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MAPPFinder: using Gene Ontology and GenMAPP to create a global gene-expression profile from microarray data
Scott W Doniger, Nathan Salomonis, Kam D Dahlquist, Karen Vranizan, Steven C Lawlor, Bruce R Conklin
Genome Biol. 2003; 4(1): R7. Published online 2003 January 6.
PMCID:
PMC151291
Abstract Full Text PDF–139K Supplementary Material
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 Is Cited by the Following 204 Articles in this Archive:
Modeling of Molecular Interaction between Apoptin, BCR-Abl and CrkL - An Alternative Approach to Conventional Rational Drug Design
Soumya Panigrahi, Jörg Stetefeld, Jaganmohan R. Jangamreddy, Soma Mandal, Sanat K. Mandal, Marek Los
PLoS One. 2012; 7(1): e28395. Published online 2012 January 10. doi: 10.1371/journal.pone.0028395
PMCID:
PMC3254606
Abstract Full Text PDF–990K Supplementary Material
The Impact of Focused Gene Ontology Curation of Specific Mammalian Systems
Yasmin Alam-Faruque, Rachael P. Huntley, Varsha K. Khodiyar, Evelyn B. Camon, Emily C. Dimmer, Tony Sawford, Maria J. Martin, Claire O'Donovan, Philippa J. Talmud, Peter Scambler, Rolf Apweiler, Ruth C. Lovering
PLoS One. 2011; 6(12): e27541. Published online 2011 December 9. doi: 10.1371/journal.pone.0027541
PMCID:
PMC3235096
Abstract Full Text PDF–483K Supplementary Material
Transcriptional responses underlying the hormetic and detrimental effects of the plant secondary metabolite gossypol on the generalist herbivore Helicoverpa armigera
Maria de la Paz Celorio-Mancera, Seung-Joon Ahn, Heiko Vogel, David G Heckel
BMC Genomics. 2011; 12: 575. Published online 2011 November 23. doi: 10.1186/1471-2164-12-575
PMCID:
PMC3235194
Abstract Full Text PDF–689K Supplementary Material
Genome-Wide Screen for Differential DNA Methylation Associated with Neural Cell Differentiation in Mouse
Rene Cortese, Jörn Lewin, Liselotte Bäckdahl, Manuel Krispin, Reinhold Wasserkort, Florian Eckhardt, Stephan Beck
PLoS One. 2011; 6(10): e26002. Published online 2011 October 18. doi: 10.1371/journal.pone.0026002
PMCID:
PMC3196508
Abstract Full Text PDF–1.6M Supplementary Material
Differential transcriptomic profiles effected by oil palm phenolics indicate novel health outcomes
Soon-Sen Leow, Shamala Devi Sekaran, Kalyana Sundram, YewAi Tan, Ravigadevi Sambanthamurthi
BMC Genomics. 2011; 12: 432. Published online 2011 August 25. doi: 10.1186/1471-2164-12-432
PMCID:
PMC3175228
Abstract Full Text PDF–2.4M Supplementary Material
Limited redundancy in genes regulated by Cyclin T2 and Cyclin T1
Rajesh Ramakrishnan, Wendong Yu, Andrew P Rice
BMC Res Notes. 2011; 4: 260. Published online 2011 July 26. doi: 10.1186/1756-0500-4-260
PMCID:
PMC3160394
Abstract Full Text PDF–2.1M
g:Profiler—a web server for functional interpretation of gene lists (2011 update)
Jüri Reimand, Tambet Arak, Jaak Vilo
Nucleic Acids Res. 2011 July 1; 39(Web Server issue): W307–W315. Published online 2011 June 6. doi: 10.1093/nar/gkr378
PMCID:
PMC3125778
Abstract Full Text PDF–5.9M
Changes in Gene Expression in Human Meibomian Gland Dysfunction
Shaohui Liu, Stephen M. Richards, Kristine Lo, Mark Hatton, Aaron Fay, David A. Sullivan
Invest Ophthalmol Vis Sci. 2011 April; 52(5): 2727–2740. Published online 2011 April 25. doi: 10.1167/iovs.10-6482
PMCID:
PMC3088560
Abstract Full Text PDF–122K
Identifying Causal Genes and Dysregulated Pathways in Complex Diseases
Yoo-Ah Kim, Stefan Wuchty, Teresa M. Przytycka
PLoS Comput Biol. 2011 March; 7(3): e1001095. Published online 2011 March 3. doi: 10.1371/journal.pcbi.1001095
PMCID:
PMC3048384
Abstract Full Text PDF–793K Supplementary Material
SOD2 Deficient Erythroid Cells Up-Regulate Transferrin Receptor and Down-Regulate Mitochondrial Biogenesis and Metabolism
Florent M. Martin, Xiuling Xu, Katharina von Löhneysen, Timothy J. Gilmartin, Jeffrey S. Friedman
PLoS One. 2011; 6(2): e16894. Published online 2011 February 4. doi: 10.1371/journal.pone.0016894
PMCID:
PMC3033911
Abstract Full Text PDF–1.1M Supplementary Material
Transcription factors expressed in olfactory bulb local progenitor cells revealed by genome-wide transcriptome profiling
Gordon R. O. Campbell, Ariane Baudhuin, Karen Vranizan, John Ngai
Mol Cell Neurosci. Author manuscript; available in PMC 2012 February 1.
Published in final edited form as: Mol Cell Neurosci. 2011 February; 46(2): 548–561. Published online 2010 December 29. doi: 10.1016/j.mcn.2010.12.012
PMCID:
PMC3040421
Abstract Full Text PDF–6.4M Supplementary Material
Toward a complete in silico, multi-layered embryonic stem cell regulatory network
Huilei Xu, Christoph Schaniel, Ihor R. Lemischka, Avi Ma’ayan
Wiley Interdiscip Rev Syst Biol Med. Author manuscript; available in PMC 2010 November 1.
Published in final edited form as: Wiley Interdiscip Rev Syst Biol Med. 2010 Nov–Dec; 2(6): 708–733. doi: 10.1002/wsbm.93
PMCID:
PMC2951283
Abstract Full Text PDF–1.9M
Evidence of aberrant lipid metabolism in hepatitis C and hepatocellular carcinoma
Jian-Min Wu, Nicholas J Skill, Mary A Maluccio
HPB (Oxford) 2010 November; 12(9): 625–636. doi: 10.1111/j.1477-2574.2010.00207.x
PMCID:
PMC2999790
Abstract Full Text PDF–513K
Dynamic interaction networks in a hierarchically organized tissue
Daniel C Kirouac, Caryn Ito, Elizabeth Csaszar, Aline Roch, Mei Yu, Edward A Sykes, Gary D Bader, Peter W Zandstra
Mol Syst Biol. 2010; 6: 417. Published online 2010 October 5. doi: 10.1038/msb.2010.71
PMCID:
PMC2990637
Abstract Full Text PDF–3.1M Supplementary Material
Arsenic- and Cadmium-Induced Toxicogenomic Response in Mouse Embryos Undergoing Neurulation
Joshua F. Robinson, Xiaozhong Yu, Estefania G. Moreira, Sungwoo Hong, Elaine M. Faustman
Toxicol Appl Pharmacol. Author manuscript; available in PMC 2012 January 15.
Published in final edited form as: Toxicol Appl Pharmacol. 2011 January 15; 250(2): 117–129. Published online 2010 September 29. doi: 10.1016/j.taap.2010.09.018
PMCID:
PMC3014392
Abstract Full Text PDF–2.3M Supplementary Material
Efficacy of the Multi-Kinase Inhibitor Enzastaurin is Dependent on Cellular Signaling Context
Wen-Liang Kuo, Jing Liu, Helena Mauceri, Everett E Vokes, Ralph Weichselbaum, Marsha Rich Rosner, Ezra Eddy Wyssam Cohen
Mol Cancer Ther. Author manuscript; available in PMC 2011 October 1.
Published in final edited form as: Mol Cancer Ther. 2010 October; 9(10): 2814–2824. Published online 2010 September 28. doi: 10.1158/1535-7163.MCT-10-0352
PMCID:
PMC2953602
Abstract Full Text PDF–1.6M Supplementary Material
Consistency, comprehensiveness, and compatibility of pathway databases
Donny Soh, Difeng Dong, Yike Guo, Limsoon Wong
BMC Bioinformatics. 2010; 11: 449. Published online 2010 September 7. doi: 10.1186/1471-2105-11-449
PMCID:
PMC2944280
Abstract Full Text PDF–986K
Culture, Immortalization, and Characterization of Human Meibomian Gland Epithelial Cells
Shaohui Liu, Mark P. Hatton, Payal Khandelwal, David A. Sullivan
Invest Ophthalmol Vis Sci. 2010 August; 51(8): 3993–4005. doi: 10.1167/iovs.09-5108
PMCID:
PMC2910637
Abstract Full Text PDF–1.2M
Gene Expression Analysis of Forskolin Treated Basilar Papillae Identifies MicroRNA181a as a Mediator of Proliferation
Corey S. Frucht, Mohamed Uduman, Jamie L. Duke, Steven H. Kleinstein, Joseph Santos-Sacchi, Dhasakumar S. Navaratnam
PLoS One. 2010; 5(7): e11502. Published online 2010 July 9. doi: 10.1371/journal.pone.0011502
PMCID:
PMC2901389
Abstract Full Text PDF–755K Supplementary Material
Transcriptome analysis of monocyte-HIV interactions
Rafael Van den Bergh, Eric Florence, Erika Vlieghe, Tom Boonefaes, Johan Grooten, Erica Houthuys, Huyen Thi Thanh Tran, Youssef Gali, Patrick De Baetselier, Guido Vanham, Geert Raes
Retrovirology. 2010; 7: 53. Published online 2010 June 14. doi: 10.1186/1742-4690-7-53
PMCID:
PMC2900222
Abstract Full Text PDF–1.3M Supplementary Material
Transcriptomic responses in mouse brain exposed to chronic excess of the neurotransmitter glutamate
Xinkun Wang, Xiaodong Bao, Ranu Pal, Abdulbaki Agbas, Elias K Michaelis
BMC Genomics. 2010; 11: 360. Published online 2010 June 7. doi: 10.1186/1471-2164-11-360
PMCID:
PMC2896956
Abstract Full Text PDF–2.6M Supplementary Material
Candidate genes for chromosomes 6 and 10 quantitative trait loci for age-related retinal degeneration in mice
Diego G. Ogando, Kam D. Dahlquist, Mitra Alizadeh, Kannan Kunchithapautham, Jun Li, Nicole Yu, Matthew M. LaVail, Bärbel Rohrer, Douglas Vollrath, Michael Danciger
Mol Vis. 2010; 16: 1004–1018. Published online 2010 June 5.
PMCID:
PMC2890552
Abstract Full Text PDF–2.0M
Epidermal hyperproliferation in mice lacking fatty acid transport protein 4 (FATP4) involves ectopic EGF receptor and STAT3 signaling
Meei-Hua Lin, Kuo-Wei Chang, Shu-Chun Lin, Jeffrey H. Miner
Dev Biol. Author manuscript; available in PMC 2011 August 15.
Published in final edited form as: Dev Biol. 2010 August 15; 344(2): 707–719. Published online 2010 June 1. doi: 10.1016/j.ydbio.2010.05.503
PMCID:
PMC2914132
Abstract Full Text PDF–2.1M Supplementary Material
Induction of neuro-protective/regenerative genes in stem cells infiltrating post-ischemic brain tissue
Gokhan Yilmaz, J Steven Alexander, Cigdem Erkuran Yilmaz, D Neil Granger
Exp Transl Stroke Med. 2010; 2: 11. Published online 2010 May 28. doi: 10.1186/2040-7378-2-11
PMCID:
PMC2893124
Abstract Full Text PDF–1.0M Supplementary Material
The myocardial contractile response to physiological stress improves with high saturated fat feeding in heart failure
Jessica M. Berthiaume, Molly S. Bray, Tracy A. McElfresh, Xiaoqin Chen, Salman Azam, Martin E. Young, Brian D. Hoit, Margaret P. Chandler
Am J Physiol Heart Circ Physiol. 2010 August; 299(2): H410–H421. Published online 2010 May 28. doi: 10.1152/ajpheart.00270.2010
PMCID:
PMC2930388
Abstract Full Text
Ontologies in Quantitative Biology: A Basis for Comparison, Integration, and Discovery
Lars J. Jensen, Peer Bork
PLoS Biol. 2010 May; 8(5): e1000374. Published online 2010 May 25. doi: 10.1371/journal.pbio.1000374
PMCID:
PMC2876043
Full Text PDF–311K
METHYLMERCURY INDUCED TOXICOGENOMIC RESPONSE IN C57 AND SWV MOUSE EMBRYOS UNDERGOING NEURAL TUBE CLOSURE
Joshua F. Robinson, William C. Griffith, Xiaozhong Yu, Sungwoo Hong, Euvin Kim, Elaine M. Faustman
Reprod Toxicol. Author manuscript; available in PMC 2011 September 1.
Published in final edited form as: Reprod Toxicol. 2010 September; 30(2): 284–291. Published online 2010 May 20. doi: 10.1016/j.reprotox.2010.05.009
PMCID:
PMC2924281
Abstract Full Text PDF–3.4M Supplementary Material
Studies on Xenopus laevis intestine reveal biological pathways underlying vertebrate gut adaptation from embryo to adult
Rachel A Heimeier, Biswajit Das, Daniel R Buchholz, Maria Fiorentino, Yun-Bo Shi
Genome Biol. 2010; 11(5): R55. Published online 2010 May 19. doi: 10.1186/gb-2010-11-5-r55
PMCID:
PMC2898076
Abstract Full Text PDF–7.1M Supplementary Material
Keratinocytes Determine Th1 Immunity during Early Experimental Leishmaniasis
Jan M. Ehrchen, Kirsten Roebrock, Dirk Foell, Nadine Nippe, Esther von Stebut, Johannes M. Weiss, Niels-Arne Münck, Dorothee Viemann, Georg Varga, Carsten Müller-Tidow, Hans-Joachim Schuberth, Johannes Roth, Cord Sunderkötter
PLoS Pathog. 2010 April; 6(4): e1000871. Published online 2010 April 29. doi: 10.1371/journal.ppat.1000871
PMCID:
PMC2861693
Abstract Full Text PDF–3.7M Supplementary Material
Benzo[a]pyrene diol epoxide stimulates an inflammatory response in normal human lung fibroblasts through a p53 and JNK mediated pathway
Kristian Dreij, Kahn Rhrissorrakrai, Kristin C. Gunsalus, Nicholas E. Geacintov, David A. Scicchitano
Carcinogenesis. 2010 June; 31(6): 1149–1157. Published online 2010 April 9. doi: 10.1093/carcin/bgq073
PMCID:
PMC2878364
Abstract Full Text PDF–1.2M Supplementary Material
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