• Reference Citation Analysis
  • v
  • v
  • Find an Article
Find an Article PDF (4598960)   Today's Articles (3668)   Subscriber (49356)
Number Citation Analysis
76
Kuravsky ML, Aleshin VV, Frishman D, Muronetz VI. Testis-specific glyceraldehyde-3-phosphate dehydrogenase: origin and evolution. BMC Evol Biol 2011;11:160. [PMID: 21663662 PMCID: PMC3224139 DOI: 10.1186/1471-2148-11-160] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/24/2010] [Accepted: 06/10/2011] [Indexed: 11/25/2022]  Open
77
Theis FJ, Latif N, Wong P, Frishman D. Complex principal component and correlation structure of 16 yeast genomic variables. Mol Biol Evol 2011;28:2501-12. [PMID: 21444651 DOI: 10.1093/molbev/msr077] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/21/2022]  Open
78
Mewes HW, Ruepp A, Theis F, Rattei T, Walter M, Frishman D, Suhre K, Spannagl M, Mayer KFX, Stümpflen V, Antonov A. MIPS: curated databases and comprehensive secondary data resources in 2010. Nucleic Acids Res 2010;39:D220-4. [PMID: 21109531 PMCID: PMC3013725 DOI: 10.1093/nar/gkq1157] [Citation(s) in RCA: 73] [Impact Index Per Article: 5.2] [Reference Citation Analysis] [Abstract] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/21/2023]  Open
79
Luo Q, Pagel P, Vilne B, Frishman D. DIMA 3.0: Domain Interaction Map. Nucleic Acids Res 2010;39:D724-9. [PMID: 21097782 PMCID: PMC3013740 DOI: 10.1093/nar/gkq1200] [Citation(s) in RCA: 37] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/05/2022]  Open
80
Gershoni M, Fuchs A, Shani N, Fridman Y, Corral-Debrinski M, Aharoni A, Frishman D, Mishmar D. Coevolution predicts direct interactions between mtDNA-encoded and nDNA-encoded subunits of oxidative phosphorylation complex i. J Mol Biol 2010;404:158-71. [PMID: 20868692 DOI: 10.1016/j.jmb.2010.09.029] [Citation(s) in RCA: 44] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/29/2009] [Revised: 09/05/2010] [Accepted: 09/13/2010] [Indexed: 10/19/2022]
81
Kowarsch A, Fuchs A, Frishman D, Pagel P. Correlated mutations: a hallmark of phenotypic amino acid substitutions. PLoS Comput Biol 2010;6. [PMID: 20862353 PMCID: PMC2940720 DOI: 10.1371/journal.pcbi.1000923] [Citation(s) in RCA: 53] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/25/2009] [Accepted: 08/09/2010] [Indexed: 11/18/2022]  Open
82
Neumann S, Fuchs A, Mulkidjanian A, Frishman D. Current status of membrane protein structure classification. Proteins 2010;78:1760-73. [PMID: 20186977 DOI: 10.1002/prot.22692] [Citation(s) in RCA: 22] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022]
83
Fuchs A, Frishman D. Structural comparison and classification of alpha-helical transmembrane domains based on helix interaction patterns. Proteins 2010;78:2587-99. [PMID: 20552684 DOI: 10.1002/prot.22768] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
84
Sturm M, Hackenberg M, Langenberger D, Frishman D. TargetSpy: a supervised machine learning approach for microRNA target prediction. BMC Bioinformatics 2010;11:292. [PMID: 20509939 PMCID: PMC2889937 DOI: 10.1186/1471-2105-11-292] [Citation(s) in RCA: 129] [Impact Index Per Article: 9.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/09/2009] [Accepted: 05/28/2010] [Indexed: 11/21/2022]  Open
85
Smialowski P, Frishman D. Protein crystallizability. Methods Mol Biol 2010;609:385-400. [PMID: 20221931 DOI: 10.1007/978-1-60327-241-4_22] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/18/2023]
86
Smialowski P, Pagel P, Wong P, Brauner B, Dunger I, Fobo G, Frishman G, Montrone C, Rattei T, Frishman D, Ruepp A. The Negatome database: a reference set of non-interacting protein pairs. Nucleic Acids Res 2010;38:D540-4. [PMID: 19920129 PMCID: PMC2808923 DOI: 10.1093/nar/gkp1026] [Citation(s) in RCA: 100] [Impact Index Per Article: 7.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/14/2009] [Revised: 10/19/2009] [Accepted: 10/20/2009] [Indexed: 12/25/2022]  Open
87
Langosch D, Herrmann J, Fuchs A, Panitz J, Unterreitmeier S, Frishman D. Charge-Charge Interactions Promote Transmembrane Helix-Helix Association Depending on Sequence Context. Biophys J 2010. [DOI: 10.1016/j.bpj.2009.12.3525] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]  Open
88
Ilyinskii PO, Schmidt T, Lukashev D, Meriin AB, Thoidis G, Frishman D, Shneider AM. Importance of mRNA secondary structural elements for the expression of influenza virus genes. OMICS-A JOURNAL OF INTEGRATIVE BIOLOGY 2009;13:421-30. [PMID: 19594376 DOI: 10.1089/omi.2009.0036] [Citation(s) in RCA: 25] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/12/2022]
89
Smialowski P, Frishman D, Kramer S. Pitfalls of supervised feature selection. ACTA ACUST UNITED AC 2009;26:440-3. [PMID: 19880370 PMCID: PMC2815655 DOI: 10.1093/bioinformatics/btp621] [Citation(s) in RCA: 115] [Impact Index Per Article: 7.7] [Reference Citation Analysis] [MESH Headings] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/06/2023]
90
Fuchs A, Kirschner A, Frishman D. Prediction of helix-helix contacts and interacting helices in polytopic membrane proteins using neural networks. Proteins 2009;74:857-71. [PMID: 18704938 DOI: 10.1002/prot.22194] [Citation(s) in RCA: 51] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022]
91
Loewenstein Y, Raimondo D, Redfern OC, Watson J, Frishman D, Linial M, Orengo C, Thornton J, Tramontano A. Protein function annotation by homology-based inference. Genome Biol 2009;10:207. [PMID: 19226439 PMCID: PMC2688287 DOI: 10.1186/gb-2009-10-2-207] [Citation(s) in RCA: 148] [Impact Index Per Article: 9.9] [Reference Citation Analysis] [Abstract] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022]  Open
92
Wong P, Althammer S, Hildebrand A, Kirschner A, Pagel P, Geissler B, Smialowski P, Blöchl F, Oesterheld M, Schmidt T, Strack N, Theis FJ, Ruepp A, Frishman D. An evolutionary and structural characterization of mammalian protein complex organization. BMC Genomics 2008;9:629. [PMID: 19108706 PMCID: PMC2645396 DOI: 10.1186/1471-2164-9-629] [Citation(s) in RCA: 18] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/17/2008] [Accepted: 12/23/2008] [Indexed: 12/25/2022]  Open
93
Antranikian G, Ruepp A, Gordon PMK, Ballschmiter M, Zibat A, Stark M, Sensen CW, Frishman D, Liebl W, Klenk HP. Rapid access to genes of biotechnologically useful enzymes by partial genome sequencing: the thermoalkaliphile Anaerobranca gottschalkii. J Mol Microbiol Biotechnol 2008;16:81-90. [PMID: 18957864 DOI: 10.1159/000142896] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/19/2022]  Open
94
Herrmann JR, Panitz JC, Unterreitmeier S, Fuchs A, Frishman D, Langosch D. Complex patterns of histidine, hydroxylated amino acids and the GxxxG motif mediate high-affinity transmembrane domain interactions. J Mol Biol 2008;385:912-23. [PMID: 19007788 DOI: 10.1016/j.jmb.2008.10.058] [Citation(s) in RCA: 24] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/05/2008] [Revised: 10/16/2008] [Accepted: 10/20/2008] [Indexed: 10/21/2022]
95
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, Frishman D. PEDANT covers all complete RefSeq genomes. Nucleic Acids Res 2008;37:D408-11. [PMID: 18940859 PMCID: PMC2686588 DOI: 10.1093/nar/gkn749] [Citation(s) in RCA: 82] [Impact Index Per Article: 5.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/17/2022]  Open
96
Schmidt T, Frishman D. Assignment of isochores for all completely sequenced vertebrate genomes using a consensus. Genome Biol 2008;9:R104. [PMID: 18590563 PMCID: PMC2481423 DOI: 10.1186/gb-2008-9-6-r104] [Citation(s) in RCA: 11] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/13/2008] [Revised: 05/22/2008] [Accepted: 06/30/2008] [Indexed: 11/16/2022]  Open
97
Kirschner A, Frishman D. Prediction of beta-turns and beta-turn types by a novel bidirectional Elman-type recurrent neural network with multiple output layers (MOLEBRNN). Gene 2008;422:22-9. [PMID: 18598743 DOI: 10.1016/j.gene.2008.06.008] [Citation(s) in RCA: 22] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022]
98
Ishihama Y, Schmidt T, Rappsilber J, Mann M, Hartl FU, Kerner MJ, Frishman D. Protein abundance profiling of the Escherichia coli cytosol. BMC Genomics 2008;9:102. [PMID: 18304323 PMCID: PMC2292177 DOI: 10.1186/1471-2164-9-102] [Citation(s) in RCA: 353] [Impact Index Per Article: 22.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/24/2008] [Accepted: 02/27/2008] [Indexed: 11/10/2022]  Open
99
Grimm M, Stephan R, Iversen C, Manzardo GGG, Rattei T, Riedel K, Ruepp A, Frishman D, Lehner A. Cellulose as an extracellular matrix component present in Enterobacter sakazakii biofilms. J Food Prot 2008;71:13-8. [PMID: 18236657 DOI: 10.4315/0362-028x-71.1.13] [Citation(s) in RCA: 33] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
100
Wong P, Frishman D. Designability and disease. Methods Mol Biol 2008;484:491-504. [PMID: 18592197 DOI: 10.1007/978-1-59745-398-1_29] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 05/26/2023]
PrevPage 4 of 7 1234567Next
© 2004-2024 Baishideng Publishing Group Inc. All rights reserved. 7041 Koll Center Parkway, Suite 160, Pleasanton, CA 94566, USA