dpollard's binding_site [32 articles] Export

Recent papers added to dpollard's library classified by the tag binding_site. You can also see everyone's binding_site.

	Diversity and Complexity in DNA Recognition by Transcription Factors [My Copy] Science, Vol. 324, No. 5935. (26 June 2009), pp. 1720-1723. by Gwenael Badis, Michael F. Berger, Anthony A. Philippakis, et al.Shaheynoor Talukder, Andrew R. Gehrke, Savina A. Jaeger, Esther T. Chan, Genita Metzler, Anastasia Vedenko, Xiaoyu Chen, Hanna Kuznetsov, Chi-Fong Wang, David Coburn, Daniel E. Newburger, Quaid Morris, Timothy R. Hughes, Martha L. Bulyk posted to binding_site in_vitro transcription_factor by dpollard on 2009-05-28 18:08:54 as along with 22 people and 1 group nklee sconlan isimpson jbhiatt daforerog absterga mingzhi galka8_diploma fenghezi TRHvidsten ilyashl cambray rpatward tibbitts siebert JustinCrocker burak aalibes dipenps roys emptyhb tmmurali RockmanLab
	Using DNA duplex stability information for transcription factor binding site discovery. [My Copy] Pac Symp Biocomput (2008), pp. 453-464. by R. Gordân, A. J. Hartemink posted to binding_site biophysical_model method motif_detection prediction transcription_factor by dpollard on 2008-02-01 06:21:41 as along with 1 person and 1 group bootsy EisenLab
	Use of an evolutionary model to provide evidence for a wide heterogeneity of required affinities between transcription factors and their binding sites in yeast. [My Copy] Pac Symp Biocomput (2008), pp. 489-500. by R. W. Lusk, M. B. Eisen posted to affinity binding_site transcription_factor variation yeast by dpollard on 2008-02-01 06:19:08 as along with 3 people and 2 groups lusk maximilianh caseybrown EisenLab cis-regulatory-evolution
	Ancient and Recent Positive Selection Transformed Opioid cis-Regulation in Humans. [My Copy] PLoS Biol, Vol. 3, No. 12. (15 November 2005) by Matthew V V. Rockman, Matthew W W. Hahn, Nicole Soranzo, Fritz Zimprich, David B B. Goldstein, Gregory A A. Wray posted to binding_site cis_regulatory_elements human regulatory_evolution regulatory_polymorphism regulatory_sequence_evolution turnover by dpollard on 2007-12-05 22:55:41 as along with 10 people and 4 groups provero mbj imouthesmp indigoviolet Archaeogenetics happy_manatee djkt mgaldzic cisevol jphekman cube_and_beyond EisenLab CHIP cis-regulatory-evolution
	Detection of the signature of natural selection in humans: evidence from the Duffy blood group locus. [My Copy] Am J Hum Genet, Vol. 66, No. 5. (May 2000), pp. 1669-1679. by M. T. Hamblin, A. Di Rienzo posted to binding_site cis_regulatory_elements regulatory_evolution regulatory_polymorphism regulatory_sequence_evolution turnover by dpollard on 2007-12-05 22:53:19 as along with 2 groups EisenLab cis-regulatory-evolution
	Disruption of a GATA motif in the Duffy gene promoter abolishes erythroid gene expression in Duffy-negative individuals. [My Copy] Nat Genet, Vol. 10, No. 2. (June 1995), pp. 224-228. by C. Tournamille, Y. Colin, J. P. Cartron, C. Le Van Kim posted to binding_site cis_regulatory_elements regulatory_evolution regulatory_polymorphism regulatory_sequence_evolution turnover by dpollard on 2007-12-05 22:51:01 as along with 2 groups EisenLab cis-regulatory-evolution
	Chance caught on the wing: cis-regulatory evolution and the origin of pigment patterns in Drosophila. [My Copy] Nature, Vol. 433, No. 7025. (3 February 2005), pp. 481-487. by N. Gompel, B. Prud'homme, P. J. Wittkopp, V. A. Kassner, S. B. Carroll posted to binding_site cis_regulatory_elements drosophila pigmentation regulatory_evolution regulatory_sequence_evolution turnover by dpollard on 2007-12-05 22:48:37 as along with 7 people and 2 groups athma balabu emilyhare adepace cisevol emptyhb pradiptaray EisenLab cis-regulatory-evolution
	Regulation of Body Pigmentation by the Abdominal-B Hox Protein and Its Gain and Loss in Drosophila Evolution [My Copy] Cell, Vol. 125, No. 7. (30 June 2006), pp. 1387-1399. by Sangyun Jeong, Antonis Rokas, Sean B. Carroll posted to binding_site cis_regulatory_elements pigmentation regulatory_evolution regulatory_sequence_evolution turnover by dpollard on 2007-12-05 22:44:47 as along with 2 people and 2 groups emptyhb emilyhare EisenLab cis-regulatory-evolution
	Nucleotide sequence of an RNA polymerase binding site at an early T7 promoter. [My Copy] Proc Natl Acad Sci U S A, Vol. 72, No. 3. (March 1975), pp. 784-788. by D. Pribnow posted to binding_site cis_regulatory_elements conservation seminal_paper by dpollard on 2007-11-26 00:28:07 as along with 1 group EisenLab
	Turnover of binding sites for transcription factors involved in early Drosophila development. [My Copy] Gene, Vol. 310 (22 May 2003), pp. 215-220. by J. Costas, F. Casares, J. Vieira posted to binding_site cis_regulatory_elements drosophila turnover by dpollard on 2007-11-21 01:22:24 as along with 1 person and 2 groups cisevol EisenLab cis-regulatory-evolution
	Large-Scale Discovery of Promoter Motifs in Drosophila melanogaster [My Copy] PLoS Comput Biol, Vol. 3, No. 1. (19 January 2007), e7. by Thomas A. Down, Casey M. Bergman, Jing Su, Tim J. P. Hubbard posted to binding_site cis_regulatory_elements drosophila motif_detection by dpollard on 2007-11-14 21:19:05 as along with 11 people and 1 group daveGerrard ychromosome timhubbard lusk wowalz indigoviolet dquest SeungjoonOh nklee emptyhb isimpson EisenLab
	Discovery of Regulatory Elements by a Computational Method for Phylogenetic Footprinting [My Copy] Genome Res., Vol. 12, No. 5. (1 May 2002), pp. 739-748. by Mathieu Blanchette, Martin Tompa posted to ab_initio binding_site conservation method prediction by dpollard on 2007-11-01 00:41:11 as along with 7 people and 2 groups wowalz coldmeadow chad_davis balajis lyongu dquest csdhwang EisenLab cis-regulatory-evolution
	Regulatory element detection using correlation with expression. [My Copy] Nat Genet, Vol. 27, No. 2. (February 2001), pp. 167-171. by H. J. Bussemaker, H. Li, E. D. Siggia posted to ab_initio binding_site gene_expression prediction by dpollard on 2007-11-01 00:10:36 as along with 4 people and 2 groups nickluscombe heliopais tvdbulck isimpson EisenLab EBI-regulation
	Distance preferences in the arrangement of binding motifs and hierarchical levels in organization of transcription regulatory information. [My Copy] Nucleic Acids Res, Vol. 31, No. 20. (15 October 2003), pp. 6016-6026. by V. J. Makeev, A. P. Lifanov, A. G. Nazina, D. A. Papatsenko posted to binding_site cis_regulatory_elements drosophila grammar helical_phasing by dpollard on 2007-10-31 22:40:43 as along with 2 people and 2 groups lusk oannes EisenLab Regulomics_UCHSC
	Interaction of Gal repressor with inducer and operator: induction of gal transcription from repressor-bound DNA. [My Copy] Proc Natl Acad Sci U S A, Vol. 94, No. 7. (1 April 1997), pp. 2957-2962. by S. Chatterjee, Y. N. Zhou, S. Roy, S. Adhya posted to binding_site cis_regulatory_elements grammar steric_repression yeast by dpollard on 2007-10-31 21:26:00 as along with 1 group EisenLab
	Incorporating evolution of transcription factor binding sites into annotated alignments. [My Copy] J Biosci, Vol. 32, No. 5. (August 2007), pp. 841-850. by A. S. Bais, S. Grossmann, M. Vingron posted to alignment binding_site conserved method prediction by dpollard on 2007-10-25 02:20:56 as along with 1 person and 2 groups maximilianh EisenLab cis-regulatory-evolution
	Systematic detection of statistically overrepresented DNA motif association rules. [My Copy] Genome Inform, Vol. 17, No. 1. (2006), pp. 124-133. by J. M. Lin, Z. Weng posted to ab_initio binding_site eisen_journal_club method motif_detection prediction round_robin rules venky_presented by dpollard on 2007-06-15 00:04:13 as along with 1 person and 1 group indigoviolet EisenLab
	Regulatory conservation of protein coding and miRNA genes in vertebrates: lessons from the opossum genome [My Copy] Genome Biology, Vol. 8 (16 May 2007), R84. by Shaun Mahony, David L. Corcoran, Eleanor Feingold, Panayiotis V. Benos posted to binding_site cis_regulatory_elements comparative_genomics conservation eisen_journal_club in_depth_suggestion mammal by dpollard on 2007-06-14 23:45:44 as along with 3 people and 2 groups andersbj dorotagospodarczyk maralena EisenLab microRNA
	Binding Site Graphs: A New Graph Theoretical Framework for Prediction of Transcription Factor Binding Sites [My Copy] PLoS Comput Biol, Vol. 3, No. 5. (11 May 2007), e90. by Timothy E. Reddy, Charles DeLisi, Boris E. Shakhnovich posted to ab_initio binding_site eisen_journal_club method motif round_robin venky_presented yeast by dpollard on 2007-06-14 23:38:43 as along with 7 people and 1 group pradiptaray nklee aalibes medic0747 GustavoLacerda mircea marti EisenLab
	Computational annotation of transcription factor binding sites in D. Melanogaster developmental genes. [My Copy] Genome Inform, Vol. 17, No. 2. (2006), pp. 14-24. by V. Narang, W. K. Sung, A. Mittal posted to binding_site cis_regulatory_elements crm drosophila prediction by dpollard on 2007-06-13 22:20:42 as along with 1 group EisenLab
	Determination of local statistical significance of patterns in Markov sequences with application to promoter element identification. [My Copy] J Comput Biol, Vol. 11, No. 1. (2004), pp. 1-14. by H. Huang, M. C. Kao, X. Zhou, J. S. Liu, W. H. Wong posted to ab_initio binding_site eisen_journal_club markov method motif round_robin stuart_presented by dpollard on 2007-06-04 22:47:45 as along with 1 person and 1 group jguinney EisenLab
	Frequent gain and loss of functional transcription factor binding sites. [My Copy] PLoS computational biology, Vol. 3, No. 5. (1 May 2007), e99. by Scott W. Doniger, Justin C. Fay posted to binding_site dynamics eisen_journal_club rich_presented round_robin turnover yeast by dpollard on 2007-06-04 22:33:14 as along with 12 people and 2 groups roys fenghezi lusk JustinCrocker pradiptaray brant sebastien_vigneau zwang maximilianh cisevol xili03 emptyhb EisenLab cis-regulatory-evolution
	SPACER: identification of cis-regulatory elements with non-contiguous critical residues. [My Copy] Bioinformatics, Vol. 23, No. 8. (15 April 2007), pp. 1029-1031. by A. Chakravarty, J. M. Carlson, R. S. Khetani, C. E. DeZiel, R. H. Gross posted to binding_site cis_regulatory_elements clustering method prediction by dpollard on 2007-05-23 01:10:50 as along with 1 group EisenLab
	A stochastic model for the evolution of transcription factor binding site abundance. [My Copy] J Theor Biol (7 March 2007) by Günter P P. Wagner, Wolfgang Otto, Vincent Lynch, Peter F F. Stadler posted to binding_site model turnover by dpollard on 2007-05-23 01:02:56 as along with 3 people and 2 groups thegoose bmajoros cisevol EisenLab cis-regulatory-evolution
	Mining of putative cis-acting elements for chromatin mediated regulation of Hox genes in mammals by in-silico analysis. [My Copy] J Exp Zoolog B Mol Dev Evol (14 March 2007) by Hemant Bengani, Mythily Ganapathi, Gajinder Pal P. Singh, Vani Brahmachari posted to binding_site conserved drosophila hox vertibrates by dpollard on 2007-03-22 23:14:58 as along with 1 person and 1 group blobbybirdman EisenLab
	Prediction of cis-regulatory elements using binding site matrices--the successes, the failures and the reasons for both. [My Copy] Curr Opin Genet Dev, Vol. 15, No. 4. (August 2005), pp. 395-402. by T. Vavouri, G. Elgar posted to binding_site cis_regulatory_elements method motif pattern prediction pwm regulatory_sequence by dpollard on 2007-03-15 00:24:34 as along with 6 people and 2 groups troels_marstrand kaspermunch adepace lusk Stew brant Bioinformatics EisenLab
	Conserved sequences and the evolution of gene regulatory signals. [My Copy] Curr Opin Genet Dev, Vol. 15, No. 6. (December 2005), pp. 628-633. by M. D. Adams posted to binding_site evolution regulatory_sequence transcription_factor turnover variation by dpollard on 2007-03-15 00:22:24 as along with 2 people and 1 group cconboy lusk EisenLab
	Structure-based prediction of C2H2 zinc-finger binding specificity: sensitivity to docking geometry. [My Copy] Nucleic Acids Res (30 January 2007) by Trevor W W. Siggers, Barry Honig posted to affinity binding_site dan_presented eisen_journal_club prediction round_robin structure transcription_factor by dpollard on 2007-02-09 01:34:13 as along with 1 person and 1 group aalibes EisenLab
	Dorsal gradient networks in the Drosophila embryo. [My Copy] Dev Biol, Vol. 246, No. 1. (1 June 2002), pp. 57-67. by A. Stathopoulos, M. Levine posted to gradient binding_site affinity by dpollard on 2007-02-05 20:05:59 as along with 1 person and 1 group dquest EisenLab
	A SNP in a half-binding site creates p53 and estrogen receptor control of VEGFR-1. [My Copy] Mol Cell Biol (22 January 2007) by Daniel Menendez, Alberto Inga, Joyce Snipe, Oliver Krysiak, Gilbert Schönfelder, Michael A A. Resnick posted to transcription polymorphism binding_site by dpollard on 2007-02-01 19:55:01 as along with 1 person and 2 groups cisevol EisenLab cis-regulatory-evolution
	Simultaneous alignment and annotation of cis-regulatory regions. [My Copy] Bioinformatics, Vol. 23, No. 2. (15 January 2007) by A. S. Bais, S. Grossmann, M. Vingron posted to prediction binding_site alignment by dpollard on 2007-02-01 19:45:23 as along with 2 people and 1 group indigoviolet bluto EisenLab
	PhyloScan: Identification of transcription factor binding sites using cross-species evidence [My Copy] Algorithms for Molecular Biology, Vol. 2 (23 January 2007), 1. by Steven C. Carmack, Lee A. Mccue, Lee A. Newberg, Charles E. Lawrence posted to prediction phylogeny comparative binding_site by dpollard on 2007-02-01 19:41:57 as along with 3 people and 1 group dquest lusk nklee EisenLab

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drosophila	119
eisen_journal_club	115
round_robin	94
evolution	71
method	56
cis_regulatory_elements	51
gene	45
prediction	43
expression	40
binding_site	32
transcription	27
alignment	25
yeast	25
review	24
development	22
variation	22
in_depth_suggestion	20
transcription_factor	19
motif	18
phylogeny	18
selection	18
expression_pattern	17
turnover	17
binding	16
genome_architecture	16
polymorphism	16
regulatory_evolution	16
rockman_journal_club	16
adaptive	15
conserved	15
dan_presented	15
network	15
qtl	15
rate	15
gene_expression	14
human	14
modeling	14
devin_presented	13
genome_size	13
noncoding	13
c_elegans	12
colin_presented	12
grammar	12
indels	12
pattern	12
population_genetics	12
chip_chip	11
in_depth	11
promoter	11
rnai	11
embryonic_patterning	10
regulatory_sequence_evolution	10
rich_presented	10
allele-specific	9
association_mapping	9
eqtl	9
expression_divergence	9
insect	9
model	9
ab_initio	8
alignment_accuracy	8
angela_presented	8
duplication	8
mammal	8
regulatory_sequence	8
small_rnas	8
stuart_presented	8
venky_presented	8
adaptation	7
chromatin	7
constraint	7
lab_library	7
matt_presented	7
protein	7
pwm	7
regulation	7
speciation	7
annotation	6
array	6
clustering	6
comparative	6
conservation	6
crm	6
embryo	6
emily_presented	6
epistasis	6
expression_polymorphism	6
regulatory_polymorphism	6
brain	5
enhancer	5
evo_devo	5
insulators	5
motif_detection	5
mutation	5
nucleosome	5
population_structure	5
recombination	5
reconstruction	5
regulatory_network	5
seminal_paper	5
structure	5
system	5
transposable_elements	5
vertebrate	5
bacteria	4
brant_presented	4
chromatin_modification	4
discovery	4
dynamics	4
environment	4
gene_family	4
genome_wide	4
indel	4
insects	4
lenny_presented	4
nervous	4
neuro	4
snps	4
te	4
worms	4
accuracy	3
affinity	3
argonaute	3
cis_vs_trans	3
coactivator	3
comparative_genomics	3
correlation	3
dominance	3
effect_size	3
enhanceosome	3
experimental_evolution	3
fitness	3
genome	3
genome_sequence	3
genomic	3
intergenic	3
mapping	3
mechanism	3
microrna	3
morphological_evolution	3
mouse	3
multiple_alignment	3
nematode	3
neutral	3
noncoding_dna	3
spacing	3
stew_presented	3
test_for_selection	3
tree	3
whole_genome	3
3utr	2
adaptive_evolution	2
association	2
binding_site_alignment	2
bootstrap	2
cis	2
coexpression	2
color_variation	2
complex_trait	2
composition	2
concatonation	2
convergent	2
corepression	2
database	2
divergence_estimation	2
gene_prediction	2
gene_tree	2
germline	2
gradient	2
histone	2
hitchhiking	2
hox	2
hybrid	2
hypersensitive	2
in-depth	2
inversion	2
kenetics	2
length	2
lineage_specific	2
linkage	2
loss	2
meiosis	2
modularity	2
noncoding_rna	2
noncoding_transcription	2
non-essential	2
parameter_estimation	2
pigmentation	2
placticity	2
positive_selection	2
protein_function_evolution	2
proteomics	2
pseudogene	2
purifying	2
repression	2
rna	2
sechellia	2
sequence_specificity	2
specific	2
translation_rate	2
vertibrates	2
website	2
454	1
acid	1
advanced_intercross	1
affy_array	1
americana	1
amino	1
amino_acid	1
anterior_posterior	1
antisense	1
antiviral	1
ap_x_dv	1
assembly	1
background_selection	1
base	1
bee	1
biochemical	1
biophysical_model	1
body	1
bristle	1
browser	1
cgh	1
chimp	1
chimpanzee	1
chip_seq	1
cis_reg_polymorphism	1
cnv	1
co_dominance	1
codon_usage	1
coevolution	1
cofactor	1
cognative_evolution	1
computational	1
concordance	1
cutoff	1
danr_presented	1
data	1
degredation	1
demography	1
detection	1
diffusion	1
disease	1
dnasei	1
dn_ds_ratio	1
domain	1
domains	1
domestication	1
dosage_compensation	1
encode	1
energy_landscape	1
eukaryote	1
even-skipped	1
experimental	1
experssion_pattern	1
extension	1
extrinsic	1
false_positive	1
fish	1
formation	1
fst	1
ftz	1
gc_content	1
genealogy	1
gene_by_environment_interaction	1
gene-expression	1
gene_function_evolution	1
genetic	1
genetic_interactions	1
genetic_screen	1
gene_vs_species_tree	1
genome_structure	1
germ	1
gwas	1
haplotype_inference	1
heart	1
helical_phasing	1
heterogeneity	1
heterotachy	1
horizontal_transfer	1
illumina_beads	1
imprinting	1
inbred_lines	1
in_situ	1
integration	1
interval_mapping	1
intron	1
intron_evolution	1
in_vitro	1
in_vivo	1
karyotype	1
lethality	1
life	1
lineage	1
low_frequency	1
markov	1
massively_parallel_signature_sequencing	1
maternal	1
matrix	1
metazoan	1
micro_array	1
morphology	1
multi-copy	1
multiple_testing	1
mutational_load	1
natural_selection	1
natural_variation	1
neo-y	1
neural	1
next_gen_sequencing	1
noise	1
non-neutral	1
nonstationary	1
not_recommended	1
odorant	1
paleoecology	1
parallel_evolution	1
paralog	1
paralog_divergence	1
phenotype	1
phenotypic_effect	1
physical	1
pirna	1
plan	1
plants	1
post_transcriptional_modification	1
properties	1
protein_dna_interaction	1
qst	1
range	1
rapid	1
regular_expressions	1
response	1
rna_structure	1
rnp	1
rules	1
scaling	1
segmentation	1
semi_dominance	1
sequence_properties	1
sequencing_error	1
sequencing_technology	1
sex	1
short	1
similarity	1
simulation	1
slightly_deleterious_mutations	1
snp	1
solexa	1
sorting	1
specialization	1
sperm	1
splicing	1
steric_repression	1
strains	1
structural_variation	1
substitution_rate_variation	1
symbiont	1
synteny	1
targets	1
theory	1
threshold	1
timing	1
tissue_specific	1
tissue-specific	1
trait_covariance	1
trait_decomposition	1
tree_topology	1
tribolium	1
virilis	1
weak	1
x_inactivation	1
x_vs_autosomes	1
zygotic	1

dpollard's binding_site [32 articles] Export

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