Research Topics
Genomes and Genes | Jun MaSummaryAffiliation: Cincinnati Children's Hospital Medical Center Country: USA Publications
Research Grants
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Publications
The activity of the Drosophila morphogenetic protein Bicoid is inhibited by a domain located outside its homeodomainChen Zhao
Division of Developmental Biology, Children s Hospital Research Foundation, University of Cincinnati College of Medicine, 3333 Burnet Avenue, Cincinnati, OH 45229, USA
Development 129:1669-80. 2002....- Actively seeking activating sequencesJun Ma
Division of Developmental Biology, Cincinnati Children's Hospital Research Foundation, University of Cincinnati College of Medicine, 3333 Burnet Avenue, Cincinnati, Ohio 45229, USA
Cell 116:S75-6, 2 p following S76. 2004 
Distance measurements via the morphogen gradient of Bicoid in Drosophila embryosFeng He
State Key Laboratory of Brain and Cognitive Science Institute of Biophysics Chinese Academy of Sciences 15 Datun Road Beijing 100101, China
BMC Dev Biol 10:80. 2010..Despite extensive studies of this morphogen, how embryo geometry may affect gradient formation and target responses has not been investigated experimentally...
Transcriptional activators and activation mechanismsJun Ma
Division of Biomedical Informatics, Division of Developmental Biology, Cincinnati Children s Research Foundation, University of Cincinnati College of Medicine, Cincinnati, OH 45229, USA
Protein Cell 2:879-88. 2011..Activators bound to the enhancer can facilitate either the recruitment of RNA polymerase II to the promoter or its elongation. This article examines a few selected issues in understanding activator functions and activation mechanisms...- Crossing the line between activation and repressionJun Ma
Division of Developmental Biology, Cincinnati Children s Hospital Research Foundation, University of Cincinnati College of Medicine, 3333 Burnet Avenue, Cincinnati, OH 45229, USA
Trends Genet 21:54-9. 2005..This article discusses selected examples to illustrate the dynamic nature of the transcriptional regulation process and highlights the important roles of not only the individual proteins but also their communication system... - Shaping a morphogen gradient for positional precisionFeng He
Division of Biomedical Informatics, Cincinnati Children s Hospital Research Foundation, Cincinnati, Ohio, USA
Biophys J 99:697-707. 2010..Our results demonstrate that the positional information provided by the wt Bcd gradient profile is highly precise and necessary for patterning precision... 
Interplay between positive and negative activities that influence the role of Bicoid in transcriptionDechen Fu
Division of Developmental Biology, Cincinnati Children s Hospital Research Foundation, Graduate Program in Molecular and Developmental Biology, University of Cincinnati College of Medicine 3333 Burnet Avenue Cincinnati, OH 45229, USA
Nucleic Acids Res 33:3985-93. 2005..These and other results suggest that an activator can undergo switches between its active and inactive states through sensing the opposing actions of positive and negative co-factors...- The solution structure of the native K50 Bicoid homeodomain bound to the consensus TAATCC DNA-binding siteJamie M Baird-Titus
Department of Molecular Genetics, Biochemistry, and Microbiology, University of Cincinnati College of Medicine, 231 Albert Sabin Way, Medical Sciences Building, Cincinnati, OH 45267 0524, USA
J Mol Biol 356:1137-51. 2006..This finding is supportive of the adaptive-recognition theory of protein-DNA interactions... - A composite motif of the Drosophila morphogenetic protein bicoid critical to transcription controlChen Zhao
Division of Developmental Biology, Children s Hospital Research Foundation, Cincinnati, Ohio 45229, USA
J Biol Chem 278:43901-9. 2003..Our study suggests that the activity of Bcd is intricately controlled by multiple mechanisms involving the actions of co-repressor proteins... - The co-activator CREB-binding protein participates in enhancer-dependent activities of bicoidDechen Fu
Division of Developmental Biology, Cincinnati Children s Hospital Research Foundation, Graduate Program in Molecular and Developmental Biology, University of Cincinnati College of Medicine, Cincinnati, Ohio 45229, USA
J Biol Chem 279:48725-33. 2004..Together, these experiments suggest that dCBP is an enhancer-dependent co-activator of Bcd, facilitating its activation through multiple mechanisms... - Fates-shifted is an F-box protein that targets Bicoid for degradation and regulates developmental fate determination in Drosophila embryosJunbo Liu
Division of Biomedical Informatics, Cincinnati Children s Research Foundation, 3333 Burnet Avenue, Cincinnati, OH 45229, USA
Nat Cell Biol 13:22-9. 2011..Our study is an experimental demonstration that, contrary to an alternative hypothesis, Bcd protein degradation is required for normal gradient formation and developmental fate determination... - A two-dimensional simulation model of the bicoid gradient in DrosophilaJingyuan Deng
Division of Biomedical Informatics, Cincinnati Children s Hospital Research Foundation, Cincinnati, Ohio, United States of America
PLoS ONE 5:e10275. 2010.... - A multiscale investigation of bicoid-dependent transcriptional events in Drosophila embryosFeng He
Division of Biomedical Informatics, Cincinnati Children s Research Foundation, Cincinnati, Ohio, United States of America
PLoS ONE 6:e19122. 2011..For example, it remains controversial whether the Drosophila morphogenetic protein Bicoid (Bcd) plays a transient or sustained role in activating its target genes to establish sharp expression boundaries during development... - Probing intrinsic properties of a robust morphogen gradient in DrosophilaFeng He
Division of Biomedical Informatics, Cincinnati Children s Hospital Research Foundation, 3333 Burnet Avenue, Cincinnati, OH 45229, USA
Dev Cell 15:558-67. 2008..The robustness of this gradient is conferred by its intrinsic properties of "self-correcting" the inevitable input variations to achieve a precise and reproducible output... - Drosophila Bicoid is a substrate of sumoylation and its activator function is subject to inhibition by this post-translational modificationJunbo Liu
Division of Biomedical Informatics, Cincinnati Children s Research Foundation, 3333 Burnet Avenue, Cincinnati, OH, United States
FEBS Lett 586:1719-23. 2012..We provide evidence suggesting that the SUMO moiety has an intrinsic inhibitory activity for the activator function of Bcd... - Evaluating the Drosophila Bicoid morphogen gradient system through dissecting the noise in transcriptional burstsFeng He
Division of Biomedical Informatics, Cincinnati Children s Research Foundation, Cincinnati, OH 45229, USA
Bioinformatics 28:970-5. 2012..We describe a statistical model to dissect the noise in transcriptional bursts in a developmental system... - Scaling of the Bicoid morphogen gradient by a volume-dependent production rateDavid Cheung
Division of Biomedical Informatics, Cincinnati Children s Research Foundation, 3333 Burnet Avenue, Cincinnati, OH 45229, USA
Development 138:2741-9. 2011..In this model, the Bcd production rate, which is dependent on the total number of bcd mRNA molecules in the anterior, is scaled with embryo volume... - Morphogen gradient formation and action: insights from studying Bicoid protein degradationJunbo Liu
Division of Biomedical Informatics, Cincinnati Children s Research Foundation, Cincinnati, OH, USA
Fly (Austin) 5:242-6. 2011..Finally, we discuss the role of Bcd-encoded positional information in controlling the positioning and precision of developmental decisions... - Hypomutable regions of yeast TFIIB in a unigenic evolution test represent structural domainsXiao Zeng
Division of Developmental Biology, Children's Hospital Research Foundation, 3333 Burnet Avenue, Cincinnati, OH 45229, USA
Gene 309:49-56. 2003.... - Solution structure of the K50 class homeodomain PITX2 bound to DNA and implications for mutations that cause Rieger syndromeBeth A Chaney
Department of Molecular Genetics, Biochemistry, and Microbiology, College of Medicine, University of Cincinnati, 231 Albert Sabin Way, Medical Sciences Building, Cincinnati, Ohio 45267 0524, USA
Biochemistry 44:7497-511. 2005..Overall, the role of K50 in homeodomain recognition is further clarified, and the results indicate that native K50 homeodomains may exhibit differences from altered specificity mutants... - Enhancer sequences influence the role of the amino-terminal domain of bicoid in transcriptionDechen Fu
Graduate Program in Molecular and Developmental Biology, Division of Developmental Biology, Children s Hospital Research Foundation, University of Cincinnati College of Medicine, Cincinnati, Ohio 45229, USA
Mol Cell Biol 23:4439-48. 2003..We propose that the amino-terminal domain of Bcd is an enhancer-specific switch that contributes to the protein's ability to activate different target genes in distinct manners... - The role of TFIIB-RNA polymerase II interaction in start site selection in yeast cellsDong-Yi Zhang
Division of Developmental Biology, Children's Hospital Research Foundation, 3333 Burnet Avenue, Cincinnati, OH 45229, USA
Nucleic Acids Res 30:3078-85. 2002..We discuss a model in which the TFIIB-RNAPII interaction controls the start site selection process by influencing the conformation of PIC prior to or during PIC assembly, as opposed to PIC stability... - Unconventional genomic architecture in the budding yeast saccharomyces cerevisiae masks the nested antisense gene NAG1Jun Ma
Department of Molecular, Cellular, and Developmental Biology, Life Sciences Institute, Room 6026, University of Michigan, 210 Washtenaw Avenue, Ann Arbor, MI 48109 2216, USA
Eukaryot Cell 7:1289-98. 2008..Thus, NAG1 is important for two reasons. First, it contributes to yeast cell wall biogenesis. Second, its genomic context is novel, raising the possibility that other nested protein-coding genes may exist in eukaryotic genomes... - bozozok directly represses bmp2b transcription and mediates the earliest dorsoventral asymmetry of bmp2b expression in zebrafishTinchung Leung
Developmental Biology, Institute Biology 1, University of Freiburg, Hauptstrasse 1, D 79104 Freiburg, Germany
Development 130:3639-49. 2003..Thus, similar to Drosophila Dpp, asymmetry of Bmp expression in zebrafish is initiated at the transcriptional level, and the shape of the gradient and its function as a morphogen are later modulated by post-transcriptional mechanisms... - Triphenyl tin benzimidazolethiol, a novel antitumor agent, induces mitochondrial-mediated apoptosis in human cervical cancer cells via suppression of HPV-18 encoded E6Naseruddin Hoti
Department of Molecular and Cell Biology, Key Laboratory of Structural Biology, School of Life Sciences, University of Science and Technology of China, Hefei, Anhui, 230027, People s Republic of China
J Biochem 134:521-8. 2003..Taken together, we propose that TPT-benzimidazolethiol could has the potential to be developed into a new therapeutic agent for treating HPV-associated cervical neoplasia... - The peripheral blood transcriptome dynamically reflects system wide biology: a potential diagnostic toolChoong Chin Liew
ChondroGene, Inc, Toronto, Ontario, Canada
J Lab Clin Med 147:126-32. 2006.... - Basonuclin: a novel mammalian maternal-effect geneJun Ma
Department of Dermatology, University of Pennsylvania, PA 19104, USA
Development 133:2053-62. 2006..These results suggest that basonuclin is a new member of the mammalian maternal-effect genes and, interestingly, differs from the previously reported mammalian maternal-effect genes in that it also apparently perturbs oogenesis... - Identifying leukocyte gene expression patterns associated with plasma lipid levels in human subjectsJun Ma
ChondroGene, Inc, 800 Petrolia Road, Unit 15, Toronto, Ont, Canada M3J 3K4
Atherosclerosis 191:63-72. 2007..Our findings suggest that leukocytes respond to changing plasma lipid levels by regulating a network of genes, including genes involved in immune response, and lipid and fatty acid metabolism... - Bmi-1 regulates the differentiation and clonogenic self-renewal of I-type neuroblastoma cells in a concentration-dependent mannerHongjuan Cui
Department of Biochemistry and Cancer Biology, Medical University of Ohio, Toledo, Ohio 43614, USA
J Biol Chem 281:34696-704. 2006..These observations suggest that graded activation of a master regulator within individual tumors could trigger divergent developmental programs responsible for both tumor growth and heterogeneity... - Overexpression of autophagy-related genes inhibits yeast filamentous growthJun Ma
Department of Molecular, Cellular and Developmental Biology and Life Sciences Institute, University of Michigan, Ann Arbor, Michigan 48109 2216, USA
Autophagy 3:604-9. 2007..Rather, these results highlight an additional undefined regulatory mechanism linking autophagy and filamentous growth, possibly independent of the upstream nitrogen-sensing machinery feeding into both processes... - An interrelationship between autophagy and filamentous growth in budding yeastJun Ma
Department of Molecular, Cellular, and Developmental Biology and Life Sciences Institute, University of Michigan, Ann Arbor, Michigan 48109 2216, USA
Genetics 177:205-14. 2007..This physiological connection highlights the central role of autophagy in regulating the cell's nutritional state and the responsiveness of PHG to that state... - CAF-1 is essential for Drosophila development and involved in the maintenance of epigenetic memoryYanjun Song
National Laboratory of Biomacromolecules and State Key Laboratory of Brain and Cognitive Science, Institute of Biophysics, The Chinese Academy of Sciences, Datun Road 15, Chaoyang District, Beijing 100101, China
Dev Biol 311:213-22. 2007..Together, our results establish that dCAF-1-p180 is an essential gene for Drosophila development and further underscore the importance of dCAF-1 in regulating gene expression and DNA repair in vivo... - Localization of autophagy-related proteins in yeast using a versatile plasmid-based resource of fluorescent protein fusionsJun Ma
Department of Molecular, Cellular, and Developmental Biology and Life Sciences Institute, University of Michigan, Ann Arbor, Michigan 48109 2216, USA
Autophagy 4:792-800. 2008..Collectively, this plasmid-based resource of yeast gene-vYFP fusions provides an initial toolkit for a variety of systematic and large-scale localization studies exploring pathway biology in the budding yeast... - Bmi-1 is essential for the tumorigenicity of neuroblastoma cellsHongjuan Cui
Department of Biochemistry and Cancer Biology, Medical University of Ohio, 3035 Arlington Ave, Toledo, OH 43614, USA
Am J Pathol 170:1370-8. 2007..These findings suggest a crucial role for Bmi-1 in neuroblastoma pathogenesis and provide insights into the molecular basis of neuroblastoma heterogeneity...
Research Grants
- Activities of the Bicoid Gradient in Drosophila EmbryosJun Ma; Fiscal Year: 2007..abstract_text> ..