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2023 |
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| Zogopoulos, V.L., Malatras, A., Kyriakidis, K., Charalampous, C., Makrygianni, E.A., Duguez, S., Koutsi, M.A., Pouliou, M., Vasileiou, C., Duddy, W.J., Agelopoulos, M., Chrousos, G.P., Iconomidou, V.A., Michalopoulos, I. (2023) HGCA2.0: An RNA-Seq Based Webtool for Gene Coexpression Analysis in Homo sapiens. Cells. 12(3):388. [Abstract] [Full Text]doi: 10.3390/cells12030388.
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| Baltoumas, F.A., Sofras, D., Apostolakou, A.E., Litou, Z.I., Iconomidou, V.A. (2023) NucEnvDB: A Database of Nuclear Envelope Proteins and Their Interactions. Membranes (Basel). 13(1):62.[Abstract] [Full Text]doi: 10.3390/membranes13010062.
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| Filis, G., Baltoumas, F.A., Spanogiannis, G., Litou, Z.I., Iconomidou, V.A.. (2023)Proteome-Wide Detection and Annotation of Receptor Tyrosine Kinases (RTKs): RTK-PRED and the TyReK Database. Biomolecules. 13 (2):270.
[Abstract] [Full Text]https://doi.org/10.3390/biom13020270 |
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2022 |
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| Zogopoulos, V.L., Saxami, G., Malatras, A., Papadopoulos, K., Tsotra, I., Iconomidou, V.A., Michalopoulos, I. (2022) Approaches in Gene Coexpression Analysis in Eukaryotes. Biology (Basel). 11(7):1019.[Abstract] [Full Text]doi: 10.3390/biology11071019.
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| Spatharas, P.M., Nasi, G.I., Tsiolaki, P.L., Theodoropoulou, M.K., Papandreou, N.C., Hoenger, A., Trougakos, I.P., Iconomidou, V.A. (2022) Clusterin in Alzheimer's disease: An amyloidogenic inhibitor of amyloid formation? Biochim Biophys Acta Mol Basis Dis. 1868(7):166384. [Abstract] [Full Text]doi: 10.1016/j.bbadis.2022.166384.
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| Apostolakou, A.E., Nastou, K.C., Petichakis, G.N., Litou, Z.I., Iconomidou, V.A. (2022) LiGIoNs: A computational method for the detection and classification of ligand-gated ion channels. Biochim Biophys Acta Biomembr. 1864(9):183956. [Abstract] [Full Text]doi: 10.1016/j.bbamem.2022.183956.
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| Terpos, E., Fotiou, D., Karalis, V., Ntanasis-Stathopoulos, I., Sklirou, A.D., Gavriatopoulou, M., Malandrakis, P., Iconomidou, V.A., Kastritis, E., Trougakos, I.P., Dimopoulos, M.A. (2022) SARS-CoV-2 humoral responses following booster BNT162b2 vaccination in patients with B-cell malignancies. Am J Hematol. 97(10):1300-1308. [Abstract] [Full Text]doi: 10.1002/ajh.26669.
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| Terpos, E., Liontos, M., Fiste, O., Zagouri, F., Briasoulis, A., Sklirou, A.D., Markellos, C., Skafida, E., Papatheodoridi, A., Andrikopoulou, A., Koutsoukos, K., Kaparelou, M., Iconomidou, V.A., Trougakos, I.P., Dimopoulos, M.A. (2022) SARS-CoV-2 Neutralizing Antibodies Kinetics Postvaccination in Cancer Patients under Treatment with Immune Checkpoint Inhibition. Cancers (Basel). 14(11):2796. [Abstract] [Full Text]doi: 10.3390/cancers14112796.
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| Ntanasis-Stathopoulos, I., Karalis, V., Gavriatopoulou,M., Malandrakis, P., Sklirou, A.D., Eleutherakis-Papaiakovou, E., Migkou, M., Roussou, M., Fotiou, D., Alexopoulos, H., Theodorakakou, F., Kastritis, E., Iconomidou, V.A., Trougakos, I.P., Dimopoulos, M.A., Terpos, E. (2022) Second Booster BNT162b2 Restores SARS-CoV-2 Humoral Response in Patients With Multiple Myeloma, Excluding Those Under Anti-BCMA Therapy. Hemasphere. 6(8):e764. [Abstract] [Full Text]doi: 10.1097/HS9.0000000000000764.
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| Vassilaki N, Papadimitriou K, Ioannidis A, Papandreou NC, Milona RS, Iconomidou, V.A., Chatzipanagiotou, S. (2022) SARS-CoV-2 Amino Acid Mutations Detection in Greek Patients Infected in the First Wave of the Pandemic. Microorganisms. 10(7):1430. [Abstract] [Full Text]doi: 10.3390/microorganisms10071430.
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| Paschou SA, Karalis V, Psaltopoulou T, Charitaki I, Sklirou AD, Iconomidou, V.A., Vasileiou V, Kassi GN, Vryonidou A, Kokkinos A, Tentolouris N, Hatziaggelaki E, Trougakos IP, Terpos E, Dimopoulos MA. (2022) Patients with type 2 diabetes mellitus present similar immunological response to COVID-19 BNT162b2 mRNA vaccine to healthy subjects: a prospective cohort study. Hormones (Athens). 21:1–7. [Abstract] [Full Text]doi: 10.1007/s42000-022-00405-7.
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2021 |
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| Galanis, K.A., Nastou, K.C., Papandreou, N.C., Petichakis, G.N., Pigis, D.G., Iconomidou, V.A. (2021) Linear B-Cell Epitope Prediction for In Silico Vaccine Design: A Performance Review of Methods Available via Command-Line Interface. Int J Mol Sci. 22(6):3210. [Abstract] [Full Text] doi: 10.3390/ijms22063210.
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| Nasi, G.I., Aktypi, F.D., Spatharas, P.M., Louros, N.N., Tsiolaki, P.L., Magafa, V., Trougakos, I.P., Iconomidou, V.A. (2021) Arabidopsis thaliana Plant Natriuretic Peptide Active Domain Forms Amyloid-like Fibrils in a pH-Dependent Manner. Plants (Basel)11(1):9.[Abstract] [Full Text] doi: 10.3390/plants11010009.
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| Apostolakou, A.E., Sula, X.K., Nastou, K.C., Nasi, G.I., Iconomidou, V.A. (2021)Exploring the conservation of Alzheimer-related pathways between H. sapiens and C. elegans: a network alignment approach. Sci Rep. 11(1):4572. [Abstract] [Full Text] doi: 10.1038/s41598-021-83892-9.
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| Giannopoulou, A.F., Velentzas, A.D., Anagnostopoulos, A.K., Agalou, A., Papandreou, N.C., Katarachia, S.A., Koumoundourou, D.G., Konstantakou, E.G., Pantazopoulou, V.I., Delis, A., Michailidi, M.T., Valakos, D., Chatzopoulos, D., Syntichaki, P., Iconomidou, V.A. , Tsitsilonis, O.E., Papassideri, I.S., Voutsinas, G.E., Hatzopoulos, P., Thanos, D., Beis, D., Anastasiadou, E., Tsangaris, G.T., Stravopodis, D.J. (2021) From Proteomic Mapping to Invasion-Metastasis-Cascade Systemic Biomarkering and Targeted Drugging of Mutant BRAF-Dependent Human Cutaneous Melanomagenesis. Cancers (Basel). 13(9):2024. [Abstract] [Full Text] doi: 10.3390/cancers13092024.
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2020 |
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| Apostolakou, A.E., Baltoumas, F.A., Stravopodis, D.J., Iconomidou, V.A. (2020) Extended Human G-Protein Coupled Receptor Network: Cell-Type-Specific Analysis of G-Protein Coupled Receptor Signaling Pathways. J Proteome Res. 19(1):511-524. [Abstract] [Full Text]doi: 10.1021/acs.jproteome.9b00754.
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| Dervisi, I, Valassakis, C., Agalou, A., Papandreou, N., Podia, V., Haralampidis, K., Iconomidou, V.A., Kouvelis, V.N., Spaink, H.P., Roussis, A. (2020) Investigation of the interaction of DAD1-LIKE LIPASE 3 (DALL3) with Selenium Binding Protein 1 (SBP1) in Arabidopsis thaliana. Plant Sci. 291:110357. [Abstract] [Full Text]doi: 10.1016/j.plantsci.2019.110357.
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| Nastou, K.C., Tsaousis,G.N., Iconomidou, V.A. (2020) PerMemDB: A database for eukaryotic peripheral membrane proteins. Biochim Biophys Acta Biomembr. 1862(2):183076. [Abstract] [Full Text]doi: 10.1016/j.bbamem.2019.183076.
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| Nastou, K.C., Karataraki, E.G., Papandreou, N.C., Rerra, A.G., Grimanelli, V.P., Maglogiannis, I., Hamodrakas, S.J., Iconomidou, V.A. (2020) ANTISOMA: A Computational Pipeline for the Reduction of the Aggregation Propensity of Monoclonal Antibodies. Adv Exp Med Biol. 1194:359-371. [Abstract] [Full Text]doi: 10.1007/978-3-030-32622-7_34.
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| Amanatidou, A.I., Nastou, K.C., Tsitsilonis, O.E., Iconomidou, V.A. (2020) Visualization and analysis of the interaction network of proteins associated with blood-cell targeting autoimmune diseases. Biochim Biophys Acta Mol Basis Dis. 1866(5):165714. [Abstract] [Full Text]doi: 10.1016/j.bbadis.2020.165714.
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2019 |
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| Nastou, K.C., Nasi, G.I., Tsiolaki, P.L., Litou, Z.I., Iconomidou V.A.
(2019) AmyCo: the amyloidoses collection. Amyloid 26(3):112-117[Abstract] [Full Text]
doi: 10.1080/13506129.2019.1603143.
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| Nastou, K.C., Batskinis, M.A., Litou, Z.I., Hamodrakas, S.J., Iconomidou, V.A.
(2019) Analysis of Single-Nucleotide Polymorphisms in Human Voltage-Gated Ion Channels. J Proteome Res. 18(5):2310-2320[Abstract] [Full Text] doi: 10.1021/acs.jproteome.9b00121.
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| Giannopoulou, A.F., Velentzas, A.D., Konstantakou, EG, Avgeris, M., Katarachia, S.A., Papandreou, N.C., Kalavros, N.I., Mpakou, V.E., Iconomidou, V., Anastasiadou, E., Kostakis, I.K., Papassideri, I.S., Voutsinas, G.E., Scorilas, A., Stravopodis, D.J. (2019) Revisiting Histone Deacetylases in Human Tumorigenesis: The Paradigm of Urothelial Bladder Cancer. Int J Mol Sci. 20(6):1291[Abstract] [Full Text] doi: 10.3390/ijms20061291.
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| Tsiolaki, P.L., Nasi, G.I., Baltoumas, F.A., Fishman, S., Tu, H.S., Iconomidou, V.A.
(2019) Delving into the Amyloidogenic Core of Human Leukocyte Chemotactic Factor 2. J. Struct. Biol. 207(3):260-269[Abstract] [Full Text] doi: 10.1016/j.jsb.2019.06.001.
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| Baltoumas, F.A., Hamodrakas, S.J., Iconomidou V.A. (2019) The Gram-Negative Outer Membrane Modeler:
automated building of lipopolysaccharide-rich bacterial outer membranes in four force fields
J. Comput. Chem. Jul 5; 40(18): 1727-1734 [Epub ahead of print] [Abstract] [Full Text] doi:10.1002/jcc.25823.
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| Tsiolaki, P.L., Katsafana, A.D., Baltoumas, F.A., Louros, N.N., Iconomidou, V.A. (2019)
Hidden Aggregation Hot-Spots on Human Apolipoprotein E: A Structural Study. Int. J. Mol. Sci. 20(9):E2274.
[Abstract] [Full Text] doi:10.3390/ijms20092274.
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| Valassakis, C., Dervisi, I., Agalou, A., Papandreou,N., Kapetsis, G., Podia, V., Haralampidis, K.,
Iconomidou, V.A., Spaink, H.P., Roussis, A. (2019) Novel interactions of Selenium Binding Protein family with the PICOT containing proteins AtGRXS14 and
AtGRXS16 in Arabidopsis thaliana. Plant Sci. Apr;281:102-112. [Abstract] [Full Text]
doi:10.1016/j.plantsci.2019.01.021.
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| Giannopoulou, A.D., Konstantakou, E.G., Velentzas, A.D., Avgeris, S.N., Avgeris, M., Papandreou,
N.C., Zoi, I., Filippa, V., Katarachia, S., Lampidonis, A.D., Prompona, A., Syntichaki, P., Piperi, P., Basdra, E.K., Iconomidou, V., Papadavid, E.,
Anastasiadou, E., Papassideri, I.S., Papavassiliou, A.G., Voutsinas, G.E., Scorilas, A., Stravopodis, D.J. (2019) Gene-Specific Intron Retention Serves as
Molecular Signature that Distinguishes Melanoma from Non-Melanoma Cancer Cells in Greek Patients. Int. J. Mol. Sci. 20(4):E937.
[Abstract] [PDF]
doi:10.3390/ijms20040937.
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2018 |
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| Tsiolaki, P.L., Louros N.N., Iconomidou V.A. (2018) Hexapeptide Tandem Repeats Dictate the Formation
of Silkmoth Chorion, a Natural Protective Amyloid. J. Mol. Biol. 430 (20): 3774-3783.
[Abstract] [PDF]
doi:10.1016/j.jmb.2018.06.042.
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| Tsiolaki, P.L., Nasi, G.I., Baltoumas, F.A., Louros N.N., Magafa, V., Hamodrakas S.J., Iconomidou V.A.
(2018) αCGRP, another amyloidogenic member of the CGRP family. J. Struct. Biol. Jul;203(1):27-36 [Epub ahead of print]
[Abstract] [PDF]
doi:10.1016/j.jsb.2018.02.008.
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2017 |
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| Tsiolaki, P.L., Nastou K.C., Louros N.N., Hamodrakas S.J., Iconomidou V.A. (2017) Exploring
amyloidogenicity of Clusterin: a structural and bioinformatics analysis. Adv. Exp. Med. and Biol. 2017;989:93-107
[Abstract] [Full Text] doi: 10.1007/978-3-319-57348-9_8.
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| Tsiolaki P.L, Nastou K.C., Hamodrakas S.J., Iconomidou V.A.
(2017) Mining databases for protein aggregation: a review. Amyloid Sep;24(3):143-152.
[Abstract] [PDF] doi:
10.1080/13506129.2017.1353966
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| Louros N.N., Tsiolaki P.L, Baltoumas F.A., Chryssikos G.D., Gionis V., Hamodrakas S.J., Iconomidou V.A.
(2017) Tracking the amyloidogenic core of IAPP amyloid fibrils: Insights from micro-Raman spectroscopy. J. Struct. Biol. Aug;199(2):140-152 [Epub ahead of
print]
[Abstract] [PDF] doi:
10.1016/j.jsb.2017.06.002.
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| Biza, K.V.*, Nastou, K.C.*, Tsiolaki, P.L.*, Mastrokalou, C.V., Hamodrakas, S.J., Iconomidou, V.A. (2017) The amyloid interactome: Exploring protein aggregation. PLoS ONE Mar 1;12(3):e0173163.
[Abstract] [PDF] (*: Equally contributing authors) doi:10.1371/journal.pone.0173163.
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| Tsaousis, G.N., Theodoropoulou, M.C., Hamodrakas, S.J., Bagos, P.G. (2017) Predicting Alpha Helical Transmembrane Proteins Using HMMs. Methods Mol. Biol. 1552:63-82
[Abstract] [Full Text] doi:10.1007/978-1-4939-6753-7_5.
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| Tsaousis, G.N., Hamodrakas, S.J., Bagos, P.G. (2017) Predicting Beta Barrel Transmembrane Proteins Using HMMs. Methods Mol. Biol. 1552:43-61
[Abstract] [Full Text] doi:10.1007/978-1-4939-6753-7_4.
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2016 |
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| Kanost, M.R., (...), Hamodrakas, S.J., (...), Blissard (2016) Multifaceted biological insights from a draft genome sequence of the tobacco hornworm moth, Manduca sexta. Insect Bioch. and Mol. Biol. 76 (2016) pp. 118-147.
[Abstract] [PDF] doi: 10.1002/bip.22882.
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| Tsiolaki, P.L., Louros, N.N., Zompra, A.A.,Hamodrakas, S.J., Iconomidou, V.A. (2016) Unraveling t
he aggregation propensity of human insulin C-peptide. Biopolymers. 2016 Jun 3. [Epub ahead of print]
[Abstract] [PDF] doi: 10.10
16/j.ibmb.2016.07.005.
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| Louros, N.N., Bolas, G.M., Tsiolaki, P.L., Hamodrakas, S.J., Iconomidou, V.A. (2016) Intrinsic Aggregation Propensity of the CsgB Nucleator Protein is Crucial for Curli Fiber Formation. J. Struct. Biol. Aug;195(2):179-89. Epub 2016 May 28.
[Abstract] [PDF] doi: 10.1016/j.jsb.2016.05.012.
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| Baltoumas, F.A., Theodoropoulou, M.C., Hamodrakas, S.J. (2016) Molecular dynamics simulations and structure-based network analysis reveal structural and functional aspects of G-protein coupled receptor dimer interactions. J. Comput. Aided. Mol. Des. Jun;30(6):489-512.
[Abstract] [PDF] doi: 10.1007/s10822-016-9919-y.
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| Nastou, K.C., Tsaousis, G.N., Papandreou, N.C., Hamodrakas, S.J. (2016) MBPpred: Proteome-wide detection of membrane lipid-binding proteins using profile Hidden Markov Models. Biochim. Biophys. Acta Volume 1864, Issue 7, pp. 747–754.
[Abstract] [PDF] [Supplementary Material] doi: 10.1016/j.bbapap.2016.03.015.
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| Louros, N.N., Baltoumas, F.A., Hamodrakas, S.J., Iconomidou, V.A. (2016) A β-solenoid model of the Pmel17 repeat domain: insights to the formation of functional amyloid fibrils. J. Comput. Aided. Mol. Des. Feb;30(2):153-64.
[Abstract] [PDF] doi: 10.1007/s10822-015-9892-x.
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| Louros, N.N., Chrysina, E.D., Baltatzis, G.E., Patsouris, E.S., Hamodrakas, S.J., Iconomidou, V.A. (2016) A common "aggregation-prone" interface possibly participates in the self-assembly of human zona pellucida proteins. FEBS Letters, 590: 619–630.
[Abstract] [PDF]doi: 10.1002/1873-3468.12099.
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| Kostiou V.D., Theodoropoulou M.C., Hamodrakas S.J. (2016) GprotPRED: Annotation of Gα, Gβ and Gγ subunits of G-proteins using profile hidden Markov models (pHMMs) and application to proteomes.Biochim. Biophys. Acta Volume 1864, Issue 5, pp. 435–440
[Abstract] [PDF]doi: 10.1016/j.bbapap.2016.02.005.
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| Louros, N.N., Iconomidou, V.A. (2016) Identification of an amyloid fibril forming segment of human Pmel17 repeat domain (RPT domain). Biopolymers. 2016 Jan;106(1):133-9.
[Abstract]
[PDF] doi: 10.1002/bip.22746.
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| Rerra, A.I.G., Grimanelli, V.P., Papandreou, N.C., Hamodrakas, S.J. (2016) Optimizing the Aggregation Propensity of Therapeutic Monoclonal Antibodies against Cancer and Autoimmune Diseases: A Computational Study. Int. J. Biochem. Res. Rev. 10(1): 1-15, 2016, Article no.IJBcRR.23216
[Abstract]
[PDF] doi: 10.9734/IJBCRR/2016/23216
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2015 |
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| Tsiolaki, P.L., Louros, N.N., Hamodrakas, S.J., Iconomidou, V.A. (2015) Exploring the 'aggregation-prone' core of human Cystatin C: A structural study. J. Struct. Biol. Sep;191(3):272-80. Epub 2015 Jul 31.
[Abstract]
[PDF] doi: 10.1016/j.jsb.2015.07.013
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| Louros, N.N., Tsiolaki, P.L., Griffin, M.D., Howlett, G.J., Hamodrakas, S.J., Iconomidou, V.A. (2015) Chameleon ‘aggregation-prone’ segments of apoA-I: A model of amyloid fibrils formed in apoA-I amyloidosis. Int. J. Biol. Macromol. Volume 79, pp. 711-718, August 2015.
[Abstract]
[PDF] doi: 10.1016/j.ijbiomac.2015.05.032
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| Louros, N.N., Tsiolaki, P.L., Zompra, A.A., Pappa, E.V., Magafa, V., Pairas, G., Cordopatis, P., Cheimonidou, C., Trougakos, I.P., Iconomidou, V.A., Hamodrakas, S.J.(2015) Structural Studies and Cytotoxicity Assays of "Aggregation-Prone" IAPP8-16 and its Non-Amyloidogenic Variants Suggest its Important Role in Fibrillogenesis and Cytotoxicity of Human Amylin (hIAPP). Biopolymers Volume 104, Issue 3, pp. 196–205, May 2015.
[Abstract]
[PDF] doi: 10.1002/bip.22650
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| Papadimitriou, K., Anastasiou, R., Maistrou, E., Plakas, T., Papandreou, N.C., Hamodrakas, S.J., Ferreira, S., Supply, P., Renault, P., Pot, B., Tsakalidou, E.(2015) Acquisition through horizontal gene transfer of plasmid pSMA198 by Streptococcus macedonicus ACA-DC 198 points towards the dairy origin of the species. PLoS One. 2015 Jan 13;10(1):e0116337.
[Abstract]
[PDF] doi: 10.1371/journal.pone.0116337
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| Tsiolaki, P.L., Hamodrakas, S.J., Iconomidou, V.A. (2015) The pentapeptide LQVVR plays a pivotal role in human cystatin C fibrillization. FEBS Lett. 2015 Jan 2;589(1):159-64. Epub 2014 Dec 3.
[Abstract]
[PDF] doi: 10.1016/j.febslet.2014.11.041
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2014 |
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| Louros, N.N., Petronikolou N., Karamanos T., Cordopatis P., Iconomidou, V.A., Hamodrakas, S.J. (2014) Structural studies of 'aggregation-prone' peptide-analogues of teleostean egg chorion ZPB proteins. Biopolymers
[Abstract]
[PDF] doi: 110.1002/bip.22563
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| Ioannidou, Z.S., Theodoropoulou, M.C., Papandreou, N.C., Willis, J.H., Hamodrakas, S.J. (2014) CutProtFam-Pred: Detection and classification of putative structural cuticular proteins from sequence alone, based on profile Hidden Markov Models. Insect. Biochem. Mol. Biol., Volume 52, September 2014, Pages 51-59.
[Abstract]
[Full Text] doi: 10.1016/j.ibmb.2014.06.004
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| Nastou, K.C., Tsaousis, G.N., Kremizas, K.E., Litou, Z.I., Hamodrakas, S.J. (2014) The Human Plasma Membrane Peripherome: Visualization and Analysis of Interactions. BioMed Research International, vol. 2014.
[Abstract]
[PDF] doi: 10.1155/2014/397145
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| Papadimitriou, K., Anastasiou, R., Mavrogonatou, E., Blom, J., Papandreou, N.C., Hamodrakas, S.J., Ferreira, S., Renault, P., Supply, P., Pot, B., Tsakalidou, E. (2014) Comparative genomics of the dairy isolate Streptococcus macedonicus ACA-DC 198 against related members of the Streptococcus bovis/Streptococcus equinus complex. BMC Genomics, 15:272.
[Abstract]
[PDF] doi: 10.1186/1471-2164-15-272
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| Tsaousis, G.N., Bagos, P.G., Hamodrakas, S.J. (2014) HMMpTM: Improving transmembrane protein topology prediction using phosphorylation and glycosylation site prediction. Biochim Biophys Acta., 1844(2): 316-322.
[Abstract]
[PDF] doi: 10.1016/j.bbapap.2013.11.001
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| Louros, N.N., Iconomidou, V.A., Tsiolaki, P.L., Chrysina, E.D., Baltatzis, G.E., Patsouris, E.S., Hamodrakas, S.J.(2014) An N-terminal pro-atrial natriuretic peptide (NT-proANP) 'aggregation-prone' segment involved in isolated atrial amyloidosis. FEBS Lett., 588: 52-57.
[Abstract]
[PDF] doi: 10.1016/j.febslet.2013.10.049
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2013 |
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| Louros, N.N., Iconomidou, V.A., Giannelou, P., Hamodrakas, S.J. (2013) Structural Analysis of Peptide-Analogues of Human Zona Pellucida ZP1 Protein with Amyloidogenic Properties: Insights into Mammalian Zona Pellucida Formation. PLoS ONE 8(9): e73258.
[Abstract]
[PDF] doi: 10.1371/journal.pone.0073258
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| Gypas, F., Tsaousis, G.N., Hamodrakas, S.J. (2013) mpMoRFsDB: a database of molecular recognition features in membrane proteins. Bioinformatics, 29(19):2517-8.
[Abstract]
[PDF] doi: 10.1093/bioinformatics/btt427
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| Baltoumas, F.A., Theodoropoulou, M.C., Hamodrakas, S.J. (2013) Interactions of the α-subunits of heterotrimeric G-proteins with GPCRs, effectors and RGS proteins: A critical review and analysis of interacting surfaces, conformational shifts, structural diversity and electrostatic potentials. J Struct Biol., 182(3): 209-18.
[Abstract]
[PDF] [Supplementary material] doi: 10.1016/j.jsb.2013.03.004.
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| Iconomidou, V.A., Leontis, A., Hoenger, A., Hamodrakas, S.J. (2013) Identification of a novel 'aggregation-prone'/'amyloidogenic determinant' peptide in the sequence of the highly amyloidogenic human calcitonin. FEBS Lett., 587: 569-574.
[Abstract]
[PDF] doi: 10.1016/j.febslet.2013.01.031.
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| Kotta-Loizou, I., Tsaousis, G.N., Hamodrakas, S.J. (2013) Analysis of Molecular Recognition Features (MoRFs) in membrane proteins. Biochim Biophys Acta., 1834(4): 798-807.
[Abstract]
[PDF] doi: 10.1016/j.bbapap.2013.01.006.
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| Giannopoulos, N.G., Michalopoulos, I., Papandreou, N.C., Malatras, A., Iconomidou, V.A., Hamodrakas, S.J. (2013) LepChorionDB, a database of Lepidopteran chorion proteins and a set of tools useful for the identification of chorion proteins in Lepidopteran proteomes. Insect Biochem Mol Biol. , 43: 189-196.
[Abstract]
[PDF] doi: 10.1016/j.ibmb.2012.12.001.
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| Tsolis, A.C., Papandreou, N.C., Iconomidou, V.A., Hamodrakas, S.J. (2013) A Consensus Method for the Prediction of "Aggregation-Prone" Peptides in Globular Proteins. PLoS ONE, 8(1): e54175.
[Abstract]
[PDF] doi:10.1371/journal.pone.0054175 |
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2012 |
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| Willis, J.H., Papandreou, N.C., Iconomidou, V.A., Hamodrakas, S.J. (2012) Cuticular proteins. Chapter 5 in Insect Molecular Biology and Biochemistry (ed. L. I. Gilbert) Academic Press pp. 134-166.
[PDF] ISBN: 9780123847478
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| Stoubos, S., Anthopoulos, P.G., Hamodrakas, S.J., Bagos, P.G. (2012)
The association between apolipoprotein E gene polymorphisms and essential hypertension: a meta-analysis of 45 studies including 13940 cases and 16364 controls.
Journal of Human Hypertension.
[Abstract]
[PDF]doi: 10.1038/jhh.2012.37 |
| Spyridopoulou, K., Dimou, N.L., Hamodrakas, S.J., Bagos, P.G. (2012)
Methylene Tetrahydrofolate Reductase gene polymorphisms and their association with methotrexate
toxicity: A meta-analysis. Pharmacogenetics and Genomics, 22(2): 117-33.
[Abstract]
[PDF] doi: 10.1097/FPC.0b013e32834ded2a |
| Iconomidou, V.A., Pheida, D., Hamodraka, E.S., Antony, C., Hoenger, A., Hamodrakas, S.J. (2012)
An amyloidogenic determinant in N-terminal pro-brain natriuretic peptide (NT-proBNP): Implications for cardiac amyloidoses.
Biopolymers: Peptide Science, 98(1): 67-75.[Abstract]
[PDF] doi: 10.1002/bip.21698. |
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2011 |
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| Chatzigeorgiou, K.S., Sergentanis, T.N., Tsiodras, S., Hamodrakas, S.J., Bagos, P.G. (2011)
Phoenix 100 versus Vitek 2 in the Identification of Gram-Positive and Gram-Negative Bacteria: a Comprehensive Meta-Analysis.
J Clin Microbiol., 49(9): 3284-91.[Abstract]
[PDF] doi:10.1128/JCM.00182-11 |
| Hamodrakas, S.J. (2011)
Protein aggregation and amyloid fibril formation prediction software from primary sequence: towards controlling the formation of bacterial inclusion bodies.
FEBS J., 278(14): 2428-2435.
[Abstract]
[PDF] doi: 10.1111/j.1742-4658.2011.08164.x. |
| Iconomidou, V.A., Cordopatis, P., Hoenger, A., Hamodrakas, S.J. (2011)
The silkmoth eggshell as a natural amyloid shield for the safe development of insect oocyte and embryo: Insights from studies of silkmoth chorion protein peptide-analogues of the B family.
Peptide Science,Biopolymers, 96(6): 723–733.
[Abstract]
[PDF] doi: 10.1002/bip.21606 |
| Srivastava, A.K., Iconomidou, V.A., Chryssikos, G.D., Gionis, V., Kumar, K., Hamodrakas, S.J. (2011)
Secondary structure of chorion proteins of the Lepidoptera Pericallia ricini and Ariadne merione by ATR FT-IR and micro-Raman spectroscopy.
Int J Biol Macromol, 49(3): 317-22.
[Abstract]
[PDF] doi: 10.1016/j.ijbiomac.2011.05.006 |
| Tsirigos, K.D., Bagos, P.G. and Hamodrakas, S.J. (2011)
OMPdb: A database of ß-barrel outer membrane proteins from Gram negative bacteria.
Nucleic Acids Res., 39(Database issue): D324-31.
[Abstract]
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2010 |
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| Tsaousis, G.N., Tsirigos, K.D., Andrianou, X.D., Liakopoulos, T.D., Bagos, P.G., Hamodrakas, S.J.(2010) ExTopoDB: A database of experimentally derived topological
models of transmembrane proteins.Bioinformatics, 26(19): 2490?2492.
[Abstract] [PDF] |
| Satagopam, V.P., Theodoropoulou, M.C., Stampolakis, C.K., Pavlopoulos, G.A., Papandreou, N.C., Bagos, P.G., Schneider, R., Hamodrakas, S.J. (2010)
GPCRs, G-proteins, Effectors and their interactions: Human-gpDB, a database employing advanced visualization tools and data integration techniques.
Database (Oxford),, Vol. 2010, Article ID baq019. [Abstract] [PDF] |
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| Dimou, N.L., Nikolopoulos, G.K., Hamodrakas, S.J., Bagos, P.G.(2010) Fcgamma receptor polymorphisms and their association with periodontal disease: a meta-analysis.J Clin Periodontol.,37(3):255-65.
[Abstract] [PDF] |
| Anthopoulos, P.G., Hamodrakas, S.J., Bagos, P.G. (2010) Apolipoprotein E polymorphisms and type 2 diabetes: a meta-analysis of 30 studies including 5423 cases and 8197 controls.
Mol Genet Metab., 100(3):283-91. [Abstract] [PDF] |
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| Papandreou, N.C., Iconomidou, V.A., Willis, J.H., Hamodrakas, S.J.(2010) A possible structural model of members of the CPF family of cuticular proteins implicating binding to components other than chitin. J Insect Physiol., 56(10), 1420-1426.[Abstract] [PDF] |
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2009 |
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| Bagos, P.G., Tsaousis, G.N., Hamodrakas, S.J.(2009) How many 3D structures do we need to train a predictor? Genomics Proteomics Bioinformatics, 7(3):128-37.
[Abstract] [PDF] |
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| Frousios, K.K., Iconomidou, V.A., Karletidi, C.M. and Hamodrakas, S.J. (2009) Amyloidogenic determinants are usually not buried.
BMC Struct Biol. 9(1): 44. [Abstract] [PDF] |
| Bagos, P.G., Tsirigos, K.D., Plessas, S.K., Liakopoulos, T.D. and Hamodrakas, S.J. (2009) Prediction of signal peptides in archaea. Protein Eng Des Sel , 22: 27-35.
[Abstract] [PDF] |
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| Skopeliti, M., Iconomidou, V.A., Derhovanessian, E., Pawelec, G., Voelter, W., Kalbacher, H., Hamodrakas, S.J. and Tsitsilonis, O.E. (2009) Prothymosin alpha immunoactive carboxyl-terminal peptide TKKQKTDEDD stimulates lymphocyte reactions, induces dendritic cell maturation and adopts a beta-sheet conformation in a sequence-specific manner.
Mol Immunol. 46(5): 784-792. [Abstract] [PDF] |
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2008 |
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| Bagos, P.G., Tsirigos, K.D., Liakopoulos, T.D. and Hamodrakas, S.T. (2008) Prediction of Lipoprotein Signal Peptides in Gram-Positive Bacteria with a Hidden Markov Model.
J Proteome Res. 7(12): 5082-5093 [Abstract] [PDF] |
| Nikolopoulos, G.K., Dimou, N.L., Hamodrakas, S.J. and Bagos, P.G. (2008) Cytokine gene polymorphisms in periodontal disease: a meta-analysis of 53 studies including 4178 cases and 4590 controls.
J Clin Periodontol , 35: 754-767.
[Abstract]
[PDF] |
| Theodoropoulou, M.C., Bagos, P.G., Spyropoulos, I.C., Hamodrakas, S.J. (2008) gpDB: a database of GPCRs, G-proteins, effectors and their interactions. Bioinformatics , 24(12):1471-2.
[Abstract]
[PDF] |
| Iconomidou, V.A. and Hamodrakas, S.J. (2008) Natural Protective Amyloids.
Curr. Prot. Pept. Sci. 9(3): 291-309.
[Abstract] |
| Litou, Z.I., Bagos, P.G., Tsirigos, K.D., Liakopoulos, Th.D., Hamodrakas, S.J. (2008) Prediction of Cell Wall sorting signals in Gram-positive bacteria with a Hidden Markov Model: application to complete genomes. JBCB , 6(2):387-401.
[Abstract]
[PDF] |
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2007 |
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| Karouzou, M.V., Spyropoulos, Y., Iconomidou, V.A., Cornman, R.S., Hamodrakas, S.J., Willis, J.H. (2007) Drosophila cuticular proteins with the R&R Consensus: annotation and classification with a new tool for discriminating RR-1 and RR-2 sequences. Insect Biochem Mol Biol. , 37(8): 754-60.
[Abstract]
[PDF] |
| Kastritis, P.L., Papandreou, N.C., Hamodrakas, S.J. (2007) Haloadaptation: Insights from comparative modeling studies of halophilic archaeal DHFRs.
Int. J.Biol. Macromol. 41(4): 447-53. [Abstract]
[PDF] |
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Hamodrakas, S.J., Christina Liappa, C. Iconomidou, V.A. (2007) Consensus prediction of amyloidogenic determinants in amyloid fibril-forming proteins.
Int. J. Biol. Macromol., 41(3): 295-300.
[Abstract]
[PDF] |
| Iconomidou, V.A., Georgaka, M.E., Chryssikos, G.D., Gionis, V., Megalofonou, P., Hamodrakas, S.J. (2007) Dogfish egg case structural studies by ATR FT-IR and FT-Raman spectroscopy.
Int. J. Biol. Macromol. 41(1): 102-108. [Abstract]
[PDF] |
| Bagos, P.G., Karnaouri, A.C., Nikolopoulos, G.K., Hamodrakas, S.J. (2007) No evidence for association of CTLA-4 gene polymorphisms with the risk of developing Multiple Sclerosis: a meta-analysis. Multiple Sclerosis, 13: 156-168.
[Abstract]
[PDF] |
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2006 |
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Ahram M, Litou ZI, Fang R, Al-Tawallbeh G. (2006) Estimation of membrane proteins in the human proteome.
In Silico Biol. , 6(5): 379-86.
[Abstract]
[HTML] |
| Iconomidou, V.A., Chryssikos, G.D., Gionis V, Galanis, A.S., Cordopatis, P., Hoenger, A., Hamodrakas, S.J. (2006) Amyloid fibril formation propensity is inherent into the hexapeptide tandemly repeating sequence of the central domain of silkmoth chorion proteins of the A-family. J. Struct. Biol., 156, 480-488.
[Abstract]
[PDF] |
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Bagos, P.G., Liakopoulos, Th.D. and Hamodrakas, S.J. (2006) Algorithms for incorporating prior topological information in HMMs: application to transmembrane proteins.
BMC Bioinformatics, 7: 189.
[Abstract]
[PDF] |
| Petsalaki, E.I., Bagos, P.G., Litou, Z.I., Hamodrakas, S.J. (2006) PredSL: A Tool for the N-terminal Sequence-based Prediction of Protein Subcellular Localization. Geno. Prot. Bioinfo. 4(1): 48-55. [Abstract]
[PDF] |
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2005 |
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Sgourakis, N.G., Bagos, P.G., Hamodrakas, S.J. (2005) Prediction of the coupling specificity of GPCRs to four families of G-proteins using hidden Markov models and artificial neural networks.
Bioinformatics, 21(22):4101-6.
[Abstract]
[PDF] |
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Sgourakis, N.G., Bagos, P.G., Papasaikas, P.K. and Hamodrakas, S.J. (2005) A
method for the prediction of GPCRs coupling specificity to G-proteins using
refined profile Hidden Markov Models. BMC Bioinformatics, 6:104.
[Abstract]
[PDF] |
|
Willis, J.H., Iconomidou, V.A., Smith, R.F. and Hamodrakas, S.J. (2005)
Cuticular Proteins in 'Comprehensive Insect Science', (L. I. Gilbert, K. Iatrou, and S. Gill, Eds.),
Elsevier, Oxford, Vol. 4, Ch. 2:79-110.
[PDF] |
|
Bagos, P.G., Liakopoulos, Th.D. and Hamodrakas, S.J. (2005)
Evaluation of methods for predicting the topology of β-barrel outer membrane proteins and a consensus prediction method.
BMC Bioinformatics, 6:7. [Abstract]
[PDF] |
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Iconomidou, V.A., Willis, J.H. and Hamodrakas, S.J. (2005)
Unique features of the structural model of hard cuticle proteins: implications for chitin-protein interactions and cross-linking in cuticle.
Insect Biochem. Mol. Biol., 35(6):553-60. [Abstract]
[PDF] |
|
Bagos, P.G., Liakopoulos, T.D., Promponas, V.J., Hamodrakas, S.J. (2005) Topology prediction of β-barrel outer membrane proteins.Proc Indian Natl Sci Acad, B71(1): 19-41. [PDF] |
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2004 |
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Elefsinioti, A.L., Bagos, P.G., Spyropoulos, I.C., Hamodrakas, S.J. (2004)
A database for G proteins and their interaction with GPCRs.
BMC Bioinformatics, 5(1): 208.
[Abstract]
[PDF] |
|
Spyropoulos, I.C., Liakopoulos, T.D., Bagos, P.G. and Hamodrakas, S.J. (2004)
TMRPres2D: high quality visual representation of transmembrane protein models.
Bioinformatics, [Epub ahead of print]
[Abstract]
[PDF] |
|
Papasaikas, P.K., Bagos, P.G., Litou, Z.I., Promponas V.J. and Hamodrakas, S.J. (2004)
PRED-GPCR: GPCR recognition and family classification server.
Nucleic Acids Res, 32, W380-382.
[Abstract]
[PDF] |
|
Bagos, P.G., Liakopoulos, T.D., Spyropoulos, I.C. and Hamodrakas, S.J. (2004)
PRED-TMBB: A web server for predicting the topology of β-barrel outer membrane proteins.
Nucleic Acids Res, 32, W400-404.
[Abstract]
[PDF] |
|
Bagos P.G., Liakopoulos T.D. and Hamodrakas, S.J. (2004)
Maximum Likelihood and Conditional Maximum Likelihood learning algorithms for Hidden Markov Models with labeled data.
Journal of Computational Methods in Sciences and Engineering [In Press]
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Bagos P.G., Liakopoulos T.D., Spyropoulos I.C. and Hamodrakas S.J. (2004)
A Hidden Markov Model capable of predicting and discriminating β-barrel outer membrane proteins. BMC Bioinformatics, 2004, 5:29.
[Abstract]
[PDF] |
|
Pashou, E.E., Litou, Z.I., Liakopoulos, Th.D. and Hamodrakas, S.J. (2004)
waveTM: Wavelet-based transmembrane segment prediction.
In Silico Biol.4, 0012.
[HTML]
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Hamodrakas S.J., Hoenger A., Iconomidou V.A. (2004)
Amyloid fibrillogenesis of silkmoth chorion protein peptide-analogues via a liquid-crystalline intermediate phase. J Struct Biol., 145, 226-35.
[Abstract]
[PDF] |
|
Magkrioti CK, Spyropoulos IC, Iconomidou VA, Willis JH, Hamodrakas SJ. (2004)
cuticleDB: a relational database of Arthropod cuticular proteins.
BMC Bioinformatics. 5(1):138.
[Abstract]
[PDF] |
|
Bagos, P.G., Liakopoulos, T.D., Hamodrakas, S.J. (2004) Finding beta-barrel outer membrane proteins with a markov chain model. WSEAS Transactions on Biology and Biomedicine, 2(1), 186-189.
[PDF] |
|
Bagos P.G., Liakopoulos Th.D. and Hamodrakas, S.J. (2004)
Faster Gradient Descent Training of Hidden Markov Models, Using Individual Learning Rate Adaptation.
Proceedings of ICGI 2004 Lecture Notes In Artificial Intelligence Vol. 3264, pp. 40-52.
[PDF] |
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2003 |
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Benaki D.C., Mikros E., Hamodrakas S.J. (2003)
Conformational Analysis of Peptide Analogues of Silkmoth Chorion Protein Segments Using CD, NMR and Molecular Modelling. Journal of Peptide Science
[Abstract]
[PDF] |
|
Papasaikas P.K., Bagos P.G., Litou Z.I, Hamodrakas S.J. (2003)
A novel method for GPCR recognition and family classification from sequence alone using signatures derived from profile hidden Markov models. SAR QSAR Environ Res., 14, 413-20.
[Abstract]
[PDF] |
|
Vernikos G.S., Gkogkas C.G., Promponas V.J., Hamodrakas S.J. (2003)
GeneViTo: Visualizing gene-product functional and structural features in genomic datasets. BMC Bioinformatics, 4, 53
[Abstract]
[PDF] |
|
Iconomidou, V.A., Chryssikos, G.D., Gionis, V., Hoenger, A., Hamodrakas, S.J. (2003)
FT-Raman spectroscopy as diagnostic tool of Congo red binding to amyloids. Biopolymers (Biospectroscopy), 72, 185-192
[Abstract]
[PDF] |
|
Iliopoulos I., Tsoka S., Andrade M., Enright A.J., Carroll M., Poullet P., Promponas V., Liakopoulos T., Palaios G., Pasquier C., Hamodrakas S.,
Tamames J., Yagnik A., Tramontano A., Devos D., Blaschke C., Valencia A., Brett D., Martin D., Leroy C., Rigoutsos I., Sander C., Ouzounis C.A, (2003)
Evaluation of Annotation Strategies using an Entire Genome Sequence. Bioinformatics, 19 (6), 717-726.
[Abstract]
[PDF] |
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2002 |
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Hamodrakas S.J., Willis J.H., Iconomidou V.A. (2002)
A structural model of the chitin-binding domain of cuticle proteins,
Insect Biochem Mol Biol, 32, 1577-1583.
[Abstract]
[PDF] |
|
Papandreou N.C., Makedonopoulou S., Antoniadou-Vyza E.A., Mavridis I.M., Hamodrakas S.J. (2002)
2,4-Diamino-5-(1-naphthyl)-3,5-diaza-1-azoniaspiro[5.5]undeca-1,3-diene chloride.
Acta Crystallogr C. , 58, 730-732.
[Abstract]
[PDF] |
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2001 |
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| top |
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Iconomidou, V. A., Chryssikos, G. D., Gionis, V., Willis, J. H. and Hamodrakas,
S. J. (2001) "Soft"-cuticle protein secondary structure as
revealed by FT-Raman, ATR FT-IR and CD spectroscopy, Insect Biochem. Mol.
Biol., 31, 877-885. [Abstract]
[PDF] |
|
Liakopoulos, T. D., Pasquier, C., Hamodrakas, S. J. (2001) A
novel tool for the prediction of transmembrane protein topology based on a
statistical analysis of the SwissProt database: the OrienTM algorithm, Protein
Eng, 14, 387-390. [Abstract]
[PDF] |
|
Karmirantzou, M. and Hamodrakas, S. J. (2001) A database of
DNA-binding proteins: an approach for protein family classification, Protein
Eng., 14(7), 465-472. [Abstract]
[PDF] |
|
Iconomidou, V. A., Chryssikos, G. D., Gionis, V., Vriend, G., Hoenger, A.
and Hamodrakas, S. J. (2001) Amyloid-like fibrils from an 18-residue
peptide-analogue of a part of the central domain of the B-family of silkmoth
chorion proteins, FEBS Letters, 499, 268-273. [Abstract]
[PDF] |
|
Pasquier, C., Promponas, V. I. and Hamodrakas, S. J. (2001) PRED-CLASS:
Cascading neural networks for generalized protein classification and
genome-wide applications, Proteins, 44, 361-369. [Abstract]
[PDF] |
| Iconomidou, V.A. and Hamodrakas, S.J. (2001) Amyloid-like fibrils from a peptide-analogue of the central domain of silkmoth chorion proteins. In A. Aggeli, N. Boden, S, Zhang"Self-Assembling Peptide Systems in Biology, Medicine, and Engineering" , Chapter 12, 161-169, Kluwer Press.[PDF] |
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2000 |
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Iconomidou, V. A.; Vriend, G.A. and Hamodrakas, S. J. (2000)
Amyloids protect the silkmoth oocyte and embryo, FEBS Letters, 479,
141-5. [Abstract]
[PDF] |
|
Promponas, V. J.; Enright, A. J.; Tsoka, S.; Kreil, D. P.; Leroy, C. and Hamodrakas,
S. J.; Sander, C.; Ouzounis, C. A. (2000) CAST: an iterative algorithm
for the complexity analysis of sequence tracts. Bioinformatics,
16(10), 915-922. [Abstract]
[PDF] |
|
Iconomidou, V. A., Chryssikos, G. D., Gionis, V., Pavlidis, M. A.,
Paipetis, A. and Hamodrakas, S. J. (2000) Secondary structure of
chorion proteins of the teleostean fish Dentex dentex by ATR FT-IR and
FT-Raman spectroscopy, J. Struct. Biol., 132, 112-122. [Abstract]
[PDF] |
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1999 |
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Iconomidou, V. A., Willis, J. H. and Hamodrakas, S. J. (1999) Is
beta-pleated sheet the molecular conformation which dictates formation of
helicoidal cuticle? Insect Biochem. Mol. Biol., 29(3), 285-92. [Abstract]
[PDF] |
|
Promponas, V. J., Palaios, G., Pasquier, C. M., Hamodrakas, J. S. and Hamodrakas
S. J. (1999) CoPreTHi: A Web tool which combines transmembrane protein
segment prediction methods, In Silico Biology, 3, 1-4. [Abstract] |
|
Pasquier, C., Promponas, V. J., Palaios, G. A.,Hamodrakas, J. S., and Hamodrakas,
S. J. (1999) A novel method for predicting transmembrane segments in
proteins based on a statistical analysis of the SwissProt database: the
PRED-TMR algorithm, Protein Eng., 12(5), 381-5. [Abstract]
[PDF] |
|
Pasquier, C., and Hamodrakas, S. J. (1999) An hierarchical artificial
neural network system for the classification of transmembrane proteins, Protein
Eng., 12(8), 631-4. [Abstract]
[PDF] |
|
Perrakis, A., Antoniadou-Vyzas, E., Tsitsa, P., Lamzin, V. S., Wilson, K. S.
and Hamodrakas, S. J. (1999) Molecular, crystal and solution structure
of a β-cyclodextrin complex with ADM-10, a potent antimicrobial drug, Carbohydrate
Res., 317(1-4), 19-28. [Abstract]
[PDF] |
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1998 |
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Benaki, D. C., Aggeli, A., Chryssikos, G. D., Yiannopoulos, Y. D., Brumley,
E., Case, S. T., Boden, N. and Hamodrakas, S. J. (1998) Laser-Raman and
FT-IR spectroscopic studies of peptide-analogues of silkmoth chorion protein
segments, Int. J. Biol. Macromol., 23(1), 49-59. [Abstract]
[PDF] |
|
Pasquier, C. M., Promponas, V. I., Varvayannis, N. J. and Hamodrakas, S.
J. (1998) A web server to locate periodicities in a sequence, Bioinformatics,
14(8), 749-50. [Abstract]
[PDF] |
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1997 |
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| top |
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Hamodrakas, S. J., Kanellopoulos, P. N., Pavlou, K. and Tucker,
P. A. (1997) The crystal structure of the complex of Concanavalin A with 4'-
methylumbelliferyl-α-D-glucopyranoside, J. Struct. Biol., 118,
23-30. [Abstract]
[PDF] |
|
Agianian, B., Perrakis, A., Kanellopoulos, P. N., Sheldrick B. and Hamodrakas,
S. J. (1997) The crystal and molecular structure of p-nitrophenyl-α-D-mannopyranoside
ethanol solvate, Acta Cryst., C53, 811-814. [PDF] |
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1996 |
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Papadopoulou, P., Galanopoulos, V. K. and Hamodrakas, S. J. (1996)
Molecular and supramolecular architecture of the Salmo gairdneri
proteinaceous eggshell during development, J. Struct. Biology, 116,
399-412. [Abstract]
[PDF] |
|
Kanellopoulos, P. N., Pavlou, K., Perrakis, A., Agianian, B., Vorgias, C.,
Mavrommatis, C., Soufi, M., Tucker, P. A. and Hamodrakas, S. J. (1996)
The crystal structure of the complexes of Concanavalin A with 4'-nitrophenyl-α-D-mannopyranoside
and 4'-nitrophenyl-α-D-glucopyranoside, J. Struct. Biology, 116,
345-355. [Abstract]
[PDF] |
|
Kanellopoulos, P. N., Pavlou, K., Agianian, B., Tucker, P. A. and Hamodrakas,
S. J. (1996) A triclinic crystal form of the lectin Concanavalin A, J.
Struct. Biol., 117, 16-23. [Abstract]
[PDF] |
|
Hamodrakas, S. J., Perrakis, A. and Antoniadou-Vyzas, E. (1996) A
de novo designed possible 5-lipoxygenase inhibitor: a-acetoxy-N-[1-(1-(tricyclo[3.3.1.13,7]dec-1-yl)ethyl]benzene
acetamide, Acta Cryst., C52, 677-679. [PDF] |
|
Perrakis, A., Schneider, T. S., Antoniadou-Vyzas, E., Dauter, Z. and Hamodrakas,
S. J. (1996) Refinement of
2-amino-6-(4-methyl-1-piperazinyl)-4-tricyclo[3.3.1.13,7]dec-1-yl)-1,3,5-triazine
at three different temperatures using image-plate data, J. Appl. Cryst.,
29, 261-264.
[PDF] |
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1995 |
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Orfanidou, C. C., Chryssikos, G. D., Kamitsos, E. I., Wellman, E., Case, S.
T. and Hamodrakas, S. J. (1995) Spectroscopic studies of Manduca
sexta and Sesamia nonagrioides chorion protein structure, Int.
J. Biol. Macromol., 17(2), 93-98. [Abstract]
[PDF] |
|
Perrakis, A., Constantinides, C., Athanasiades, A. and Hamodrakas, S. J. (1995)
PBM: A software package to create, display and manipulate interactively models
of small molecules and proteins on IBM-compatible, PCs Computer
Applications in the Biosciences (CABIOS), 11(2), 141-145. [Abstract]
[PDF] |
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1993 |
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Hempel, A., Camerman, N., Hamodrakas, S. J., Ottensmeyer, F.
P., Troganis, A., Stassinopoulou, C. I. and Camerman, A. (1993)
2,2,6,6-Tetramethylpiperidine-1-oxyl-4-yl-α-D-glucopyranoside, Acta
Cryst., C49, 298-300. [PDF] |
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Kolocouris, A., Kolocouris, N., Foscolos, G. B., Fytas, G., Hempel, A.,
Camerman, N., Camerman, A. and Hamodrakas, S. J. (1993) Molecular and
crystal structures of a tricyclic γ-lactam ketone and its Mannich base, J.
Cryst. Spectrosc. Res., 23, 663-668. [PDF] |
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Tsitsa, P., Antoniadou-Vyza, E., Hamodrakas, S. J., Eliopoulos,
E. E., Tsantili-Kakoulidou, A., Lada-Hytiroglou, E., Roussakis, C., Chinou,
I., Hempel, A., Camerman, N., Ottensmeyer, F. P., and Van den Berghe, D. A.
(1993) Synthesis, Crystal Structure and Biological Properties of a new Series
of Lipophilic s-Triazines, Dihydrofolate Reductase (DHFR) Inhibitors, Eur.
J. Med. Chem., 28, 149-158. [PDF] |
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Perrakis, A., Hempel, A., Hamodrakas, S. J., Camerman, N.,
Tsitsa, P., Antoniadou-Vyzas E. and Camerman, A. (1993) Molecular and crystal
structure of 2-amino-6-dimethyl amino-4-(-tricyclo[3.3.1.13,7]dec-1-yl)
methyl-1,3,5-triazine, J. Cryst. Spectrosc. Res., 23, 821-824. [PDF] |
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1992 |
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Orfanidou, C. C., Hamodrakas, S. J., Margaritis, L. H.,
Galanopoulos, V.K., Dedieu, J. C., and Gulik-Krzywicki, T. (1992) Fine
structure of the chorion of Manduca sexta and Sesamia nonagrioides
as revealed by scanning electron microscopy and freeze-fracturing, Tissue
& Cell, 24(5), 735-744. [PDF] |
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Wellman, S. E., Hamodrakas, S. J., Kamitsos, E. I.and Case, S. T.
(1992) Secondary structure of synthetic peptides derived from the repeating
unit of a giant secretory protein from Chironomus tentans, Biochim.
Biophys. Acta, 1121, 279-285. [Abstract] [PDF] |
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Gessman, R., Petratos, K., Hamodrakas, S. J., Tsitsa, P. and
Antoniadou-Vyza, E. (1992) Structure of 2-Amino-6-dimethylamino-4-(tricyclo
[3.3.1.1.3,7] decyl-1-yl)-1,3,5-triazine, Acta Cryst., C48, 347-350. [PDF] |
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Hamodrakas, S. J., Hempel, A., Camerman, N., Ottensmeyer, F. P.,
Tsitsa, P., Antoniadou-Vyzas, E. and Camerman, A. (1992) Molecular and crystal
structure of 2-amino-4-(tricyclo[3.3.1.1.3,7]
decyl-1)-6-N-methyl-piperazino-1,3,5-triazine, J. Cryst. Spectrosc. Res., 22, 607-614. [PDF] |
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Hamodrakas, S. J. (1992) Molecular architecture of helicoidal
proteinaceous eggshells in "Results and Problems in Cell
Differentiation", Vol. 19, (S.T. Case ed.), Ch. 6, pp. 116-186.
Springer-Verlag, Berlin-Heidelberg (rev. article). [Abstract][PDF] |
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1991 |
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Eliopoulos, E. , Sheldrick, B. and Hamodrakas, S. J. (1991) (The
crystal structure of)
4,5-Dimethoxy-2-[3-(1,4-oxazinan-4-yl)-3-oxopropyl]-N-(2-pyridyl)-benzenesulfonamide
Methanol solvate, Acta Cryst., C47, 1212-1215. [PDF] |
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Aggeli, A., Hamodrakas, S. J., Komitopoulou, K. and Konsolaki, M.
(1991) Tandemly repeating peptide motifs and their secondary structure in
Ceratitis capitata eggshell proteins Ccs36 and Ccs38, Int. J. Biol.
Macromol., 13, 307-315. [Abstract] [PDF] |
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Margaritis, L. H., Hamodrakas, S. J., Papassideri, I. Arad, T. and
Leonard, K. R. (1991) Three-dimensional reconstruction of innermost chorion
layer of Drosophila grimshawi and Drosophila melanogaster
eggshell mutant fs(1)384, Int. J. Biol. Macromol., 13, 247-253. [Abstract] [PDF] |
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1989 |
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Hamodrakas, S. J., Alexandraki, E., Troganis, A. and Stassinopoulou,
C.I. (1989) Models of binding of 4'-nitrophenyl α-D-mannopyranoside to the
lectin concanavalin A, Int. J. Biol. Macromol., 11 (1), 17-22. [Abstract] [PDF] |
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Hamodrakas, S. J., Batrinou, A. and Christophoratou, T. (1989)
Structural and functional features of Drosophila chorion proteins s36 and s38
from analysis of primary structure and infrared spectroscopy, Int. J. Biol.
Macromol., 11 (5), 307-313.[Abstract] [PDF] |
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1988 |
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Hamodrakas, S. J. (1988) A protein secondary structure prediction scheme
for the IBM-PC and compatibles, Computer applications in the Biosciences,
4 (4), 473-477. [Abstract][PDF] |
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Hamodrakas, S. J., Bosshard, H. E. and Carlson, C. N. (1988) Structural
models of the evolutionarily conservative central domain of silkmoth chorion
proteins, Protein Engineering, 2 (3), 201-207. [Abstract][PDF] |
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1987 |
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Hamodrakas, S. J., Kamitsos, E. I. and Papadopoulou, P. (1987)
Laser-Raman and infrared spectroscopic studies of protein conformation in the
eggshell of the fish Salmo gairdneri, Biochim. Biophys. Acta, 913,
163-169. [Abstract] [PDF] |
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1986 |
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Hamodrakas, S. J., Margaritis, L. H., Papassideri, I. and Fowler, A.
(1986) Fine structure of the silkmoth Antheraea polyphemus chorion as
revealed by X-ray diffraction, and freeze fracturing, Int. J. Biol. Macromol., 8, 237-242. [PDF] |
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Papanicolaou, A., Margaritis, L. H. and Hamodrakas, S. J. (1986)
Ultrastructural analysis of chorion formation in the silkmoth Bombyx mori,
Can. J. Zool., 64, 1158-1173. [PDF] |
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1985 |
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Hamodrakas, S. J., Etmektzoglou, Th. and Kafatos, F. C. (1985) Amino
acid Periodicities and Their Structural Implications for the Evolutionarily
Conservative Central Domain of Some Silkmoth Chorion Proteins, J. Mol. Biol.,
186, 583-589. [Abstract] [PDF] |
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1984 |
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Margaritis, L. H., Hamodrakas, S. J., Arad, T. and Leonard, K. R.
(1984) Three Dimensional Reconstruction of Innermost Chorion Layer from Drosophila
melanogaster, Biol. Cell, 52 (3), 279-284. [Abstract] |
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Hamodrakas, S. J. (1984) Twisted β-pleated sheet: The
Molecular Conformation which possibly dictates the formation of the Helicoidal
Architecture of several proteinaceous eggshells, Int. J. Biol. Macromol., 6, 51. [PDF] |
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Hamodrakas, S. J. and Kafatos, F. C. (1984) Structural Implications of
Primary Sequences from a family of Balbiani Ring-Encoded Proteins in Chironomus,
J. Mol. Evol., 20, 296-303. [Abstract] [PDF] |
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Hamodrakas, S. J., Kamitsos, E. I. and Papanicolaou, A. (1984)
Laser-Raman spectroscopic studies of the Eggshell (Chorion) of Bombyx mori,
Int. J. Biol. Macromol., 6, 333-336. [PDF] |
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1983 |
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Regier, J. C., Kafatos, F. C. and Hamodrakas, S. J. (1983) Silkmoth
chorion multigene families constitute a superfamily:Comparison of C and B
family sequences, Proc. Natln. Acad. Sci. USA, 80, 1043-1047. [Abstract] [PDF] |
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Hamodrakas, S. J.,
Paulson, J. R., Rodakis, G. C. and Kafatos F. C.
(1983) X-ray Diffraction studies of a silkmoth chorion, Int. J. Biol.
Macromol., 5, 149-153. [PDF] |
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Eliopoulos, E. E., Sheldrick, B. and Hamodrakas, S. J. (1983) The
crystal structure of Ethyl 3-[4,5-Dimethoxy-2-(4-
methyl-2-pyridylsulfamoyl)phenyl] propionate, C19H24N2O8S,
Acta Cryst., C39, 743. [PDF] |
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Eliopoulos, E. E., Sheldrick, B. and Hamodrakas, S. J. (1983) The
crystal structure of Ethyl
3-[4,5-Dimethoxy-2-(3-methyl-2-pyridylsulfamoyl)phenyl] propionate), C19H24N2O8S,
Acta Cryst., C39, 1693. [PDF] |
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1982 |
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Hamodrakas, S. J., Margaritis, L. H. and Nixon, P. E. (1982) Crystalline
layer in Drosophila melanogaster eggshell: Arrangement of components as
revealed by negative staining and reconstruction, Int. J. Biol. Macromol., 4, 25-31. [PDF] |
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Hamodrakas, S. J., Jones, C. W. and Kafatos, F. C. (1982) Secondary
structure predictions for silkmoth chorion proteins, Biochim. Biophys. Acta, 700, 42-51. [PDF] |
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Hamodrakas, S. J., Asher, S. A., Mazur, G. D., Regier, J. C. and Kafatos,
F. C. (1982) Laser-Raman studies of protein conformation in the Silkmoth
chorion, Biochim. Biophys. Acta , 703, 216-222.
[PDF] |
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1978 |
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Hamodrakas, S. J., Akrigg, D. and Sheldrick, B. (1978) (The crystal
structure of) Methyl dehydroabietate, C21H30O2,
Cryst. Struct. Comm., 7, 429.
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Hamodrakas, S. J., Akrigg, D., Sheldrick, B. and Camoutsis, C. (1978)
(The crystal structure of) Ethyl-3-[4,5-Dimethoxy-2-(5-methyl-2pyridylsulfamoyl)
phenyl] propionate, Acta Cryst., B34, 3426. [PDF] |
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1977 |
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Hamodrakas, S. J., Filippakis, S. E. and Sheldrick, B. (1977) (The
crystal structure of) 2-carboxamidomethyl-4,5-dimethoxy-phenyl diethyl
sulfonamide, C14H22N2O5S, Cryst.
Struct. Comm., 6, 209.
|
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Hamodrakas, S. J. and Filippakis, S. E. (1977) (The crystal structure
of) N-morpholine-4,5 dimethoxy-2-carboxymethyl benzene sulfonamide, C14H19NO7S,
Cryst. Struct. Comm., 6, 301.
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1974 |
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Hamodrakas, S. J., Geddes, A. J. and Sheldrick, B.
(1974) X-ray analysis
of disodium cromoglycate, Journal of Pharmacy and Pharmacology, 26, 54.[PDF]
|
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Hamodrakas, S. J., Geddes, A. J. and Sheldrick, B. (1974)
The
crystal structure of β-methylphenylcholine ether bromide, Acta Cryst., B30, 881. [PDF] |
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Geddes, A. J., Hamodrakas, S. J. and Sheldrick, B. (1974) (The
crystal structure of) N-acetyl methionine methyl ester, C8H15NO3S,
Cryst. Struct. Comm., 3, 97.
|
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S. J. Hamodrakas (1974) X-ray crystallographic studies of
disodium cromoglycate, β-methylphenylcholine ether bromide and N-acetyl
methionine methyl ester, Ph.D Thesis, University of Leeds (U.K).
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