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cjeans's network [87 articles]

Recent papers added to cjeans's library classified by the tag network. You can also see everyone's network.
  • Maps of random walks on complex networks reveal community structure
    Proceedings of the National Academy of Sciences (23 January 2008), 0706851105.
    by Martin Rosvall, Carl T Bergstrom
    posted to algorithm applied-math network by cjeans on 2008-01-24 08:30:49 as ** along with 8 people lfriedl stringertheory cactus hannu roys maralena Diego_Prada lmichan
  • Preferential protection of protein interaction network hubs in yeast: Evolved functionality of genetic redundancy
    Proceedings of the National Academy of Sciences (23 January 2008), 0711043105.
    by Ran Kafri, Orna Dahan, Jonathan Levy, Yitzhak Pilpel
    posted to evolution network pin by cjeans on 2008-01-24 08:26:19 as ** along with 4 people and 1 group zwang janek04 wsjames mclarenv Oxford Virology
  • Critical nodes in signalling pathways: insights into insulin action
    Nat Rev Mol Cell Biol, Vol. 7, No. 2. (February 2006), pp. 85-96.
    by Cullen M Taniguchi, Brice Emanuelli, Ronald C Kahn
    posted to network signaling by cjeans on 2008-01-23 08:06:12 as ** along with 3 people and 2 groups tmmurali okarsligil julius Bioinformatics SysbioMPI-TCells
  • Micromechanical properties of keratin intermediate filament networks
    Proceedings of the National Academy of Sciences (16 January 2008), 0710728105.
    by Sivaraj Sivaramakrishnan, James V Degiulio, Laszlo Lorand, Robert D Goldman, Karen M Ridge
    posted to experiment network ppi by cjeans on 2008-01-17 09:48:40 as **
  • The evolutionary dynamics of the Saccharomyces cerevisiae protein interaction network after duplication
    Proceedings of the National Academy of Sciences (16 January 2008), 0707293105.
    by Aviva Presser, Michael B Elowitz, Manolis Kellis, Roy Kishony
    posted to duplication evolution module network pin ppi by cjeans on 2008-01-17 08:39:26 as ** along with 3 people zwang roys phoenixzxl
  • Functional evolution of the p53 regulatory network through its target response elements
    Proceedings of the National Academy of Sciences (10 January 2008), 0704694105.
    by Anil G Jegga, Alberto Inga, Daniel Menendez, Bruce J Aronow, Michael A Resnick
    posted to evolution network transcription by cjeans on 2008-01-14 05:28:50 as ** along with 6 people and 1 group brant zwang cisevol idonaldson renatomilani jyuh cis-regulatory-evolution
  • Where Have All the Interactions Gone? Estimating the Coverage of Two-Hybrid Protein Interaction Maps
    PLoS Computational Biology, Vol. 3, No. 11. (1 November 2007), e214.
    by Hailiang Huang, Bruno M Jedynak, Joel S Bader
    posted to network pin ppi by cjeans on 2008-01-11 06:05:30 as ** along with 4 people jyuh chad_davis zwang Ema
  • Protein-protein interaction networks and biology—what's the connection?
    Nature Biotechnology, Vol. 26, No. 1., pp. 69-72.
    by Luke Hakes, John W Pinney, David L Robertson, Simon C Lovell
    posted to network ppi by cjeans on 2008-01-09 13:26:39 as ** along with 15 people and 1 group Yanno jyuh tmmurali jfr balicea dullhunk neils mikaelhuss nedwards biehl shikin mclarenv Yumyai paolomarcatili zdai GeneGo
  • Detection of topological patterns in complex networks: correlation profile of the internet
    Physica A: Statistical and Theoretical Physics, Vol. 333 (15 February 2004), pp. 529-540.
    by Sergei Maslov, Kim Sneppen, Alexei Zaliznyak
    posted to algorithm network by cjeans on 2008-01-04 09:12:09 as ** along with 2 people gcalda phoenixzxl
  • Gene essentiality and the topology of protein interaction networks
    posted to network phenotype pin ppi by cjeans on 2007-12-30 02:58:55 as **
  • Consistent dissection of the protein interaction network by combining global and local metrics
    Genome Biology, Vol. 8 (21 December 2007), R271.
    by Chunlin Wang, Chris Ding, Qiaofeng Yang, Stephen R Holbrook
    posted to module network by cjeans on 2007-12-27 08:43:29 as ** along with 3 people grahamc barriot carlk
  • Integration of Horizontally Transferred Genes into Regulatory Interaction Networks Takes Many Million Years
    Mol Biol Evol (24 December 2007), msm283.
    by Martin J Lercher, Csaba Pal
    posted to evolution network by cjeans on 2007-12-25 12:03:06 as ** along with 4 people and 1 group dquest marcio cambray cisevol cis-regulatory-evolution
  • Operating Regimes of Signaling Cycles: Statics, Dynamics, and Noise Filtering
    PLoS Computational Biology, Vol. 3, No. 12. (1 December 2007), e246.
    by Carlos Gomez-Uribe, George C Verghese, Leonid A Mirny
    posted to modelling network by cjeans on 2007-12-24 10:50:39 as **
  • Survivin, cancer networks and pathway-directed drug discovery
    Nature Reviews Cancer, Vol. 8, No. 1., pp. 61-70.
    by Dario C Altieri
    posted to cancer network by cjeans on 2007-12-24 10:28:29 as ** along with 4 people jyuh balicea jdiezperezj renatomilani
  • PLoS ONE: Linking Gene Expression and Functional Network Data in Human Heart Failure
    posted to expression network by cjeans on 2007-12-24 10:20:03 as **
  • Combinatorics of feedback in cellular uptake and metabolism of small molecules
    Proceedings of the National Academy of Sciences (19 December 2007), 0706231105.
    by Sandeep Krishna, Szabolcs Semsey, Kim Sneppen
    posted to metabolic network by cjeans on 2007-12-22 00:56:06 as ** along with 2 people coolger tmmurali
  • The stability and robustness of metabolic states: identifying stabilizing sites in metabolic networks
    Mol Syst Biol, Vol. 3 (13 November 2007)
    by Sergio Grimbs, Joachim Selbig, Sascha Bulik, Hermann-Georg Holzhutter, Ralf Steuer
    posted to metabolic network system-biology by cjeans on 2007-12-21 03:12:14 as ** along with 3 people and 1 group JeremyZucker zwang Ema MetabolicModeling
  • Network-based classification of breast cancer metastasis
    Mol Syst Biol, Vol. 3 (16 October 2007)
    by Han-Yu Chuang, Eunjung Lee, Yu-Tsueng Liu, Doheon Lee, Trey Ideker
    posted to cancer disease integrative network system-biology by cjeans on 2007-12-20 06:40:37 as ** along with 18 people and 2 groups winterschlaefer isimpson ihpark bertelsen jfr kengg frohike mikaelhuss zwang cerami abhattac shikin oelemento roys ptrobajo dap5087 saman_vp verdicchio Bioinformatics GeneGo
  • Ligand-dependent responses of the ErbB signaling network: experimental and modeling analyses
    Mol Syst Biol, Vol. 3 (13 November 2007)
    by Marc R Birtwistle, Mariko Hatakeyama, Noriko Yumoto, Babatunde A Ogunnaike, Jan B Hoek, Boris N Kholodenko
    posted to network system-biology by cjeans on 2007-12-20 00:55:54 as ** along with 1 person Ema
  • A map of human cancer signaling
    Mol Syst Biol, Vol. 3 (18 December 2007)
    by Qinghua Cui, Yun Ma, Maria Jaramillo, Hamza Bari, Arif Awan, Song Yang, Simo Zhang, Lixue Liu, Meng Lu, Maureen O'Connor-Mccourt, Enrico O Purisima, Edwin Wang
    posted to cancer disease integrative network system-biology by cjeans on 2007-12-20 00:43:28 as ** along with 8 people shikin jfr tmmurali ealloza Ema renatomilani srp33 frohike
  • Deriving structure from evolution: metazoan segmentation
    Mol Syst Biol, Vol. 3 (18 December 2007)
    by Paul Francois, Vincent Hakim, Eric D Siggia
    posted to evolution network system-biology by cjeans on 2007-12-20 00:41:22 as ** along with 3 people grahamc biomcgary Ema
  • Modeling the regulatory network of histone acetylation in Saccharomyces cerevisiae
    Mol Syst Biol, Vol. 3 (18 December 2007)
    by Hung Pham, Roberto Ferrari, Shawn J Cokus, Siavash K Kurdistani, Matteo Pellegrini
    posted to network system-biology by cjeans on 2007-12-20 00:37:01 as ** along with 3 people epigenetics Ema maralena
  • Red sky in the morning, shepherd's warning
    Nature Genetics, Vol. 39, No. 11., pp. 1309-1310.
    by Vinod Kumar, Philip A Wigge
    posted to network pathway plant sample-phenomenon by cjeans on 2007-12-18 13:43:22 as **
  • Metabolic modeling of a mutualistic microbial community.
    Mol Syst Biol, Vol. 3 (2007)
    by S Stolyar, S Van Dien, KL Hillesland, N Pinel, TJ Lie, JA Leigh, DA Stahl
    posted to integrative metabolic network system-biology by cjeans on 2007-12-18 11:41:49 as ** along with 4 people and 2 groups JeremyZucker aswin OriginalLurch athleem MetabolicModeling clab
  • New surveyor tools for charting microbial metabolic maps : Article : Nature Reviews Microbiology
    posted to integrative metabolic network by cjeans on 2007-12-18 08:29:26 as ** along with 1 person kdang
  • A modular network model of aging
    Mol Syst Biol, Vol. 3 (4 December 2007)
    by Huiling Xue, Bo Xian, Dong Dong, Kai Xia, Shanshan Zhu, Zhongnan Zhang, Lei Hou, Qingpeng Zhang, Yi Zhang, Jing-Dong J Han
    posted to integrative network by cjeans on 2007-12-18 05:57:42 as ** along with 9 people and 1 group tharris tmmurali muraken grahamc zwang biehl mingzhi renatomilani dap5087 C. elegans / WormBase
  • Molecular Cell -- Barkai and Shilo
    posted to design network by cjeans on 2007-12-14 00:45:02 as **
  • Positive selection at the protein network periphery: Evaluation in terms of structural constraints and cellular context
    Proceedings of the National Academy of Sciences (12 December 2007), 0710183104.
    by Philip M Kim, Jan O Korbel, Mark B Gerstein
    posted to evolution network by cjeans on 2007-12-14 00:28:33 as ** along with 6 people jyuh tmmurali grahamc mingzhi minostro wilbur
  • Reconstruction of ancestral protein interaction networks for the bZIP transcription factors
    Proceedings of the National Academy of Sciences (12 December 2007), 0706339104.
    by John W Pinney, Grigoris D Amoutzias, Magnus Rattray, David L Robertson
    posted to bzip coiled-coil network pin tfbs by cjeans on 2007-12-13 08:12:52 as ** along with 4 people tmmurali grahamc Pao-Yang hplatero
  • A network of transcriptionally coordinated functional modules in Saccharomyces cerevisiae
    Genome Res., Vol. 15, No. 9. (1 September 2005), pp. 1298-1306.
    by Allegra A Petti, George M Church
    posted to module network transcription by cjeans on 2007-12-13 00:53:44 as **
  • Combining Efficient Conformational Sampling with a Deformable Elastic Network Model Facilitates Structure Refinement at Low Resolution
    Structure, Vol. 15, No. 12. (13 December 2007), pp. 1630-1641.
    by Gunnar F Schroder, Axel T Brunger, Michael Levitt
    posted to network structure by cjeans on 2007-12-12 12:31:40 as ** along with 4 people and 1 group aqeel sobolevnrm jlh64 TOchi baker-group
  • Broad network-based predictability of S. cerevisiae gene loss-of-function phenotypes
    Genome Biology, Vol. 8, No. 12. (2007)
    by Kriston Mcgary, Insuk Lee, Edward Marcotte
    posted to integrative network prediction by cjeans on 2007-12-12 10:34:18 as ** along with 5 people jiny raiyar biomcgary barriot entropy
  • Transcriptional profiling of MnSOD-mediated lifespan extension in Drosophila reveals a species-general network of aging and metabolic genes
    Genome Biology, Vol. 8 (09 December 2007), R262.
    by Christina Curtis, Gary N Landis, Donna Folk, Nancy B Wehr, Nicholas Hoe, Morris Waskar, Diana Abdueva, Dmitriy Skvortsov, Daniel Ford, Allan Luu, Ananth Badrinath, Rodney L Levine, Timothy J Bradley, Simon Tavare, John Tower
    posted to microarray network by cjeans on 2007-12-12 10:31:09 as ** along with 1 person and 1 group tharris C. elegans / WormBase
  • Control of Yeast Filamentous-Form Growth by Modules in an Integrated Molecular Network
    Genome Res., Vol. 14, No. 3. (1 March 2004), pp. 380-390.
    by Susanne Prinz, Iliana Avila-Campillo, Christine Aldridge, Ajitha Srinivasan, Krassen Dimitrov, Andrew F Siegel, Timothy Galitski
    posted to integrative module network system-biology by cjeans on 2007-12-12 03:05:10 as ** along with 1 person dbgoodman
  • Global landscape of protein complexes in the yeast Saccharomyces cerevisiae
    Nature (22 March 2006)
    by Nevan J Krogan, Gerard Cagney, Haiyuan Yu, Gouqing Zhong, Xinghua Guo, Alexandr Ignatchenko, Joyce Li, Shuye Pu, Nira Datta, Aaron P Tikuisis, Thanuja Punna, Josã© M Peregrã­n-Alvarez, Michael Shales, Xin Zhang, Michael Davey, Mark D Robinson, Alberto Paccanaro, James E Bray, Anthony Sheung, Bryan Beattie, Dawn P Richards, Veronica Canadien, Atanas Lalev, Frank Mena, Peter Wong, Andrei Starostine, Myra M Canete, James Vlasblom, Samuel Wu, Chris Orsi, Sean R Collins, Shamanta Chandran, Robin Haw, Jennifer J Rilstone, Kiran Gandi, Natalie J Thompson, Gabe Musso, Peter St Onge, Shaun Ghanny, Mandy HY Lam, Gareth Butland, Amin M Altaf-Ul, Shigehiko Kanaya, Ali Shilatifard, Erin O'Shea, Jonathan S Weissman, James C Ingles, Timothy R Hughes, John Parkinson, Mark Gerstein, Shoshana J Wodak, Andrew Emili, Jack F Greenblatt
    posted to network pin ppi by cjeans on 2007-12-11 01:24:23 as ** along with 22 people and 4 groups jiny Borelli lfriedl chad_davis balajis marcius tardigrade nirfriedman balabu j3xucite nickluscombe koller raiyar nicoleq Evangelia csaveanu frohike carlk hplatero chasmand mapplab ethkim kdl EBI-regulation BioinfoCIPF SGU-CIPF
  • Identifying functional modules in the physical interactome of <B><I>Saccharomyces cerevisiae</I></B>
    PROTEOMICS, Vol. 7, No. 6. (2007), pp. 944-960.
    by Shuye Pu, Jim Vlasblom, Andrew Emili, Jack Greenblatt, Shoshana J Wodak
    posted to clustering network pin by cjeans on 2007-12-11 01:15:07 as **
  • Noise propagation and signaling sensitivity in biological networks: A role for positive feedback
    PLoS Computational Biology, Vol. preprint, No. 2007. (1 December 2007), e8.eor.
    by Gil Hornung, Naama Barkai
    posted to network by cjeans on 2007-12-08 06:44:53 as **
  • Molecular evolution in large genetic networks: does connectivity equal constraint?
    J Mol Evol, Vol. 58, No. 2. (February 2004), pp. 203-211.
    by MW Hahn, GC Conant, A Wagner
    posted to evolution network by cjeans on 2007-12-02 11:14:36 as ** along with 1 person and 1 group penka Nie
  • Topological structure analysis of the protein-protein interaction network in budding yeast
    Nucl. Acids Res., Vol. 31, No. 9. (1 May 2003), pp. 2443-2450.
    by Dongbo Bu, Yi Zhao, Lun Cai, Hong Xue, Xiaopeng Zhu, Hongchao Lu, Jingfen Zhang, Shiwei Sun, Lunjiang Ling, Nan Zhang, Guojie Li, Runsheng Chen
    posted to network ppi topology by cjeans on 2007-11-30 06:52:35 as ** along with 5 people and 1 group lfriedl iris_2001 carlk minostro ellakat kdl
  • Conserved network motifs allow protein-protein interaction prediction
    Bioinformatics, Vol. 20, No. 18., 3346.
    by Istvan Albert, Reka Albert
    posted to motif network ppi by cjeans on 2007-11-30 06:49:23 as ** along with 2 people Evangelia iris_2001
  • Community structure identification
    (18 Oct 2005)
    by Leon Danon, Jordi Duch, Alex Arenas, Albert Diaz-Guilera
    posted to network by cjeans on 2007-11-27 01:46:33 as ** along with 3 people and 1 group breyten dumpa bigbossman ilps
  • Functional cartography of complex metabolic networks
    Nature, Vol. 433, No. 7028. (24 February 2005), pp. 895-900.
    by Roger Guimera, LAN Luis
    posted to function module network by cjeans on 2007-11-27 01:43:48 as ** along with 17 people and 4 groups pdelosri cswinburne camster dbk BioGeek Borelli lfriedl balajis alexg eweaver tny wnpx kdang carlk RobMills Diego_Prada marcio streptomyces dbk-lab kdl Bioinformatics
  • Evaluation of clustering algorithms for protein-protein interaction networks
    BMC Bioinformatics, Vol. 7 (06 November 2006), 488.
    by Sylvain Brohee, Jacques van Helden
    posted to algorithm clustering network by cjeans on 2007-11-27 01:40:04 as ** along with 15 people and 1 group pdelosri jfr chad_davis balajis nirfriedman dquest grahamc hpaces Pao-Yang oktie carlk Borelli AbnerCYH cerca ethkim EPFL_SB_ITP_LBS
  • Network-based prediction of protein function
    Mol Syst Biol, Vol. 3 (13 March 2007)
    by Roded Sharan, Igor Ulitsky, Ron Shamir
    posted to function network by cjeans on 2007-11-27 01:39:21 as ** along with 12 people and 1 group pengchy jjray cmmorel wnpx julius mikaelhuss massivemayhem iris_2001 karfunkel mingzhi ellakat carlk SysbioMPI-TCells
  • The origins and evolution of functional modules: lessons from protein complexes.
    Philos Trans R Soc Lond B Biol Sci, Vol. 361, No. 1467. (29 March 2006), pp. 507-517.
    by JB Pereira-Leal, ED Levy, SA Teichmann
    posted to evolution module network ppi by cjeans on 2007-11-25 10:49:40 as ** along with 4 people agustinarce bicko choonpeng cmzmasek
  • Binding properties and evolution of homodimers in protein-protein interaction networks.
    Nucleic Acids Res, Vol. 33, No. 11. (2005), pp. 3629-3635.
    by I Ispolatov, A Yuryev, I Mazo, S Maslov
    posted to network paralog ppi by cjeans on 2007-11-25 10:46:00 as ** along with 1 person kgutwin
  • Effect of sampling on topology predictions of protein-protein interaction networks
    Nature Biotechnology, Vol. 23, No. 7. (07 July 2005), pp. 839-844.
    by Jing-Dong J Han, Denis Dupuy, Nicolas Bertin, Michael E Cusick, Marc Vidal
    posted to network ppi by cjeans on 2007-11-25 10:34:23 as ** along with 11 people snuppepuppan kuhn rabbat gurkanbebek koller eukfn mikaelhuss grahamc iris_2001 paolomarcatili carlk
  • Estimating node degree in bait-prey graphs
    Bioinformatics (19 November 2007), btm565.
    by Denise Scholtens, Tony Chiang, Wolfgang Huber, Robert Gentleman
    posted to interaction network by cjeans on 2007-11-22 12:55:00 as ** along with 1 person sgoetz
  • A mathematical tool for exploring the dynamics of biological networks
    Proceedings of the National Academy of Sciences (21 November 2007), 0709955104.
    by Paolo E Barbano, Marina Spivak, Marc Flajolet, Angus C Nairn, Paul Greengard, Leslie Greengard
    posted to network physics by cjeans on 2007-11-22 12:53:30 as ** along with 9 people and 1 group tmmurali zwang cactus sobolevnrm forgoston lenov sdbneuro mdramirez phoenixzxl baker-group
  • PLoS ONE: A Network Analysis of the Human T-Cell Activation Gene Network Identifies Jagged1 as a Therapeutic Target for Autoimmune Diseases
    posted to experiment network by cjeans on 2007-11-22 00:28:21 as **
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