an inexpensive tool for comparative genome analysis. Yeast 14:1327–32
  98. Frishman D, Heumann K, Lesk A and Mewes HW (1998) Comprehensive, comprehensible, distributed and intelligent databases: current status. Bioinformatics 14:551–61
  99. Muckenthaler M, Gunkel N, Frishman D, Cyrklaff A, Tomancak P and Hentze MW (1998) Iron-regulatory protein-1 (IRP-1) is highly conserved in two invertebrate species—characterization of IRP-1 homologues in Drosophila melanogaster and Caenorhabditis elegans. Eur J Biochem 254:230–7
  100. Kosel S, Grasbon-Frodl EM, Mautsch U, Egensperger R, von Eitzen U, Frishman D, Hofmann S, Gerbitz KD, Mehraein and Graeber MB (1998) Novel mutations of mitochondrial complex I in pathologically proven Parkinson disease. Neurogenetics 1:197–204
  101. Mewes HW, Hani J, Pfeiffer F and Frishman D (1998) MIPS: a database for protein sequences and complete genomes. Nucleic Acids Res 26:33–7
  102. Frishman D and Mewes HW (1998) The German Conference on Bioinformatics 1997. Bioinformatics 14:231
  103. Frishman D (1998) Intelligent and Distributed Databases (Session Introduction). Pac Symp Biocomput p 681–2
  104. Mewes HW, Maierl A and Frishman D (1998) Protein sequences and genome databases. In Kellner R, Lottspeich F and Meyer HE, eds. Microcharacterization of proteins, VCH, Weinheim, p 301–317
  105. Galperin MY and Frishman D (1998) Toward automated prediction of protein function from microbial genomic sequences. Methods in Microbiol 28:245–63
  106. Mewes HW, Frishman D, Zollner A and Heumann K (1998) The bioinformatics of the yeast genome. Meth Microbiol 26:33–51
  107. Frishman D and Mewes HW (1997) Protein structural classes in five complete genomes. Nat Struct Biol 4:626–8
  108. Frishman D and Mewes HW (1997) PEDANTic genome analysis. Trends Genet 13:415–6
  109. Mewes HW, Albermann K, Bahr M, Frishman D, Gleissner A, Hani J, Heumann K, Kleine K, Maierl A, Oliver SG, Pfeiffer F and Zollner A (1997) Overview of the yeast genome. Nature 387:7–65
  110. Bohm S, Frishman D and Mewes HW (1997) Variations of the C2H2 zinc finger motif in the yeast genome and classification of yeast zinc finger proteins. Nucleic Acids Res 25:2464–9
  111. Frishman D and Argos P (1997) The future of the secondary structure prediction accuracy. Fold Des 2:159–62
  112. Frishman D and Argos P (1997) Seventy-five percent accuracy in protein secondary structure prediction. Proteins 27:329–35
  113. Argos P, Mewes HW and Frishman D (1997) Intelligent and Distributed Databases (Session Introduction). Pac Symp Biocomput p 3
  114. Kaps A, Heumann K, Frishman D, Baehr M and Mewes HW (1997) Visuslization and analysis of the complete yeast genome. In Hofestaedt R, Lengauer T, Loeffler M and Schomburg D, eds. German Conference on Bioinformatics, GCB' 96, Leipzig, Germany, September 30 – October 2, 1996. Selected Papers Series: Lecture Notes in Computer Science, Vol. 1278, Springer-Verlag, Berlin Heidelberg, p 178–99
  115. Heringa J, Frishman D and Argos P (1997) Computational methods relating protein sequences and structure. In Allen G, ed. Proteins: a comprehensive treatise Vol 1, Principles of Protein Structure. JAI Press, Greenwich, p 171–277
  116. Frishman D and Argos P (1997) Neural network that recognizes distantly related protein sequences. In Fiesler E and Beale R, eds. Handbook of Neural Computation. Taylor & Francis, London
  117. Frishman D and Argos P (1996) Incorporation of non-local interactions in protein secondary structure prediction from the amino acid sequence. Protein Eng 9:133–42
  118. Frishman D and Hentze MW (1996) Conservation of aconitase residues revealed by multiple sequence analysis. Implications for structure/function relationships. Eur J Biochem 239:197–200
  119. Frishman D (1996) DSBC protein: a new member of the thioredoxin fold-containing family. Biochem Biophys Res Commun 219:686–9
  120. Frishman D and Argos P (1995) Knowledge-based protein secondary structure assignment. Proteins 23:566–79
  121. Frishman D and Argos P (1995) Neural network that recognizes distantly related protein sequences. In Fiesler E and Beale R, eds. Handbook of Neural Computation, Oxford University Press
  122. Abagyan R, Frishman D and Argos P (1994) Recognition of distantly related proteins through energy calculations. Proteins 19:132–40
  123. Vogt G, Frishman D and Argos P (1994) A parallel processor implementation of an algorithm to delineate distantly related protein sequences with conserved motifs and neural networks. In HH Bock, W Lenski and MM Richter, eds. Information systems and data analysis Proc. 17th Annual Conference of the Gesellschaft für Klassification. Springer-Verlag, Berlin Heidelberg, p 397–408
  124. Frishman D and Argos P (1992) Recognition of distantly related protein sequences using conserved motifs and neural networks. J Mol Biol 228:951–62
  125. Frishman DI (1992) The classification of signal receptor proteins based on their amino acid sequences. Zh Evol Biokhim Fiziol 28:73–83
  126. Berman AL, Dityatev AE and Frishman D (1991) Physicochemical properties of signal receptor domains as the basis for sequence comparison. Comp Biochem Physiol B 98:445–9
  127. Frishman D, Berman AL and Kiselev OI (1990) G-proteins have a sequence similar to the ganglioside-binding hemagglutinins from the influenza virus. Mol Biol (Mosk) 24:1241–5
  128. Frishman D and Berman AL (1990) The evolution of signal receptor proteins: conserved regions and the similarity to GTP-binding proteins. Zh Evol Biokhim Fiziol 26:14–29
  129. Frishman D and Berman AL (1989) Similarity between arrestin and octopus rhodopsin. Sensory Systems 3:428–9
  130. Tsendina MB, Frishman DI, Levchenko VF and Berman AL (1988) Primary structure similarity and homology between rhodopsin, b-adrenoreceptor and muscarinic cholinoceptor. Zh Evol Biokhim Fiziol 24:797–807