Tag ppi [more than 800 articles] Export

Recent papers classified by the tag ppi.

	The human protein coevolution network. [My Copy] Genome research, Vol. 19, No. 10. (20 October 2009), pp. 1861-1871. by Elisabeth R. Tillier, Robert L. Charlebois posted to sequence_weighting ppi coevolution by dfdong on 2009-11-06 08:33:01 as along with 7 people Garamonfok venancio jperkins TRHvidsten djkt phoenixzxl tmmurali
	A survey of available tools and web servers for analysis of protein-protein interactions and interfaces [My Copy] Brief Bioinform, Vol. 10, No. 3. (1 May 2009), pp. 217-232. by Nurcan Tuncbag, Gozde Kar, Ozlem Keskin, Attila Gursoy, Ruth Nussinov posted to review predict ppi complex analysis by dfdong on 2009-11-04 03:28:16 as along with 12 people and 3 groups jinghu_fandm daforerog qluo SaraNasser mikaellund reyez diamantis apaydin barry semin renatomilani svozil structural_bioinformatics McCammon Bioinformatics
	In silico two-hybrid system for the selection of physically interacting protein pairs [My Copy] Proteins: Structure, Function, and Genetics, Vol. 47, No. 2. (2002), pp. 219-227. by Florencio Pazos, Alfonso Valencia posted to predict ppi coevolution by dfdong on 2009-11-04 03:24:54 as along with 3 people qluo Robinder tale
	The impact of incomplete knowledge on evaluation: an experimental benchmark for protein function prediction [My Copy] Bioinformatics, Vol. 25, No. 18. (15 September 2009), pp. 2404-2410. by Curtis Huttenhower, Matthew A. Hibbs, Chad L. Myers, Amy A. Caudy, David C. Hess, Olga G. Troyanskaya posted to protein ppi pfp humor after_eights 26 by wilbur on 2009-11-03 21:57:16 as along with 3 people tmmurali TRHvidsten phoenixzxl
	An assessment of the uses of homologous interactions [My Copy] Bioinformatics, Vol. 24, No. 5. (1 March 2008), pp. 689-695. by Ramazan Saeed, Charlotte Deane posted to ppi homologue by snow_dragon on 2009-11-03 21:06:03 as along with 11 people carlk lawraga winterschlaefer chad_davis grahamc cjeans laughcry mingzhi cdeane Pao-Yang samesense
	A novel and efficient tool for locating and characterizing protein cavities and binding sites [My Copy] Proteins: Structure, Function, and Bioinformatics, Vol. 9999, No. 9999. (11 September 2009), NA. by Ashutosh Tripathi, Glen E. Kellogg posted to shape ppi pocket interface 2009 by higueruelo on 2009-11-03 16:48:01 as along with 2 people nickolay ahmetbakan
	Identification of Lead Compounds As Antagonists of Protein Bcl-x(L) with a Diversity-Oriented Multidisciplinary Approach. [My Copy] Journal of medicinal chemistry (23 October 2009) by Simone Di Micco, Romina Vitale, Maurizio Pellecchia, et al.Michele F. Rega, Renata Riva, Andrea Basso, Giuseppe Bifulco posted to xf sm ppi dos bclxl 2009 by higueruelo on 2009-11-03 16:43:30 as
	Prediction of hot spot residues at protein-protein interfaces by combining machine learning and energy-based methods [My Copy] BMC Bioinformatics, Vol. 10, No. 1. (30 October 2009), 365. by Stefano Lise, Cedric Archambeau, Massimiliano Pontil, David Jones posted to ppi interface hotspots 2009 by higueruelo on 2009-11-03 16:40:16 as along with 5 people apaydin kshameer zwang phoenixzxl neils
	N-Acylpolyamine inhibitors of HDM2 and HDMX binding to p53. [My Copy] Bioorganic & medicinal chemistry (21 October 2009) by Ryo Hayashi, Deyun Wang, Toshiaki Hara, Jaclyn A. Iera, Stewart R. Durell, Daniel H. Appella posted to xf sm ppi p53 2009 by higueruelo on 2009-11-03 16:38:41 as
	Protein-protein interaction networks: how can a hub protein bind so many different partners? [My Copy] Trends in biochemical sciences (16 October 2009) by Chung-Jung J. Tsai, Buyong Ma, Ruth Nussinov posted to ppi hubs 2009 by higueruelo on 2009-11-03 16:29:59 as along with 1 person lymxz
	Structure of Protein Interaction Networks and Their Implications on Drug Design [My Copy] PLoS Comput Biol, Vol. 5, No. 10. (30 October 2009), e1000550. by Takeshi Hase, Hiroshi Tanaka, Yasuhiro Suzuki, So Nakagawa, Hiroaki Kitano posted to protein_protein_interactions protein_networks ppi interaction_networks by CorinYeats on 2009-10-30 18:45:18 as along with 9 people and 1 group kiekyon nickolay kshameer zwang phoenixzxl venancio ess30 poirel jbesnard Orengo Group Journal Picks
	Unraveling Protein Networks with Power Graph Analysis [My Copy] PLoS Comput Biol, Vol. 4, No. 7. (11 July 2008), e1000108. by Loïc Royer, Matthias Reimann, Bill Andreopoulos, Michael Schroeder posted to visualisation readlater ppi networks graphs by colmryan on 2009-10-29 13:29:49 as along with 24 people and 2 groups carlk saket diamantis yyby jfr jiny aramesh2 AbnerCYH jmuhlich MatthiasReimann royerloic Ema lptolik kengg roys reyez tmmurali nuin Borelli askrajiv renatomilani stajich sebk rsantana Mycology OPIG
	Acid-suppressive drugs and community-acquired pneumonia. [My Copy] Epidemiology (Cambridge, Mass.), Vol. 20, No. 6. (November 2009), pp. 800-806. by Luis Alberto García A. Rodríguez, Ana Ruigómez, Mari-Ann A. Wallander, Saga Johansson posted to ppi pneumonia by guhjy on 2009-10-29 04:17:14 as
	Association of proton pump inhibitor therapy with spontaneous bacterial peritonitis in cirrhotic patients with ascites. [My Copy] The American journal of gastroenterology, Vol. 104, No. 5. (May 2009), pp. 1130-1134. by Jasmohan S. Bajaj, Yelena Zadvornova, Douglas M. Heuman, et al.Muhammad Hafeezullah, Raymond G. Hoffmann, Arun J. Sanyal, Kia Saeian posted to sbp ppi lc by guhjy on 2009-10-29 02:37:29 as
	Evidence for dynamically organized modularity in the yeast protein-protein interaction network. [My Copy] Nature, Vol. 430, No. 6995. (1 July 2004), pp. 88-93. by Jing-Dong J. Han, Nicolas Bertin, Tong Hao, et al.Debra S. Goldberg, Gabriel F. Berriz, Lan V. Zhang, Denis Dupuy, Albertha J. M. Walhout, Michael E. Cusick, Frederick P. Roth, Marc Vidal posted to ppi networks hubs by colmryan on 2009-10-27 14:53:00 as along with 29 people and 2 groups mgomes saket lawraga diamantis davidecellai dragonrez lfriedl balajis yoh j3xucite kintoki koller mikaelhuss ruvido gcalda grahamc iris_2001 lpfernandes winterschlaefer Evangelia cdeane shung phoenixzxl stefanoallesina ellakat frohike shikin ksiek carlk kdl GeneGo
	Evolution of biomolecular networks \|[mdash]\| lessons from metabolic and protein interactions [My Copy] Nat Rev Mol Cell Biol, Vol. 10, No. 11. (01 November 2009), pp. 791-803. by Takuji Yamada, Peer Bork posted to ppi networks evolution by colmryan on 2009-10-27 14:04:34 as along with 6 people venancio biomcgary pinney nzm pedrobeltrao tmmurali
	Pathway redundancy and protein essentiality revealed in the Saccharomyces cerevisiae interaction networks [My Copy] Molecular Systems Biology, Vol. 3 (17 April 2007) by Igor Ulitsky, Ron Shamir posted to topology ppi networks integration genetic-interactions by colmryan on 2009-10-23 12:42:04 as along with 6 people dakelley chasmand benjaminsb nicoleq zwang carlk
	Systematic interpretation of genetic interactions using protein networks [My Copy] Nat Biotech, Vol. 23, No. 5. (05 May 2005), pp. 561-566. by Ryan Kelley, Trey Ideker posted to sga ppi networks integration genetic-interactions by colmryan on 2009-10-22 12:32:16 as along with 21 people and 2 groups nzm dakelley chasmand ajbattle mtaschuk benjaminsb lptolik nedwards okarsligil tuck balajis wnpx nirfriedman nickluscombe mmt koller massivemayhem patrycjam patrycja_missiuro mingzhi carlk Bioinformatics EBI-regulation
	The structural analysis of protein-protein interactions by NMR spectroscopy [My Copy] PROTEOMICS, Vol. 9999, No. 999A. (2009), NA. by Mitchell R. O' Connell, Roland Gamsjaeger, Joel P. Mackay posted to ppi nmr by hryk on 2009-10-20 03:21:49 as
	Atomic interactions and profile of small molecules disrupting protein-protein interfaces: the TIMBAL database. [My Copy] Chemical biology & drug design, Vol. 74, No. 5. (November 2009), pp. 457-467. by Alícia P. Higueruelo, Adrian Schreyer, G. Richard Bickerton, Will R. Pitt, Colin R. Groom, Tom L. Blundell posted to sm review ppi intimbal 2009 by higueruelo on 2009-10-14 14:35:53 as
	Spatially Uniform ReliefF (SURF) for computationally-efficient filtering of gene-gene interactions [My Copy] BioData Mining, Vol. 2, No. 1. (2009), 5. by Casey Greene, Nadia Penrod, Jeff Kiralis, Jason Moore posted to textmining ppi literaturemining gene-gene by liblab on 2009-10-14 08:34:46 as
	Comparison of Centralities for Biological Networks [My Copy] (2004) by Dirk Koschützki, Falk Schreiber posted to ppi centrality centibin by npozo on 2009-10-13 21:15:20 as
	Predicting protein-protein binding sites in membrane proteins. [My Copy] BMC bioinformatics, Vol. 10, No. 1. (2009), 312. by Andrew J. Bordner posted to prediction ppi by hryk on 2009-10-13 03:19:44 as along with 4 people and 1 group sillitoe niallhaslam reyez neils Orengo Group Journal Picks
	The evolutionary dynamics of the Saccharomyces cerevisiae protein interaction network after duplication [My Copy] Proceedings of the National Academy of Sciences, Vol. 105, No. 3. (22 January 2008), pp. 950-954. by Aviva Presser, Michael B. Elowitz, Manolis Kellis, Roy Kishony posted to timemachine ppi networks evolution by carlk on 2009-10-07 19:12:01 as along with 10 people ellarond saket leemond31 robfsouza loukialili pradiptaray cjeans zwang roys phoenixzxl
	Disease candidate gene identification and prioritization using protein interaction networks [My Copy] BMC Bioinformatics, Vol. 10, No. 1. (2009), 73. by Jing Chen, Bruce Aronow, Anil Jegga posted to ppi networks network diseaseppi disease by carlk on 2009-10-07 19:11:45 as along with 12 people and 1 group zufar guhjy jfr daforerog saket provero mitko neils barriot grahamc renatomilani rjazwiec Bioinformatics
	ProCope - Protein Complex Prediction and Evaluation [My Copy] Bioinformatics (17 July 2008), btn376. by Jan Krumsiek, Caroline C. Friedel, Ralf Zimmer posted to ppi networks interaction complexes complex clustering by carlk on 2009-10-07 19:11:24 as along with 4 people saket zwang guhjy chad_davis
	Gene prioritization through genomic data fusion [My Copy] Nat Biotech, Vol. 24, No. 5. (05 May 2006), pp. 537-544. by Stein Aerts, Diether Lambrechts, Sunit Maity, et al.Peter Van Loo, Bert Coessens, Frederik De Smet, Leon-Charles Tranchevent, Bart De Moor, Peter Marynen, Bassem Hassan, Peter Carmeliet, Yves Moreau posted to ppi network integration diseases diseaseppi disease by carlk on 2009-10-07 19:10:42 as along with 11 people and 2 groups jandot daforerog saket jiny jfr balajis dchughes frohike winterschlaefer barriot srp33 G4ID Genetics-of-Gambling
	Reconstruction of ancestral protein interaction networks for the bZIP transcription factors. [My Copy] Proceedings of the National Academy of Sciences of the United States of America, Vol. 104, No. 51. (18 December 2007), pp. 20449-20453. by John W. Pinney, Grigoris D. Amoutzias, Magnus Rattray, David L. Robertson posted to timemachine protein_protein_interactions protein ppi evolution by carlk on 2009-10-07 19:09:49 as along with 7 people biomcgary saket tmmurali grahamc cjeans Pao-Yang hplatero
	Identifying functional modules in protein-protein interaction networks: an integrated exact approach [My Copy] Bioinformatics, Vol. 24, No. 13. (1 July 2008), pp. i223-231. by Marcus T. Dittrich, Gunnar W. Klau, Andreas Rosenwald, Thomas Dandekar, Tobias Muller posted to ppi networks by carlk on 2009-10-07 19:09:18 as along with 8 people babakap diamantis jfr guhjy marck renatomilani tmmurali dragonrez
	A complex-centric view of protein network evolution. [My Copy] Nucleic acids research, Vol. 37, No. 12. (1 July 2009), e88. by Nir Yosef, Martin Kupiec, Eytan Ruppin, Roded Sharan posted to protein ppi networks complexes complex by carlk on 2009-10-07 19:08:57 as along with 11 people and 1 group chica saket dakelley tomhebbron davidalee leemond31 druvus kiekyon neils tmmurali grahamc Orengo Group Journal Picks
	Gaining confidence in high-throughput protein interaction networks. [My Copy] Nature biotechnology, Vol. 22, No. 1. (January 2004), pp. 78-85. by Joel S. Bader, Amitabha Chaudhuri, Jonathan M. Rothberg, John Chant posted to scores protein ppi networks by carlk on 2009-10-07 19:07:14 as along with 16 people and 1 group chica anf dakelley lawraga wenhui ocs dragonrez lfriedl gurkanbebek raiyar cjeans iris_2001 patrycjam patrycja_missiuro Evangelia ellakat kdl
	Exploiting the proteome to improve the genome-wide genetic analysis of epistasis in common human diseases [My Copy] Human Genetics, Vol. 124, No. 1. (1 August 2008), pp. 19-29. by Kristine Pattin, Jason Moore posted to ppi multiloci gwas by daed on 2009-10-06 12:30:00 as along with 4 people daforerog psique wilbur guhjy
	A dynamic target-based pharmacophoric model mapping the CD4 binding site on HIV-1 gp120 to identify new inhibitors of gp120-CD4 protein-protein interactions. [My Copy] Bioorganic & medicinal chemistry letters (13 September 2009) by Fabiana Caporuscio, Andrea Tafi, Emmanuel González, Fabrizio Manetti, José A. Esté, Maurizio Botta posted to xf sm ppi hiv1 cd4 2009 by higueruelo on 2009-10-02 12:38:08 as
	The interwinding nature of protein-protein interfaces and its implication for protein complex formation. [My Copy] Bioinformatics (Oxford, England) (29 September 2009), btp563. by Kei Yura, Steven Hayward posted to ppi interface disorder 2009 by higueruelo on 2009-10-02 12:33:32 as along with 3 people dfdong tprpip phoenixzxl
	The Database of Interacting Proteins: 2004 update [My Copy] Nucl. Acids Res., Vol. 32, No. suppl_1. (1 January 2004), pp. D449-451. by Lukasz Salwinski, Christopher S. Miller, Adam J. Smith, Frank K. Pettit, James U. Bowie, David Eisenberg posted to ppi dataset by npozo on 2009-10-01 00:23:29 as along with 4 people jperkins minostro chad_davis bicko
	Identification and Characterization of a Small Molecule Inhibitor of Fatty Acid Binding Proteins. [My Copy] Journal of medicinal chemistry (16 September 2009) by Ann V. Hertzel, Kristina Hellberg, Joseph M. Reynolds, et al.Andrew C. Kruse, Brittany E. Juhlmann, Anne J. Smith, Mark A. Sanders, Douglas H. Ohlendorf, Jill Suttles, David A. Bernlohr posted to xf sm ppi fattyacids 2009 by higueruelo on 2009-09-26 12:08:43 as
	Finding local communities in protein networks. [My Copy] BMC bioinformatics, Vol. 10, No. 1. (18 September 2009), 297. by Konstantin Voevodski, Shang-Hua H. Teng, Yu Xia posted to protein ppi networks local finding communities by dswan on 2009-09-24 09:30:25 as along with 3 people and 1 group sillitoe grahamc barriot Orengo Group Journal Picks
	HIF Prolyl-4-hydroxylase Interacting Proteins: Consequences for Drug Targeting. [My Copy] Current pharmaceutical design (1 October 2009) by Roland H. Wenger, Gieri Camenisch, Daniel P. Stiehl, Dörthe M. Katschinski posted to ppi phd by guhjy on 2009-09-24 06:06:57 as
	Protein-peptide interactions adopt the same structural motifs as monomeric protein folds. [My Copy] Structure (London, England : 1993), Vol. 17, No. 8. (12 August 2009), pp. 1128-1136. by Peter Vanhee, Francois Stricher, Lies Baeten, et al.Erik Verschueren, Tom Lenaerts, Luis Serrano, Frederic Rousseau, Joost Schymkowitz posted to scissors ppi peptides folding 2009 by higueruelo on 2009-09-22 19:18:03 as
	Gene networks in Drosophila melanogaster: integrating experimental data to predict gene function [My Copy] Genome Biology, Vol. 10, No. 9. (2009), R97. by James Costello, Mehmet Dalkilic, Scott Beason, et al.Jeff Gehlhausen, Rupali Patwardhan, Sumit Middha, Brian Eads, Justen Andrews posted to protein_protein_interaction ppi picknextmeeting gene_network function_prediction expression drosophila_melanogaster by bdessailly on 2009-09-22 10:20:43 as along with 8 people and 1 group meanerelk abc623 Borelli carlk sotacam kiekyon druvus daveGerrard BergmanLab
	Interaction between Intrinsically Disordered Proteins Frequently Occurs in a Human Protein–Protein Interaction Network [My Copy] Journal of Molecular Biology, Vol. 392, No. 5. (09 October 2009), pp. 1253-1265. by Kana Shimizu, Hiroyuki Toh posted to structure protein ppi picknextmeeting interaction go disorder by bdessailly on 2009-09-21 14:17:02 as along with 8 people jjray nzm ekotelnikova kiekyon tprpip higueruelo cabbagesofdoom reyez
	Assessing the druggability of protein-protein interactions by a supervised machine-learning method [My Copy] BMC Bioinformatics, Vol. 10, No. 1. (25 August 2009), 263. by Nobuyoshi Sugaya, Kazuyoshi Ikeda posted to ppi druggability by iris_2001 on 2009-09-17 08:25:52 as along with 2 people higueruelo phoenixzxl
	The interplay between transcription factors and microRNAs in genome-scale regulatory networks [My Copy] BioEssays, Vol. 31, No. 4. (April 2009), pp. 435-445. by Natalia J. Martinez, Albertha J. M. Walhout posted to tf review ppi network microrna by tonamswish to the group microRNA on 2009-09-14 22:45:21 as along with 4 people heliopais inesdesantiago guhjy ealloza
	Computational prediction of protein-protein interactions. [My Copy] Molecular biotechnology, Vol. 38, No. 1. (20 January 2008), pp. 1-17. by Lucy Skrabanek, Harpreet K. Saini, Gary D. Bader, Anton J. Enright posted to review ppi by iris_2001 on 2009-09-14 07:59:35 as along with 7 people jperkins kgutwin kiekyon jwhitney ruvido guhjy penpen926
	A Probabilistic Functional Network of Yeast Genes [My Copy] Science, Vol. 306, No. 5701. (26 November 2004), pp. 1555-1558. by Insuk Lee, Shailesh V. Date, Alex T. Adai, Edward M. Marcotte posted to yeast roberto protein-protein probmod predictions predict_function ppi pathway_prediction nw_modularity networks network methods memo interactome interactions integrative gene-gene gene-expression functional-genome function computational clustering class biology bioinformatics bio-stat bio applied-math animal-model by isotelesis on 2009-09-12 00:46:26 as along with 19 people and 3 groups freesci eesruiz aelef jiny irenas lfriedl ccots balajis nuke2005 eweaver opheliav nickluscombe reidy dbgrant kintoki balicea svdate ellakat roys dbk-lab kdl EBI-regulation
	Pushing Structural Information into the Yeast Interactome by High-Throughput Protein Docking Experiments [My Copy] PLoS Comput Biol, Vol. 5, No. 8. (28 August 2009), e1000490. by Roberto Mosca, Carles Pons, Juan Fernández-Recio, Patrick Aloy posted to 11-sep-09 yeast protein ppi interactome interaction docking 3d-repertoire by bdessailly to the group Orengo Group Journal Picks on 2009-09-11 11:45:41 as along with 4 people klexa zwang phoenixzxl TRHvidsten
	A realistic assessment of methods for extracting gene/protein interactions from free text. [My Copy] BMC bioinformatics, Vol. 10, No. 1. (28 July 2009), 233. by Renata Kabiljo, Andrew B. Clegg, Adrian J. Shepherd posted to protein-protein-interactions ppi gpi by DTD102 on 2009-09-09 10:49:31 as along with 11 people and 4 groups henk-cul martingerner satre farzanehs grahamc mitko sjcockell sillitoe andrewclegg cisevol barriot dbmi-nlp Journal picks Orengo Group Journal Picks BergmanLab
	Present and future challenges and limitations in protein-protein docking. [My Copy] Proteins (5 August 2009) by Carles Pons, Solène Grosdidier, Albert Solernou, Laura Pérez-Cano, Juan Fernández-Recio posted to ppi ppdocking 2009 by higueruelo on 2009-09-08 14:17:22 as
	Structural domain-domain interactions: Assessment and comparison with protein-protein interaction data to improve the interactome. [My Copy] Proteins, Vol. 9999, No. 9999. (5 August 2009), NA. by C. Prieto, J. De Las Rivas posted to ppi piccolo 2009 by higueruelo on 2009-09-08 14:16:32 as along with 2 people phoenixzxl zwang
	Knowledge-Based Virtual Screening: Application to the MDM4/p53 Protein-Protein Interaction. [My Copy] Methods in molecular biology (Clifton, N.J.), Vol. 575 (2009), pp. 173-194. by Edgar Jacoby, Andreas Boettcher, Lorenz M. Mayr, et al.Nathan Brown, Jeremy L. Jenkins, Joerg Kallen, Caroline Engeloch, Ulrich Schopfer, Pascal Furet, Keiichi Masuya, Joanna Lisztwan posted to xf vs sm ppi p53 mdm4 2009 by higueruelo on 2009-09-08 14:07:53 as

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sm	221
xf	220
review	163
network	147
2008	102
bio	101
interface	100
2007	97
2009	83
networks	65
structure	65
protein	60
prediction	55
evolution	51
yeast	47
db	43
proj_assembly	42
2006	41
chapter	41
peptidomimetics	40
2005	38
intimbal	38
complex	36
interaction	36
complexes	33
bionlp	32
algorithm	30
textmining	30
database	29
docking	29
proj_interprets	28
binding	25
2004	24
p53	24
function	23
graph_based_analysis	22
hotspots	22
mdm2	21
method	21
bcl2	20
annotation	18
peptides	18
topology	18
bioinformatics	17
human	17
software	17
ctmc7	16
flexibility	16
interactome	16
pin	16
struct-determination	16
disorder	15
2002	14
clustering	14
domain	14
embl	14
graph	14
nmr	14
reliability	14
systems_biology	14
y2h	14
hiv1	13
sequence	13
2003	12
hubs	12
modelling	12
ms	12
smac	12
data_integration	11
htp	11
tpo	11
xiap	11
allosteric	10
bclxl	10
cancer	10
high_throughput_dataset	10
motif	10
svm	10
usesmipsset	10
classic	9
data	9
disease	9
integration	9
model	9
ner	9
pathway	9
pocket	9
ppi_verification	9
proteomics	9
statistics	9
thermo	9
candidate-gene	8
coevolution	8
computational	8
download	8
ecoli	8
max	8
myc	8
ppdocking	8
service	8

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