maximilianh's cns [31 articles] Export

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	Annotation of cis-regulatory elements by identification, subclassification, and functional assessment of multispecies conserved sequences. [My Copy] Proc Natl Acad Sci U S A, Vol. 102, No. 28. (12 July 2005), pp. 9830-9835. by J. R. Hughes, J. F. Cheng, N. Ventress, et al.S. Prabhakar, K. Clark, E. Anguita, M. De Gobbi, P. de Jong, E. Rubin, D. R. Higgs posted to alignment cns cns-ranking enhancerprediction by maximilianh on 2008-03-05 10:24:56 as along with 1 person olympos
	Chapter 12 Organization of Conserved Elements Near Key Developmental Regulators in Vertebrate Genomes [My Copy] Adv Genet In Long-Range Control of Gene Expression, Vol. 61 (2008), pp. 307-338. by A. Woolfe, G. Elgar posted to cns cns-enhancer inter-cns-distances by maximilianh on 2008-02-21 10:40:57 as along with 1 person sujaikumar
	Human-zebrafish non-coding conserved elements act in vivo to regulate transcription [My Copy] Nucl. Acids Res., Vol. 33, No. 17. (22 September 2005), pp. 5437-5445. by Jordan T. Shin, James R. Priest, Ivan Ovcharenko, et al.Amy Ronco, Rachel K. Moore, Geoffrey C. Burns, Calum A. Macrae posted to cns cns-enhancer-screen enhancer syntenypaper by maximilianh on 2008-01-15 19:53:21 as along with 1 person djkt
	Metrics of sequence constraint overlook regulatory sequences in an exhaustive analysis at phox2b [My Copy] Genome Res. (10 December 2007), gr.6929408. by David M. Mcgaughey, Ryan M. Vinton, Jimmy Huynh, Amr Al-Saif, Michael A. Beer, Andrew S. Mccallion posted to application cns discovery enhancer noalignment notconserved redundancy rennes by maximilianh on 2007-12-13 09:33:28 as along with 2 people brant djkt
	Fine-Tuning Enhancer Models to Predict Transcriptional Targets across Multiple Genomes. [My Copy] PLoS ONE, Vol. 2, No. 11. (2007) by S. Aerts, J. van Helden, O. Sand, B. A. Hassan posted to cns conserved drosophila enhancerprediction scanning by maximilianh on 2007-12-08 15:34:13 as along with 5 people and 1 group operon brant idonaldson barwil isimpson cis-regulatory-evolution
	TFCONES: A database of vertebrate transcription factor-encoding genes and their associated conserved noncoding elements [My Copy] BMC Genomics, Vol. 8 (29 November 2007), 441. by Alison P. Lee, Yuchen Yang, Sydney Brenner, Byrappa Venkatesh posted to cns cns-ranking factors transcription by maximilianh on 2007-12-02 14:16:52 as along with 3 people nklee yevishere guhjy
	Exploring Conservation of Transcription Factor Binding Sites with CONREAL. [My Copy] Methods Mol Biol, Vol. 395 (2007), pp. 437-448. by E. Berezikov, V. Guryev, E. Cuppen posted to alignment cns scanning by maximilianh on 2007-11-29 14:59:05 as along with 1 person nklee
	Web-Based Identification of Evolutionary Conserved DNA cis-Regulatory Elements. [My Copy] Methods Mol Biol, Vol. 395 (2007), pp. 425-436. by P. V. Benos, D. L. Corcoran, E. Feingold posted to alignment cns footprinting scanning by maximilianh on 2007-11-27 13:02:58 as
	Universal patterns of purifying selection at noncoding positions in bacteria. [My Copy] Genome Res (21 November 2007) by Nacho Molina, Erik van Nimwegen posted to binding cns factors by maximilianh on 2007-11-27 08:58:07 as along with 3 people operon aaronsmith ardalby
	Species-specific endogenous retroviruses shape the transcriptional network of the human tumor suppressor protein p53 [My Copy] Proceedings of the National Academy of Sciences (14 November 2007), 0703637104. by Ting Wang, Jue Zeng, Craig B. Lowe, et al.Robert G. Sellers, Sofie R. Salama, Min Yang, Shawn M. Burgess, Rainer K. Brachmann, David Haussler* posted to cns repeated by maximilianh on 2007-11-17 10:02:15 as along with 1 person oelemento
	28-Way vertebrate alignment and conservation track in the UCSC Genome Browser [My Copy] Genome Res. (5 November 2007), gr.6761107. by Webb Miller, Kate Rosenbloom, Ross C. Hardison, et al.Minmei Hou, James Taylor, Brian Raney, Richard Burhans, David C. King, Robert Baertsch, Daniel Blankenberg, Kosakovsky, Anton Nekrutenko, Belinda Giardine, Robert S. Harris, Svitlana Tyekucheva, Mark Diekhans, Thomas H. Pringle, William J. Murphy, Arthur Lesk, George M. Weinstock, Kerstin Lindblad-Toh, Richard A. Gibbs, Eric S. Lander, Adam Siepel, David Haussler, James W. Kent posted to cns ultraconserved by maximilianh on 2007-11-08 17:57:17 as along with 11 people rschulz aprasad dchughes nklee idonaldson fpattyn gjuggler clearbluespring joavah AaronDarling guhjy
	Vertebrate conserved non coding DNA regions have a high persistence length and a short persistence time [My Copy] BMC Genomics, Vol. 8, No. 1. (2007) by Dorota Retelska, Emmanuel Beaudoing, Cedric Notredame, Victor C. Jongeneel, Philipp Bucher posted to cns conserved by maximilianh on 2007-11-06 08:09:34 as along with 2 people and 1 group sujaikumar cisevol cis-regulatory-evolution
	Ultraconserved Regions Encoding ncRNAs Are Altered in Human Leukemias and Carcinomas. [My Copy] Cancer Cell, Vol. 12, No. 3. (September 2007), pp. 215-229. by G. A. Calin, C. G. Liu, M. Ferracin, et al.T. Hyslop, R. Spizzo, C. Sevignani, M. Fabbri, A. Cimmino, E. J. Lee, S. E. Wojcik, M. Shimizu, E. Tili, S. Rossi, C. Taccioli, F. Pichiorri, X. Liu, S. Zupo, V. Herlea, L. Gramantieri, G. Lanza, H. Alder, L. Rassenti, S. Volinia, T. D. Schmittgen, T. J. Kipps, M. Negrini, C. M. Croce posted to cns ncrna ultraconserved by maximilianh on 2007-11-06 08:09:06 as along with 5 people and 1 group galka8_diploma pengchy jfr andersbj fpattyn microRNA
	Identification and Characterization of Cell Type-Specific and Ubiquitous Chromatin Regulatory Structures in the Human Genome. [My Copy] PLoS Genet, Vol. 3, No. 8. (17 August 2007) by Hualin Xi, Hennady P P. Shulha, Jane M M. Lin, et al.Teresa R R. Vales, Yutao Fu, David M M. Bodine, Ronald D G D. McKay, Josh G G. Chenoweth, Paul J J. Tesar, Terrence S S. Furey, Bing Ren, Zhiping Weng, Gregory E E. Crawford posted to cns insulator by maximilianh on 2007-10-23 19:05:27 as along with 6 people and 2 groups caseybrown dchughes sebastien_vigneau zwang cabbagezs eviledv G4ID Genetics-of-Gambling
	Short sequence motifs, overrepresented in mammalian conserved non-coding sequences. [My Copy] BMC genomics, Vol. 8 (18 October 2007), 378. by Simon Minovitsky, Philip Stegmaier, Alexander Kel, Alexey S. Kondrashov, Inna Dubchak posted to cns cns-similarity by maximilianh on 2007-10-23 16:22:38 as
	Early History of Mammals Is Elucidated with the ENCODE Multiple Species Sequencing Data [My Copy] PLoS Genetics, Vol. 3, No. 1. (1 January 2007), e2. by Sergey Nikolaev, Juan I. Montoya-Burgos, Elliott H. Margulies, et al.Nisc C. Program, Jacques Rougemont, Bruno Nyffeler, Stylianos E. Antonarakis posted to cns phylogenomics phylogeny syntenypaper by maximilianh on 2007-10-17 15:46:38 as along with 2 people aprasad Garamonfok
	Dissecting the action of an evolutionary conserved non-coding region on renin promoter activity. [My Copy] Nucleic Acids Res (26 July 2007) by Ralf Mrowka, Andreas Steege, Charlotte Kaps, et al.Hanspeter Herzel, Bernd J J. Thiele, Pontus B B. Persson, Nils Blüthgen posted to cns cns-ranking by maximilianh on 2007-10-09 19:00:42 as along with 1 person sebastien_vigneau
	Ancient duplicated conserved noncoding elements in vertebrates: A genomic and functional analysis. [My Copy] Genome Res (13 March 2006) by Gayle K K. McEwen, Adam Woolfe, Debbie Goode, Tanya Vavouri, Heather Callaway, Greg Elgar posted to cns cns-differences duplicates by maximilianh on 2007-10-08 13:35:01 as along with 4 people and 3 groups dpollard dchughes tabu sujaikumar EisenLab G4ID Genetics-of-Gambling
	Highly conserved non-coding sequences are associated with vertebrate development. [My Copy] PLoS Biol, Vol. 3, No. 1. (January 2005) by A. Woolfe, M. Goodson, D. K. Goode, et al.P. Snell, G. K. McEwen, T. Vavouri, S. F. Smith, P. North, H. Callaway, K. Kelly, K. Walter, I. Abnizova, W. Gilks, Y. J. Edwards, J. E. Cooke, G. Elgar posted to cns cns-enhancer-screen by maximilianh on 2007-10-08 11:22:09 as along with 12 people and 3 groups daveGerrard aprasad diamantis nklee bryankr awoolfe djkt sujaikumar Stew cisevol rrhudson gelgar BergmanLab EisenLab cis-regulatory-evolution
	Identification of novel Regulatory Factor X (RFX) target genes by comparative genomics in Drosophila species [My Copy] Genome Biology, Vol. 8 (17 September 2007), R195. by Anne C. Laurencon, Raphaelle Dubruille, Evgeni Efimenko, et al.Guillaume Grenier, Ryan E. Bissett, Elisabeth Cortier, Vivien Rolland, Peter Swoboda, Benedicte Durand posted to cns conserved genome scanning by maximilianh on 2007-09-26 18:30:23 as along with 3 people and 1 group isimpson thegoose2 tharris C. elegans / WormBase
	Genomic mapping of Suppressor of Hairy-wing binding sites in Drosophila [My Copy] Genome Biology, Vol. 8 (16 August 2007), R167. by Boris Adryan, Gertrud Woerfel, Ian Birch-Machin, et al.Shan Gao, Marie Quick, Lisa Meadows, Steven Russell, Robert White posted to chipchip cns enhancer insulator by maximilianh on 2007-09-26 16:52:07 as
	Large-scale analysis of transcriptional cis-regulatory modules reveals both common features and distinct subclasses [My Copy] Genome Biology, Vol. 8 (05 June 2007), R101. by Long Li, Qianqian Zhu, Xin He, Saurabh Sinha, Marc S. Halfon posted to cns cns-ranking by maximilianh on 2007-09-25 15:14:14 as along with 5 people and 1 group JustinCrocker dpollard lusk cjeans isimpson EisenLab
	Prediction of similarly acting cis-regulatory modules by subsequence profiling and comparative genomics in Drosophila melanogaster and D.pseudoobscura. [My Copy] Bioinformatics (Oxford, England), Vol. 20 (Nov 2004), pp. 2738-2750. by Yonatan Grad, Frederick Roth, Marc Halfon, George Church posted to cns similarity fromconnotea by maximilianh on 2007-09-23 12:59:14 as
	An evolutionary constraint: strongly disfavored class of change in DNA sequence during divergence of cis-regulatory modules. [My Copy] Proceedings of the National Academy of Sciences of the United States of America, Vol. 102 (Aug 2005), pp. 11769-11774. by R. Cameron, Suk Chow, Kevin Berney, et al.Tsz Y. Chiu, Qiu A. Yuan, Alexander Krämer, Argelia Helguero, Andrew Ransick, Mirong Yun, Eric Davidson posted to cns similarity fromconnotea by maximilianh on 2007-09-23 12:59:13 as
	Conservation of RET regulatory function from human to zebrafish without sequence similarity. [My Copy] Science, Vol. 312 (Apr 2006), pp. 276-279. by Shannon Fisher, Elizabeth Grice, Ryan Vinton, Seneca Bessling, Andrew Mccallion posted to cns similarity fromconnotea by maximilianh on 2007-09-23 12:59:12 as
	Evolutionary constraint on Otx2 neuroectoderm enhancers-deep conservation from skate to mouse and unique divergence in teleost [My Copy] Proceedings of the National Academy of Sciences, Vol. 103 (Dec 2006), pp. 19350-19355. by Daisuke Kurokawa, Yusuke Sakurai, Ai Inoue, et al.Rika Nakayama, Nobuyoshi Takasaki, Yoko Suda, Tsutomu Miyake, Chris Amemiya, Shinichi Aizawa posted to cns similarity fromconnotea by maximilianh on 2007-09-23 12:59:12 as
	Parallel evolution of conserved noncoding elements that target a common set of developmental regulatory genes from worms to humans. [My Copy] Genome Biology, Vol. 8 (Feb 2007), pp. 15-15. by Tanya Vavouri, Klaudia Walter, Walter Gilks, Ben Lehner, Greg Elgar posted to cns fromconnotea by maximilianh on 2007-09-23 12:59:12 as
	Thousands of human mobile element fragments undergo strong purifying selection near developmental genes. [My Copy] Proceedings of the National Academy of Sciences of the United States of America, Vol. 104 (May 2007), pp. 8005-8010. by Craig Lowe, Gill Bejerano, David Haussler posted to cns fromconnotea by maximilianh on 2007-09-23 12:59:09 as
	Regulatory conservation of protein coding and miRNA genes in vertebrates: lessons from the opossum genome [My Copy] Genome Biology, Vol. 8 (May 2007), pp. 84-84. by Shaun Mahony, David Corcoran, Eleanor Feingold, Panayiotis Benos posted to cns fromconnotea by maximilianh on 2007-09-23 12:59:08 as
	Rx-Cre, a tool for inactivation of gene expression in the developing retina. [My Copy] Genesis (New York, N.Y. : 2000), Vol. 44 (Aug 2006), pp. 361-363. by Eric Swindell, Travis Bailey, Felix Loosli, et al.Chaomei Liu, Felipe A. Manzanares, Kathleen Mahon, Joachim Wittbrodt, Milan Jamrich posted to cns similarity fromconnotea by maximilianh on 2007-09-23 12:59:07 as
	Statistical information characterization of conserved non-coding elements in vertebrates. [My Copy] Journal of bioinformatics and computational biology, Vol. 5 (Apr 2007), pp. 533-547. by I. Abnizova, K. Walter, R. Boekhorst, G. Elgar, W. Gilks posted to cns fromconnotea by maximilianh on 2007-09-23 12:59:04 as

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fromconnotea	411
motif	171
discovery	124
duplicates	59
scanning	57
synteny	56
enhancer	55
tandem	53
syntenypaper	52
enhancerprediction	43
molecularbiologytechniques	41
combination	36
cns-differences	34
factors	32
cns	31
geneorder	29
cross-species-enhancer	28
noalignment	28
wnt	26
review	23
ncrna	22
conserved	21
phylogenomics	21
alignment	19
phylogeny	18
transcription	18
chipchip	17
promoter	17
ultraconserved	17
notconserved	16
rennes	16
repeated	16
cis-trans	15
otx	15
genome	14
pcr	14
whole	14
cluster	12
enhancerpromotercompatibility	12
insulator	12
disease	11
pwm	11
tools	11
websites	11
chromatin	10
ciona	10
cns-enhancer-screen	10
cns-ranking	10
mirna	10
pwmimprovement	10
randombreakage	10
cns-collaboration	9
dna	9
3dstructure	8
cns-similarity	8
genome-papers	8
pitx	8
promoters	8
application	7
conservation	7
genes	7
genomeregulatoryblocks	7
genomicregulatoryblocks	7
pwmcomparison	7
syntenytools	7
bidirectionalpromoters	6
enhanceosome	6
enhancer-screen	6
enhancer-vertebrate-invertebrate	6
long-range	6
orthology	6
phenotype	6
position	6
promoterprediction	6
redundancy	6
snp	6
comparative	5
enhancer-and-repeats	5
enhancerdistances	5
genecoregulation	5
methylation	5
microrna	5
similarity	5
structure	5
textmining	5
validated	5
antisensetranscription	4
chipseq	4
comparison	4
competition	4
enhancersharing	4
expression	4
footprinting	4
interchromosomal	4
introns	4
otxpaper	4
recognition	4
region	4
silencer	4
wholegenomescanning	4
cionapopulationgenetics	3
coding	3
composition	3
copy-number-variation	3
encode	3
enhancerincodingregion	3
enhancer-prediction	3
evoluation	3
factorclass	3
genometrees	3
go	3
interaction	3
inter-cns-distances	3
matrix	3
mirnaenhancer	3
model-species	3
mutations	3
myarticles	3
ncrnas	3
phylotypicstage	3
promoter-minimal	3
regions	3
regulatory	3
rna-binding	3
syntenyorientation	3
term_recognition	3
tf	3
thermodynamicalmodels	3
trainingset	3
3putr	2
ascidians	2
assayscisregwetlab	2
binding	2
bullshitarticles	2
cellsortingbasedanalysis	2
ciona-gene-annotation	2
cns-database	2
codingconservation	2
core	2
drosophila	2
enhancer-stage-specificity	2
factorinteractions	2
genomiccontext	2
grn	2
histones	2
jshypotheses	2
mammals	2
microarray	2
molecularbiologytools	2
ncrna-long	2
networks	2
of	2
pituitary	2
pluripotency	2
polymorphism	2
prediction	2
protocols	2
pvalue-multiplicity	2
rearrangement	2
regulatory-flexibility	2
replicationorigins	2
site-prediction	2
spacing	2
strengthofmatch	2
tfsynergy	2
ultraconserveddefinition	2
whyconserved	2
applicationbioinf	1
arx	1
autoregulation	1
bioinformatics	1
books	1
cell-cultures	1
ciona-gene-annotations	1
cisregdatabase	1
cns-difference	1
cns-enhance	1
cns-enhancer	1
decoy	1
degeneratesites	1
dlx	1
doublets	1
drosophia	1
drosphila	1
duplicatese	1
element	1
enhancer-contextanalysis	1
factorsclass	1
fastindexing	1
fugu	1
genefamilyfootprinting	1
genemodels	1
generalregulation	1
generegulatorynetworks	1
gibbs	1
grns	1
hmm	1
igh	1
impossible	1
insertionsdeletions	1
intra-primate	1
kernel	1
noaccess	1
nomotif	1
notconservedfunction	1
nucleosome	1
olfactoryreceptors	1
pax6	1
phylogenytools	1
positiveselection	1
primers	1
purificationfromdna	1
sites	1
smarts	1
statistics	1
suppressor	1
syntenypapers	1
transgenesis	1
tr-reviews	1
turnover	1
word	1
writing	1

maximilianh's cns [31 articles] Export

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