Membrane Protein Bioinformatics Research Group
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    Publications

  1. Dobson L, Szekeres LI, Gedán C, Langó T, Zeke A and Tusnády GE (2023) TmAlphaFold database: membrane localization and evaluation of AlphaFold2 predicted alpha-helical transmembrane protein structures Nucleic Acids Research , .
  2. Zeke A, Takács T, Sok P, Németh K, Kirsch K, Egri P, Póti ÁL, Bento I, Tusnády GE and Reményi A (2022) Structural insights into the pSer/pThr dependent regulation of the SHP2 tyrosine phosphatase in insulin and CD28 signaling Nature Communication 13, 5439.
  3. Bakos É, Németh O, Kucsma N, Tőkési N, Stieger B, Rushing E, Tőkés A, Kele P, Tusnády GE and Özvegy-Laczka Cs (2022) Cloning and characterization of a novel functional organic anion transporting polypeptide 3A1 isoform highly expressed in the human brain and testis Frontiers in Pharmacology 13, 958023.
  4. Dobson L and Tusnády GE (2021) MemDis: Predicting Disordered Regions in Transmembrane Proteins Int. J. Mol. Sci. 22, 12270.
  5. Czimer D, Porok K, Csete D, Gyüre Zs, Lavró V, Fülöp K, Chen Z, Gyergyák H, Tusnády GE, Burgess SM, Mócsai A, Váradi A and Varga M (2021) A New Zebrafish Model for Pseudoxanthoma Elasticum Front Cell Dev Biol 9, 628699.
  6. Dobson L, Zeke A and Tusnády GE (2021) PolarProtPred: Predicting apical and basolateral localization of transmembrane proteins using putative short linear motifs and deep learning. Bioinformatics , btab480. If.: ---
  7. Zeke A, Dobson L, Szekeres LI, Langó T and Tusnády GE (2021) PolarProtDb: A Database of Transmembrane and Secreted Proteins showing Apical-Basal Polarity J Mol Biol 433, 166705. If.: ---
  8. Tálas A, Huszár K, Kulcsár PI, Varga JK, Varga É, Tóth E, Welker Zs, Erdős G, Pach PF, Welker Á, Györgypál Z, Tusnády GE and Welker E (2021) A method for characterizing Cas9 variants via a one-million target sequence library of self-targeting sgRNAs Nucleic Acids Res 49, e31. If.: ---
  9. Kozák E, Szikora B, Iliás A, Jani PK, Hegyi Z, Matula Zs, Dedinszki D, Tőkési N, Fülöp K, Pomozi V, Várady Gy, Bakos É, Tusnády GE, Kacskovics I and Váradi A (2020) Creation of the first monoclonal antibody recognizing an extracellular epitope of hABCC6 FEBS Lett 595, 789-798. If.: ---
  10. Bakos É, Tusnády GE, Német O, Patik I, Magyar C, Németh K, Kele P and Özvegy- Laczka C (2020) Synergistic transport of a fluorescent coumarin probe marks coumarins as pharmacological modulators of Organic anion-transporting polypeptide, OATP3A1 Biochem Pharmacol. , .
  11. Langó T, Pataki ZG, Turiák L, Ács A, Varga JK, Várady, G, Kucsma, N, Drahos, L and Tusnády GE (2020) Partial Proteolysis Improves the Identification of the Extracellular Segments of Transmembrane Proteins by Surface Biotinylation Scientific Reports 10, 8880. If.: ---
  12. Csizmadia, G, Farkas, B, Katona, E, Tusnády, GE and Hegedűs, T (2020) Using MemBlob to Analyze Transmembrane Regions Based on Cryo-EM Maps. Methods Mol Biol. 2112, 123-30.
  13. Farkas, B, Csizmadia, G, Katona, E, Tusnady, GE and Hegedűs, T (2020) MemBlob database and server for identifying transmembrane regions using cryo-EM maps Bioinformatics 36, 2595-98. If.: ---
  14. Vargja, JK and Tusnady, GE (2019) The TMCrys server for supporting crystallization of transmembrane proteins. Bioinformatics 35, 4203-4. If.: 5.481
  15. Muller, A, Lango, T, Turiak, L, Acs, A, Varady, G, Kucsma, N, Drahos, L and Tusnady, GE (2019) Covalently modified carboxyl side chains on cell surface leads to a novel method toward topology analysis of transmembrane proteins Scientific Reports 9, 15729. If.: ---
  16. Dobson, L, Meszaros, B and Tusnady, GE (2018) Structural Principles Governing Disease Causing Germline Mutations. J Mol Biol S0022-2836, 31101-X. If.: ---
  17. Barath, D, Jaksa-Czotter, N, Molnar, J, Varga, T, Balassy, J, Szabo, LK, Kirilla, Z, Tusnady, GE, Preininger, E and Varallyay, E (2018) Small RNA NGS Revealed the Presence of Cherry Virus A and Little Cherry Virus 1 on Apricots in Hungary. Viruses 10, E318.
  18. Varga J and Tusnady, GE (2018) TMCrys: predict propensity of success for transmembrane protein crystallization. Bioinformatics , . If.: 5.481
  19. Fichó E, Reményi I, Simon I and Mészáros B (2017) MFIB: a repository of protein complexes with mutual folding induced by binding Bioinformatics 33, 3682-4. If.: 5.481
  20. Pipek O, Ribli D, Molnar J, Poti A, Krzystanek M, Bodor A, Tusnady GE, Szallas Z, Csabai I and Szuts D (2017) Fast and accurate mutation detection in whole genome sequences of multiple isogenic samples with IsoMut. BMC Bioinformatics 18, 73. If.: 2.435
  21. Lango T, Rona G, Hunyadi-Gulyas E, Turiak L, Varga J, Dobson L, Varady Gy, Drahos L, Vertessy BG, Medzihradszky FK, Szakacs G and Tusnady GE (2017) Identification of extracellular segments by mass spectrometry improves topology prediction of transmembrane proteins Scientific Reports 7, 42610. If.: 5.228
  22. Varga J, Dobson L, Remenyi I and Tusnady GE (2017) TSTMP: target selection for structural genomics of human transmembrane proteins. Nucleic Acids Res 45, D325-330. If.: 9.202
  23. Szikriszt B, Poti A, Pipek O, Krzystanek M, Kanu N, Molnar J, Ribli D, Szeltner Z, Tusnady GE, Csabai I, Szallasi Z, Swanton C and Szuts D (2016) A comprehensive survey of the mutagenic impact of common cancer cytotoxics. Genome Biology 17, 99. If.: 11.313
  24. Varga J, Dobson L and Tusnady GE (2016) TOPDOM: database of conservatively located domains and motifs in proteins. Bioinformatics 32, 2725-2726. If.: 5.552
  25. Czotter N, Szabo E, Molnar J, Kocsis L, Deak T, Bisztray Gy, Tusnady GE, Burgyan J and Varallyay E (2016) FIRST DESCRIPTION OF GRAPEVINE SYRAH VIRUS 1 IN VINEYARDS OF HUNGARY Journal of Plant Pathology 1, 1. If.: ---
  26. Molnar J, Szakacs G and Tusnady GE (2016) Characterization of Disease-Associated Mutations in Human Transmembrane Proteins. PLoS One 11, e0151760. If.: 3.057
  27. Csernak E, Molnar J, Tusnady GE and Toth E (2016) Application of Targeted Next-generation Sequencing, TruSeq Custom Amplicon Assay for Molecular Pathology Diagnostics on Formalin-fixed and Paraffin-embedded Samples. Appl Immunohistochem Mol Morphol , . If.: 1.553
  28. Calcutt MJ, Szikriszt B, Poti A, Molnar J, Gervai JZ, Tusnady GE, Foecking MF and Szuts D (2015) Genome Sequence Analysis of Mycoplasma sp. HU2014, Isolated from Tissue Culture. Genome Announc 3, If.: ---
  29. Kozma D and Tusnady GE (2015) TMFoldWeb: a web server for predicting transmembrane protein fold class. Biol Direct 10, 54. If.: 3.016
  30. Tusnady GE, Dobson L and Tompa P (2015) Disordered regions in transmembrane proteins. Biochim Biophys Acta 1848, 2839-48. If.: 3.687
  31. Kozma D and Tusnady GE (2015) TMFoldRec: a statistical potential-based transmembrane protein fold recognition BMC Bioinformatics 16, 201. If.: 2.435
  32. Dobson L, Remenyi I and Tusnady GE (2015) The human transmembrane proteome. Biol Direct 10, 31. If.: 3.016
  33. Dobson L, Remenyi I and Tusnady GE (2015) CCTOP: a Consensus Constrained TOPology prediction web server. Nucleic Acids Res 43, W408-12. If.: 9.202
  34. Kiss K, Kucsma N, Brozik A, Tusnady GE, Bergam P, van Niel G and Szakacs G (2015) Role of the N-terminal transmembrane domain in the endo-lysosomal targeting and Biochem J 467, 127-39. If.: 3.562
  35. Dobson L, Lango T, Remenyi I and Tusnady GE (2015) Expediting topology data gathering for the TOPDB database. Nucleic Acids Res 43, D283-9. If.: 9.202
  36. Molnar J, Poti A, Pipek O, Krzystanek M, Kanu N, Swanton C, Tusnady GE, Szallasi Z, Csabai I and Szuts D (2014) The genome of the chicken DT40 bursal lymphoma cell line. G3 (Bethesda) 4, 2231-40. If.: 3.198
  37. Molnar J, Nagy T, Steger V, Toth G, Marincs F and Barta E (2014) Genome sequencing and analysis of Mangalica, a fatty local pig of Hungary. BMC Genomics 15, 761. If.: 4.3
  38. Kozma D, Simon I and Tusnady GE (2013) PDBTM: Protein Data Bank of transmembrane proteins after 8 years. Nucleic Acids Res 41, D524-9. If.: 8.808
  39. Fodor E, Zsigmond A, Horvath B, Molnar J, Nagy I, Toth G, Wilson SW and Varga M (2013) Full transcriptome analysis of early dorsoventral patterning in zebrafish. PLoS One 8, e70053. If.: 3.534
  40. Marincs F, Molnar J, Toth G, Steger V and Barta E (2013) Introgression and isolation contributed to the development of Hungarian Mangalica pigs from a particular European ancient bloodline. Genet Sel Evol 45, 22. If.: ---
  41. Molnar J, Toth G, Steger V, Zsolnai A, Janosi A, Mohr A, Szanto-Egesz R, Toth P, Micsinai A, Ratky J and Marincs F (2013) Mitochondrial D-loop analysis reveals low diversity in Mangalica pigs and their relationship to historical specimens. J Anim Breed Genet 130, 312-20. If.: ---
  42. Kozma D, Simon I and Tusnady GE (2012) CMWeb: an interactive on-line tool for analysing residue-residue contacts and Nucleic Acids Res 40, W329-33. If.: 8.278
  43. Tusnady GE and Simon I (2010) Topology prediction of helical transmembrane proteins: how far have we reached? Curr Protein Pept Sci 11, 550-61. If.: 3.83
  44. Steger V, Molnar A, Borsy A, Gyurjan I, Szabolcsi Z, Dancs G, Molnar J, Papp P, Nagy J, Puskas L, Barta E, Zomborszky Z, Horn P, Podani J, Semsey S, Lakatos P and Orosz L (2010) Antler development and coupled osteoporosis in the skeleton of red deer Cervus elaphus: expression dynamics for regulatory and effector genes. Mol Genet Genomics 284, 273-87. If.: ---
  45. Farrell KB, Tusnady GE and Eiden MV (2009) New structural arrangement of the extracellular regions of the phosphate J Biol Chem 284, 29979-87. If.: 8.2
  46. Varadi A, Tusnady GE, Bakos E and Sarkadi B (1998) Membrane topology of the human multidrug resistance-associated protein (MRP) and Cytotechnology 27, 71-9. If.: 0.616
  47. Tusnady GE, Kalmar L, Hegyi H, Tompa P and Simon I (2008) TOPDOM: database of domains and motifs with conservative location in Bioinformatics 24, 1469-70. If.: 4.328
  48. Aranyi T and Tusnady GE (2007) BiSearch: ePCR tool for native or bisulfite-treated genomic template. Methods Mol Biol 402, 385-402. If.: ---
  49. Tusnady GE, Kalmar L and Simon I (2008) TOPDB: topology data bank of transmembrane proteins. Nucleic Acids Res 36, D234-9. If.: 6.878
  50. Aranyi T, Varadi A, Simon I and Tusnady GE (2006) The BiSearch web server. BMC Bioinformatics 7, 431. If.: 3.617
  51. Tusnady GE, Sarkadi B, Simon I and Varadi A (2006) Membrane topology of human ABC proteins. FEBS Lett 580, 1017-22. If.: 7.7
  52. Magyar C, Gromiha MM, Pujadas G, Tusnady GE and Simon I (2005) SRide: a server for identifying stabilizing residues in proteins. Nucleic Acids Res 33, W303-5. If.: 7.552
  53. Tusnady GE, Simon I, Varadi A and Aranyi T (2005) BiSearch: primer-design and search tool for PCR on bisulfite-treated genomes. Nucleic Acids Res 33, e9. If.: 7.552
  54. Tusnady GE, Dosztanyi Z and Simon I (2005) PDB_TM: selection and membrane localization of transmembrane proteins in the Nucleic Acids Res 33, D275-8. If.: 7.552
  55. Tusnady GE, Dosztanyi Z and Simon I (2005) TMDET: web server for detecting transmembrane regions of proteins by using their Bioinformatics 21, 1276-7. If.: 6.019
  56. Tusnady GE, Dosztanyi Z and Simon I (2004) Transmembrane proteins in the Protein Data Bank: identification and Bioinformatics 20, 2964-72. If.: 5.742
  57. Gardy JL, Spencer C, Wang K, Ester M, Tusnady GE, Simon I, Hua S, deFays K, Lambert C, Nakai K and Brinkman FS (2003) PSORT-B: Improving protein subcellular localization prediction for Gram-negative Nucleic Acids Res 31, 3613-7. If.: 6.575
  58. Dosztanyi Z, Magyar C, Tusnady GE, Cserzo M, Fiser A and Simon I (2003) Servers for sequence-structure relationship analysis and prediction. Nucleic Acids Res 31, 3359-63. If.: 6.575
  59. Tompa P, Tusnady GE, Friedrich P and Simon I (2002) The role of dimerization in prion replication. Biophys J 82, 1711-8. If.: 4.643
  60. Simon I, Fiser A and Tusnady GE (2001) Predicting protein conformation by statistical methods. Biochim Biophys Acta 1549, 123-36. If.: 3.243
  61. Tusnady GE and Simon I (2001) The HMMTOP transmembrane topology prediction server. Bioinformatics 17, 849-50. If.: 3.421
  62. Tompa P, Tusnady GE, Cserzo M and Simon I (2001) Prion protein: evolution caught en route. Proc Natl Acad Sci U S A 98, 4431-6. If.: ---
  63. Tusnady GE and Simon I (2001) Topology of membrane proteins. J Chem Inf Comput Sci 41, 364-8. If.: ---
  64. Bakos E, Evers R, Calenda G, Tusnady GE, Szakacs G, Varadi A and Sarkadi B (2000) Characterization of the amino-terminal regions in the human multidrug resistance J Cell Sci 113 Pt 24, 4451-61. If.: ---
  65. Bakos E, Evers R, Szakacs G, Tusnady GE, Welker E, Szabo K, de Haas M, van Deemter L, Borst P, Varadi A and Sarkadi B (1998) Functional multidrug resistance protein (MRP1) lacking the N-terminal J Biol Chem 273, 32167-75. If.: 5.5
  66. Tusnady GE and Simon I (1998) Principles governing amino acid composition of integral membrane proteins: J Mol Biol 283, 489-506. If.: ---
  67. Tusnady GE and Varadi A (1998) Short MRP may not be short. Biochem Biophys Res Commun 242, 465-6. If.: 6.3
  68. Tusnady GE, Bakos E, Varadi A and Sarkadi B (1997) Membrane topology distinguishes a subfamily of the ATP-binding cassette (ABC) FEBS Lett 402, 1-3. If.: ---
  69. Bakos E, Hegedus T, Hollo Z, Welker E, Tusnady GE, Zaman GJ, Flens MJ, Varadi A and Sarkadi B (1996) Membrane topology and glycosylation of the human multidrug resistance-associated J Biol Chem 271, 12322-6. If.: ---
  70. Tusnady GE, Tusnady G and Simon I (1995) Independence divergence-generated binary trees of amino acids. Protein Eng 8, 417-23. If.: ---
  71. Fiser A, Tusnady GE and Simon I (1994) Chaos game representation of protein structures. J Mol Graph 12, 302-4, 295. If.: ---
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