plofje's library 55 articles Export

	A new platform linking chromosomal and sequence information. [My Copy] Chromosome Res, Vol. 15, No. 3. (April 2007), pp. 327-340. by Agata Kowalska, Eva Bozsaky, Thomas Ramsauer, et al.Dietmar Rieder, Gabriela Bindea, Thomas Lörch, Zlatko Trajanoski, Peter F. Ambros posted to chromatin motif sequence by plofje on 2007-06-20 12:19:28 as
	Kin recognition in an annual plant [My Copy] Biology letters (2007) by S. A. Dudley, A. L. File posted to plant recognition by plofje on 2007-06-14 07:24:30 as
	Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project [My Copy] Nature, Vol. 447, No. 7146. (14 June 2007), pp. 799-816. posted to analysis encode functional genome human by plofje on 2007-06-14 07:06:30 as along with 30 people and 4 groups balajis bertelsen gderwin polivares Eroslavochka timflutre pengchy raistrick guhjy cmmorel dpollard ilh djkt ramensky joepickrell massivemayhem fishtank Garamonfok jmuhlich bioyang cabbagezs xingxu antonkratz mimulus_99 julianjonker gjuggler drbal maralena ep161302 jasonflannick JLab Bioinformatics EisenLab SorgerLab
	The evolution of gene regulation by transcription factors and microRNAs [My Copy] Nature Reviews Genetics, Vol. 8, No. 2. (01 February 2007), pp. 93-103. by Kevin Chen, Nikolaus Rajewsky posted to gene mirna regulation review by plofje on 2007-04-24 08:27:41 as along with 24 people and 4 groups heliopais guhjy antonkratz qfwills vvoorr aprasad jfr indigoviolet tardigrade andersbj dchughes emilyhare penka cdawson aswin dbikard joepickrell Garamonfok EeHawk3 jayster4 dandaman maralena bootsy robertkofler EisenLab microRNA Nie GIG
	Computational approaches to unveiling ancient genome duplications. [My Copy] Nat Rev Genet, Vol. 5, No. 10. (October 2004), pp. 752-763. by Y. Van de Peer posted to duplication genome by plofje on 2007-04-20 08:37:35 as
	Genome duplication and the origin of angiosperms [My Copy] Trends in Ecology & Evolution, Vol. 20, No. 11. (November 2005), pp. 591-597. by Stefanie De Bodt, Steven Maere, Yves Van de Peer posted to evolution genome by plofje on 2007-04-20 08:35:01 as along with 3 people and 1 group cmm echinotrix timflutre FAB-lab
	AllerTool: a web server for predicting allergenicity and allergic cross-reactivity in proteins. [My Copy] Bioinformatics (6 December 2006) by Zong Hong H. Zhang, Judice L Y L. Koh, Guang Lan L. Zhang, Khar Heng H. Choo, Martti T T. Tammi, Joo Chuan C. Tong posted to prediction allergenicity by plofje on 2007-01-16 09:43:12 as along with 1 person beapen
	Gene discovery and annotation using LCM-454 transcriptome sequencing. [My Copy] Genome Res, Vol. 17, No. 1. (January 2007), pp. 69-73. by S. J. Emrich, W. B. Barbazuk, L. Li, P. S. Schnable posted to genome annotation 454 by plofje on 2007-01-16 09:41:56 as along with 8 people hpaces malcook orzenil guhjy operon usagi-kirin ghattem semrich
	Phylo-VISTA: interactive visualization of multiple DNA sequence alignments. [My Copy] Bioinformatics, Vol. 20, No. 5. (22 March 2004), pp. 636-643. by N. Shah, O. Couronne, L. A. Pennacchio, et al.M. Brudno, S. Batzoglou, E. W. Bethel, E. M. Rubin, B. Hamann, I. Dubchak posted to dna visualization by plofje on 2007-01-05 12:35:17 as
	Identification of novel regulatory modules in dicot plants using expression data and comparative genomics [My Copy] Genome Biology, Vol. 7 (07 November 2006), R103. by Klaas Vandepoele, Tineke Casneuf, Yves Van de Peer posted to comparative expression genomics modules regulatory by plofje on 2006-11-10 15:19:45 as along with 2 people and 1 group druvus kengg Plantandetc
	MicroRNAs and Their Regulatory Roles in Plants. [My Copy] Annu Rev Plant Biol (30 January 2006) by Matthew W W. Jones-Rhoades, David P P. Bartel, Bonnie Bartel posted to mirna plant regulatory role by plofje on 2006-11-07 11:39:35 as along with 6 people and 4 groups heliopais marcius tardigrade andersbj cdawson natstreet microRNA BioinfoCIPF SGU-CIPF GIG
	Computational prediction of miRNAs in Arabidopsis thaliana. [My Copy] Genome Res, Vol. 15, No. 1. (January 2005), pp. 78-91. by A. Adai, C. Johnson, S. Mlotshwa, et al.S. Archer-Evans, V. Manocha, V. Vance, V. Sundaresan posted to arabidopsis mirna prediction by plofje on 2006-11-07 11:37:32 as along with 5 people and 2 groups imouthesmp mortenlindow cdawson braingrind natstreet microRNA GIG
	Elucidation of the Small RNA Component of the Transcriptome [My Copy] Science, Vol. 309, No. 5740. (2 September 2005), pp. 1567-1569. by Cheng Lu, Shivakundan S. Tej, Shujun Luo, Christian D. Haudenschild, Blake C. Meyers, Pamela J. Green posted to arabidopsis rna small by plofje on 2006-11-07 11:14:52 as along with 4 people and 4 groups imouthesmp marcius mortenlindow cdawson microRNA BioinfoCIPF SGU-CIPF GIG
	DNA methylation profiling of human chromosomes 6, 20 and 22. [My Copy] Nat Genet (29 October 2006) by Florian Eckhardt, Joern Lewin, Rene Cortese, et al.Vardhman K K. Rakyan, John Attwood, Matthias Burger, John Burton, Tony V V. Cox, Rob Davies, Thomas A A. Down, Carolina Haefliger, Roger Horton, Kevin Howe, David K K. Jackson, Jan Kunde, Christoph Koenig, Jennifer Liddle, David Niblett, Thomas Otto, Roger Pettett, Stefanie Seemann, Christian Thompson, Tony West, Jane Rogers, Alex Olek, Kurt Berlin, Stephan Beck posted to dna human methylation by plofje on 2006-11-04 06:17:30 as along with 4 people suizifish shigepong epigenetics jo_davies
	Natural selection on human microRNA binding sites inferred from SNP data [My Copy] Nature Genetics, Vol. 38, No. 12. (29 October 2006), pp. 1452-1456. by Kevin Chen, Nikolaus Rajewsky posted to binding_site mirna natural_selection by plofje on 2006-11-04 06:17:07 as along with 13 people and 3 groups emptyhb provero capitall lp2 jfr tardigrade andersbj mtagaya ealloza Garamonfok heliopais bpcusack ramensky Bioinformatics microRNA BioinfoCIPF
	GECO - linear visualization for comparative genomics. [My Copy] Bioinformatics (31 October 2006) by C T T. Kuenne, R Ghai, T Chakraborty, T Hain posted to comparative genomics visualization by plofje on 2006-11-04 05:25:48 as along with 1 person operon
	OmicBrowse: a browser of multidimensional omics annotations. [My Copy] Bioinformatics (31 October 2006) by Tetsuro Toyoda, Yoshiki Mochizuki, Keith Player, Naohiko Heida, Yoshiyuki Sakaki posted to omics visualization by plofje on 2006-11-04 05:24:26 as along with 1 person guhjy
	Complications in mammalian microRNA target prediction. [My Copy] Methods Mol Biol, Vol. 342 (2006), pp. 115-127. by N. R. Smalheiser, V. I. Torvik posted to mirna target by plofje on 2006-11-01 17:44:26 as
	Methodologies for high-throughput expression profiling of microRNAs. [My Copy] Methods Mol Biol, Vol. 342 (2006), pp. 139-157. by P. Einat posted to expression mirna profiling by plofje on 2006-11-01 17:44:13 as
	Gene silencing in vitro and in vivo using intronic microRNAs. [My Copy] Methods Mol Biol, Vol. 342 (2006), pp. 295-312. by S. L. Lin, S. Y. Ying posted to gene intron mirna silencing by plofje on 2006-11-01 14:35:39 as
	Evolution of MicroRNAs. [My Copy] Methods Mol Biol, Vol. 342 (2006), pp. 334-350. by A. Tranzer, P. F. Stadler posted to evolution mirna by plofje on 2006-11-01 14:34:11 as along with 2 people ealloza tardigrade
	The white spot syndrome virus DNA genome sequence. [My Copy] Virology, Vol. 286, No. 1. (20 July 2001), pp. 7-22. by M. C. van Hulten, J. Witteveldt, S. Peters, et al.N. Kloosterboer, R. Tarchini, M. Fiers, H. Sandbrink, R. K. Lankhorst, J. M. Vlak posted to dna genome sequence virus by plofje on 2006-11-01 12:59:15 as
	Complete genome sequence of Lactobacillus plantarum WCFS1. [My Copy] Proc Natl Acad Sci U S A, Vol. 100, No. 4. (18 February 2003), pp. 1990-1995. by M. Kleerebezem, J. Boekhorst, R. van Kranenburg, et al.D. Molenaar, O. P. Kuipers, R. Leer, R. Tarchini, S. A. Peters, H. M. Sandbrink, M. W. Fiers, W. Stiekema, R. M. Lankhorst, P. A. Bron, S. M. Hoffer, M. N. Groot, R. Kerkhoven, M. de Vries, B. Ursing, W. M. de Vos, R. J. Siezen posted to genome lactobacillus sequence by plofje on 2006-11-01 12:59:07 as
	What drives plant stress genes? [My Copy] Trends Plant Sci, Vol. 8, No. 3. (March 2003), pp. 99-102. by M. G. Aarts, M. W. Fiers posted to plant stress by plofje on 2006-11-01 12:58:51 as
	Allermatch, a webtool for the prediction of potential allergenicity according to current FAO/WHO Codex alimentarius guidelines. [My Copy] BMC Bioinformatics, Vol. 5 (16 September 2004) by M. W. Fiers, G. A. Kleter, H. Nijland, A. A. Peijnenburg, J. P. Nap, R. C. van Ham posted to allergenicity potential prediction by plofje on 2006-11-01 12:58:40 as
	Local coexpression domains of two to four genes in the genome of Arabidopsis. [My Copy] Plant Physiol, Vol. 138, No. 2. (June 2005), pp. 923-934. by X. Y. Ren, M. W. Fiers, W. J. Stiekema, J. P. Nap posted to arabidopsis coexpression by plofje on 2006-11-01 12:58:26 as along with 1 person sanchezbuelna
	PRECISE: software for prediction of cis-acting regulatory elements. [My Copy] J Hered, Vol. 96, No. 5. (t 2005), pp. 618-622. by L. M. Trindade, R. van Berloo, M. Fiers, R. G. Visser posted to elements prediction regulatory by plofje on 2006-11-01 12:58:14 as along with 1 person and 1 group indigoviolet EisenLab
	DNAVis: interactive visualization of comparative genome annotations. [My Copy] Bioinformatics, Vol. 22, No. 3. (1 February 2006), pp. 354-355. by M. W. Fiers, H. van de Wetering, T. H. Peeters, J. J. van Wijk, J. P. Nap posted to annotation comparative genome visualization by plofje on 2006-11-01 12:57:52 as along with 1 person orzenil
	The heavy metal hyperaccumulator Thlaspi caerulescens expresses many species-specific genes, as identified by comparative expressed sequence tag analysis [My Copy] New Phytologist, Vol. 170, No. 4. (June 2006), pp. 753-766. by Diana Rigola, Mark Fiers, Emanuela Vurro, Mark G. Aarts posted to heavy-metal thlaspi by plofje on 2006-11-01 12:57:40 as
	In plants, highly expressed genes are the least compact. [My Copy] Trends Genet, Vol. 22, No. 10. (October 2006), pp. 528-532. by X. Y. Ren, O. Vorst, M. W. Fiers, W. J. Stiekema, J. P. Nap posted to expression gene plant by plofje on 2006-11-01 12:55:31 as along with 1 person and 1 group cisevol BergmanLab
	Many novel mammalian microRNA candidates identified by extensive cloning and RAKE analysis. [My Copy] Genome Res (5 September 2006) by Eugene Berezikov, Geert van Tetering, Mark Verheul, et al.Jose van de Belt, Linda van Laake, Joost Vos, Robert Verloop, Marc van de Wetering, Victor Guryev, Shuji Takada, Anton Jan van Zonneveld, Hiroyuki Mano, Ronald Plasterk, Edwin Cuppen posted to mirna rake by plofje on 2006-11-01 12:53:22 as along with 6 people and 1 group galka8_diploma jfr mortenlindow andersbj mtagaya ilh microRNA
	MicroRNAs and other small RNAs enriched in the Arabidopsis RNA-dependent RNA polymerase-2 mutant. [My Copy] Genome Res (5 September 2006) by Cheng Lu, Karthik Kulkarni, Frédéric F F. Souret, et al.Ramesh Muthuvalliappan, Shivakundan Singh S. Tej, R Scott S. Poethig, Ian R R. Henderson, Steven E E. Jacobsen, Wenzhong Wang, Pamela J J. Green, Blake C C. Meyers posted to arabidopsis mirna mutant rdrp by plofje on 2006-11-01 12:52:36 as along with 5 people and 2 groups natstreet tardigrade mortenlindow andersbj cdawson microRNA GIG
	Origins and impact of constraints in evolution of gene families [My Copy] Genome Research, Vol. 16, No. 12. (19 December 2006), pp. 1529-1536. by Boris E. Shakhnovich, Eugene V. Koonin posted to evolution family gene by plofje on 2006-11-01 12:51:11 as along with 2 people operon BioNica
	Community annotation: Procedures, protocols, and supporting tools. [My Copy] Genome Res (25 October 2006) by Christine G G. Elsik, Kim C C. Worley, Lan Zhang, et al.Natalia V V. Milshina, Huaiyang Jiang, Justin T T. Reese, Kevin L L. Childs, Anand Venkatraman, C Michael M. Dickens, George M M. Weinstock, Richard A A. Gibbs posted to annotation community genome by plofje on 2006-11-01 12:47:00 as along with 2 people and 1 group indigoviolet brant EisenLab
	Prediction of trans-antisense transcripts in Arabidopsis thaliana [My Copy] Genome Biology, Vol. 7 (13 October 2006), R92. by Huan Wang, Nam-Hai Chua, Xiu-Jie Wang posted to antisense arabidopsis trans transcripts by plofje on 2006-11-01 12:18:34 as along with 3 people and 1 group natstreet cdawson dandaman GIG
	Gene function classification using Bayesian models with hierarchy-based priors [My Copy] BMC Bioinformatics, Vol. 7 (12 October 2006), 448. by Babak Shahbaba, Radford M. Neal posted to bayesian function gene by plofje on 2006-11-01 12:06:45 as along with 1 person bayes
	Genepi: a blackboard framework for genome annotation [My Copy] BMC Bioinformatics, Vol. 7 (12 October 2006), 450. by Stephane Descorps-Declere, Danielle Ziebelin, Francois Rechenmann, Alain Viari posted to annotation genome by plofje on 2006-11-01 12:06:13 as
	Imagene: an integrated computer environment for sequence annotation and analysis. [My Copy] Bioinformatics, Vol. 15, No. 1. (January 1999), pp. 2-15. by C. Médigue, F. Rechenmann, A. Danchin, A. Viari posted to annotation automated pipeline by plofje on 2006-11-01 11:25:21 as along with 1 person and 1 group jeremymiller GeschwindLab
	The accuracy of several multiple sequence alignment programs for proteins [My Copy] BMC Bioinformatics, Vol. 7, No. 1. (24 October 2006), 471. by Paulo Nuin, Zhouzhi Wang, Elisabeth Tillier posted to alignment multiple protein sequence by plofje on 2006-11-01 11:09:52 as along with 11 people torfinnnome natstreet BioNica daforerog druvus treangen winterschlaefer viktor21614 gjuggler tny rabio
	CGAT: a comparative genome analysis tool for visualizing alignments in the analysis of complex evolutionary changes between closely related genomes [My Copy] BMC Bioinformatics, Vol. 7 (24 October 2006), 472. by Ikuo Uchiyama, Toshio Higuchi, Ichizo Kobayashi posted to analysis comparative genome visualization by plofje on 2006-11-01 11:08:49 as
	Bayesian search of functionally divergent protein subgroups and their function specific residues. [My Copy] Bioinformatics (26 July 2006) by Pekka Marttinen, Jukka Corander, Petri Törönen, Liisa Holm posted to bayesian function prediction by plofje on 2006-11-01 11:05:42 as along with 2 people Terkko wnpx
	Prediction of mRNA polyadenylation sites by support vector machine. [My Copy] Bioinformatics, Vol. 22, No. 19. (1 October 2006), pp. 2320-2325. by Y. Cheng, R. M. Miura, B. Tian posted to mrna polya svn by plofje on 2006-11-01 11:05:24 as
	PYCHEM: a multivariate analysis package for python. [My Copy] Bioinformatics, Vol. 22, No. 20. (15 October 2006), pp. 2565-2566. by R. M. Jarvis, D. Broadhurst, H. Johnson, N. M. O'Boyle, R. Goodacre posted to analysis python statistics by plofje on 2006-11-01 11:00:06 as along with 1 person bertelsen
	Mining frequent stem patterns from unaligned RNA sequences. [My Copy] Bioinformatics (Oxford, England), Vol. 22, No. 20. (15 October 2006), pp. 2480-2487. by M. Hamada, K. Tsuda, T. Kudo, T. Kin, K. Asai posted to pattern rna stem by plofje on 2006-11-01 10:58:29 as along with 6 people and 3 groups timhubbard marcius tardigrade andersbj samal dquest microRNA BioinfoCIPF SGU-CIPF
	Robust method for detecting differential gene expression in twin studies. [My Copy] Bioinformatics (10 October 2006) by Alexander Begun posted to differential expression gene twin by plofje on 2006-11-01 10:57:04 as along with 2 people shigepong klo
	Identifying cis-regulatory modules by combining comparative and compositional analysis of DNA. [My Copy] Bioinformatics (10 October 2006) by Nora Pierstorff, Casey M M. Bergman, Thomas Wiehe posted to comparative dna motif regulatory by plofje on 2006-11-01 10:56:44 as along with 3 people and 1 group dpollard SeungjoonOh csdhwang EisenLab
	KGraph: a system for visualizing and evaluating complex genetic associations. [My Copy] Bioinformatics (10 October 2006) by Reagan J J. Kelly, Douglas M M. Jacobsen, Yan V V. Sun, Jennifer A A. Smith, Sharon L R L. Kardia posted to association genetic visualization by plofje on 2006-11-01 10:55:03 as along with 2 people Ayest maralena
	Significant sequence similarities in promoters and precursors of Arabidopsis thaliana non-conserved microRNAs. [My Copy] Bioinformatics (10 August 2006) by Yu Wang, Tobias Hindemitt, Klaus F X F. Mayer posted to arabidopsis mirna promoter by plofje on 2006-11-01 10:42:24 as along with 2 people and 1 group tardigrade andersbj microRNA
	MMM: a sequence-to-structure alignment protocol. [My Copy] Bioinformatics, Vol. 22, No. 21. (1 November 2006), pp. 2691-2692. by B. K. Rai, C. J. Madrid-Aliste, J. E. Fajardo, A. Fiser posted to alignment sequence structure by plofje on 2006-11-01 10:42:02 as
	iFold: a platform for interactive folding simulations of proteins. [My Copy] Bioinformatics, Vol. 22, No. 21. (1 November 2006), pp. 2693-2694. by S. Sharma, F. Ding, H. Nie, et al.D. Watson, A. Unnithan, J. Lopp, D. Pozefsky, N. V. Dokholyan posted to folding protein by plofje on 2006-11-01 10:40:50 as along with 1 person and 8 groups shantanu structural_bioinformatics MathBio Biostatistics Bioinformatics microRNA Computational_Systems_Biology EvolutionaryComputation Computational-Neurobiology

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mirna	11
genome	10
visualization	6
arabidopsis	6
gene	6
prediction	5
sequence	5
comparative	5
annotation	5
protein	4
dna	4
regulatory	4
expression	4
plant	4
evolution	3
motif	3
analysis	3
allergenicity	2
human	2
function	2
rna	2
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bayesian	2
alignment	2
structure	2
folding	2
genomics	2
functional	1
thlaspi	1
transcripts	1
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twin	1
rdrp	1
ncrna	1
small	1
python	1
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mutant	1
mrna	1
r	1
silencing	1
regulation	1
community	1
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pipeline	1
genetic	1
lactobacillus	1
stress	1
modules	1
profiling	1
coexpression	1
svn	1
trans	1
omics	1
454	1
differential	1
heavy-metal	1
ontology	1
intron	1
statistics	1
virus	1
target	1
review	1
promoter	1
family	1
multiple	1
pattern	1
methylation	1
encode	1
recognition	1
natural_selection	1
polya	1
elements	1
antisense	1
stem	1
rake	1
chromatin	1

plofje's library 55 articles Export

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