mtagaya's bioinformatics [106 articles] Export

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	Mapping and quantifying mammalian transcriptomes by RNA-Seq. [My Copy] Nature methods, Vol. 5, No. 7. (30 July 2008), pp. 621-628. by Ali Mortazavi, Brian A. Williams, Kenneth McCue, Lorian Schaeffer, Barbara Wold posted to bioinformatics sequence by mtagaya on 2009-07-22 06:21:32 as along with 39 people and 2 groups jwfoley heliopais juokcho aktas debasis bertelsen idonaldson darian stubrown dswan ewilban1 woodson8 burak jonilaserson inesdesantiago ThomasDOtto n00c GustavoG ghattem vplagnol druvus cfvillalta vmsr poschm dandaman shikin jmcq rschulz lp2 tmcphillips jfr myourshaw megraw GeeSharpMinor caseybrown xingxu guhjy shurjo gdb Bioinformatics SIMR bioinformatics
	TopHat: discovering splice junctions with RNA-Seq [My Copy] Bioinformatics, Vol. 25, No. 9. (1 May 2009), pp. 1105-1111. by Cole Trapnell, Lior Pachter, Steven L. Salzberg posted to bioinformatics sequence by mtagaya on 2009-07-22 04:58:12 as along with 22 people and 2 groups jwfoley heliopais dakelley druvus GustavoLacerda stubrown polivares torfinnnome jmcq jonilaserson gdb guhjy ThomasDOtto n00c ghattem xingxu djkt vplagnol bertelsen natstreet idoerg vmsr BergmanLab SIMR bioinformatics
	Predictions of RNA secondary structure by combining homologous sequence information [My Copy] Bioinformatics, Vol. 25, No. 12. (15 June 2009), pp. i330-338. by Michiaki Hamada, Kengo Sato, Hisanori Kiryu, Toutai Mituyama, Kiyoshi Asai posted to bioinformatics rna by mtagaya on 2009-06-18 01:56:20 as along with 1 person and 1 group AlexBateman Journal picks
	A comparison of siRNA efficacy predictors. [My Copy] Biochemical and biophysical research communications, Vol. 321, No. 1. (13 August 2004), pp. 247-253. by P. Saetrom, O. Snøve posted to bioinformatics rnai sirna by mtagaya on 2009-05-07 07:01:51 as
	Human Splicing Finder: an online bioinformatics tool to predict splicing signals. [My Copy] Nucleic acids research (1 April 2009) by François-Olivier O. Desmet, Dalil Hamroun, Marine Lalande, Gwenaëlle Collod-Béroud, Mireille Claustres, Christophe Béroud posted to bioinformatics exson_skipping by mtagaya on 2009-04-30 08:43:21 as
	ESEfinder: a web resource to identify exonic splicing enhancers [My Copy] Nucl. Acids Res., Vol. 31, No. 13. (1 July 2003), pp. 3568-3571. by Luca Cartegni, Jinhua Wang, Zhengwei Zhu, Michael Q. Zhang, Adrian R. Krainer posted to bioinformatics splicing by mtagaya on 2009-04-20 09:14:58 as
	Automatic detection of exonic splicing enhancers (ESEs) using SVMs [My Copy] BMC Bioinformatics, Vol. 9 (10 September 2008), 369. by Britta Mersch, Alexander Gepperth, Sandor Suhai, Agnes Hotz-Wagenblatt posted to bioinformatics splicing by mtagaya on 2009-04-17 06:30:56 as along with 1 person trevinor
	Prediction of RNA secondary structure using generalized centroid estimators. [My Copy] Bioinformatics (Oxford, England) (18 December 2008) by Michiaki Hamada, Hisanori Kiryu, Kengo Sato, Toutai Mituyama, Kiyoshi Asai posted to bioinformatics rna by mtagaya on 2009-02-09 06:08:57 as along with 1 person cassj
	MicroRNA-mediated feedback and feedforward loops are recurrent network motifs in mammals. [My Copy] Mol Cell, Vol. 26, No. 5. (8 June 2007), pp. 753-767. by J. Tsang, J. Zhu, A. van Oudenaarden posted to bioinformatics microrna ncrna network by mtagaya on 2009-01-06 07:11:16 as along with 4 people and 1 group megraw jfr maralena heliopais microRNA
	Global and Local Architecture of the Mammalian microRNA–Transcription Factor Regulatory Network [My Copy] PLoS Comput Biol, Vol. 3, No. 7. (13 July 2007), e131. by Reut Shalgi, Daniel Lieber, Moshe Oren, Yitzhak Pilpel posted to bioinformatics microrna ncrna network by mtagaya on 2009-01-06 07:07:21 as along with 16 people and 2 groups tonamswish myzhang daforerog jfr andersbj rdiaz sebastien_vigneau ealloza zwang bootsy cabbagezs rahulthadani heliopais ale maralena kevinemamy Bioinformatics microRNA
	Endogenous siRNAs from naturally formed dsRNAs regulate transcripts in mouse oocytes [My Copy] Nature, Vol. 453, No. 7194. (10 April 2008), pp. 539-543. by Toshiaki Watanabe, Yasushi Totoki, Atsushi Toyoda, et al.Masahiro Kaneda, Satomi Kuramochi-Miyagawa, Yayoi Obata, Hatsune Chiba, Yuji Kohara, Tomohiro Kono, Toru Nakano, M. Azim Surani, Yoshiyuki Sakaki, Hiroyuki Sasaki posted to bioinformatics ncrna sirna by mtagaya on 2009-01-06 06:33:47 as along with 7 people jrhill sebastien_vigneau galka8_diploma rschulz eskay gjuggler inesdesantiago
	Topological units of environmental signal processing in the transcriptional regulatory network of Escherichia coli. [My Copy] Proc Natl Acad Sci U S A, Vol. 102, No. 22. (31 May 2005), pp. 7841-7846. by G. Balázsi, A. L. Barabási, Z. N. Oltvai posted to bioinformatics network by mtagaya on 2008-11-21 08:00:24 as along with 3 people schwartzjmc comb aswin
	Network motifs in the transcriptional regulation network of Escherichia coli [My Copy] Nature Genetics, Vol. 31, No. 1. (22 April 2002), pp. 64-68. by Shai S. Shen-Orr, Ron Milo, Shmoolik Mangan, Uri Alon posted to bioinformatics network by mtagaya on 2008-11-21 07:35:13 as along with 18 people and 1 group vtraag sergiun kaarsinogen cswinburne jstajic jjray ssb nickluscombe gurkanbebek jtaylor jayster4 karfunkel blobbybirdman zibuyu maralena hannahrajasingh Borelli ethkim EBI-regulation
	Comment on "Network Motifs: Simple Building Blocks of Complex Networks" and "Superfamilies of Evolved and Designed Networks" [My Copy] Science, Vol. 305, No. 5687. (20 August 2004), 1107c. by Yael Artzy-Randrup, Sarel J. Fleishman, Nir Ben-Tal, Lewi Stone posted to bioinformatics network by mtagaya on 2008-11-20 06:39:16 as along with 6 people and 1 group Katieleonard kaarsinogen camster tmmurali ddahlem watson dbk-lab
	Network Motifs: Simple Building Blocks of Complex Networks [My Copy] Science, Vol. 298, No. 5594. (25 October 2002), pp. 824-827. by R. Milo, S. Shen-Orr, S. Itzkovitz, N. Kashtan, D. Chklovskii, U. Alon posted to bioinformatics network by mtagaya on 2008-11-20 06:38:49 as along with 69 people and 9 groups nurban balabu ocs mjoach makrehchi schwartzjmc poirel tomhebbron arsyed vtraag sergiun fierykylin Akimasa operon dlobo daforerog chasmand wei_tang darian orahcio babakap brewbooks phoenixzxl Md_2007 heliopais kaarsinogen galyardt cswinburne mullonc camster korakot aalibes ChaTo imouthesmp Borelli lfriedl alexg balicea tny ssb wnpx ddahlem cmm donade neveaire griota gurkanbebek jtaylor josepe iris_2001 michaelmampaey rebeccamancy karfunkel lenov Evangelia roys tfogal zibuyu maralena stefanoallesina pbull cmor renatomilani shikin carlk applesnow subhacom i-stevenson ethkim GEB Philosophy_of_Information dbk-lab Blog_and_Wiki_Research kdl FAB-lab ColDyn ADMiRes GeneGo
	Biological impacts and context of network theory. [My Copy] The Journal of experimental biology, Vol. 210, No. Pt 9. (1 May 2007), pp. 1548-1558. by E. Almaas posted to bioinformatics network by mtagaya on 2008-11-18 08:38:28 as along with 12 people and 4 groups chica schwartzjmc diamantis kentz guhjy cmmorel balicea AbnerCYH jwdietrich jaspervoskuilen rsantana wayne7513 MathBio Cybernetics Biomedical_Cybernetics AQUA-FONTIS-Study
	Non-uniform survival rate of heterodimerization links in the evolution of the yeast protein-protein interaction network. [My Copy] PLoS ONE, Vol. 3, No. 2. (2008) by T. Hase, Y. Niimura, T. Kaminuma, H. Tanaka posted to bioinformatics by mtagaya on 2008-11-18 08:33:14 as
	Scale-free networks in cell biology [My Copy] J Cell Sci, Vol. 118, No. 21. (1 November 2005), pp. 4947-4957. by Reka Albert posted to bioinformatics by mtagaya on 2008-11-18 08:21:44 as along with 9 people and 1 group abhishek_tiwari kinop diamantis daforerog guhjy lfriedl wnpx mmt maralena kdl
	Network biology: understanding the cell's functional organization. [My Copy] Nature reviews. Genetics, Vol. 5, No. 2. (February 2004), pp. 101-113. by Albert-László L. Barabási, Zoltán N. Oltvai posted to bioinformatics network by mtagaya on 2008-11-18 08:20:18 as along with 40 people and 10 groups schwartzjmc daforerog fastjoe23 arsyed thepogoman camster snuppepuppan dbk greg guhjy LeightonP hununu felciano mague kuhn textoris rhem1224 lfriedl balajis alexg wnpx jknabe adepace nickluscombe bundschu awooga jdiggans jeremymiller uprock timflutre mikaelhuss gcalda grahamc fishtank jayster4 naegele Evangelia heliopais shikin hryk streptomyces dbk-lab kdl EisenLab TCR_Signaling EBI-regulation SysbioMPI-TCells GeschwindLab generif_paper GeneGo
	Small-scale copy number variation and large-scale changes in gene expression [My Copy] Proceedings of the National Academy of Sciences (22 October 2008) by Yuriy Mileyko, Richard I. Joh, Joshua S. Weitz posted to bioinformatics network by mtagaya on 2008-11-18 07:59:27 as along with 7 people jporternj austin zufar azazello bpcusack ealloza jjray
	Analysis of regulatory network topology reveals functionally distinct classes of microRNAs [My Copy] Nucl. Acids Res. (15 October 2008), gkn712. by Xueping Yu, Jimmy Lin, Donald J. Zack, Joshua T. Mendell, Jiang Qian posted to bioinformatics microrna network by mtagaya on 2008-11-14 06:13:58 as along with 8 people and 2 groups jfr emptyhb ealloza heliopais giovenko samgj pengchy snow_dragon BenosLab microRNA
	Transcription, genomes, function. [My Copy] Trends in genetics : TIG, Vol. 16, No. 9. (September 2000), pp. 409-415. by R. J. Cho, M. J. Campbell posted to bioinformatics by mtagaya on 2008-10-30 09:12:29 as
	Java Treeview--extensible visualization of microarray data. [My Copy] Bioinformatics, Vol. 20, No. 17. (22 November 2004), pp. 3246-3248. by A. J. Saldanha posted to bioinformatics by mtagaya on 2008-10-30 08:27:59 as along with 2 people and 1 group colmryan irenas dbk-lab
	Open source clustering software. [My Copy] Bioinformatics (Oxford, England), Vol. 20, No. 9. (12 June 2004), pp. 1453-1454. by M. J. de Hoon, S. Imoto, J. Nolan, S. Miyano posted to bioinformatics by mtagaya on 2008-10-30 08:26:58 as along with 25 people and 7 groups dakelley rabio klexa oteri arlam ilyashl matterhorn cswinburne macowell davidbroadhurst eme oilcan rahul Ayest balajis piscinero metamerist digisoki wnpx rafamayo atopcu ccr calu karlmicha chad_davis Structural Biology Group TorVergata Fluid-Mechanics-and-Thermal-Science-Research astro SRL Computational_Systems_Biology XMLDataManagement BUiGEM
	PAGE: parametric analysis of gene set enrichment. [My Copy] BMC bioinformatics, Vol. 6 (2005) by Seon-Young Y. Kim, David J. Volsky posted to bioinformatics microarray by mtagaya on 2008-10-30 02:57:50 as along with 9 people and 1 group shikin tonamswish pradeep2005s ealloza jdiggans waghsk srp33 heliopais giovenko BioinfoCIPF
	PID: the Pathway Interaction Database. [My Copy] Nucleic acids research (2 October 2008) by Carl F F. Schaefer, Kira Anthony, Shiva Krupa, et al.Jeffrey Buchoff, Matthew Day, Timo Hannay, Kenneth H H. Buetow posted to bioinformatics pathway by mtagaya on 2008-10-15 04:04:09 as along with 6 people lptolik jfr ajaymalik guhjy dullhunk bootsy
	Inferring microRNA activities by combining gene expression with microRNA target prediction. [My Copy] PLoS ONE, Vol. 3, No. 4. (2008) by C. Cheng, L. M. Li posted to bioinformatics microrna target by mtagaya on 2008-08-11 09:29:41 as along with 5 people and 1 group guhjy heliopais giovenko jfr bootsy microRNA
	A computational screen for mouse signaling pathways targeted by microRNA clusters. [My Copy] RNA (New York, N.Y.), Vol. 14, No. 7. (29 July 2008), pp. 1276-1283. by Jianzhen Xu, Chiwai Wong posted to bioinformatics microrna target by mtagaya on 2008-08-11 09:28:39 as along with 7 people and 1 group heliopais jfr coela guhjy bootsy maralena daforerog microRNA
	Local RNA target structure influences siRNA efficacy: systematic analysis of intentionally designed binding regions. [My Copy] J Mol Biol, Vol. 348, No. 4. (13 May 2005), pp. 883-893. by S. Schubert, A. Grünweller, V. A. Erdmann, J. Kurreck posted to bioinformatics prediction sirna target by mtagaya on 2008-02-25 01:44:39 as
	Efficient siRNA selection using hybridization thermodynamics. [My Copy] Nucleic Acids Res, Vol. 36, No. 2. (February 2008), pp. 640-647. by Z. J. Lu, D. H. Mathews posted to bioinformatics sirna by mtagaya on 2008-02-05 06:03:15 as along with 3 people and 1 group Hosna puranjoy_b guhjy beta
	A fast structural multiple alignment method for long RNA sequences [My Copy] BMC Bioinformatics, Vol. 9 (23 January 2008), 33. by Yasuo Tabei, Hisanori Kiryu, Taishin Kin, Kiyoshi Asai posted to bioinformatics ncrna by mtagaya on 2008-01-28 06:37:55 as along with 2 people Md_2007 zwang
	miRRim: A novel system to find conserved miRNAs with high sensitivity and specificity. [My Copy] RNA (24 October 2007) by Goro Terai, Takashi Komori, Kiyoshi Asai, Taishin Kin posted to bioinformatics mirna by mtagaya on 2007-11-05 07:26:18 as
	Robust Machine Learning Algorithms Predict MicroRNA Genes and Targets. [My Copy] Methods Enzymol, Vol. 427C (2007), pp. 25-49. by Pål Sætrom, Ola Snøve posted to bioinformatics microrna prediction target by mtagaya on 2007-11-02 04:57:55 as along with 1 person and 1 group andersbj microRNA
	Naive Bayes for MicroRNA Target Predictions Machine Learning for MicroRNA Targets. [My Copy] Bioinformatics (8 October 2007) by Malik Yousef, Segun Jung, Andrew V V. Kossenkov, Louise C C. Showe, Michael K K. Showe posted to bioinformatics microrna prediction target by mtagaya on 2007-11-02 04:55:53 as along with 6 people and 1 group ashishanand alessandroparini ealloza cabbagezs heliopais maralena microRNA
	Human microRNA prediction through a probabilistic co-learning model of sequence and structure. [My Copy] Nucleic Acids Res, Vol. 33, No. 11. (2005), pp. 3570-3581. by J. W. Nam, K. R. Shin, J. Han, Y. Lee, V. N. Kim, B. T. Zhang posted to bioinformatics microrna by mtagaya on 2007-11-01 08:57:46 as along with 1 person and 1 group heliopais microRNA
	Comparison of approaches for rational siRNA design leading to a new efficient and transparent method. [My Copy] Nucleic Acids Res (10 April 2007) by Olga Matveeva, Yury Nechipurenko, Leo Rossi, et al.Barry Moore, Pål Sætrom, Aleksey Y Y. Ogurtsov, John F F. Atkins, Svetlana A A. Shabalina posted to bioinformatics sirna by mtagaya on 2007-10-30 06:24:15 as along with 2 people guhjy tardigrade
	Fast Pairwise Structural RNA Alignments by Pruning of the Dynamical Programming Matrix [My Copy] PLoS Comput Biol, Vol. 3, No. 10. (12 October 2007), e193. by Jakob H. Havgaard, Elfar Torarinsson, Jan Gorodkin posted to bioinformatics ncrna by mtagaya on 2007-10-25 01:42:12 as along with 3 people rb_india fabsta elfar
	More complete gene silencing by fewer siRNAs: transparent optimized design and biophysical signature [My Copy] Nucl. Acids Res., Vol. 35, No. 2. (28 January 2007), pp. 433-440. by Istvan Ladunga posted to bioinformatics sirna by mtagaya on 2007-09-21 01:57:28 as along with 2 people puranjoy_b cthachuk
	Novel insights into RNAi off-target effects using C. elegans paralogs. [My Copy] BMC genomics, Vol. 8 (19 April 2007), 106. by Jean-François F. Rual, Niels Klitgord, Guillaume Achaz posted to bioinformatics off-target sirna by mtagaya on 2007-09-21 01:56:29 as along with 3 people and 1 group thegoose2 tharris guhjy C. elegans / WormBase
	Combinatorial RNAi for quantitative protein network analysis. [My Copy] Proc Natl Acad Sci U S A, Vol. 104, No. 16. (17 April 2007), pp. 6579-6584. by O. Sahin, C. Löbke, U. Korf, et al.H. Appelhans, H. Sültmann, A. Poustka, S. Wiemann, D. Arlt posted to bioinformatics sirna by mtagaya on 2007-09-21 01:56:03 as along with 1 person guhjy
	Genome-wide identification of specific oligonucleotides using artificial neural network and computational genomic analysis [My Copy] BMC Bioinformatics, Vol. 8 (22 May 2007), 164. by Chun-Chi Liu, Chin-Chung Lin, Ker-Chau Li, et al.Wen-Shyen E. Chen, Jiun-Ching Chen, Ming-Te Yang, Pan-Chyr Yang, Pei-Chun Chang, Jeremy J. W. Chen posted to bioinformatics sirna by mtagaya on 2007-09-21 01:55:03 as
	The microRNAs of Caenorhabditis elegans [My Copy] Genes & Development, Vol. 17, No. 8. (15 April 2003), pp. 991-1008. by Lee P. Lim, Nelson C. Lau, Earl G. Weinstein, et al.Aliaa Abdelhakim, Soraya Yekta, Matthew W. Rhoades, Christopher B. Burge, David P. Bartel posted to bioinformatics mirna prediction by mtagaya on 2007-09-18 07:41:38 as along with 7 people and 3 groups stharward thegoose2 heliopais tharris eckart_bindewald tardigrade akiezun microRNA C. elegans / WormBase Bioinformatics
	Bio-informatic trends for the determination of miRNA-target interactions in mammals. [My Copy] DNA and cell biology, Vol. 26, No. 5. (May 2007), pp. 353-360. by Jonathon Doran, William M. Strauss posted to bioinformatics microrna prediction target by mtagaya on 2007-09-05 01:28:41 as along with 2 people and 1 group jfr maralena microRNA
	MiPred: classification of real and pseudo microRNA precursors using random forest prediction model with combined features. [My Copy] Nucleic Acids Res (6 June 2007) by Peng Jiang, Haonan Wu, Wenkai Wang, Wei Ma, Xiao Sun, Zuhong Lu posted to bioinformatics mirna ncrna by mtagaya on 2007-07-27 02:38:25 as along with 3 people and 1 group jfr andersbj maralena microRNA
	Prediction of microRNA targets. [My Copy] Drug Discov Today, Vol. 12, No. 11-12. (June 2007), pp. 452-458. by P. Mazière, A. J. Enright posted to bioinformatics microrna ncrna by mtagaya on 2007-05-31 03:36:41 as along with 10 people and 2 groups coldmeadow guhjy jfr tardigrade andersbj lp2 jayster4 ale maralena heliopais Bioinformatics microRNA
	Identification of candidate regulatory sequences in mammalian 3' UTRs by statistical analysis of oligonucleotide distributions [My Copy] BMC Bioinformatics, Vol. 8, No. 1. (24 May 2007), 174. by Davide Cora, Ferdinando Di Cunto, Michele Caselle, Paolo Provero posted to bioinformatics microrna ncrna by mtagaya on 2007-05-29 05:57:29 as along with 4 people and 2 groups andersbj GustavoLacerda bertelsen nuin Bioinformatics microRNA
	Regulatory Circuit of Human MicroRNA Biogenesis. [My Copy] PLoS Comput Biol, Vol. 3, No. 4. (20 April 2007) by Ji Lee, Zhihua Li, Rachel Brower-Sinning, Bino John posted to bioinformatics microrna ncrna by mtagaya on 2007-05-29 05:53:58 as along with 8 people and 2 groups daforerog jfr tardigrade andersbj uz_labu_laimi jayster4 heliopais maralena Bioinformatics microRNA
	Sfold web server for statistical folding and rational design of nucleic acids. [My Copy] Nucleic acids research, Vol. 32, No. Web Server issue. (1 July 2004) by Ye Ding, Chi Yu Y. Chan, Charles E. Lawrence posted to bioinformatics rnai by mtagaya on 2007-05-10 10:20:52 as along with 6 people heliopais ellarond guhjy eckart_bindewald Hosna j_rodriguez
	siRNA Selection Server: an automated siRNA oligonucleotide prediction server. [My Copy] Nucleic Acids Res, Vol. 32, No. Web Server issue. (1 July 2004) by B. Yuan, R. Latek, M. Hossbach, T. Tuschl, F. Lewitter posted to bioinformatics rnai by mtagaya on 2007-05-10 10:19:48 as along with 1 person guhjy
	RNA accessibility prediction: a theoretical approach is consistent with experimental studies in cell extracts. [My Copy] Nucleic Acids Res, Vol. 28, No. 13. (1 July 2000), pp. 2455-2461. by M. Scherr, J. J. Rossi, G. Sczakiel, V. Patzel posted to bioinformatics rna by mtagaya on 2007-05-10 10:15:49 as

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ncrna	343
microrna	226
bioinformatics	106
snorna	70
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mtagaya's bioinformatics [106 articles] Export

mtagaya's tags