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gurkanbebeks library [114 articles]

Senaste artiklarna i gurkanbebeks bibliotek ordnat efter prioritet.
  • A systems biology approach for pathway level analysis
    Genome Res. (4 September 2007), gr.6202607.
    by Sorin Draghici, Purvesh Khatri, Adi L Tarca, Kashyap Amin, Arina Done, Calin Voichita, Constantin Georgescu, Roberto Romero
    posted to no-tag by gurkanbebek on 2007-10-04 02:49:52 as ***** along with 15 people and 3 groups tmmurali dragonrez jfr grahamc shigepong zwang cabbagezs cerami xingxu shikin idonaldson Pao-Yang thomaskelder heliopais AlexanderPico Bioinformatics ParkinsonLab_at_MaRS OPIG
  • PathFinder: mining signal transduction pathway segments from protein-protein interaction networks
    BMC Bioinformatics, Vol. 8 (13 September 2007), 335.
    by Gurkan Bebek, Jiong Yang
    posted to interactions network networks pathways protein signaling by gurkanbebek on 2007-09-28 18:58:33 as ***** along with 2 people jyuh Thomasah
  • Prediction of physical protein-protein interactions
    posted to no-tag by gurkanbebek on 2007-02-02 14:18:47 as *****
  • Correlated mutations contain information about protein-protein interaction.
    J Mol Biol, Vol. 271, No. 4. (29 August 1997), pp. 511-523.
    by F Pazos, M Helmer-Citterich, G Ausiello, A Valencia
    posted to coevolution by gurkanbebek on 2007-02-01 21:45:28 as ***** along with 3 people cjeans tale Lombardo_7
  • Modeling cellular machinery through biological network comparison
    Nature Biotechnology, Vol. 24, No. 4. (06 April 2006), pp. 427-433.
    by Roded Sharan, Trey Ideker
    posted to no-tag by gurkanbebek on 2006-07-24 10:40:29 as ***** along with 16 people and 2 groups tmmurali kuhn tuck yas balajis wnpx ma_ko koller gcalda grahamc massivemayhem karfunkel mingzhi vietanh0 cdeane carlk T_lab ParkinsonLab_at_MaRS
  • How reliable are experimental protein-protein interaction data?
    J Mol Biol, Vol. 327, No. 5. (11 April 2003), pp. 919-923.
    by E Sprinzak, S Sattath, H Margalit
    posted to no-tag by gurkanbebek on 2006-07-11 01:54:49 as ***** along with 3 people kentsis wnpx carlk
  • Discovering Problem Solutions with low Kolmogorov complexity and high generalization capability
    No. FKI-194-94. (1994)
    by J Schmidhuber
    posted to no-tag by gurkanbebek on 2007-11-22 16:07:47 as ***
  • Receptor downregulation and desensitization enhance the information processing ability of signalling receptors
    BMC Systems Biology, Vol. 1, No. 1. (2007)
    by Harish Shankaran, H Wiley, Haluk Resat
    posted to pathways signaling by gurkanbebek on 2007-11-11 16:58:05 as ***
  • Novel Signaling Pathways in Breast Cancer
    Breast Cancer and Molecular Medicine (2006), pp. 823-839.
    by Hui-Wen Lo, Shao-Chun Wang, Mien-Chie Hung
    posted to breast cancer signaling by gurkanbebek on 2007-11-10 04:16:08 as ***
  • A proteomic analysis of cell signaling alterations in colorectal cancer
    Mol Cell Proteomics (11 September 2007), M700006-MCP200.
    by Juan Madoz-Gurpide, Marta Canamero, Lydia Sanchez, Jose Solano, Patricia Alfonso, Ignacio J Casal
    posted to cancer pathways signaling by gurkanbebek on 2007-11-10 04:02:34 as ***
  • Detecting Protein Function and Protein-Protein Interactions from Genome Sequences
    Science, Vol. 285, No. 5428. (30 July 1999), pp. 751-753.
    by Edward M Marcotte, Matteo Pellegrini, Ho-Leung Ng, Danny W Rice, Todd O Yeates, David Eisenberg
    posted to no-tag by gurkanbebek on 2006-07-18 04:25:23 as *** along with 7 people and 1 group lfriedl balajis opheliav ruvido cjeans Evangelia iris_2001 kdl
  • The Plasmodium protein network diverges from those of other eukaryotes
    Nature, Vol. 438, No. 7064. (3 November 2005), pp. 108-112.
    by Silpa Suthram, Taylor Sittler, Trey Ideker
    posted to no-tag by gurkanbebek on 2006-07-17 16:32:52 as *** along with 4 people and 1 group tmmurali dragonrez okarsligil rjarekm Bioinformatics
  • Evolutionary analyses of the human genome
    Nature, Vol. 409, No. 6822. (15 February 2001), pp. 847-849.
    by Wen-Hsiung Li, Zhenglong Gu, Haidong Wang, Anton Nekrutenko
    posted to no-tag by gurkanbebek on 2006-07-17 06:47:37 as *** along with 1 person jwortman
  • Uncovering signal transduction networks from high-throughput data by integer linear programming.
    Nucleic acids research (13 April 2008)
    by Xing-Ming M Zhao, Rui-Sheng S Wang, Luonan Chen, Kazuyuki Aihara
    posted to no-tag by gurkanbebek on 2008-05-21 15:15:32 as ** along with 3 people ptrobajo renatomilani mcoyne
  • Defining a Modular Signalling Network from the Fly Interactome
    BMC Systems Biology, Vol. 2, No. 1. (2008)
    by Anais Baudot, Jean B Angelelli, Alain Guenoche, Bernard Jacq, Christine Brun
    posted to no-tag by gurkanbebek on 2008-05-20 13:59:58 as ** along with 1 person cabbagesofdoom
  • Presence of multiple incontiguous deleted regions at the long arm of chromosome 18 in head and neck cancer.
    Clin Cancer Res, Vol. 4, No. 3. (March 1998), pp. 539-544.
    by VA Papadimitrakopoulou, Y Oh, A El-Naggar, J Izzo, G Clayman, L Mao
    posted to and cancer head neck pathways signaling by gurkanbebek on 2007-11-10 21:54:03 as **
  • Human Molecular Genetics, Third Edition
    (21 November 2003)
    by Tom Strachan, Andrew Read
    posted to no-tag by gurkanbebek on 2007-10-12 03:20:26 as **
  • PIPE: a protein-protein interaction prediction engine based on the re-occurring short polypeptide sequences between known interacting protein pairs
    BMC Bioinformatics, Vol. 7 (27 July 2006), 365.
    by Sylvain Pitre, Frank Dehne, Albert Chan, Jim Cheetham, Alex Duong, Andrew Emili, Marinella Gebbia, Jack Greenblatt, Mathew Jessulat, Nevan Krogan, Xuemei Luo, Ashkan Golshani
    posted to no-tag by gurkanbebek on 2007-02-05 18:59:03 as ** along with 1 person chad_davis
  • Conserved network motifs allow protein-protein interaction prediction.
    Bioinformatics, Vol. 20, No. 18. (12 December 2004), pp. 3346-3352.
    by I Albert, R Albert
    posted to no-tag by gurkanbebek on 2007-02-01 21:38:57 as **
  • The degree distribution of the generalized duplication model
    Theoretical Computer Science, Vol. 369, No. 1-3. (15 December 2006), pp. 239-249.
    by G Bebek, P Berenbrink, C Cooper, T Friedetzky, J Nadeau, SC Sahinalp
    posted to no-tag by gurkanbebek on 2007-01-26 22:16:21 as ** along with 1 person tmmurali
  • Subcellular localization of the yeast proteome
    Genes Dev., Vol. 16, No. 6. (15 March 2002), pp. 707-719.
    by Anuj Kumar, Seema Agarwal, John A Heyman, Sandra Matson, Matthew Heidtman, Stacy Piccirillo, Lara Umansky, Amar Drawid, Ronald Jansen, Yang Liu, Kei-Hoi Cheung, Perry Miller, Mark Gerstein, Shirleen G Roeder, Michael Snyder
    posted to no-tag by gurkanbebek on 2007-01-24 22:12:20 as ** along with 3 people and 2 groups lfriedl raiyar dbenn kdl steinmetzlab
  • Interaction with the SH3 domain protein Bem1 regulates signaling by the Saccharomyces cerevisiae p21-activated kinase Ste20.
    Mol Cell Biol, Vol. 25, No. 6. (March 2005), pp. 2177-2190.
    by MJ Winters, PM Pryciak
    posted to no-tag by gurkanbebek on 2007-01-08 20:17:47 as **
  • Fus1p Interacts With Components of the Hog1p Mitogen-Activated Protein Kinase and Cdc42p Morphogenesis Signaling Pathways to Control Cell Fusion During Yeast Mating
    Genetics, Vol. 166, No. 1. (1 January 2004), pp. 67-77.
    by Bryce Nelson, Ainslie B Parsons, Marie Evangelista, Karen Schaefer, Kathy Kennedy, Steven Ritchie, Tracey L Petryshen, Charles Boone
    posted to no-tag by gurkanbebek on 2007-01-08 19:39:07 as **
  • Bee1, a Yeast Protein with Homology to Wiscott-Aldrich Syndrome Protein, Is Critical for the Assembly of Cortical Actin Cytoskeleton
    J. Cell Biol., Vol. 136, No. 3. (10 February 1997), pp. 649-658.
    by Rong Li
    posted to no-tag by gurkanbebek on 2007-01-08 19:29:15 as **
  • Recruitment of the Swi/Snf Complex by Ste12-Tec1 Promotes Flo8-Mss11-Mediated Activation of STA1 Expression
    Mol. Cell. Biol., Vol. 24, No. 21. (1 November 2004), pp. 9542-9556.
    by Tae S Kim, Hye Y Kim, Jin H Yoon, Hyen S Kang
    posted to no-tag by gurkanbebek on 2007-01-08 16:43:55 as ** along with 1 person kristallreiner
  • Genetic fine-structural analysis of the Saccharomyces cerevisiae alpha-pheromone receptor.
    Cell Regul, Vol. 2, No. 6. (June 1991), pp. 439-452.
    by JB Konopka, DD Jenness
    posted to no-tag by gurkanbebek on 2007-01-05 22:21:00 as **
  • Sst2, a negative regulator of pheromone signaling in the yeast Saccharomyces cerevisiae: expression, localization, and genetic interaction and physical association with Gpa1 (the G-protein alpha subunit).
    Mol Cell Biol, Vol. 16, No. 9. (September 1996), pp. 5194-5209.
    by HG Dohlman, J Song, D Ma, WE Courchesne, J Thorner
    posted to no-tag by gurkanbebek on 2007-01-05 22:17:37 as ** along with 1 person tmt
  • Global analysis of protein localization in budding yeast.
    Nature, Vol. 425, No. 6959. (16 October 2003), pp. 686-691.
    by WK Huh, JV Falvo, LC Gerke, AS Carroll, RW Howson, JS Weissman, EK O'Shea
    posted to no-tag by gurkanbebek on 2006-12-01 22:17:26 as ** along with 9 people and 1 group Cortel lfriedl opheliav rebeccahainess nirfriedman hplatero koller raiyar iris_2001 kdl
  • Random forest similarity for protein-protein interaction prediction from multiple sources.
    Pac Symp Biocomput (2005), pp. 531-542.
    by Y Qi, J Klein-Seetharaman, Z Bar-Joseph
    posted to no-tag by gurkanbebek on 2006-12-01 14:40:11 as ** along with 2 people and 1 group tmmurali okarsligil Bioinformatics
  • Assessment of the reliability of protein-protein interactions and protein function prediction.
    Pac Symp Biocomput (2003), pp. 140-151.
    by M Deng, F Sun, T Chen
    posted to no-tag by gurkanbebek on 2006-12-01 14:26:58 as ** along with 1 person tmmurali
  • A relationship between gene expression and protein interactions on the proteome scale: analysis of the bacteriophage T7 and the yeast Saccharomyces cerevisiae.
    Nucleic Acids Res, Vol. 29, No. 17. (1 September 2001), pp. 3513-3519.
    by A Grigoriev
    posted to no-tag by gurkanbebek on 2006-12-01 12:52:49 as ** along with 2 people tmmurali kintoki
  • A novel genetic system to detect protein-protein interactions.
    Nature, Vol. 340, No. 6230. (20 July 1989), pp. 245-246.
    by S Fields, O Song
    posted to no-tag by gurkanbebek on 2006-12-01 12:47:18 as ** along with 8 people caldavis shivaram helenc Dualsystems grahamc selrac carlk bicko
  • A direct comparison of protein interaction confidence assignment schemes
    BMC Bioinformatics, Vol. 7 (26 July 2006), 360.
    by Silpa Suthram, Tomer Shlomi, Eytan Ruppin, Roded Sharan, Trey Ideker
    posted to no-tag by gurkanbebek on 2006-11-30 22:25:34 as ** along with 6 people and 1 group tmmurali lfriedl chad_davis balajis IbnBio iris_2001 kdl
  • Gaining confidence in high-throughput protein interaction networks.
    Nat Biotechnol, Vol. 22, No. 1. (January 2004), pp. 78-85.
    by JS Bader, A Chaudhuri, JM Rothberg, J Chant
    posted to no-tag by gurkanbebek on 2006-11-30 14:08:34 as ** along with 9 people and 1 group dragonrez lfriedl raiyar cjeans iris_2001 patrycjam patrycja_missiuro Evangelia ellakat kdl
  • Automatic clustering of orthologs and in-paralogs from pairwise species comparisons.
    J Mol Biol, Vol. 314, No. 5. (14 December 2001), pp. 1041-1052.
    by M Remm, CE Storm, EL Sonnhammer
    posted to no-tag by gurkanbebek on 2006-08-24 22:54:10 as ** along with 9 people and 2 groups tmmurali indigoviolet Sharpshoot jhc bluto incovoma ninch cerca wiedehopf EisenLab BioinfoCIPF
  • A new method for analyzing protein sequence relationships based on Sammon maps.
    Protein Sci, Vol. 6, No. 2. (February 1997), pp. 287-293.
    by DK Agrafiotis
    posted to no-tag by gurkanbebek on 2006-08-23 05:24:51 as **
  • Where did the BLOSUM62 alignment score matrix come from?
    Nat Biotechnol, Vol. 22, No. 8. (August 2004), pp. 1035-1036.
    by SR Eddy
    posted to no-tag by gurkanbebek on 2006-08-18 14:48:02 as ** along with 5 people ziquje bicko xiaobeizhao rabio reyez
  • Amino acid substitution matrices from protein blocks.
    Proc Natl Acad Sci U S A, Vol. 89, No. 22. (15 November 1992), pp. 10915-10919.
    by S Henikoff, JG Henikoff
    posted to no-tag by gurkanbebek on 2006-08-18 14:39:26 as ** along with 5 people kaarsinogen dgront Iden-J_GluR cjeans ashwinma
  • Protein Interaction Mapping in C. elegans Using Proteins Involved in Vulval Development
    Science, Vol. 287, No. 5450. (07 January 2000), pp. 116-122.
    by Albertha J Walhout, Raffaella Sordella, Xiaowei Lu, James L Hartley, Gary F Temple, Michael A Brasch, Nicolas Thierry-Mieg, Marc Vidal
    posted to no-tag by gurkanbebek on 2006-08-14 15:21:08 as ** along with 1 person dragonrez
  • Towards an understanding of complex protein networks
    Trends in Cell Biology, Vol. 11, No. 3. (1 March 2001), pp. 102-106.
    by Chandra L Tucker, Joseph F Gera, Peter Uetz
    posted to no-tag by gurkanbebek on 2006-08-14 02:16:57 as **
  • A computational approach for ordering signal transduction pathway components from genomics and proteomics Data.
    BMC Bioinformatics, Vol. 5 (25 October 2004)
    by Y Liu, H Zhao
    posted to no-tag by gurkanbebek on 2006-07-31 14:25:48 as ** along with 2 people opheliav wnpx
  • Inhibition of the EGF-activated MAP kinase signaling pathway by adenosine 3',5'-monophosphate.
    Science, Vol. 262, No. 5136. (12 November 1993), pp. 1065-1069.
    by J Wu, P Dent, T Jelinek, A Wolfman, MJ Weber, TW Sturgill
    posted to no-tag by gurkanbebek on 2006-07-30 16:40:52 as **
  • Inhibition by cAMP of Ras-dependent activation of Raf.
    Science, Vol. 262, No. 5136. (12 November 1993), pp. 1069-1072.
    by SJ Cook, F McCormick
    posted to no-tag by gurkanbebek on 2006-07-30 16:40:46 as **
  • Requirement for c-ras proteins during viral oncogene transformation
    Nature, Vol. 320, No. 6062. (10 April 1986), pp. 540-543.
    by Mark R Smith, Steven J Degudicibus, Dennis W Stacey
    posted to no-tag by gurkanbebek on 2006-07-30 16:30:34 as **
  • Integrated genomic and proteomic analyses of a systematically perturbed metabolic network.
    Science, Vol. 292, No. 5518. (4 May 2001), pp. 929-934.
    by T Ideker, V Thorsson, JA Ranish, R Christmas, J Buhler, JK Eng, R Bumgarner, DR Goodlett, R Aebersold, L Hood
    posted to no-tag by gurkanbebek on 2006-07-26 22:56:34 as ** along with 10 people and 3 groups snuppepuppan BioGeek dragonrez bpb okarsligil opheliav wnpx raiyar thomaskelder shikin Bioinformatics steinmetzlab GeneGo
  • Bioinformatic identification of potential autocrine signaling loops in cancers from gene expression profiles
    Nat Genet, Vol. 29, No. 3. (November 2001), pp. 295-300.
    by Thomas G Graeber, David Eisenberg
    posted to no-tag by gurkanbebek on 2006-07-25 22:49:58 as **
  • From the Cover: Conserved patterns of protein interaction in multiple species.
    Proc Natl Acad Sci U S A, Vol. 102, No. 6. (8 February 2005), pp. 1974-1979.
    by R Sharan, S Suthram, RM Kelley, T Kuhn, S McCuine, P Uetz, T Sittler, RM Karp, T Ideker
    posted to no-tag by gurkanbebek on 2006-07-24 10:44:39 as ** along with 11 people and 1 group sza dragonrez okarsligil balajis nuke2005 maryee koller cjeans iris_2001 maralena mdstobbe Bioinformatics
  • Conserved pathways within bacteria and yeast as revealed by global protein network alignment.
    Proc Natl Acad Sci U S A, Vol. 100, No. 20. (30 September 2003), pp. 11394-11399.
    by BP Kelley, R Sharan, RM Karp, T Sittler, DE Root, BR Stockwell, T Ideker
    posted to no-tag by gurkanbebek on 2006-07-24 10:42:16 as ** along with 8 people and 1 group okarsligil balajis nuke2005 mirzazadeh denilw shu mdstobbe carlk Bioinformatics
  • Betting on tomorrow's chips
    Nature, Vol. 415, No. 6868. (10 January 2002), pp. 112-114.
    by Alison Abbott
    posted to no-tag by gurkanbebek on 2006-07-23 11:39:10 as **
  • Serial analysis of gene expression.
    Science, Vol. 270, No. 5235. (20 October 1995), pp. 484-487.
    by VE Velculescu, L Zhang, B Vogelstein, KW Kinzler
    posted to no-tag by gurkanbebek on 2006-07-23 11:33:00 as ** along with 6 people and 1 group jeremymiller epigenetics elzodw xiaobeizhao bertelsen bozdagd GeschwindLab
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