Research Topics
Genomes and Genes | Jing ChenSummaryAffiliation: Cincinnati Children's Hospital Medical Center Country: USA Publications
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Detail Information
Publications
Overstaying their welcome: defective CX3CR1 microglia eyed in macular degenerationJing Chen
Department of Ophthalmology, Children s Hospital Boston, Harvard Medical School, Boston, Massachusetts, USA
J Clin Invest 117:2758-62. 2007..In this issue of the JCI, the study by Combadière and colleagues shows that CX3C chemokine receptor 1-deficient (CX3CR1-deficient) mice have abnormal microglia that accumulate beneath the retina and contribute to the progression of AMD...- Dissecting microregulation of a master regulatory networkAmit U Sinha
Department of Pediatrics, University of Cincinnati College of Medicine, Ohio, USA
BMC Genomics 9:88. 2008..While it has been reported that some of the p53's functions are microRNA-mediated, it is not known as to how many other microRNAs might contribute to the p53-mediated tumorigenesis... - Improved human disease candidate gene prioritization using mouse phenotypeJing Chen
Division of Biomedical Informatics, Cincinnati Children s Hospital Medical Center, Cincinnati, USA
BMC Bioinformatics 8:392. 2007.... - Disease candidate gene identification and prioritization using protein interaction networksJing Chen
Division of Biomedical Informatics, Cincinnati Children s Hospital Medical Center, Cincinnati, OH, USA
BMC Bioinformatics 10:73. 2009..In the current study, we describe a candidate gene prioritization method that is entirely based on protein-protein interaction network (PPIN) analyses... 
Integrative systems biology approaches to identify and prioritize disease and drug candidate genesVivek Kaimal
Division of Biomedical Informatics, Cincinnati Children s Hospital Medical Center, Cincinnati, OH, USA
Methods Mol Biol 700:241-59. 2011..We illustrate the method in detail using examples of two neurodegenerative diseases (Alzheimer's and Parkinson's) and one neuropsychiatric disease (Schizophrenia)...- Identifying disease-causal genes using Semantic Web-based representation of integrated genomic and phenomic knowledgeRanga Chandra Gudivada
Department of Biomedical Engineering, University of Cincinnati, Cincinnati, OH 45229 3039, USA
J Biomed Inform 41:717-29. 2008.... - PhenoHM: human-mouse comparative phenome-genome serverDivya Sardana
Department of Computer Science, University of Cincinnati, Cincinnati, OH, USA
Nucleic Acids Res 38:W165-74. 2010..The PhenoHM server can be accessed freely at http://phenome.cchmc.org... - Loss of the miR-144/451 cluster impairs ischaemic preconditioning-mediated cardioprotection by targeting Rac-1Xiaohong Wang
Department of Pharmacology and Cell Biophysics, University of Cincinnati College of Medicine, Cincinnati, OH 45267 0575, USA
Cardiovasc Res 94:379-90. 2012..While a wealth of data has uncovered distinct microRNA (miR) expression alterations in hypertrophic and ischaemic/reperfused (I/R) hearts, little is known about miR regulation and response to ischaemic preconditioning (IPC)... - ToppGene Suite for gene list enrichment analysis and candidate gene prioritizationJing Chen
Department of Environmental Health, University of Cincinnati, Cincinnati, OH, USA
Nucleic Acids Res 37:W305-11. 2009..ToppGene ranked 19 of 20 (95%) candidate genes within the top 20%, while ToppNet ranked 12 of 16 (75%) candidate genes among the top 20%... - GenomeTrafac: a whole genome resource for the detection of transcription factor binding site clusters associated with conventional and microRNA encoding genes conserved between mouse and human gene orthologsAnil G Jegga
Division of Biomedical Informatics, Cincinnati Children s Hospital Medical Center, Cincinnati, OH 45229, USA
Nucleic Acids Res 35:D116-21. 2007.... - PolyDoms: a whole genome database for the identification of non-synonymous coding SNPs with the potential to impact diseaseAnil G Jegga
Division of Biomedical Informatics, Cincinnati Children s Hospital Medical Center, Cincinnati, OH 45229, USA
Nucleic Acids Res 35:D700-6. 2007..PolyDoms will continue to be curated to improve its usefulness... - Aging exacerbates depressive-like behavior in mice in response to activation of the peripheral innate immune systemJonathan P Godbout
Department of Molecular Virology, Immunology and Medical Genetics, Institute for Behavioral Medicine, The Ohio State University, Columbus, OH, USA
Neuropsychopharmacology 33:2341-51. 2008..These results provide the first evidence that age-associated reactivity of the brain cytokine system could play a pathophysiological role in the increased prevalence of depression observed in the elderly... - Identification of a NF-κB cardioprotective gene program: NF-κB regulation of Hsp70.1 contributes to cardioprotection after permanent coronary occlusionMichael E Wilhide
Department of Pharmacology and Cell Biophysics, University of Cincinnati College of Medicine, Cincinnati, OH 45267 0575, USA
J Mol Cell Cardiol 51:82-9. 2011..The significance of the research is that understanding the gene network regulated by NF-κB after ischemic insult may lead to identification of therapeutic targets more appropriate for clinical development... - MicroRNA-494 targeting both proapoptotic and antiapoptotic proteins protects against ischemia/reperfusion-induced cardiac injuryXiaohong Wang
Department of Pharmacology and Cell Biophysics, University of Cincinnati College of Medicine, 231 Albert Sabin Way, Cincinnati, OH 45267 0575, USA
Circulation 122:1308-18. 2010..Recently, we and others observed that miR-494 was downregulated in murine I/R-injured and human infarcted hearts. However, the functional consequence of miR-494 in response to I/R remains unknown... - Oral benzo[a]pyrene-induced cancer: two distinct types in different target organs depend on the mouse Cyp1 genotypeZhanquan Shi
Department of Environmental Health and Center for Environmental Genetics, University of Cincinnati Medical Center, Cincinnati, OH 45267 0056, USA
Int J Cancer 127:2334-50. 2010..This oral BaP mouse paradigm represents an example of "gene-environment interactions" in which the same exposure of carcinogen results in altered target organ and tumor type, as a function of just 1 or 2 globally absent genes... - Identification of IFRD1 as a modifier gene for cystic fibrosis lung diseaseYuanYuan Gu
Division of Molecular Immunology, Cincinnati Children s Hospital Research Foundation and the University of Cincinnati College of Medicine, Cincinnati, Ohio 45229, USA
Nature 458:1039-42. 2009..These data indicate that IFRD1 modulates the pathogenesis of cystic fibrosis lung disease through the regulation of neutrophil effector function... - Genome-wide mapping of allele-specific protein-DNA interactions in human cellsNathaniel D Maynard
Ludwig Institute for Cancer Research, University of California, San Diego, 9500 Gilman Ave, La Jolla, California 92037, USA
Nat Methods 5:307-9. 2008..ChIP-SNP will facilitate the study of mechanisms of allele-specific gene expression... 
Acute lung injury induced by chlorine inhalation in C57BL/6 and FVB/N miceXiaohua Tian
Section of Pulmonary Diseases, Critical Care and Environmental Medicine, Department of Medicine, Tulane University Health Sciences Center, Louisiana, USA
Inhal Toxicol 20:783-93. 2008..Characterization of such responses in these mice will allow testing of therapeutic agents to treat chlorine-induced lung injury...- Identification of SVM-based classification model, synthesis and evaluation of prenylated flavonoids as vasorelaxant agentsXiaowu Dong
ZJU ENS Joint Laboratory of Medicinal Chemistry, College of Pharmaceutical Sciences, Zhejiang University, Hangzhou 310058, China
Bioorg Med Chem 16:8151-60. 2008..Structure-activity relationship (SAR) analysis revealed that flavanone derivatives showed the most potent activities, while flavone and chalcone derivatives exhibited medium activities... - Positive and negative regulatory roles of the WW-like domain in TEL-PDGFbetaR transformationJing Chen
Division of Hematology, Brigham and Women s Hospital, 75 Francis St, Boston, MA 02115, USA
Blood 104:535-42. 2004..Therefore, the WW-like domain in the context of TELPDGFbetaR may have both positive and negative regulatory roles in kinase activation... - Functional reconstruction of rabbit corneal epithelium by human limbal cells cultured on amniotic membraneYiqin Du
Peking University Stem Cell Research Center, Beijing China
Mol Vis 9:635-43. 2003..To investigate the phenotype of fetal and adult human limbal cells cultured on human amniotic membrane and the ability of cultured adult human limbal cells to repair limbal stem cell deficiency in a rabbit model... - Estimate of annual average radon concentration in the normal living area from short-term testsJing Chen
Radiation Protection Bureau, 6302D1, Health Canada, 775 Brookfield Road, Ottawa K1A 1C1, Canada
Health Phys 85:740-4. 2003..The annual average radon level can be estimated by multiplying the result of a short-term screening test with the appropriate estimate factor given in this study... - Mobilization of hematopoietic stem cells during homeostasis and after cytokine exposureJanis L Abkowitz
Department of Medicine, Division of Hematology, University of Washington, Box 357710, Seattle, WA 98195 7710, USA
Blood 102:1249-53. 2003.... - Identification and characterization of a novel human testis-specific Golgi protein, NYD-SP12Min Xu
Laboratory of Reproductive Medicine, Center of Human Functional Genomics, Nanjing Medical University, People s Republic of China
Mol Hum Reprod 9:9-17. 2003..In conclusion, the results suggest that NYD-SP12 is involved in spermatogenesis, and that NYD-SP12-encoded protein might function in the Golgi apparatus... - Association of HLA-DRB1, DQB1 alleles with chronic urticariaJing Chen
Department of Dermatology, Union Hospital, Tongji Medical College, Huangzhong University of Science and Technology, Wuhan 430022, China
J Huazhong Univ Sci Technolog Med Sci 25:354-6. 2005..It was suggested that CU was found strongly associated with HLA-DRB1 * 12, * 0901 and HLA-DQB1 * 05, the former might be the genetic markers for susceptibility to CU, but the latter might play a resistive role... - Neutron fluence-to-dose conversion coefficients for embryo and fetusJing Chen
Radiation Protection Bureau, Health Canada 6302D1, 775 Brookfield Road, Ottawa K1A 1C1, Canada
Radiat Prot Dosimetry 110:693-8. 2004..The results indicate that for neutrons <10 MeV more protection should be given to pregnant women in the first trimester due to the higher absorbed dose per unit neutron fluence to the fetus... - Quantitative gene expression profiling in formalin-fixed, paraffin-embedded tissues using universal bead arraysMarina Bibikova
Genetic Analysis, Illumina, Inc, 9885 Towne Center Drive, San Diego, CA 92121, USA
Am J Pathol 165:1799-807. 2004..The DASL assay system should prove useful for high-throughput expression profiling of archived clinical samples... - "Agouti NOD": identification of a CBA-derived Idd locus on Chromosome 7 and its use for chimera production with NOD embryonic stem cellsJing Chen
The Jackson Laboratory, 600 Main Street, Bar Harbor, Maine 04609 1500, USA
Mamm Genome 16:775-83. 2005..CBALs- Tyr(+)/Lt blastocysts produced approximately 50% live-born mice, of which approximately 11% were chimeric. Presumably because of high genomic instability, no germline transmission was observed... - Radiation quality of photons in small and large receptors--a microdosimetric analysisJing Chen
Radiation Protection Bureau, Health Canada, 775 Brookfield Road, Ottawa K1A 1C1, Canada
Radiat Prot Dosimetry 118:238-42. 2006..The values of y(D) suggest that, for both small and large receptors, conventional X rays should be about twice as effective as gamma rays from 60Co... - Novel leptin receptor mutation in NOD/LtJ mice suppresses type 1 diabetes progression: II. Immunologic analysisChul Ho Lee
The Jackson Laboratory, 600 Main St, Bar Harbor, ME 04609, USA
Diabetes 55:171-8. 2006.... - Variants in mitochondrial tRNAGlu, tRNAArg, and tRNAThr may influence the phenotypic manifestation of deafness-associated 12S rRNA A1555G mutation in three Han Chinese families with hearing lossWie yen Young
Institute of Otolaryngology, Chinese PLA General Hospital, Beijing, China
Am J Med Genet A 140:2188-97. 2006..Therefore, these mtDNA mutations may have a potential modifier role in increasing the penetrance and expressivity of the deafness-associated 12S rRNA A1555G mutation in those Chinese pedigrees... - Transplantation of rat islets transduced with human heme oxygenase-1 gene using adenovirus vectorYongxiang Li
Department of Urology and Center of Renal Transplantation, Shanghai Organ Transplant and Research Center, Shanghai First People s Hospital, China
Pancreas 33:280-6. 2006.... - Identification of two novel DSRAD mutations in two Chinese families with dyschromatosis symmetrica hereditariaJianyun Lu
Department of Dermatology, Third Xiangya Hospital, Central South University, Changsha, Hunan 410013, People s Republic of China
Arch Dermatol Res 298:357-60. 2006..This study should be useful for genetic counseling and prenatal diagnosis for affected families and in expanding the database on DSRAD gene mutations in DSH... - Prohibitin suppresses renal interstitial fibroblasts proliferation and phenotypic change induced by transforming growth factor-beta1Wei Guo
Department of Nephrology, Children s Hospital of Fudan University, 183 Feng Lin Road, Shanghai, 200032, P R China
Mol Cell Biochem 295:167-77. 2007..Therefore, over-expression of PHB suppresses renal interstitial fibroblasts proliferation and cell phenotypic change induced by TGF-beta1, which indicates PHB as a potential therapeutic target to halt the progression of TIF... - Pocket v.2: further developments on receptor-based pharmacophore modelingJing Chen
Beijing National Laboratory for Molecular Sciences, State Key Laboratory for Structural Chemistry of Stable and Unstable Species, College of Chemistry, and Center for Theoretical Biology, Peking University, Beijing 100871, P.R. China
J Chem Inf Model 46:2684-91. 2006..For different proteins accommodating the same ligand, Pocket v.2 gives similar pharmacophore models, which opens the possibility to classify proteins with their binding features... - Novel leptin receptor mutation in NOD/LtJ mice suppresses type 1 diabetes progression: I. Pathophysiological analysisChul Ho Lee
The Jackson Laboratory, 600 Main St, Bar Harbor, ME 04609, USA
Diabetes 54:2525-32. 2005.... - A dynamin-3 spliced variant modulates the actin/cortactin-dependent morphogenesis of dendritic spinesNoah W Gray
Molecular Neuroscience Program and Graduate School, Mayo Clinic, Rochester, MN 55905, USA
J Cell Sci 118:1279-90. 2005.... - Regulation of transcription of the murine gamma-glutamyl hydrolase gene. Delineation of core promoter A and the role of LYF-1, E2F and ETS-1 in determining tumor-specific expressionNaoko Masumoto
Program in Molecular Pharmacology and Experimental Therapeutics, Memorial Sloan Kettering Cancer Center, 1275 York Avenue, New York, NY 10021, USA
Gene 291:169-76. 2002..This is an interesting finding in light of our earlier results which located promoter B and two associated alternates of exon 1 of this gene on chromosome 17...