okarsligil's protein [44 articles] Export

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	An integrated mass spectrometric and computational framework for the analysis of protein interaction networks [My Copy] Nature Biotechnology, Vol. 25, No. 3. (25 February 2007), pp. 345-352. by Oliver Rinner, Lukas N. Mueller, Martin Hubálek, Markus Müller, Matthias Gstaiger, Ruedi Aebersold posted to ms network protein by okarsligil on 2007-03-19 13:10:19 as along with 5 people and 1 group guhjy jfr Dualsystems nedwards mingzhi Bioinformatics
	Why highly expressed proteins evolve slowly [My Copy] Proceedings of the National Academy of Sciences, Vol. 102, No. 40. (21 September 2005), pp. 14338-14343. by Allan D. Drummond, Jesse D. Bloom, Christoph Adami, Claus O. Wilke, Frances H. Arnold posted to evolution protein by okarsligil on 2006-03-28 18:23:12 as along with 1 person and 1 group ccots Bioinformatics
	Stochastic protein expression in individual cells at the single molecule level [My Copy] Nature, Vol. 440, No. 7082. (16 March 2006), pp. 358-362. by Long Cai, Nir Friedman, X. Sunney Xie posted to expression protein stochastic by okarsligil on 2006-03-22 19:55:05 as along with 17 people and 1 group pkm dbikard abhishek_tiwari ddcttrl peiell ccots bayesian wnpx balabu cottrell jiyu mmt jtaylor margaritis cjeans austin jjray Bioinformatics
	Consolidating the set of known human protein-protein interactions in preparation for large-scale mapping of the human interactome [My Copy] Genome Biology, Vol. 6, No. 5. (2005), R40. by Arun Ramani, Razvan Bunescu, Raymond Mooney, Edward Marcotte posted to human interactome protein by okarsligil on 2006-03-22 18:43:27 as along with 19 people and 5 groups fesousa ggallone yaredo setar tmmurali dragonrez lfriedl ccots balajis maryee brant opheliav davidandrzej wnpx rlhsiao bundschu mikaelhuss raiyar grahamc Complex Networks Jarman Lab kdl Bioinformatics generif_paper
	Folding DNA to create nanoscale shapes and patterns [My Copy] Nature, Vol. 440, No. 7082. (16 March 2006), pp. 297-302. by Paul W. K. Rothemund posted to dna folding nanoscale protein by okarsligil on 2006-03-16 19:04:19 as along with 21 people and 3 groups BjoernAlbrecht Buntworthy Pedersen operon trm005 kevinchannon jsyi metemadi rodney alexknight karlberggren knaseanka eckart_bindewald dullhunk madhadron cmm stsaft Kiarostami dna justforscraps bethbromley DNA nanotechnology Bioinformatics FAB-lab
	Hot regions in protein--protein interactions: the organization and contribution of structurally conserved hot spot residues. [My Copy] J Mol Biol, Vol. 345, No. 5. (4 February 2005), pp. 1281-1294. by O. Keskin, B. Ma, R. Nussinov posted to motif protein structure by okarsligil on 2006-03-08 23:26:10 as along with 9 people and 2 groups marti mdimmic ana barry baaden bicko j3xucite bilab xz structural_bioinformatics Bioinformatics
	Minimotif Miner: a tool for investigating protein function [My Copy] Nature Methods, Vol. 3, No. 3. (17 February 2006), pp. 175-177. by Sudha Balla, Vishal Thapar, Snigdha Verma, et al.Thaibinh Luong, Tanaz Faghri, Chun-Hsi Huang, Sanguthevar Rajasekaran, Jacob, Jessica H. Shinn, William A. Mohler, Mark W. Maciejewski, Michael R. Gryk, Bryan Piccirillo, Stanley R. Schiller, Martin R. Schiller posted to function motif protein by okarsligil on 2006-03-08 20:46:03 as along with 2 people and 1 group j3xucite Evangelia Bioinformatics
	Screening for peptide drugs from the natural repertoire of biodiverse protein folds [My Copy] Nature Biotechnology, Vol. 24, No. 2. (07 February 2006), pp. 177-183. by Paul M. Watt posted to folding peptide protein by okarsligil on 2006-02-09 23:09:09 as along with 1 person and 1 group Evangelia Bioinformatics
	Flip-flopping membrane proteins [My Copy] Nature Structural & Molecular Biology, Vol. 13, No. 2., pp. 94-96. by James U. Bowie posted to membrane protein by okarsligil on 2006-02-07 15:17:58 as along with 1 group Bioinformatics
	Mapping structural interactions using in-cell NMR spectroscopy (STINT-NMR) [My Copy] Nature Methods, Vol. 3, No. 2. (23 January 2006), pp. 91-93. by David S. Burz, Kaushik Dutta, David Cowburn, Alexander Shekhtman posted to interaction protein structural by okarsligil on 2006-01-26 21:10:37 as along with 1 group Bioinformatics
	NMR mapping of protein interactions in living cells [My Copy] Nature Methods, Vol. 3, No. 2., pp. 80-81. by Philipp Selenko, Gerhard Wagner posted to interaction nmr protein by okarsligil on 2006-01-26 21:01:13 as along with 1 group Bioinformatics
	A quantitative protein interaction network for the ErbB receptors using protein microarrays [My Copy] Nature (06 November 2005) by Richard B. Jones, Andrew Gordus, Jordan A. Krall, Gavin Macbeath posted to interaction network protein by okarsligil on 2006-01-11 22:02:29 as along with 6 people and 4 groups jfr marcius tny julius koller pjasper Bioinformatics SysbioMPI-TCells BioinfoCIPF SGU-CIPF
	An Empirical energy potential with a reference state for Protein Fold and Sequence Recognition [My Copy] (1999) by S. Miyazawa posted to folding potential protein by okarsligil on 2006-01-10 17:19:04 as along with 1 group Bioinformatics
	A general clustering approach with application to the Miyazawa-Jernigan potentials for amino acids [My Copy] Proteins: Structure, Function, and Bioinformatics, Vol. 55, No. 4. (2 April 2004), pp. 999-1004. by J. G. Esteve, F. Falceto posted to clustering protein by okarsligil on 2005-12-15 22:00:03 as along with 1 group Bioinformatics
	Towards a proteome-scale map of the human protein-protein interaction network [My Copy] Nature, Vol. 437, No. 7062. (20 October 2005), pp. 1173-1178. by Jean-Francois Rual, Kavitha Venkatesan, Tong Hao, et al.Tomoko Hirozane-Kishikawa, Amelie Dricot, Ning Li, Gabriel F. Berriz, Francis D. Gibbons, Matija Dreze, Nono Ayivi-Guedehoussou, Niels Klitgord, Christophe Simon, Mike Boxem, Stuart Milstein, Jennifer Rosenberg, Debra S. Goldberg, Lan V. Zhang, Sharyl L. Wong, Giovanni Franklin, Siming Li, Joanna S. Albala, Janghoo Lim, Carlene Fraughton, Estelle Llamosas, Sebiha Cevik, Camille Bex, Philippe Lamesch, Robert S. Sikorski, Jean Vandenhaute, Huda Y. Zoghbi, Alex Smolyar, Stephanie Bosak, Reynaldo Sequerra, Lynn Doucette-Stamm, Michael E. Cusick, David E. Hill, Frederick P. Roth, Marc Vidal posted to interaction network protein by okarsligil on 2005-12-10 18:03:24 as along with 21 people and 2 groups yaredo fesousa aelef dragonrez kuhn jfr lyongu maryee benny wnpx yoh noano gurkanbebek mbeautru eukfn grahamc lpfernandes antonkratz Evangelia csanford ksiek Complex Networks Bioinformatics
	Conserved patterns of protein interaction in multiple species. [My Copy] Proceedings of the National Academy of Sciences of the United States of America, Vol. 102, No. 6. (8 February 2005), pp. 1974-1979. by Roded Sharan, Silpa Suthram, Ryan M. Kelley, et al.Tanja Kuhn, Scott McCuine, Peter Uetz, Taylor Sittler, Richard M. Karp, Trey Ideker posted to conserved interaction pattern protein by okarsligil on 2005-12-01 23:29:51 as along with 18 people and 2 groups chica kiekyon thegoose2 robfsouza carlk tharris jiny sza dragonrez balajis nuke2005 maryee gurkanbebek koller cjeans iris_2001 maralena mdstobbe C. elegans / WormBase Bioinformatics
	Integrated Genomic and Proteomic Analyses of a Systematically Perturbed Metabolic Network [My Copy] Science, Vol. 292, No. 5518. (4 May 2001), pp. 929-934. by Trey Ideker, Vesteinn Thorsson, Jeffrey A. Ranish, et al.Rowan Christmas, Jeremy Buhler, Jimmy K. Eng, Roger Bumgarner, David R. Goodlett, Ruedi Aebersold, Leroy Hood posted to genome metabolic network perturbed protein by okarsligil on 2005-12-01 23:28:27 as along with 14 people and 3 groups pmendes myzhang rsaito isimpson snuppepuppan BioGeek dragonrez bpb opheliav wnpx gurkanbebek raiyar thomaskelder shikin Bioinformatics steinmetzlab GeneGo
	Conserved pathways within bacteria and yeast as revealed by global protein network alignment [My Copy] Proceedings of the National Academy of Sciences of the United States of America, Vol. 100, No. 20. (30 September 2003), pp. 11394-11399. by Brian P. Kelley, Roded Sharan, Richard M. Karp, et al.Taylor Sittler, David E. Root, Brent R. Stockwell, Trey Ideker posted to bacteria conserved network pathway protein yeast by okarsligil on 2005-12-01 23:25:29 as along with 10 people and 1 group chica emmackinnon balajis nuke2005 gurkanbebek mirzazadeh denilw shu mdstobbe carlk Bioinformatics
	Identification of protein complexes by comparative analysis of yeast and bacterial protein interaction data. [My Copy] Journal of computational biology : a journal of computational molecular cell biology, Vol. 12, No. 6. (g 2005), pp. 835-846. by Roded Sharan, Trey Ideker, Brian Kelley, Ron Shamir, Richard M. Karp posted to bacteria comparative interaction protein yeast by okarsligil on 2005-12-01 23:23:44 as along with 3 people and 1 group carlk chica nuke2005 Bioinformatics
	Identification of protein complexes by comparative analysis of yeast and bacterial protein interaction data [My Copy] In RECOMB '04: Proceedings of the eighth annual international conference on Resaerch in computational molecular biology (2004), pp. 282-289. by Roded Sharan, Trey Ideker, Brian P. Kelley, Ron Shamir, Richard M. Karp posted to interaction network protein yeast by okarsligil on 2005-12-01 23:21:45 as along with 6 people and 2 groups colmryan dakelley dragonrez lfriedl wnpx iris_2001 kdl Bioinformatics
	The Plasmodium protein network diverges from those of other eukaryotes [My Copy] Nature, Vol. 438, No. 7064. (03 November 2005), pp. 108-112. by Silpa Suthram, Taylor Sittler, Trey Ideker posted to network protein by okarsligil on 2005-12-01 23:19:50 as along with 5 people and 1 group roys tmmurali dragonrez rjarekm gurkanbebek Bioinformatics
	Systematic Discovery of New Recognition Peptides Mediating Protein Interaction Networks. [My Copy] PLoS Biol, Vol. 3, No. 12. (15 November 2005) by Victor Neduva, Rune Linding, Isabelle Su-Angrand, et al.Alexander Stark, Federico de D. Masi, Toby J J. Gibson, Joe Lewis, Luis Serrano, Robert B B. Russell posted to motif network peptide protein by okarsligil on 2005-11-30 14:57:02 as along with 10 people and 1 group rklancer bicko Ayest xwbcn drastic ezotenko grahamc Evangelia oelemento chad_davis Bioinformatics
	Sensitive detection of sequence similarity using combinatorial pattern discovery: a challenging study of two distantly related protein families. [My Copy] Proteins, Vol. 61, No. 4. (1 December 2005), pp. 926-937. by N. Darzentas, I. Rigoutsos, C. A. Ouzounis posted to discovery pattern protein sequence by okarsligil on 2005-11-29 19:06:05 as along with 1 group Bioinformatics
	Measuring the similarity of protein structures by means of the universal similarity metric. [My Copy] Bioinformatics, Vol. 20, No. 7. (1 May 2004), pp. 1015-1021. by N. Krasnogor, D. A. Pelta posted to protein similarity structure by okarsligil on 2005-11-29 18:54:04 as along with 4 people and 2 groups ana vavi rabio rsantana structural_bioinformatics Bioinformatics
	Sequence variations within protein families are linearly related to structural variations. [My Copy] J Mol Biol, Vol. 323, No. 3. (25 October 2002), pp. 551-562. by P. Koehl, M. Levitt posted to protein sequence similarity structure by okarsligil on 2005-11-29 16:54:55 as along with 4 people and 2 groups dfdong ana barry insectopalo structural_bioinformatics Bioinformatics
	Random forest similarity for protein-protein interaction prediction from multiple sources. [My Copy] Pac Symp Biocomput (2005), pp. 531-542. by Y. Qi, J. Klein-Seetharaman, Z. Bar-Joseph posted to interaction protein by okarsligil on 2005-11-28 14:05:07 as along with 3 people and 1 group anf tmmurali gurkanbebek Bioinformatics
	The present view of the mechanism of protein folding. [My Copy] Nat Rev Mol Cell Biol, Vol. 4, No. 6. (June 2003), pp. 497-502. by V. Daggett, A. Fersht posted to folding protein by okarsligil on 2005-11-21 04:27:22 as along with 3 people and 2 groups ana bilab mirzazadeh structural_bioinformatics Bioinformatics
	Practical lessons from protein structure prediction. [My Copy] Nucleic Acids Res, Vol. 33, No. 6. (2005), pp. 1874-1891. by K. Ginalski, N. V. Grishin, A. Godzik, L. Rychlewski posted to prediction protein structure by okarsligil on 2005-11-11 04:17:06 as along with 8 people and 4 groups mcbla ana aalibes thaliana marcius duartemolha dgront mirzazadeh structural_bioinformatics Bioinformatics BioinfoCIPF SGU-CIPF
	Prediction of protein function from protein sequence and structure. [My Copy] Q Rev Biophys, Vol. 36, No. 3. (August 2003), pp. 307-340. by J. C. Whisstock, A. M. Lesk posted to prediction protein structure by okarsligil on 2005-11-10 13:56:17 as along with 5 people and 1 group MarcoAlvarez wilbur tjimenez tmmurali bootsy Bioinformatics
	A comprehensive two-hybrid analysis to explore the yeast protein interactome. [My Copy] Proceedings of the National Academy of Sciences of the United States of America, Vol. 98, No. 8. (10 April 2001), pp. 4569-4574. by T. Ito, T. Chiba, R. Ozawa, M. Yoshida, M. Hattori, Y. Sakaki posted to protein two-hybrid yeast by okarsligil on 2005-11-09 02:00:59 as along with 20 people and 2 groups aceol MarcJungbluth chica lawraga semin kristallreiner adiel dragonrez lfriedl chad_davis balajis nuke2005 kengg ruvido gcalda lpfernandes shikin hplatero csanford carlk kdl Bioinformatics
	Detection of regulatory circuits by integrating the cellular networks of protein-protein interactions and transcription regulation. [My Copy] Nucleic Acids Res, Vol. 31, No. 20. (15 October 2003), pp. 6053-6061. by E. Yeger-Lotem, H. Margalit posted to network protein regulation transcription by okarsligil on 2005-11-09 01:51:19 as along with 2 people and 2 groups lfriedl wnpx kdl Bioinformatics
	Computational methods of analysis of protein-protein interactions. [My Copy] Curr Opin Struct Biol, Vol. 13, No. 3. (June 2003), pp. 377-382. by L. Salwinski, D. Eisenberg posted to interaction protein by okarsligil on 2005-11-09 01:44:02 as along with 2 people and 2 groups bicko lfriedl kdl Bioinformatics
	Global protein function annotation through mining genome-scale data in yeast Saccharomyces cerevisiae. [My Copy] Nucleic Acids Res, Vol. 32, No. 21. (2004), pp. 6414-6424. by Y. Chen, D. Xu posted to genome prediction protein by okarsligil on 2005-11-09 01:37:01 as along with 3 people and 2 groups lfriedl balajis opheliav kdl Bioinformatics
	Analyzing protein function on a genomic scale: the importance of gold-standard positives and negatives for network prediction [My Copy] Current Opinion in Microbiology, Vol. 7, No. 5. (October 2004), pp. 535-545. by R. Jansen, M. Gerstein posted to genome network prediction protein by okarsligil on 2005-11-09 01:34:27 as along with 6 people and 2 groups flbarroso lfriedl wnpx neils grahamc carlk kdl Bioinformatics
	Assessing the limits of genomic data integration for predicting protein networks [My Copy] Genome Research, Vol. 15, No. 7. (July 2005), pp. 945-953. by Long J. Lu, Yu Xia, Alberto Paccanaro, Haiyuan Yu, Mark Gerstein posted to genome network prediction protein by okarsligil on 2005-11-09 01:32:24 as along with 17 people and 3 groups ashishanand paccanarolab jaimie aelef lfriedl balajis maryee opheliav wnpx mbeautru eukfn grahamc nedwards brianb iris_2001 carlk phoenixzxl Paccanaro Lab kdl Bioinformatics
	Information assessment on predicting protein-protein interactions. [My Copy] BMC Bioinformatics, Vol. 5 (18 October 2004) by N. Lin, B. Wu, R. Jansen, M. Gerstein, H. Zhao posted to interaction prediction protein by okarsligil on 2005-11-09 01:30:21 as along with 5 people and 2 groups lfriedl wnpx eukfn cjeans iris_2001 kdl Bioinformatics
	Genome-scale protein function prediction in yeast Saccharomyces cerevisiae through integrating multiple sources of high-throughput data. [My Copy] Pac Symp Biocomput (2005), pp. 471-482. by Y. Chen, D. Xu posted to cerevisiae prediction protein saccharomyces by okarsligil on 2005-11-09 01:29:24 as along with 5 people and 2 groups tmmurali lfriedl balajis wnpx carlk kdl Bioinformatics
	Whole-proteome prediction of protein function via graph-theoretic analysis of interaction maps. [My Copy] Bioinformatics, Vol. 21 Suppl 1 (1 June 2005) by E. Nabieva, K. Jim, A. Agarwal, B. Chazelle, M. Singh posted to graph prediction protein by okarsligil on 2005-11-09 01:28:45 as along with 7 people and 2 groups tmmurali lfriedl wnpx j3xucite jiny Pao-Yang carlk kdl Bioinformatics
	Protein function prediction via graph kernels. [My Copy] Bioinformatics, Vol. 21, No. suppl_1. (1 June 2005) by Karsten M. M. Borgwardt, Cheng, Stefan Schönauer, S. V. N. V. Vishwanathan, Alex J. J. Smola, Hans-Peter P. Kriegel posted to function prediction protein by okarsligil on 2005-11-09 01:27:20 as along with 9 people and 4 groups ajbattle MarcoAlvarez tmmurali vavi lfriedl marcius eweaver kt wnpx kdl Bioinformatics BioinfoCIPF SGU-CIPF
	Systematic identification of protein complexes in Saccharomyces cerevisiae by mass spectrometry. [My Copy] Nature, Vol. 415, No. 6868. (10 January 2002), pp. 180-183. by Yuen Ho, Albrecht Gruhler, Adrian Heilbut, et al.Gary D. Bader, Lynda Moore, Sally-Lin L. Adams, Anna Millar, Paul Taylor, Keiryn Bennett, Kelly Boutilier, Lingyun Yang, Cheryl Wolting, Ian Donaldson, Søren Schandorff, Juanita Shewnarane, Mai Vo, Joanne Taggart, Marilyn Goudreault, Brenda Muskat, Cris Alfarano, Danielle Dewar, Zhen Lin, Katerina Michalickova, Andrew R. Willems, Holly Sassi, Peter A. Nielsen, Karina J. Rasmussen, Jens R. Andersen, Lene E. Johansen, Lykke H. Hansen, Hans Jespersen, Alexandre Podtelejnikov, Eva Nielsen, Janne Crawford, Vibeke Poulsen, Birgitte D. Sørensen, Jesper Matthiesen, Ronald C. Hendrickson, Frank Gleeson, Tony Pawson, Michael F. Moran, Daniel Durocher, Matthias Mann, Christopher W. Hogue, Daniel Figeys, Mike Tyers posted to cerevisiae mass protein saccharomyces spectrometry by okarsligil on 2005-11-09 01:24:48 as along with 13 people and 3 groups lpfernandes SarahW lawraga semin bicko shivaram lfriedl chad_davis lyongu gcalda raiyar helenamistry iris_2001 kdl Bioinformatics steinmetzlab
	Critical evaluation of search algorithms for automated molecular docking and database screening [My Copy] Journal of Computational Chemistry, Vol. 18, No. 9. (7 December 1998), pp. 1175-1189. by Todd J. A. Ewing, Irwin D. Kuntz posted to algorithm protein search structure by okarsligil on 2005-11-08 21:04:16 as along with 2 people and 1 group P2324548 ima Bioinformatics
	ICM - A new method for protein modeling and design: Applications to docking and structure prediction from the distorted native conformation [My Copy] Journal of Computational Chemistry, Vol. 15, No. 5. (7 September 2004), pp. 488-506. by Ruben Abagyan, Maxim Totrov, Dmitry Kuznetsov posted to prediction protein structure by okarsligil on 2005-11-08 21:02:46 as along with 2 people and 1 group P2324548 ssomani Bioinformatics
	Gene networks from DNA microarray data: centrality and lethality [My Copy] (29 Jul 2002) by P. Provero posted to dna gene network protein by okarsligil on 2005-11-07 01:54:32 as along with 1 person and 1 group mmt Bioinformatics
	Functionality Encoded In Topology? Discovering Macroscopic Regulatory Modules from Large-Scale Protein-DNA Interaction Networks [My Copy] (1 Mar 2005) by Riccardo Boscolo, Behnam A. Rezaei, Oscar P. Boykin, Vwani P. Roychowdhury posted to dna network protein by okarsligil on 2005-11-06 04:53:57 as along with 1 group Bioinformatics

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protein	44
network	32
motif	14
prediction	13
gene	12
genome	11
interaction	11
peptide	11
structure	8
antimicrobial	7
clustering	7
expression	7
algorithm	6
bayesian	6
biology	6
regulation	6
yeast	6
dna	5
similarity	5
cerevisiae	4
folding	4
graph	4
metabolic	4
mpc	4
pathway	4
pattern	4
saccharomyces	4
systems	4
database	3
estimation	3
evolution	3
human	3
sequence	3
statistics	3
bacteria	2
conserved	2
denoising	2
discovery	2
fisher	2
function	2
genetics	2
integration	2
map	2
model	2
multiscale	2
nmr	2
parameter	2
promoter	2
svm	2
trading	2
transcription	2
tutorial	2
activity	1
antibiotics	1
boolean	1
chemical	1
comparative	1
complex	1
complexity	1
connectivity	1
constrained	1
copies	1
data	1
design	1
dynamic	1
environment	1
enzyme	1
eukaryote	1
explicit	1
flux	1
fractal	1
gaussian	1
genotype	1
greedy	1
h-inifinity	1
homology	1
inference	1
information	1
information-theory	1
interactome	1
irreducibility	1
language	1
likelihood	1
limitations	1
markov	1
mass	1
maximum	1
membrane	1
metabolism	1
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min-max	1
mode	1
modeling	1
ms	1
nanoscale	1
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noise	1
nonlinear	1
nutrient	1
orthagonal	1
perturbed	1
phenome	1
phenotype	1
politics	1
potential	1
predictability	1
predictive	1
proteomics	1
random	1
rd	1
recognition	1
regulatory	1
review	1
robustness	1
salmonella	1
search	1
sequential	1
series	1
signal	1
signaling	1
signatures	1
spectra	1
spectrometry	1
stability	1
stochastic	1
strategy	1
structural	1
systems-biology	1
teiresias	1
time	1
timeseries	1
two-hybrid	1
vertex	1

okarsligil's protein [44 articles] Export

okarsligil's tags