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ccr's library [46 articles]

Recent papers added to ccr's library.
  • Plat-E: an efficient and stable system for transient packaging of retroviruses.
    Gene Ther, Vol. 7, No. 12. (June 2000), pp. 1063-1066.
    by S Morita, T Kojima, T Kitamura
    posted to retroviruses by ccr on 2007-02-22 21:45:18 as *
  • High-resolution methylation analysis of the human hypoxanthine phosphoribosyltransferase gene 5' region on the active and inactive X chromosomes: correlation with binding sites for transcription factors.
    Mol Cell Biol, Vol. 14, No. 2. (February 1994), pp. 1419-1430.
    by IK Hornstra, TP Yang
    posted to no-tag by ccr on 2007-02-22 21:14:01 as *
  • A genomic sequencing protocol that yields a positive display of 5-methylcytosine residues in individual DNA strands.
    Proc Natl Acad Sci U S A, Vol. 89, No. 5. (1 March 1992), pp. 1827-1831.
    by M Frommer, LE McDonald, DS Millar, CM Collis, F Watt, GW Grigg, PL Molloy, CL Paul
    posted to bisulfite-genomic-sequencing by ccr on 2007-02-22 21:10:44 as * along with 2 people jo_davies saru
  • Bisulfite genomic sequencing: systematic investigation of critical experimental parameters.
    Nucleic Acids Res, Vol. 29, No. 13. (1 July 2001)
    by C Grunau, SJ Clark, A Rosenthal
    posted to bisulfite-genomic-sequencing by ccr on 2007-02-22 20:56:39 as *
  • Fbx15 is a novel target of Oct3/4 but is dispensable for embryonic stem cell self-renewal and mouse development.
    Mol Cell Biol, Vol. 23, No. 8. (April 2003), pp. 2699-2708.
    by Y Tokuzawa, E Kaiho, M Maruyama, K Takahashi, K Mitsui, M Maeda, H Niwa, S Yamanaka
    posted to stem-cells by ccr on 2007-02-22 20:17:00 as * along with 1 person miguel
  • Induction of Pluripotent Stem Cells from Mouse Embryonic and Adult Fibroblast Cultures by Defined Factors.
    Cell (8 August 2006)
    by Kazutoshi Takahashi, Shinya Yamanaka
    posted to stem-cells by ccr on 2007-02-22 16:34:27 as ***** along with 7 people and 2 groups jyuh nickluscombe maldi faisalm maximilianh dvaidpz thenose CHAOTO EBI-regulation
  • A unique and universal molecular barcode array
    Nature Methods, Vol. 3, No. 8. (21 July 2006), pp. 601-603.
    by Sarah E Pierce, Eula L Fung, Daniel F Jaramillo, Angela M Chu, Ronald W Davis, Corey Nislow, Guri Giaever
    posted to no-tag by ccr on 2007-02-21 21:42:32 as ** along with 1 person maldi
  • High-throughput mapping of the chromatin structure of human promoters
    Nat Biotech, Vol. 25, No. 2. (February 2007), pp. 244-248.
    by Fatih Ozsolak, Jun S Song, Shirley X Liu, David E Fisher
    posted to chromatin by ccr on 2007-02-18 08:00:18 as ** along with 5 people and 2 groups jyuh aalibes jfr dchughes vega G4ID Genetics-of-Gambling
  • Continuous Time Bayesian Networks
    (2002), pp. 378-387.
    by U Nodelman, CR Shelton, D Koller
    posted to bayesian by ccr on 2007-02-16 01:44:05 as **
  • Capturing Chromosome Conformation
    Science, Vol. 295, No. 5558. (15 February 2002), pp. 1306-1311.
    by Job Dekker, Karsten Rippe, Martijn Dekker, Nancy Kleckner
    posted to 3c by ccr on 2007-02-13 23:58:53 as *** along with 1 person and 1 group skoch3 Koch_Lab
  • A Genetic Screen Implicates miRNA-372 and miRNA-373 As Oncogenes in Testicular Germ Cell Tumors
    Cell, Vol. 124, No. 6. (24 March 2006), pp. 1169-1181.
    by Mathijs P Voorhoeve, Le, Mariette Schrier, Ad J Gillis, Hans Stoop, Remco Nagel, Ying-Poi Liu, Josyanne van Duijse, Jarno Drost, Alexander Griekspoor
    posted to genetic oncogene by ccr on 2007-02-13 23:04:02 as ***** along with 5 people and 2 groups maralena tardigrade dchughes balabu 3times3 G4ID Genetics-of-Gambling
  • High throughput fingerprint analysis of large-insert clones.
    Genome Res, Vol. 7, No. 11. (November 1997), pp. 1072-1084.
    by MA Marra, TA Kucaba, NL Dietrich, ED Green, B Brownstein, RK Wilson, KM McDonald, LW Hillier, JD McPherson, RH Waterston
    posted to clones fingerprint high-throughput by ccr on 2007-02-12 23:11:52 as **
  • A Direct Approach to False Discovery Rates
    by John D Storey
    posted to significance by ccr on 2007-02-12 20:52:29 as **
  • Controlling the False Discovery Rate: A Practical and Powerful Approach to Multiple Testing
    by Yoav Benjamini, Yosef Hochberg
    posted to multiple-testing significance by ccr on 2007-02-12 20:49:34 as ** along with 13 people and 2 groups isimpson dragonrez jyuh RMGraze oannes vplagnol frohike grahamc shigepong axelon ugengma amsantos rschulz Bioinformatics Regulomics_UCHSC
  • Significance analysis of microarrays applied to the ionizing radiation response.
    Proc Natl Acad Sci U S A, Vol. 98, No. 9. (24 April 2001), pp. 5116-5121.
    by VG Tusher, R Tibshirani, G Chu
    posted to microarray significance by ccr on 2007-02-12 20:46:33 as ** along with 8 people askrajiv miguel jen_drake gpalidwor olympos incovoma ugengma shikin
  • Clustering by Passing Messages Between Data Points.
    Science (11 January 2007)
    by Brendan J J Frey, Delbert Dueck
    posted to clustering affinity-propagation by ccr on 2007-02-09 21:52:27 as *** along with 24 people and 2 groups soundray XIANG matjes johnkork kuhn xtizon jfr jmeppley stevedebacker arjen sterovetta sdvillal nickluscombe rdiaz ianturton macle bluto rsantana grahamc hexuming worldsun dimatura paulovn daniel51 EBI-regulation ParkinsonLab_at_MaRS
  • A Bayesian Analysis of Some Nonparametric Problems
    The Annals of Statistics, Vol. 1, No. 2. (1973), pp. 209-230.
    by Thomas S Ferguson
    posted to nonparametric dirichlet bayesian by ccr on 2007-02-07 22:05:33 as *** along with 5 people rpadams mshafiei bayes ichbins81 abellogin
  • High-resolution computational models of genome binding events
    Nature Biotechnology, Vol. 24, No. 8. (09 August 2006), pp. 963-970.
    by Yuan Qi, Alex Rolfe, Kenzie D Macisaac, Georg K Gerber, Dmitry Pokholok, Julia Zeitlinger, Timothy Danford, Robin D Dowell, Ernest Fraenkel, Tommi S Jaakkola, Richard A Young, David K Gifford
    posted to genome computational binding by ccr on 2007-02-07 15:21:25 as ***** along with 4 people jfr wnpx caseybrown inesdesantiago
  • Coordinated binding of NF-kappaB family members in the response of human cells to lipopolysaccharide.
    Proc Natl Acad Sci U S A (4 April 2006)
    by Joerg Schreiber, Richard G G Jenner, Heather L L Murray, Georg K K Gerber, David K K Gifford, Richard A A Young
    posted to no-tag by ccr on 2007-02-07 14:57:02 as ** along with 2 people postrational nirfriedman
  • Accurate and reliable high-throughput detection of copy number variation in the human genome
    Genome Res., Vol. 16, No. 12. (1 December 2006), pp. 1566-1574.
    by Heike Fiegler, Richard Redon, Dan Andrews, Carol Scott, Robert Andrews, Carol Carder, Richard Clark, Oliver Dovey, Peter Ellis, Lars Feuk, Lisa French, Paul Hunt, Dimitrios Kalaitzopoulos, James Larkin, Lyndal Montgomery, George H Perry, Bob W Plumb, Keith Porter, Rachel E Rigby, Diane Rigler, Armand Valsesia, Cordelia Langford, Sean J Humphray, Stephen W Scherer, Charles Lee, Matthew E Hurles, Nigel P Carter
    posted to variation method genome by ccr on 2007-02-06 15:42:31 as *** along with 7 people and 4 groups debasis jfr balicea dchughes mgaldzic shigepong colinveal Bioinformatics G4ID CHIP Genetics-of-Gambling
  • Structural variation in the human genome
    Nature Reviews Genetics, Vol. 7, No. 2., pp. 85-97.
    by Lars Feuk, Andrew R Carson, Stephen W Scherer
    posted to variation genome by ccr on 2007-02-06 15:20:55 as ** along with 14 people and 10 groups cgreal balajis bala balicea dchughes tabu darcyduke adepace AaronDarling rdiaz massivemayhem cat_worth jmrivort Lip CGREL structural_bioinformatics Bioinformatics EisenLab SFX-Verde-team-MITLibraries G4ID G-quadruplex Supramolecular DictyosteliumGroup Genetics-of-Gambling
  • Global variation in copy number in the human genome
    Nature, Vol. 444, No. 7118. (23 November 2006), pp. 444-454.
    by Richard Redon, Shumpei Ishikawa, Karen R Fitch, Lars Feuk, George H Perry, Daniel T Andrews, Heike Fiegler, Michael H Shapero, Andrew R Carson, Wenwei Chen, Eun K Cho, Stephanie Dallaire, Jennifer L Freeman, Juan R Gonzalez, Monica Gratacos, Jing Huang, Dimitrios Kalaitzopoulos, Daisuke Komura, Jeffrey R Macdonald, Christian R Marshall, Rui Mei, Lyndal Montgomery, Kunihiro Nishimura, Kohji Okamura, Fan Shen, Martin J Somerville, Joelle Tchinda, Armand Valsesia, Cara Woodwark, Fengtang Yang, Junjun Zhang, Tatiana Zerjal, Jane Zhang, Lluis Armengol, Donald F Conrad, Xavier Estivill, Chris Tyler-Smith, Nigel P Carter, Hiroyuki Aburatani, Charles Lee, Keith W Jones, Stephen W Scherer, Matthew E Hurles
    posted to variation genome by ccr on 2007-02-06 14:50:55 as ***** along with 25 people and 6 groups pradiptaray daed Ema srp33 bpb jfr balajis dpollard mtagaya adepace aswin rdiaz qfwills ealloza vplagnol giovanni jeremymiller frohike vpschulz raiyar ramensky azazello dbgrant colinveal xingxu Bioinformatics EisenLab BioinfoCIPF GeschwindLab steinmetzlab MBLAB
  • Old and new matrix algebra useful for statistics
    (1997)
    by T Minka
    posted to statistics linear-algebra by ccr on 2007-02-04 21:01:19 as ***** along with 1 person daniel51
  • Modularity and Dynamics of Cellular Networks
    PLoS Computational Biology, Vol. 2, No. 12. (1 December 2006), e174.
    by Yuan Qi, Hui Ge
    posted to networks computational by ccr on 2007-02-03 19:05:49 as **** along with 5 people and 1 group joshuashen grahamc massivemayhem fishtank roys ParkinsonLab_at_MaRS
  • ARACHNE: A Whole-Genome Shotgun Assembler
    Genome Res., Vol. 12, No. 1. (1 January 2002), pp. 177-189.
    by Serafim Batzoglou, David B Jaffe, Ken Stanley, Jonathan Butler, Sante Gnerre, Evan Mauceli, Bonnie Berger, Jill P Mesirov, Eric S Lander
    posted to no-tag by ccr on 2007-02-02 23:19:09 as * along with 10 people and 3 groups pradiptaray Neeperando bpb dayjm balajis indigoviolet balicea azazello wenhan tpreeprem EisenLab MBLAB gatech-compgenomics
  • Biomedical discovery with DNA arrays.
    Cell, Vol. 102, No. 1. (7 July 2000), pp. 9-15.
    by RA Young
    posted to microarray by ccr on 2007-02-02 21:34:07 as *** along with 1 person textoris
  • A Hox Regulatory Network Establishes Motor Neuron Pool Identity and Target-Muscle Connectivity
    Cell, Vol. 123, No. 3. (4 November 2005), pp. 477-491.
    by Jeremy S Dasen, Bonnie C Tice, Susan Brenner-Morton, Thomas M Jessell
    posted to transcriptional-regulatory-network motor-neuron hox by ccr on 2007-02-02 20:55:34 as ****
  • A genomic regulatory network for development.
    Science, Vol. 295, No. 5560. (1 March 2002), pp. 1669-1678.
    by EH Davidson, JP Rast, P Oliveri, A Ransick, C Calestani, CH Yuh, T Minokawa, G Amore, V Hinman, C Arenas-Mena, O Otim, CT Brown, CB Livi, PY Lee, R Revilla, AG Rust, Z Pan, MJ Schilstra, PJ Clarke, MI Arnone, L Rowen, RA Cameron, DR McClay, L Hood, H Bolouri
    posted to transcriptional-regulatory-network development by ccr on 2007-02-02 20:52:44 as *** along with 6 people and 1 group dquest edvin balajis adepace margaritis lusk EisenLab
  • Modeling transcriptional regulatory networks
    BioEssays, Vol. 24, No. 12. (2002), pp. 1118-1129.
    by Hamid Bolouri, Eric H Davidson
    posted to transcriptional-regulatory-network modeling by ccr on 2007-02-02 20:43:45 as **
  • Mutant-specific gene programs in the zebrafish.
    Blood, Vol. 106, No. 2. (15 July 2005), pp. 521-530.
    by GJ Weber, SE Choe, KA Dooley, NN Paffett-Lugassy, Y Zhou, LI Zon
    posted to zebrafish mutant microarray hematopoiesis by ccr on 2007-02-02 20:41:58 as read
  • Transcriptional regulation of hematopoietic stem cell development in zebrafish.
    Exp Hematol, Vol. 33, No. 9. (September 2005), pp. 1007-1014.
    by N Hsia, LI Zon
    posted to zebrafish stem-cell hematopoiesis by ccr on 2007-02-02 20:40:51 as read
  • Use of the zebrafish system to study primitive and definitive hematopoiesis.
    Annu Rev Genet, Vol. 39 (2005), pp. 481-501.
    by JL de Jong, LI Zon
    posted to zebrafish hematopoiesis by ccr on 2007-02-02 20:39:40 as read
  • The 'definitive' (and 'primitive') guide to zebrafish hematopoiesis.
    Oncogene, Vol. 23, No. 43. (20 September 2004), pp. 7233-7246.
    by AJ Davidson, LI Zon
    posted to zebrafish hematopoiesis by ccr on 2007-02-02 20:38:35 as read
  • Insights into early vasculogenesis revealed by expression of the ETS-domain transcription factor Fli-1 in wild-type and mutant zebrafish embryos
    Mechanisms of Development, Vol. 90, No. 2. (1 February 2000), pp. 237-252.
    by Louise A Brown, Adam R Rodaway, Thomas F Schilling, Trevor Jowett, Philip W Ingham, Roger K Patient, Andrew D Sharrocks
    posted to zebrafish vasculogenesis fli-1 by ccr on 2007-02-02 20:37:24 as **
  • Stem cells, cancer, and cancer stem cells
    Nature, Vol. 414, No. 6859. (1 November 2001), pp. 105-111.
    by Tannishtha Reya, Sean J Morrison, Michael F Clarke, Irving L Weissman
    posted to stem-cells cancer by ccr on 2007-02-02 20:35:11 as *** along with 7 people MllePapillon catcremona eisei iskanbasal faisalm martello7 vjuneja
  • Open source clustering software.
    Bioinformatics, Vol. 20, No. 9. (12 June 2004), pp. 1453-1454.
    by MJ de Hoon, S Imoto, J Nolan, S Miyano
    posted to no-tag by ccr on 2007-02-02 20:33:26 as read along with 16 people and 6 groups chad_davis macowell davidbroadhurst eme oilcan rahul Ayest balajis piscinero metamerist digisoki wnpx rafamayo atopcu calu karlmicha Fluid-Mechanics-and-Thermal-Science-Research astro SRL Computational_Systems_Biology XMLDataManagement BUiGEM
  • Preferred analysis methods for Affymetrix GeneChips revealed by a wholly defined control dataset.
    Genome Biol, Vol. 6, No. 2. (2005)
    by SE Choe, M Boutros, AM Michelson, GM Church, MS Halfon
    posted to no-tag by ccr on 2007-02-02 20:32:12 as ** along with 4 people and 1 group xwbcn jeremymiller ghattem waszak GeschwindLab
  • A clonogenic common myeloid progenitor that gives rise to all myeloid lineages.
    Nature, Vol. 404, No. 6774. (9 March 2000), pp. 193-197.
    by K Akashi, D Traver, T Miyamoto, IL Weissman
    posted to no-tag by ccr on 2007-02-02 20:31:15 as **
  • Transformation from committed progenitor to leukaemia stem cell initiated by MLLâAF9
    Nature, Vol. 442, No. 7104. (16 July 2006), pp. 818-822.
    by Andrei V Krivtsov, David Twomey, Zhaohui Feng, Matthew C Stubbs, Yingzi Wang, Joerg Faber, Jason E Levine, Jing Wang, William C Hahn, Gary D Gilliland, Todd R Golub, Scott A Armstrong
    posted to stem-cell mouse microarray hematopoiesis by ccr on 2007-02-02 20:24:33 as read along with 1 person kentsis
  • Functional characterization of the S. cerevisiae genome by gene deletion and parallel analysis.
    Science, Vol. 285, No. 5429. (6 August 1999), pp. 901-906.
    by EA Winzeler, DD Shoemaker, A Astromoff, H Liang, K Anderson, B Andre, R Bangham, R Benito, JD Boeke, H Bussey, AM Chu, C Connelly, K Davis, F Dietrich, SW Dow, M El Bakkoury, F Foury, SH Friend, E Gentalen, G Giaever, JH Hegemann, T Jones, M Laub, H Liao, N Liebundguth, DJ Lockhart, A Lucau-Danila, M Lussier, N M'Rabet, P Menard, M Mittmann, C Pai, C Rebischung, JL Revuelta, L Riles, CJ Roberts, P Ross-MacDonald, B Scherens, M Snyder, S Sookhai-Mahadeo, RK Storms, S Véronneau, M Voet, G Volckaert, TR Ward, R Wysocki, GS Yen, K Yu, K Zimmermann, P Philippsen, M Johnston, RW Davis
    posted to genome yeast by ccr on 2007-02-02 19:51:57 as ** along with 6 people chasmand pcahan1 balajis jpoyatos cjeans jiny
  • Hierarchical Dirichlet Processes
    Journal of the American Statistical Association, Vol. 101, No. 476. (December 2006), pp. 1566-1581.
    by Teh, Yee Whye, Jordan, I Michael, Beal, J Matthew, Blei, M David
    posted to nonparametric mixture-model markov-chain-monte-carlo hierarchical clustering bayesian by ccr on 2007-02-02 16:09:06 as read along with 5 people markusd bhaddow mshafiei vlachmore asterix77
  • Modeling individual differences using Dirichlet processes
    Journal of Mathematical Psychology, Vol. 50, No. 2. (April 2006), pp. 101-122.
    by Daniel J Navarro, Thomas L Griffiths, Mark Steyvers, Michael D Lee
    posted to dirichlet by ccr on 2007-02-02 16:04:13 as read along with 2 people briordan flavian_vasile
  • Co-evolution of transcriptional and post-translational cell-cycle regulation
    Nature (27 September 2006)
    by Lars J Jensen, Thomas S Jensen, Ulrik de Lichtenberg, Søren Brunak, Peer Bork
    posted to no-tag by ccr on 2007-02-02 15:58:44 as **** along with 7 people and 1 group JAShapiro adepace koller olympos cjeans kluck larsjuhljensen EisenLab
  • Validation and refinement of gene-regulatory pathways on a network of physical interactions.
    Genome Biol, Vol. 6, No. 7. (2005)
    by CH Yeang, HC Mak, S McCuine, C Workman, T Jaakkola, T Ideker
    posted to no-tag by ccr on 2007-02-02 15:51:30 as ** along with 11 people and 1 group jago carlk AlexanderPico snuppepuppan abhik tmmurali textoris wnpx noano koller cdppublications CDP
  • Modulefinder: a tool for computational discovery of cis regulatory modules.
    Pac Symp Biocomput (2005), pp. 519-530.
    by AA Philippakis, FS He, ML Bulyk
    posted to no-tag by ccr on 2007-02-02 15:44:45 as ** along with 1 person and 1 group indigoviolet EisenLab
  • Hierarchical Beta Processes and the Indian Buffet Process
    by Romain Thibaux, Michael I Jordan
    posted to process machine learning indian hierarchical buffet by ccr on 2007-02-02 15:33:13 as ***
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