raiyar's bioinformatics [43 articles] Export

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	Analyzing gene expression data in terms of gene sets: methodological issues [My Copy] Bioinformatics, Vol. 23, No. 8. (15 April 2007), pp. 980-987. by Jelle J. Goeman, Peter Buhlmann posted to analysis bioinformatics example expression statistics technique by raiyar on 2008-12-16 14:06:11 as along with 17 people and 3 groups srp33 bertelsen jperkins ptrobajo VGreiff tonamswish ipark-kaist aramesh2 ydhwang shikin ghattem jfr ealloza shigepong heliopais guhjy diging_data SIMR bioinformatics BioinfoCIPF BTS-PT-AS-CS
	Chemical Substructures that Enrich for Biological Activity. [My Copy] Bioinformatics (Oxford, England) (11 September 2008) by Justin Klekota, Frederick P P. Roth posted to analysis bioinformatics chemgen by raiyar on 2008-11-06 10:54:45 as along with 6 people Yanno zimbo1 dullhunk thanatos higueruelo massivemayhem
	Rapid identification of PAX2/5/8 direct downstream targets in the otic vesicle by combinatorial use of bioinformatics tools [My Copy] Genome Biology, Vol. 9, No. 10. (2008) by Mirana Ramialison, Baubak Bajoghli, Narges Aghaallaei, et al.Laurence Ettwiller, Sylvain Gaudan, Beate Wittbrodt, Thomas Czerny, Joachim Wittbrodt posted to bioinformatics genomics interest regulation textmining by raiyar on 2008-10-02 13:29:18 as along with 1 person cisstem
	An assessment of software solutions for the analysis of mass spectrometry based quantitative proteomics data. [My Copy] Journal of proteome research, Vol. 7, No. 1. (January 2008), pp. 51-61. by Lukas N. Mueller, Mi-Youn Y. Brusniak, D. R. Mani, Ruedi Aebersold posted to analysis bioinformatics methodspaper proteomics review by raiyar on 2008-04-11 15:56:56 as along with 6 people alyssaporter robert guhjy nedwards olberd nuin
	KEGG for linking genomes to life and the environment. [My Copy] Nucleic acids research, Vol. 36, No. Database issue. (11 January 2008), pp. D480-484. by Minoru Kanehisa, Michihiro Araki, Susumu Goto, et al.Masahiro Hattori, Mika Hirakawa, Masumi Itoh, Toshiaki Katayama, Shuichi Kawashima, Shujiro Okuda, Toshiaki Tokimatsu, Yoshihiro Yamanishi posted to bioinformatics db genomics interaction metabolic methodspaper prediction systems tool by raiyar on 2008-04-11 13:29:06 as along with 29 people sjcockell JeremyZucker jperkins vkwn pablocarb VGreiff mqbphcw3 karinlag robert85 peterli jjray schwartzjmc ubcg08l allysonlister YukaH Cortel coela daforerog reyez namunet irenas guhjy barriot renatomilani shung hpaces massivemayhem natstreet TheresaNiederberger
	Reactome: a knowledge base of biologic pathways and processes. [My Copy] Genome biology, Vol. 8, No. 3. (16 March 2007), R39. by Imre Vastrik, Peter D'Eustachio, Esther Schmidt, et al.Geeta Joshi-Tope, Gopal Gopinath, David Croft, Bernard de Bono, Marc Gillespie, Bijay Jassal, Suzanna Lewis, Lisa Matthews, Guanming Wu, Ewan Birney, Lincoln Stein posted to bioinformatics db interaction metabolic methodspaper tool by raiyar on 2008-04-11 13:25:41 as along with 14 people neilswainston peterli bertelsen aramesh2 dolchan shikin fgibson reyez guhjy dragonrez jfr balajis toshiaki_katayama AlexanderPico
	JCat: a novel tool to adapt codon usage of a target gene to its potential expression host. [My Copy] Nucleic Acids Res, Vol. 33, No. Web Server issue. (1 July 2005) by A. Grote, K. Hiller, M. Scheer, et al.R. Münch, B. Nörtemann, D. C. Hempel, D. Jahn posted to analysis bioinformatics sgtcnih tool by raiyar on 2008-03-19 14:40:20 as
	Computational prediction of subcellular localization. [My Copy] Methods Mol Biol, Vol. 390 (2007), pp. 429-466. by K. Nakai, P. Horton posted to bioinformatics localization methodspaper mitochondria prediction by raiyar on 2008-02-22 12:47:55 as
	Comparative assessment of large-scale data sets of protein-protein interactions. [My Copy] Nature, Vol. 417, No. 6887. (23 May 2002), pp. 399-403. by Christian von Mering, Roland Krause, Berend Snel, et al.Michael Cornell, Stephen G. Oliver, Stanley Fields, Peer Bork posted to bioinformatics ht integration interaction methodspaper yeast by raiyar on 2008-02-22 12:21:03 as along with 24 people and 6 groups nzm lawraga semin camster barry dragonrez bicko lfriedl chad_davis alexg j3xucite bundschu yeastyboy ruvido grahamc iris_2001 cmor shu Evangelia shikin Pao-Yang carlk cerca ethkim dbk-lab structural_bioinformatics kdl Bioinformatics generif_paper GeneGo
	MitoProt, a Macintosh application for studying mitochondrial proteins. [My Copy] Comput Appl Biosci, Vol. 11, No. 4. (August 1995), pp. 441-447. by M. G. Claros posted to bioinformatics localization methodspaper mitochondria prediction by raiyar on 2008-02-22 10:12:26 as
	Predotar: A tool for rapidly screening proteomes for <B><I>N</I></B>-terminal targeting sequences [My Copy] PROTEOMICS, Vol. 4, No. 6. (2004), pp. 1581-1590. by Ian Small, Nemo Peeters, Fabrice Legeai, Claire Lurin posted to bioinformatics localization methodspaper mitochondria prediction by raiyar on 2008-02-22 10:10:50 as
	WoLF PSORT: protein localization predictor. [My Copy] Nucleic Acids Res, Vol. 35, No. Web Server issue. (July 2007) by P. Horton, K. J. Park, T. Obayashi, et al.N. Fujita, H. Harada, C. J. Adams-Collier, K. Nakai posted to bioinformatics localization methodspaper mitochondria prediction by raiyar on 2008-02-22 10:09:32 as
	PSORT: a program for detecting sorting signals in proteins and predicting their subcellular localization. [My Copy] Trends Biochem Sci, Vol. 24, No. 1. (January 1999), pp. 34-36. by K. Nakai, P. Horton posted to basis bioinformatics localization methodspaper mitochondria prediction by raiyar on 2008-02-22 10:07:57 as
	MITOPRED: a web server for the prediction of mitochondrial proteins. [My Copy] Nucleic Acids Res, Vol. 32, No. Web Server issue. (1 July 2004) by C. Guda, P. Guda, E. Fahy, S. Subramaniam posted to bioinformatics human methodspaper mitochondria prediction yeast by raiyar on 2008-02-22 10:03:41 as
	Broad network-based predictability of S. cerevisiae gene loss-of-function phenotypes [My Copy] Genome Biology, Vol. 8, No. 12. (2007) by Kriston Mcgary, Insuk Lee, Edward Marcotte posted to bioinformatics complex_trait disease genomics methodspaper model mutant network prediction yeast by raiyar on 2008-02-18 11:01:55 as along with 6 people benjaminsb jiny cjeans biomcgary barriot entropy
	Gene network inference via structural equation modeling in genetical genomics experiments. [My Copy] Genetics, Vol. 178, No. 3. (3 March 2008), pp. 1763-1776. by B. Liu, A. de la Fuente, I. Hoeschele posted to bioinformatics expression model network qtl regulation statistics yeast by raiyar on 2008-02-06 11:39:14 as along with 8 people and 1 group roys Scis0000002 orzenil dpollard xingxu caseybrown smgomez guhjy EisenLab
	Consolidating the set of known human protein-protein interactions in preparation for large-scale mapping of the human interactome [My Copy] Genome Biology, Vol. 6, No. 5. (2005), R40. by Arun Ramani, Razvan Bunescu, Raymond Mooney, Edward Marcotte posted to bioinformatics human interaction methodspaper network prediction textmining by raiyar on 2008-01-28 13:58:50 as along with 19 people and 5 groups fesousa ggallone yaredo setar tmmurali dragonrez okarsligil lfriedl ccots balajis maryee brant opheliav davidandrzej wnpx rlhsiao bundschu mikaelhuss grahamc Complex Networks Jarman Lab kdl Bioinformatics generif_paper
	An improved map of conserved regulatory sites for Saccharomyces cerevisiae [My Copy] BMC Bioinformatics, Vol. 7, No. 1. (7 March 2006), 113. by Kenzie Macisaac, Ting Wang, D. Benjamin Gordon, David Gifford, Gary Stormo, Ernest Fraenkel posted to analysis bioinformatics network regulation sgtcnih yeast by raiyar on 2008-01-16 19:19:26 as along with 9 people roys idonaldson tuck eckart_bindewald cconboy lusk nklee barwil kristallreiner
	SherLoc: high-accuracy prediction of protein subcellular localization by integrating text and protein sequence data. [My Copy] Bioinformatics, Vol. 23, No. 11. (1 June 2007), pp. 1410-1417. by H. Shatkay, A. Höglund, S. Brady, T. Blum, P. Dönnes, O. Kohlbacher posted to bioinformatics integration localization methodspaper prediction textmining by raiyar on 2008-01-07 22:20:45 as along with 2 people ptrobajo mdstobbe
	POCUS: mining genomic sequence annotation to predict disease genes [My Copy] Genome Biology, Vol. 4, No. 11. (2003) by Frances Turner, Daniel Clutterbuck, Colin Semple posted to analysis bioinformatics disease genetic genomics integration methodspaper by raiyar on 2007-12-19 21:15:38 as along with 1 person daforerog
	Reconstruction of a functional human gene network, with an application for prioritizing positional candidate genes. [My Copy] American journal of human genetics, Vol. 78, No. 6. (June 2006), pp. 1011-1025. by L. Franke, H. van Bakel, L. Fokkens, E. D. de Jong, M. Egmont-Petersen, C. Wijmenga posted to bioinformatics disease genomics human interaction methodspaper network parts-list prediction by raiyar on 2007-11-16 13:04:02 as along with 10 people and 1 group eesruiz saket agonzale jfr snuppepuppan guhjy lfriedl tabu samal mmt kdl
	Maximizing the potential of functional genomics. [My Copy] Nat Rev Genet, Vol. 5, No. 3. (March 2004), pp. 190-201. by L. M. Steinmetz, R. W. Davis posted to bioinformatics genomics integration methodspaper review by raiyar on 2007-09-12 21:26:03 as along with 1 group steinmetzlab
	Genome sequencing and comparative analysis of Saccharomyces cerevisiae strain YJM789 [My Copy] Proceedings of the National Academy of Sciences, Vol. 104, No. 31. (31 July 2007), pp. 12825-12830. by Wu Wei, John H. Mccusker, Richard W. Hyman, et al.Ted Jones, Ye Ning, Zhiwei Cao, Zhenglong Gu, Dan Bruno, Molly Miranda, Michelle Nguyen, Julie Wilhelmy, Caridad Komp, Raquel Tamse, Xiaojing Wang, Peilin Jia, Philippe Luedi, Peter J. Oefner, Lior David, Fred S. Dietrich, Yixue Li, Ronald W. Davis, Lars M. Steinmetz posted to bioinformatics genomics yeast yjm789 by raiyar on 2007-08-02 16:15:02 as along with 5 people and 2 groups dbensasson waszak lesander lp2 dmc steinmetzlab Durbin group
	Network analysis of FDA approved drugs and their targets. [My Copy] The Mount Sinai journal of medicine, New York, Vol. 74, No. 1. (April 2007), pp. 27-32. by Avi Ma'ayan, Sherry L. Jenkins, Joseph Goldfarb, Ravi Iyengar posted to analysis bioinformatics compound network by raiyar on 2007-06-27 07:18:07 as along with 2 people and 1 group egonw guhjy steinmetzlab
	Evaluation of predicted network modules in yeast metabolism using NMR-based metabolite profiling. [My Copy] Genome Res, Vol. 17, No. 4. (April 2007), pp. 510-519. by J. G. Bundy, B. Papp, R. Harmston, et al.R. A. Browne, E. M. Clayson, N. Burton, R. J. Reece, S. G. Oliver, K. M. Brindle posted to bioinformatics deletion metabolic_profiling methodspaper model network prediction technique yeast by raiyar on 2007-06-08 09:33:01 as along with 2 people and 1 group fishtank alexg steinmetzlab
	The human disease network [My Copy] Proceedings of the National Academy of Sciences, Vol. 104, No. 21. (22 May 2007), pp. 8685-8690. by Kwang-Il Goh, Michael E. Cusick, David Valle, Barton Childs, Marc Vidal, Albert-LÃ¡szlÃ³ BarabÃ¡si posted to analysis bioinformatics disease genomics integration methodspaper network statistics systems by raiyar on 2007-05-27 00:38:43 as along with 39 people and 9 groups robfsouza bertelsen smichan biomcgary pawelsobko CurAbility Scis0000002 qluo cbforrest daforerog nedwards Dulcinea saket kaarsinogen roys Yanno guhjy aalibes cannin kuhn jfr yas balicea neveaire bundschu grahamc joepickrell leSyl henning dejori xingxu winterschlaefer naegele shoshin shikin nolodie mingzhi carlk yaredo Network Analysis of Genes Regulated in Renal Diseases Biostatistics Computational-Genomics Bioinformatics Neuroscience steinmetzlab ic4 generif_paper GomezLab
	Integrated Genomic and Proteomic Analyses of a Systematically Perturbed Metabolic Network [My Copy] Science, Vol. 292, No. 5518. (4 May 2001), pp. 929-934. by Trey Ideker, Vesteinn Thorsson, Jeffrey A. Ranish, et al.Rowan Christmas, Jeremy Buhler, Jimmy K. Eng, Roger Bumgarner, David R. Goodlett, Ruedi Aebersold, Leroy Hood posted to analysis array bioinformatics deletion expression genomics integration methodspaper model network proteomics systems yeast by raiyar on 2007-05-26 18:25:14 as along with 13 people and 3 groups myzhang rsaito isimpson snuppepuppan BioGeek dragonrez bpb okarsligil opheliav wnpx gurkanbebek thomaskelder shikin Bioinformatics steinmetzlab GeneGo
	High-throughput classification of yeast mutants for functional genomics using metabolic footprinting. [My Copy] Nat Biotechnol, Vol. 21, No. 6. (June 2003), pp. 692-696. by J. Allen, H. M. Davey, D. Broadhurst, et al.J. K. Heald, J. J. Rowland, S. G. Oliver, D. B. Kell posted to analysis bioinformatics defect deletion expression genomics integration metabolic_profiling systems yeast by raiyar on 2007-05-18 16:06:54 as along with 4 people and 3 groups peterli dbk irenas katerinakal streptomyces dbk-lab steinmetzlab
	A functional genomics strategy that uses metabolome data to reveal the phenotype of silent mutations. [My Copy] Nature biotechnology, Vol. 19, No. 1. (January 2001), pp. 45-50. by L. M. Raamsdonk, B. Teusink, D. Broadhurst, et al.N. Zhang, A. Hayes, M. C. Walsh, J. A. Berden, K. M. Brindle, D. B. Kell, J. J. Rowland, H. V. Westerhoff, K. van Dam, S. G. Oliver posted to analysis bioinformatics defect deletion ht integration metabolic_profiling yeast by raiyar on 2007-05-18 16:05:35 as along with 8 people and 3 groups michaelbarton Garth_9145 czeller dbk irenas dullhunk katerinakal JeremyZucker streptomyces dbk-lab steinmetzlab
	Building the power house: recent advances in mitochondrial studies through proteomics and systems biology. [My Copy] Am J Physiol Cell Physiol, Vol. 292, No. 1. (January 2007) by T. D. Vo, B. O. Palsson posted to bioinformatics methodspaper mitochondria proteomics review systems by raiyar on 2007-05-14 16:54:33 as along with 2 people and 1 group guhjy kristen steinmetzlab
	Reconstruction and functional characterization of the human mitochondrial metabolic network based on proteomic and biochemical data. [My Copy] J Biol Chem, Vol. 279, No. 38. (17 September 2004), pp. 39532-39540. by T. D. Vo, H. J. Greenberg, B. O. Palsson posted to bioinformatics flux ht human metabolic_profiling methodspaper mitochondria systems by raiyar on 2007-05-14 14:18:48 as along with 1 person and 1 group kristen steinmetzlab
	The genetic code is nearly optimal for allowing additional information within protein-coding sequences. [My Copy] Genome Res (9 February 2007) by Shalev Itzkovitz, Uri Alon posted to bioinformatics genetic interest by raiyar on 2007-05-14 08:57:03 as along with 10 people and 2 groups kirasato gpalidwor madhadron msierk grahamc raylim Minty gwenknight bpcusack ptrobajo Bioinformatics steinmetzlab
	Multiscale Modeling of Cardiac Cellular Energetics [My Copy] Ann NY Acad Sci, Vol. 1047, No. 1. (1 June 2005), pp. 395-426. by James B. Bassingthwaighte, Howard J. Chizeck, Les E. Atlas, Hong Qian posted to bioinformatics mitochondria model respiration by raiyar on 2007-05-13 13:59:08 as along with 1 group steinmetzlab
	The need for standards, not guidelines, in biological data reporting and sharing. [My Copy] Nature biotechnology, Vol. 24, No. 11. (November 2006), pp. 1369-1373. by Lyle D. Burgoon posted to bioinformatics integration interest review by raiyar on 2007-04-27 11:15:24 as along with 4 people and 1 group daforerog smichan mhucka jfr steinmetzlab
	Systems Biology Toolbox for MATLAB: a computational platform for research in systems biology [My Copy] Bioinformatics, Vol. 22, No. 4. (15 February 2006), pp. 514-515. by Henning Schmidt, Mats Jirstrand posted to bioinformatics model network systems technique by raiyar on 2007-04-26 09:40:20 as along with 3 people and 2 groups joseph_x_zhou julius jrbanga SysbioMPI-TCells steinmetzlab
	Bringing metabolic networks to life: integration of kinetic, metabolic, and proteomic data [My Copy] Theoretical Biology and Medical Modelling, Vol. 3 (15 December 2006), 42. by Wolfram Liebermeister, Edda Klipp posted to bioinformatics flux metabolic methodspaper model network prediction statistics systems technique by raiyar on 2007-04-23 16:54:29 as along with 5 people and 1 group lflorez guhjy wnpx fishtank jrbanga steinmetzlab
	Dynamic modelling and analysis of biochemical networks: mechanism-based models and model-based experiments. [My Copy] Briefings in bioinformatics, Vol. 7, No. 4. (1 December 2006), pp. 364-374. by Natal A. van Riel posted to bioinformatics metabolic model network prediction review systems technique by raiyar on 2007-04-23 15:48:44 as along with 4 people and 1 group bertelsen abhishek_tiwari wnpx fishtank steinmetzlab
	Uncovering transcriptional regulation of metabolism by using metabolic network topology [My Copy] Proceedings of the National Academy of Sciences of the United States of America, Vol. 102, No. 8. (22 February 2005), pp. 2685-2689. by Kiran R. Patil, Jens Nielsen posted to bioinformatics metabolic model network regulation transcription by raiyar on 2007-03-22 12:52:55 as along with 2 people and 1 group kukki alexg steinmetzlab
	Isotopomer analysis of myocardial substrate metabolism: a systems biology approach. [My Copy] Biotechnol Bioeng, Vol. 95, No. 5. (5 December 2006), pp. 972-983. by T. D. Vo, B. O. Palsson posted to bioinformatics metabolic mitochondria model respiration systems by raiyar on 2007-03-21 13:06:49 as along with 1 group steinmetzlab
	Systems analysis of energy metabolism elucidates the affected respiratory chain complex in Leigh's syndrome [My Copy] Molecular Genetics and Metabolism, Vol. 91, No. 1. (May 2007), pp. 15-22. by Thuy D. Vo, Paul, Bernhard O. Palsson posted to bioinformatics disease metabolic methodspaper model network systems by raiyar on 2007-03-21 12:53:19 as along with 1 group steinmetzlab
	Key biology databases go wiki [My Copy] Nature, Vol. 445, No. 7129. (14 February 2007), pp. 691-691. by Jim Giles posted to bioinformatics interest by raiyar on 2007-02-15 10:57:53 as along with 10 people and 6 groups druvus guhjy marcius eweaver kehan grahamc leechuck PunkRock barriot mircea biodiversity_conservation Bioinformatics BioinfoCIPF SGU-CIPF steinmetzlab GrassBase
	Metabolic flux balance analysis and the in silico analysis of Escherichia coli K-12 gene deletions [My Copy] BMC Bioinformatics, Vol. 1, No. 1. (2000), pp. 1-1. by Jeremy S. Edwards, Bernhard O. Palsson posted to parts-list network mutant model genes flux deletion bioinformatics analysis by raiyar on 2007-01-25 11:29:42 as along with 2 people and 2 groups winterstream icases steinmetzlab TNT
	Metabolic modeling of microbial strains in silico. [My Copy] Trends Biochem Sci, Vol. 26, No. 3. (March 2001), pp. 179-186. by M. W. Covert, C. H. Schilling, I. Famili, et al.J. S. Edwards, I. I. Goryanin, E. Selkov, B. O. Palsson posted to systems review network model metabolic integration flux bioinformatics by raiyar on 2007-01-24 17:05:10 as along with 2 people and 2 groups peterli icases steinmetzlab TNT

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mitochondria	161
methodspaper	121
yeast	115
review	90
disease	81
genomics	68
human	54
mtdna	49
network	48
projmt	47
analysis	43
bioinformatics	43
systems	40
genetic	39
prediction	39
basis	38
mutant	38
ht	37
technique	35
integration	34
model	32
localization	31
mitotarget	29
parts-list	28
example	26
interaction	25
proteomics	25
regulation	24
respiration	24
deletion	22
expression	22
metabolic	22
sgtcnih	20
compound	19
interest	19
qtl	19
tool	16
transcription	16
allotopic	15
statistics	14
array	13
atp6	13
goodref	13
litrev	13
personalgenomics	13
complex_trait	12
defect	12
evolution	12
projnarp	12
ros	12
db	11
projmicr	11
ellstalk	10
morphology	10
chemgen	9
mouse	9
drosophila	8
flux	8
metabolic_profiling	8
narp	8
variant	8
genes	7
im	7
mtknockout	7
rescue	7
target	7
aging	6
chlamydomonas	6
medicine	6
tac2	6
atp8	5
barcode	5
cancer	5
ms	5
textmining	5
complex	4
mendelian	4
pharmacogen	4
population	4
ym2008	4
cox2	3
cox3	3
dhla	3
future	3
haploinsufficiency	3
methodspaper2	3
microscopy	3
petite	3
rflp	3
rnai	3
snp	3
therapeutic	3
tiling	3
ts	3
atp9	2
c7	2
condition	2
diauxic	2
hap1	2
phenotype	2
recombinant	2
rha	2
tacqa	2
tap	2
apoptosis	1
berlin	1
clinical	1
cob	1
development	1
diagnosis	1
electom	1
fg2008	1
learning	1
motif	1
pathway	1
quantitative	1
rec	1
recombination	1
resource	1
sl	1
tf	1
toxin	1
translation	1
vector	1
yjm789	1

raiyar's bioinformatics [43 articles] Export

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