rdowell's library 313 articles Export

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	Markov Logic Networks [My Copy] by Matthew Richardson, Pedro Domingos posted to markov-logic by rdowell on 2009-02-06 15:09:26 as
	Global Mapping of the Yeast Genetic Interaction Network [My Copy] Science, Vol. 303, No. 5659. (6 February 2004), pp. 808-813. by Amy H. Tong, Guillaume Lesage, Gary D. Bader, et al.Huiming Ding, Hong Xu, Xiaofeng Xin, James Young, Gabriel F. Berriz, Renee L. Brost, Michael Chang, YiQun Chen, Xin Cheng, Gordon Chua, Helena Friesen, Debra S. Goldberg, Jennifer Haynes, Christine Humphries, Grace He, Shamiza Hussein, Lizhu Ke, Nevan Krogan, Zhijian Li, Joshua N. Levinson, Hong Lu, Patrice Menard, Christella Munyana, Ainslie B. Parsons, Owen Ryan, Raffi Tonikian, Tania Roberts, Anne-Marie Sdicu, Jesse Shapiro, Bilal Sheikh, Bernhard Suter, Sharyl L. Wong, Lan V. Zhang, Hongwei Zhu, Christopher G. Burd, Sean Munro, Chris Sander, Jasper Rine, Jack Greenblatt, Matthias Peter, Anthony Bretscher, Graham Bell, Frederick P. Roth, Grant W. Brown, Brenda Andrews, Howard Bussey, Charles Boone posted to no-tag by rdowell on 2009-07-24 01:29:48 as along with 30 people and 2 groups kentz colmryan meanerelk TheresaNiederberger dakelley kinop nzm roys ajbattle czeller ldfu pcahan1 lfriedl lyongu luispedro opheliav tabu Chue nirfriedman nickluscombe koller raiyar patrycjam patrycja_missiuro jiny chasmand tresch Takayuki ksiek carlk kdl EBI-regulation
	Orc6 is required for dynamic recruitment of Cdt1 during repeated Mcm2–7 loading [My Copy] Genes & Development, Vol. 21, No. 22. (15 November 2007), pp. 2897-2907. by Shuyan Chen, Milan A. de Vries, Stephen P. Bell posted to no-tag by rdowell on 2009-07-10 20:54:24 as
	Ploidy regulation of gene expression. [My Copy] Science (New York, N.Y.), Vol. 285, No. 5425. (9 July 1999), pp. 251-254. by T. Galitski, A. J. Saldanha, C. A. Styles, E. S. Lander, G. R. Fink posted to expression ploidy strains yeast by rdowell on 2009-07-09 17:55:47 as along with 3 people sbottani Annab behindtherabbit
	The Chemical Genomic Portrait of Yeast: Uncovering a Phenotype for All Genes [My Copy] Science, Vol. 320, No. 5874. (18 April 2008), pp. 362-365. by Maureen E. Hillenmeyer, Eula Fung, Jan Wildenhain, et al.Sarah E. Pierce, Shawn Hoon, William Lee, Michael Proctor, St, Mike Tyers, Daphne Koller, Russ B. Altman, Ronald W. Davis, Corey Nislow, Guri Giaever posted to fitness phenotype yeast by rdowell on 2009-04-03 16:59:31 as along with 17 people and 1 group daveGerrard bpcusack jdoconnell lawraga ajbattle sschurer ocs emptyhb tmmurali nfreed bala lp2 roys stajich chasmand guhjy raiyar Mycology
	Acetylation of Foxo1 alters its DNA-binding ability and sensitivity to phosphorylation [My Copy] Proceedings of the National Academy of Sciences of the United States of America, Vol. 102, No. 32. (2005), pp. 11278-11283. by Hitomi Matsuzaki, Hiroaki Daitoku, Mitsutoki Hatta, Hisanori Aoyama, Kenji Yoshimochi, Akiyoshi Fukamizu posted to acetylation tf by rdowell on 2009-03-06 21:56:52 as
	Acetylation of cAMP-responsive Element-binding Protein (CREB) by CREB-binding Protein Enhances CREB-dependent Transcription [My Copy] J. Biol. Chem., Vol. 278, No. 18. (25 April 2003), pp. 15727-15734. by Qing Lu, Amanda E. Hutchins, Colleen M. Doyle, James R. Lundblad, Roland P. Kwok posted to acetylation tf by rdowell on 2009-03-06 21:56:34 as
	Acetylation Regulates Transcription Factor Activity at Multiple Levels [My Copy] Molecular Cell, Vol. 5, No. 4. (April 2000), pp. 745-751. by E. Soutoglou, N. Katrakili, I. Talianidis posted to acetylation tf by rdowell on 2009-03-06 21:55:59 as
	Meta-analysis of small RNA-sequencing errors reveals ubiquitous post-transcriptional RNA modifications. [My Copy] Nucleic acids research, Vol. 37, No. 8. (1 May 2009), pp. 2461-2470. by H. Alexander Ebhardt, Herbert H. Tsang, Denny C. Dai, Yifeng Liu, Babak Bostan, Richard P. Fahlman posted to errors modifications ncrna rna-seq by rdowell on 2009-03-04 14:25:29 as along with 6 people and 1 group fishtank inesdesantiago gdb samgj ppgardne rs Journal picks
	A canonical promoter organization of the transcription machinery and its regulators in the Saccharomyces genome [My Copy] Genome Research, Vol. 19, No. 3. (4 March 2009), pp. 360-371. by Bryan J. Venters, B. Franklin Pugh posted to transcription yeast by rdowell on 2009-03-03 20:29:56 as along with 6 people and 1 group venancio TheresaNiederberger cisevol inesdesantiago idonaldson JustinCrocker BergmanLab
	Cell Lineages and the Logic of Proliferative Control [My Copy] PLoS Biology, Vol. 7 (xx 2009) by Arthur Lander, Kimberly Gokoffski, Frederic Wan, Qing Nie, Anne Calof posted to control-theory modeling by rdowell on 2009-02-06 15:09:28 as
	Long-range chromosomal interactions and gene regulation [My Copy] Molecular BioSystems, Vol. 4 (xx 2008) by Adriana Miele, Job Dekker posted to file-import-09-02-06 nuclear by rdowell on 2009-02-06 15:09:28 as
	Biogenesis of the Signal Recognition Particle (SRP) Involves Import of SRP Proteins into the Nucleolus, Assembly with the SRP-RNA, and Xpo1p-mediated Export [My Copy] The Journal of Cell Biology, Vol. 153 (xx 2001) by Helge Grosshans, Karina Deinert, Ed Hurt, George Simos posted to file-import-09-02-06 srp by rdowell on 2009-02-06 15:09:27 as
	Recent progress in understanding thiamin biosynthesis and its genetic regulation in Saccharomyces cerevisiae [My Copy] Applied Microbiology and Biotechnology, Vol. 72 (xx 2006) by Kazuto Nosaka posted to file-import-09-02-06 thiamin by rdowell on 2009-02-06 15:09:27 as
	Predicting Gene Essentiality Using Genome-Scale in Silico Models [My Copy] Microbial Gene Essentiality: Protocols and Bioinformatics (Methods in Microbiology), Vol. 416 (xx 2008), pp. 433-457. by Andrew Joyce, Bernhard o posted to fba file-import-09-02-06 by rdowell on 2009-02-06 15:09:27 as
	The growing scope of applications of genome-scale metabolic reconstructions using Escherichia coli [My Copy] Nature Biotechnology, Vol. 26 (xx 2008) by Adam Feist, Bernhard Palsson posted to file-import-09-02-06 modeling by rdowell on 2009-02-06 15:09:27 as
	Roles of cis- and trans-Changes in the Regulatory Evolution of Genes in the Gluconeogenic Pathway in Yeast [My Copy] Molecular Biology and Evolution, Vol. 25 (xx 2008) by Ya W. Chang, Fu G. Liu, Ning Yu, et al.Huang M. Sung, Peggy Yang, Daryi Wang, Chih J. Huang, Ming C. Shih, Wen H. Li posted to file-import-09-02-06 regulation by rdowell on 2009-02-06 15:09:27 as
	Expression evolution in yeast genes of single-input modules is mainly due to changes in trans-acting factors [My Copy] Genome Research, Vol. 17 (xx 2007) by Daryi Wang, Huang M. Sung, Tzi Y. Wang, et al.Chih J. Huang, Peggy Yang, Tiffany Chang, Yang C. Wang, Da L. Tseng, Jen P. Wu, Tso C. Lee, Ming C. Shih, Wen H. Li posted to file-import-09-02-06 regulation by rdowell on 2009-02-06 15:09:27 as
	Region of Flo1 Proteins Responsible for Sugar Recognition [My Copy] The Journal of Bacteriology, Vol. 180 (Dec 1998), pp. 6503-6510. by Osamu Kobayashi, Nobuyuki Hayashi, Ryota Kuroki, Hidetaka Sone posted to file-import-09-02-06 lg-flo1 by rdowell on 2009-02-06 15:09:27 as
	Modelling and analysis of gene regulatory networks [My Copy] Nature Reviews Mollecular Cell Bioloty, Vol. 9 (Oct 2008), pp. 770-780. by Guy Karlebach, Ron Shamir posted to file-import-09-02-06 regulation by rdowell on 2009-02-06 15:09:26 as
	What would you do if you could sequence everything? [My Copy] Nature Biotechnology, Vol. 26 (Oct 2008), pp. 1125-1133. by Avak Kahvejian, John Quackenbush, John Thompson posted to commentary file-import-09-02-06 by rdowell on 2009-02-06 15:09:26 as
	Bayesian models of cognition. [My Copy] by Thomas L. Griffiths, Charles Kemp, Joshua B. Tenenbaum posted to file-import-09-02-06 model probabilistic by rdowell on 2009-02-06 15:09:26 as
	Science, Strong Inference -- Proper Scientific Method (The New Baconians) [My Copy] Science Magazine, Vol. 146 by John Platt posted to advice file-import-09-02-06 by rdowell on 2009-02-06 15:09:26 as
	Genetic Dissection of Transcriptional Regulation in Budding Yeast [My Copy] Science., Vol. 296 (Apr 2002), pp. 752-755. by Rachel B. Brem, Gaël Yvert, Rebecca Clinton, Leonid Kruglyak posted to file-import-09-02-06 rm11-1 by rdowell on 2009-02-06 15:09:26 as
	The Diploid Genome Sequence of an Individual Human [My Copy] PLoS Biology, Vol. 5 (Oct 2007) by Samuel Levy, Granger Sutton, Pauline C. Ng, et al.Lars Feuk, Aaron L. Halpern, Brian P. Walenz, Nelson Axelrod, Jiaqi Huang, Ewen F. Kirkness, Gennady Denisov, Yuan Lin, Jeffrey R. Macdonald, Andy, Mary Shago, Timothy B. Stockwell, Alexia Tsiamouri, Vineet Bafna, Vikas Bansal, Saul A. Kravitz, Dana A. Busam, Karen Y. Beeson, Tina C. Mcintosh, Karin A. Remington, Josep F. Abril, John Gill, Jon Borman, Yu H. Rogers, Marvin E. Frazier, Stephen W. Scherer, Robert L. Strausberg, Craig J. Venter posted to file-import-09-02-06 venter-genome by rdowell on 2009-02-06 15:09:26 as
	Positive Feedback Regulates Switching of Phosphate Transporters in S. cerevisiae [My Copy] Molecular Cell, Vol. 27 (xx 2007) by Dennis Wykoff, Abbas Rizvi, Jonathan Raser, Brian Margolin, Erin O'Shea posted to file-import-09-02-06 spl2 by rdowell on 2009-02-06 15:09:26 as
	A Catalog of Neutral and Deleterious Polymorphism in Yeast [My Copy] PLoS Genetics, Vol. 4 (xx 2008) by Scott Doniger, Hyun Kim, Devjanee Swain, et al.Daniella Corcuera, Morgan Williams, Shiaw P. Yang, Justin Fay posted to file-import-09-02-06 strains by rdowell on 2009-02-06 15:09:26 as
	Genomic Screen for Vacuolar Protein Sorting Genes in Saccharomyces cerevisiae [My Copy] Molecular Biology of the Cell, Vol. 13 (xx 2002) by Cecilia Bonangelino, Edna Chavez, Juan Bonifacino posted to cpy file-import-09-02-06 by rdowell on 2009-02-06 15:09:26 as
	Structured Statistical Models of Inductive Reasoning [My Copy] Psycological Review by Charles Kemp, Joshua Tenenbaum posted to file-import-09-02-06 inductive by rdowell on 2009-02-06 15:09:26 as
	Whole-Genome Alignments and Polytopes for Comparative Genomics [My Copy] EECS Department University of California, Berkeley Technical Report No. UCB/EECS-2006-104 (Aug 2006) by Colin Dewey posted to file-import-09-02-06 msa by rdowell on 2009-02-06 15:09:26 as
	Segment-based multiple sequence alignment [My Copy] Bioinformatics, Vol. 24 (xx 2008) by Tobias Rausch, Anne K. Emde, David Weese, Andreas Doring, Cedric Notredame, Knut Reinert posted to file-import-09-02-06 msa by rdowell on 2009-02-06 15:09:26 as
	What are decision trees? [My Copy] Nature Biotechnology, Vol. 26 (xx 2008) posted to decision-trees file-import-09-02-06 by rdowell on 2009-02-06 15:09:26 as
	Network-based prediction of human tissue-specific metabolism. [My Copy] Nature biotechnology, Vol. 26 (Aug 2008), pp. 1003-1010. by Tomer Shlomi, Moran N. Cabili, Markus J. Herrg\aard, Bernhard, Eytan Ruppin posted to file-import-09-02-06 metabolic-network network by rdowell on 2009-02-06 15:09:26 as
	Activation of the Phosphatidylinositol 3-Kinase Vps34 by a G Protein \\$\\\α\\$ Subunit at the Endosome [My Copy] Cell, Vol. 126 (xx 2006) by Janna Slessareva, Sheri Routt, Brenda Temple, Vytas Bankaitis, Henrik Dohlman posted to file-import-09-02-06 vps by rdowell on 2009-02-06 15:09:26 as
	Genetic Determinants of Mitochondrial Response to Arsenic in Yeast Saccharomyces cerevisiae [My Copy] Cancer Research, Vol. 67 (xx 2007) by Marija Vujcic, Meghna Shroff, Keshav Singh posted to arsenic file-import-09-02-06 by rdowell on 2009-02-06 15:09:26 as
	RNA-seq: An assessment of technical reproducibility and comparison with gene expression arrays [My Copy] Genome Research, Vol. 18 (xx 2008) by John Marioni, Christopher Mason, Shrikant Mane, Matthew Stephens, Yoav Gilad posted to comparison file-import-09-02-06 by rdowell on 2009-02-06 15:09:26 as
	Chromatin decouples promoter threshold from dynamic range [My Copy] Nature, Vol. 453 (xx 2008) by Felix Lam, David Steger, Erin O'Shea posted to file-import-09-02-06 pho by rdowell on 2009-02-06 15:09:26 as
	Designer deletion strains derived fromSaccharomyces cerevisiae S288C: A useful set of strains and plasmids for PCR-mediated gene disruption and other applications [My Copy] Yeast, Vol. 14 (xx 1998) by Carrie Brachmann, Adrian Davies, Gregory Cost, et al.Emerita Caputo, Joachim Li, Philip Hieter, Jef Boeke posted to file-import-09-02-06 strains by rdowell on 2009-02-06 15:09:26 as
	A chromatin-mediated mechanism for specification of conditional transcription factor targets [My Copy] Nature Genetics, Vol. 38 (xx 2006) by Michael Buck, Jason Lieb posted to chromatin file-import-09-02-06 by rdowell on 2009-02-06 15:09:25 as
	Colloquium Papers: Genomic analysis of the hierarchical structure of regulatory networks [My Copy] Proceedings of the National Academy of Sciences of the United States of America, Vol. 103 (Oct 2006), pp. 14724-14731. by Haiyuan Yu, Mark Gerstein posted to file-import-09-02-06 regulation by rdowell on 2009-02-06 15:09:25 as
	Genetic networks for the functional study of genomes [My Copy] Briefings in Functional Genomics and Proteomics (xx 2008) by Antonio Pisabarro, Gumer Pérez, José Lavín, Lucía Ramírez posted to file-import-09-02-06 network by rdowell on 2009-02-06 15:09:25 as
	Reconstructing dynamic regulatory maps [My Copy] Molecular Systems Biology, Vol. 3 (Jan 2007) by Jason Ernst, Oded Vainas, Christopher Harbison, Itamar Simon, Ziv B. Joseph posted to file-import-09-02-06 regulation by rdowell on 2009-02-06 15:09:25 as
	Discovery of biological networks from diverse functional genomic data [My Copy] Genome Biology, Vol. 6 (xx 2005) by Chad Myers, Drew Robson, Adam Wible, et al.Matthew Hibbs, Camelia Chiriac, Chandra Theesfeld, Kara Dolinski, Olga Troyanskaya posted to file-import-09-02-06 model probabilistic by rdowell on 2009-02-06 15:09:25 as
	From the Cover: A genome-wide view of the spectrum of spontaneous mutations in yeast [My Copy] Proceedings of the National Academy of Sciences, Vol. 105 (xx 2008) by Michael Lynch, Way Sung, Krystalynne Morris, et al.Nicole Coffey, Christian Landry, Erik Dopman, W. Dickinson, Kazufusa Okamoto, Shilpa Kulkarni, Daniel Hartl, W. Thomas posted to file-import-09-02-06 mutation-rate by rdowell on 2009-02-06 15:09:25 as
	Integrated Genomic and Proteomic Analyses of a Systematically Perturbed Metabolic Network [My Copy] Science., Vol. 292 (May 2001), pp. 929-934. by T. Ideker, V. Thorsson, J. A. Ranish, et al.R. Christmas, J. Buhler, J. K. Eng, R. Bumgarner, D. R. Goodlett, R. Aebersold, L. Hood posted to file-import-09-02-06 metabolic-network by rdowell on 2009-02-06 15:09:25 as
	A walk-through of the yeast mating pheromone response pathway [My Copy] Peptides, Vol. 26 (xx 2005) by Lee Bardwell posted to file-import-09-02-06 phermone-response yeast by rdowell on 2009-02-06 15:09:25 as
	The Frequency Dependence of Osmo-Adaptation in Saccharomyces cerevisiae [My Copy] Science, Vol. 319 (Jan 2008), pp. 482-484. by Jerome Mettetal, Dale Muzzey, Carlos G. Uribe, Alexander van Oudenaarden posted to file-import-09-02-06 model osmo by rdowell on 2009-02-06 15:09:25 as
	Comparison of transcription regulatory interactions inferred from high-throughput methods: what do they reveal? [My Copy] Trends in Genetics, Vol. 24 (xx 2008) by S. Balaji, Lakshminarayan Iyer, M. Babu, L. Aravind posted to commentary file-import-09-02-06 regulatory transcription by rdowell on 2009-02-06 15:09:25 as
	Cellular reactions to gene dosage imbalance: genomic, transcriptomic and proteomic effects [My Copy] Trends in Genetics, Vol. 24 (xx 2008) by Reiner Veitia, Samuel Bottani, James Birchler posted to dosage-effects file-import-09-02-06 by rdowell on 2009-02-06 15:09:25 as
	From E-MAPs to module maps: dissecting quantitative genetic interactions using physical interactions [My Copy] Molecular Systems Biology, Vol. 4 (xx 2008) by Igor Ulitsky, Tomer Shlomi, Martin Kupiec posted to emaps file-import-09-02-06 interactions by rdowell on 2009-02-06 15:09:25 as

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file-import-09-02-06	230
yeast	35
interactions	14
commentary	13
sigma	13
review	12
network	11
ncrna	9
regulation	8
transcriptome	8
alignment-algorithm	7
metabolism	7
model	7
metabolic-network	6
epistasis	5
fba	5
probabilistic	5
regulatory-network	5
rna	5
srp	5
transcription	5
annotation	4
arsenic	4
emaps	4
genetic	4
networks	4
nucleosome-positioning	4
pho	4
rm11-1	4
strains	4
synthetic-lethal	4
transcription-factor	4
transcripts	4
acetylation	3
bidirectional	3
biotin	3
cfgs	3
deletions	3
elegans	3
flo	3
genefinder	3
interaction	3
interference	3
lethals	3
localization	3
noncoding	3
noncoding-rna	3
protein-protein	3
repeats	3
rna-seq	3
systems-biology	3
tf	3
aad	2
advice	2
alignment	2
array	2
arrays	2
bayesian	2
chromatin	2
coevolution	2
cryptic-orfs	2
cup	2
evolution	2
expression	2
fitness	2
functional-network	2
genepath	2
glimmer	2
haploinsufficiency	2
kegg	2
lg-flo1	2
modeling	2
msa	2
mummer	2
nitrogen	2
peroxisomes	2
perspective	2
phenotype	2
phosphorylation	2
pirnas	2
probabilistic-functional-network	2
regulatory	2
sdc25	2
sga	2
strain	2
transcript	2
vacuole	2
variation	2
affinity-propagation	1
analysis	1
aquaporin	1
aquaporins	1
ash1	1
assembly	1
avid	1
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barcodes	1
binding	1
biogrid	1
biology	1
bistable	1
blastz	1
blat	1
cdna	1
cell-wall-proteins	1
chip	1
chip-chip	1
circuit	1
cis-regulation	1
clustalw	1
comparison	1
conservation	1
control-theory	1
cpy	1
cryptic-genes	1
cryptic-transcripts	1
database	1
decision-trees	1
dehydratase	1
dirichlet-process	1
dnaml	1
dosage-effects	1
duplications	1
ena	1
epigenetic	1
epigenetics	1
eqtls	1
errors	1
eukaryotes	1
factor-graphs	1
filamentation	1
flo8	1
flocculation	1
flo-genes	1
function	1
functional	1
gal	1
gap1	1
gbrowse	1
genealogy	1
gossypii	1
graph-theoretic	1
h3k36	1
hela	1
hepatocytes	1
hepg2	1
heterosis	1
hisg	1
human-disease	1
hxt	1
imprinting	1
inductive	1
jbd	1
khd1	1
kss	1
lagan	1
lincrnas	1
lncrna	1
mal	1
markov-logic	1
mavid	1
methodology	1
microbiome	1
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multiz	1
mutation-rate	1
neutral	1
nft1	1
nitrilase	1
noise-estimate	1
nuclear	1
nuclear-organization	1
nucleosome	1
osmo	1
overexpression	1
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phermone-response	1
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ploidy	1
polii	1
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population	1
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probabilistic-modeling	1
promoters	1
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regression	1
repeatmasker	1
ribosomal-repeats	1
riboswitch	1
riboswitches	1
sankoff	1
sbh2	1
screens	1
secretory	1
serine	1
sgd	1
short-read	1
silencing	1
species	1
spl2	1
structural-rna	1
subtelomere	1
suc	1
synthetic-biology	1
synthetic-rescue	1
systems	1
thermodynamic	1
thiamin	1
tiled-microarray	1
toggle-switch	1
transcriptional-interference	1
transcription-factors	1
trnascan-se	1
venter-genome	1
visualization	1
vps	1
warpdrive	1
ybr012c	1
ybr013c	1
yjl108c	1
yjm	1

rdowell's library 313 articles Export

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