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aheilbut's library [58 articles]

Recent papers added to aheilbut's library.
  • An Integrated Genomic Analysis of Human Glioblastoma Multiforme
    Science (4 September 2008), 1164382.
    by Williams D Parsons, Sian Jones, Xiaosong Zhang, Jimmy C Lin, Rebecca J Leary, Philipp Angenendt, Parminder Mankoo, Hannah Carter, I-Mei Siu, Gary L Gallia, Alessandro Olivi, Roger Mclendon, Ahmed B Rasheed, Stephen Keir, Tatiana Nikolskaya, Yuri Nikolsky, Dana A Busam, Hanna Tekleab, Luis A Diaz, James Hartigan, Doug R Smith, Robert L Strausberg, Suely K Marie, Sueli M Shinjo, Hai Yan, Gregory J Riggins, Darell D Bigner, Rachel Karchin, Nick Papadopoulos, Giovanni Parmigiani, Bert Vogelstein, Victor E Velculescu, Kenneth W Kinzler
    posted to sequencing glioblastoma gbm cancergenome cancergenetics cancer by aheilbut on 2008-09-07 05:45:14 as ** along with 2 people and 1 group songpku giovenko Roswell Cancer Crosstalk
  • Inference of Protein Complex Activities from Chemical-Genetic Profile and Its Applications: Predicting Drug-Target Pathways
    PLoS Comput Biol, Vol. 4, No. 8. (2008), e1000162.
    by Sangjo Han, Dongsup Kim
    posted to chemicalgenetic profiling target by aheilbut on 2008-08-30 02:14:03 as ** along with 1 person friendpine
  • A guide to recurrent neural networks and backpropagation
    (2002)
    by Mikael Bodén
    posted to backprop recurrent by aheilbut on 2008-08-05 06:10:19 as **
  • Importance of input perturbations and stochastic gene expression in the reverse engineering of genetic regulatory networks: insights from an identifiability analysis of an in silico network.
    Genome Res, Vol. 13, No. 11. (November 2003), pp. 2396-2405.
    by DE Zak, GE Gonye, JS Schwaber, FJ Doyle
    posted to reverseengineering by aheilbut on 2008-07-31 06:23:41 as ** along with 5 people ryang wnpx jrbanga bertelsen lukaswindhager
  • Resolution and repeatability of phenotypic assays by automated growth curve analysis in yeast and bacteria
    Analytical Biochemistry, Vol. 344, No. 1. (1 September 2005), pp. 138-140.
    by Lukasz Jasnos, Piotr Sliwa, Ryszard Korona
    posted to plateeffects reproductibility by aheilbut on 2008-07-30 17:29:49 as **
  • How many drug targets are there?
    Nature Reviews Drug Discovery, Vol. 5, No. 12., pp. 993-996.
    by John P Overington, Bissan Al-Lazikani, Andrew L Hopkins
    posted to chemistry pharmacology polypharmacy target by aheilbut on 2008-07-23 23:58:17 as ** along with 10 people and 1 group BragilMassoud cannin kuhn bicko mingzhi higueruelo srp33 ramensky gemmalholliday ajaymalik libr
  • Next-Generation DNA Sequencing Methods.
    Annual review of genomics and human genetics (19 June 2008)
    by Elaine R R Mardis
    posted to review sequencing by aheilbut on 2008-07-23 17:37:05 as *** along with 3 people giovenko reyez jyuh
  • Can we rationally design promiscuous drugs?
    Curr Opin Struct Biol (24 January 2006)
    by Andrew L L Hopkins, Jonathan S S Mason, John P P Overington
    posted to design drugs promiscuity by aheilbut on 2008-07-21 20:59:36 as ** along with 6 people and 1 group BragilMassoud apaydin kuhn bicko yongzhao ramensky TSRI_MGL
  • Specificity and Evolvability in Eukaryotic Protein Interaction Networks
    PLoS Computational Biology, Vol. 3, No. 2. (1 February 2007), e25.
    by Pedro Beltrao, Luis Serrano
    posted to evolution networks by aheilbut on 2008-07-21 20:56:14 as ** along with 2 people aalibes dylan77
  • Evolvability and hierarchy in rewired bacterial gene networks
    Nature, Vol. 452, No. 7189. (17 April 2008), pp. 840-845.
    by Mark Isalan, Caroline Lemerle, Konstantinos Michalodimitrakis, Carsten Horn, Pedro Beltrao, Emanuele Raineri, Mireia Garriga-Canut, Luis Serrano
    posted to evolution networks by aheilbut on 2008-07-21 20:55:45 as ** along with 18 people and 4 groups aalibes tmmurali dullhunk neils cmzmasek AbnerCYH josedavid biehl caseybrown Garamonfok austin hryk dbikard cactus margaritis chad_davis michaelbarton zwang GEB Centre de Recherches Interdisciplinaires SynBioSys BergmanLab
  • Quantitative analysis of EGFRvIII cellular signaling networks reveals a combinatorial therapeutic strategy for glioblastoma
    Proceedings of the National Academy of Sciences, Vol. 104, No. 31. (31 July 2007), pp. 12867-12872.
    by Paul H Huang, Akitake Mukasa, Rudy Bonavia, Ryan A Flynn, Zachary E Brewer, Webster K Cavenee, Frank B Furnari, Forest M White
    posted to combinations massspec by aheilbut on 2008-07-21 19:33:40 as ** along with 1 person cdppublications
  • Stimulus Design for Model Selection and Validation in Cell Signaling.
    PLoS Comput Biol, Vol. 4, No. 2. (15 February 2008)
    by Joshua F F Apgar, Jared E E Toettcher, Drew Endy, Forest M M White, Bruce Tidor
    posted to modeling reverseengineering by aheilbut on 2008-07-21 19:32:57 as ** along with 1 person tmmurali
  • Drug Target Identification Using Side-Effect Similarity
    Science, Vol. 321, No. 5886. (11 July 2008), pp. 263-266.
    by Monica Campillos, Michael Kuhn, Anne-Claude Gavin, Lars J Jensen, Peer Bork
    posted to drugs sideeffects by aheilbut on 2008-07-21 02:36:18 as ** along with 9 people bpcusack jmuhlich larsjuhljensen tmmurali askrajiv reyez roys ajaymalik raiyar
  • A large-scale computational approach to drug repositioning.
    Genome Inform, Vol. 17, No. 2. (2006), pp. 239-247.
    by YY Li, J An, SJ Jones
    posted to docking drugs inversedocking by aheilbut on 2008-07-19 17:29:07 as *** along with 1 person BragilMassoud
  • Antibiotic interactions that select against resistance
    Nature, Vol. 446, No. 7136. (5 April 2007), pp. 668-671.
    by Remy Chait, Allison Craney, Roy Kishony
    posted to antibiotics bacteria evolution resistance by aheilbut on 2008-06-24 20:24:43 as ** along with 5 people madhadron lshaw ramensky joepickrell jjray
  • Optimal drug cocktail design: methods for targeting molecular ensembles and insights from theoretical model systems.
    Journal of chemical information and modeling, Vol. 48, No. 5. (May 2008), pp. 1055-1073.
    by ML Radhakrishnan, B Tidor
    posted to combinations computationalchemistry by aheilbut on 2008-06-24 18:45:40 as **
  • Learning semantic similarity
    (2003)
    by J Kandola, N Cristianini, Shawe J Taylor
    posted to kernel by aheilbut on 2008-05-19 20:49:07 as **
  • Predicting cancer involvement of genes from heterogeneous data
    BMC Bioinformatics, Vol. 9, No. 1. (2008)
    by Ramon Aragues, Chris Sander, Baldo Oliva
    posted to cancer graphs neworks by aheilbut on 2008-05-18 22:51:00 as ** along with 7 people and 1 group shigepong barriot renatomilani smgomez henryk69 reyez cerami GomezLab
  • Mining the biomedical literature in the genomic era: an overview.
    J Comput Biol, Vol. 10, No. 6. (2003), pp. 821-855.
    by H Shatkay, R Feldman
    posted to literature mining by aheilbut on 2008-05-16 17:45:29 as ** along with 7 people and 2 groups irenas Enro miguel yas benny balex adoms dbk-lab T_lab
  • Use and misuse of the gene ontology annotations.
    Nature reviews. Genetics (13 May 2008)
    by Seung Yon Rhee, Valerie Wood, Kara Dolinski, Sorin Draghici
    posted to go by aheilbut on 2008-05-16 07:04:15 as ** along with 20 people and 2 groups djkt jyuh mariakmejia cmzmasek A_Olympia realzhang carlk roys gjuggler fpattyn RamuAnandakrishnan ptrobajo giovenko cabbagesofdoom tmmurali renatomilani capitall marck rvosa bpcusack logics of knowledge FAB-lab
  • Deductive biocomputing.
    PLoS ONE, Vol. 2 (2007)
    by J Shrager, R Waldinger, M Stickel, JP Massar
    posted to ai biology deduction representation by aheilbut on 2008-05-16 06:47:23 as ** along with 3 people jyuh tmmurali dullhunk
  • Hubs, authorities, and communities
    ACM Comput. Surv., Vol. 31, No. 4es. (1999)
    by Jon M Kleinberg
    posted to hits networks by aheilbut on 2008-05-13 19:33:47 as ** along with 10 people and 7 groups korakot carlblesius nkorf harperf hpiwowar merazzle scholze starchaser gcalda deysandeep Philosophy_of_Information Blog_and_Wiki_Research mgh-lcs Semantic-Social-Networks hst-bmi GroupLens Web2
  • Information Filtering: Overview of Issues, Research and Systems
    User Modeling and User-Adapted Interaction, Vol. 11, No. 3. (2001), pp. 203-259.
    by Uri Hanani, Bracha Shapira, Peretz Shoval
    posted to filtering ir by aheilbut on 2008-05-13 13:00:53 as ** along with 4 people and 1 group romano python dvallet barbarare NETS-UAM
  • A Document Clustering and Ranking System for Exploring MEDLINE Citations
    J Am Med Inform Assoc, Vol. 14, No. 5. (1 September 2007), pp. 651-661.
    by Yongjing Lin, Wenyuan Li, Keke Chen, Ying Liu
    posted to clustering medline ranking by aheilbut on 2008-05-12 04:46:55 as ** along with 3 people ianturton Gaetan hpiwowar
  • Sustainable and efficient biohydrogen production via electrohydrogenesis
    Proceedings of the National Academy of Sciences (13 November 2007), 0706379104.
    by Shaoan Cheng, Bruce E Logan
    posted to hydrogen by aheilbut on 2008-05-11 17:22:59 as ** along with 4 people kristgy etas Katje sidkshatriya
  • Diffusion kernels on graphs and other discrete input spaces
    (2002)
    by R Kondor, J Lafferty
    posted to kernel svm by aheilbut on 2008-05-11 09:45:01 as ** along with 1 person vlachmore
  • Term Weighting Approaches in Automatic Text Retrieval
    (1987)
    by Gerard Salton, Chris Buckley
    posted to ir textanalysis by aheilbut on 2008-05-09 05:47:06 as ** along with 5 people ssn jcampos ianturton sugarexpletive johnkork
  • The photobiological production of hydrogen: potential efficiency and effectiveness as a renewable fuel.
    Critical reviews in microbiology, Vol. 31, No. 1. (2005), pp. 19-31.
    by RC Prince, HS Kheshgi
    posted to energy hydrogen by aheilbut on 2008-05-08 16:26:34 as **
  • BIOZON: a hub of heterogeneous biological data.
    Nucleic Acids Res, Vol. 34, No. Database issue. (1 January 2006)
    by A Birkland, G Yona
    posted to fusion graphs informationretrieval literature medline pagerank by aheilbut on 2008-05-01 14:00:10 as ** along with 2 people kuhn fisherp
  • Dynamics of the p53-Mdm2 feedback loop in individual cells.
    Nat Genet, Vol. 36, No. 2. (February 2004), pp. 147-150.
    by G Lahav, N Rosenfeld, A Sigal, N Geva-Zatorsky, AJ Levine, MB Elowitz, U Alon
    posted to no-tag by aheilbut on 2008-03-31 20:10:36 as **** along with 5 people and 2 groups rklancer bayesian mattjb koller ucbpdku ComplexAdaptiveSystems DSTO-CAS
  • Conservation analysis in biochemical networks: computational issues for software writers
    Biophysical Chemistry, Vol. 109, No. 1. (1 April 2004), pp. 1-15.
    by Herbert M Sauro, Brian Ingalls
    posted to conservation fba matrix stoichiometric by aheilbut on 2008-02-26 22:26:56 as **
  • Kernel-based data fusion for gene prioritization.
    Bioinformatics, Vol. 23, No. 13. (1 July 2007)
    by T De Bie, LC Tranchevent, LM van Oeffelen, Y Moreau
    posted to fusion kernel svm by aheilbut on 2008-02-22 20:42:15 as ** along with 1 person jyuh
  • Combining text and link analysis for focused crawling--An application for vertical search engines
    Information Systems, Vol. 32, No. 6. (September 2007), pp. 886-908.
    by G Almpanidis, C Kotropoulos, I Pitas
    posted to search textanalysis vertical by aheilbut on 2008-02-22 20:05:30 as **
  • Evaluation of biomedical text-mining systems: lessons learned from information retrieval.
    Brief Bioinform, Vol. 6, No. 4. (December 2005), pp. 344-356.
    by W Hersh
    posted to textmining by aheilbut on 2008-02-22 19:53:19 as ** along with 1 person hpiwowar
  • High-resolution structure prediction and the crystallographic phase problem
    Nature (14 October 2007)
    by Bin Qian, Srivatsan Raman, Rhiju Das, Philip Bradley, Airlie J Mccoy, Randy J Read, David Baker
    posted to bf821 by aheilbut on 2008-01-23 16:44:28 as *** along with 15 people and 2 groups apaydin jwm chad_davis eckart_bindewald ffranca dgront massivemayhem cjeans zwang cactus sobolevnrm boris_aguilar Ema chenway ardalby baker-group OPIG
  • Neural correlates of beauty.
    J Neurophysiol, Vol. 91, No. 4. (April 2004), pp. 1699-1705.
    by H Kawabata, S Zeki
    posted to beauty fmri neural by aheilbut on 2007-12-14 08:14:10 as ** along with 1 person pervane
  • Current epistemological problems in evidence based medicine
    J Med Ethics, Vol. 30, No. 2. (1 April 2004), pp. 131-135.
    by RE Ashcroft
    posted to ebm epistemology evidence-based by aheilbut on 2007-12-08 05:16:48 as ** along with 1 person kresala
  • The complexities of antibiotic action
    Mol Syst Biol, Vol. 3 (16 October 2007)
    by Robert E Hancock
    posted to antibiotics by aheilbut on 2007-12-05 18:18:36 as read along with 1 person biomcgary
  • Systematic discovery of multicomponent therapeutics.
    Proc Natl Acad Sci U S A, Vol. 100, No. 13. (24 June 2003), pp. 7977-7982.
    by AA Borisy, PJ Elliott, NW Hurst, MS Lee, J Lehar, ER Price, G Serbedzija, GR Zimmermann, MA Foley, BR Stockwell, CT Keith
    posted to combination by aheilbut on 2007-12-04 16:47:44 as read along with 1 person Borelli
  • Mathematical and computational techniques to deduce complex biochemical reaction mechanisms.
    Prog Biophys Mol Biol, Vol. 86, No. 1. (September 2004), pp. 77-112.
    by EJ Crampin, S Schnell, PE McSharry
    posted to modeling reverseengineering by aheilbut on 2007-12-04 16:41:17 as ** along with 3 people and 4 groups alexr schnell dagmar Autoregulation IU_Informatics_CX dIEMoSIRIS compneur
  • Reconstructing biochemical pathways from time course data
    PROTEOMICS, Vol. 7, No. 6. (2007), pp. 828-838.
    by Jeyaraman Srividhya, Edmund J Crampin, Patrick E Mcsharry, Santiago Schnell
    posted to modeling reverseengineering timeseries by aheilbut on 2007-12-04 16:27:09 as ****
  • Wild-type p53 and p73 negatively regulate expression of proliferation related genes
    Oncogene, Vol. aop, No. current.
    by MJ Scian, EH Carchman, L Mohanraj, KER Stagliano, MAE Anderson, D Deb, BM Crane, T Kiyono, B Windle, SP Deb, S Deb
    posted to expression p53 p73 by aheilbut on 2007-12-03 23:04:53 as **
  • Universally Sloppy Parameter Sensitivities in Systems Biology Models
    PLoS Computational Biology, Vol. 3, No. 10. (1 October 2007), e189.
    by Ryan N Gutenkunst, Joshua J Waterfall, Fergal P Casey, Kevin S Brown, Christopher R Myers, James P Sethna
    posted to modeling paramters sloppy by aheilbut on 2007-10-05 21:21:05 as ** along with 4 people jjray chad_davis csgillespie jooce
  • Connecting genes, drugs and diseases
    Nature Biotechnology, Vol. 24, No. 11., pp. 1365-1366.
    by John N Weinstein, Yves Pommier
    posted to nci nci60 profiling by aheilbut on 2007-09-23 22:50:46 as **
  • Spotlight on molecular profiling: "Integromic" analysis of the NCI-60 cancer cell lines.
    Mol Cancer Ther, Vol. 5, No. 11. (November 2006), pp. 2601-2605.
    by JN Weinstein
    posted to nci60 profiling by aheilbut on 2007-09-23 22:50:24 as **
  • p53-deficient cells rely on ATM- and ATR-mediated checkpoint signaling through the p38MAPK/MK2 pathway for survival after DNA damage.
    Cancer Cell, Vol. 11, No. 2. (February 2007), pp. 175-189.
    by HC Reinhardt, AS Aslanian, JA Lees, MB Yaffe
    posted to dnadamage p38 p53 by aheilbut on 2007-09-23 22:49:15 as ** along with 2 people jyuh DNAReplication
  • Natural history and evolutionary principles of gene duplication in fungi
    Nature, Vol. 449, No. 7158., pp. 54-61.
    by Ilan Wapinski, Avi Pfeffer, Nir Friedman, Aviv Regev
    posted to evolution by aheilbut on 2007-09-07 16:57:34 as *** along with 13 people and 4 groups dpollard tny dchughes djkt stajich zwang biomcgary lp2 tzhughes maximilianh pkm bpcusack dandaman EisenLab G4ID Genetics-of-Gambling Berkeley Mycology
  • Selection and evolution of enzymes from a partially randomized non-catalytic scaffold
    Nature, Vol. 448, No. 7155., pp. 828-831.
    by Burckhard Seelig, Jack W Szostak
    posted to enzymes evolution by aheilbut on 2007-08-17 18:15:13 as *** along with 3 people and 2 groups stevanspringer dpollard zwang EisenLab FAB-lab
  • Structure-based activity prediction for an enzyme of unknown function
    Nature (01 July 2007)
    by Johannes C Hermann, Ricardo Marti-Arbona, Alexander A Fedorov, Elena Fedorov, Steven C Almo, Brian K Shoichet, Frank M Raushel
    posted to docking enzymology function structure by aheilbut on 2007-08-17 18:13:43 as **** along with 6 people tjimenez daevans zwang pkolb kimicc ivke
  • Scaffold composition and biological relevance of screening libraries
    Nat Chem Biol, Vol. 3, No. 8. (2007), pp. 442-446.
    by Anang A Shelat, Kiplin R Guy
    posted to drugs libraries scaffold by aheilbut on 2007-08-13 22:13:52 as ****
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