Structural and functional characteristics of the promoter regions of the genes on human chromosome 22

Poster

Liu, Guang Bin. 2007. "Structural and functional characteristics of the promoter regions of the genes on human chromosome 22." 5th Asia-Pacific Bioinformatics Conference (APBC2007). Hong Kong, China 15 - 17 Jan 2007 Hong Kong.
Paper/Presentation Title

Structural and functional characteristics of the promoter regions of the genes on human chromosome 22

Presentation TypePoster
Authors
AuthorLiu, Guang Bin
Journal or Proceedings TitleProceedings of the 5th Asia-Pacific Bioinformatics Conference, APBC2007
Number of Pages1
Year2007
Place of PublicationHong Kong
Web Address (URL) of Paperhttp://www.cs.hku.hk/apbc2007/index.htm
Conference/Event5th Asia-Pacific Bioinformatics Conference (APBC2007)
Event Details
5th Asia-Pacific Bioinformatics Conference (APBC2007)
Event Date
15 to end of 17 Jan 2007
Event Location
Hong Kong, China
Abstract

The base composition pattern in the putative promoter region (PPRs) up to 5 Kb lengths of 682 human genes on Chromosome 22 (Chr22) was examined. Two-dimensional (2-D) and three-dimensional (2-D) functions were designed to delineate the DNA base composition, with four major patterns identified. It is found that 17.6% genes include TATA box, 28.0% GC box, 18.9% CAAT box and 38.4% CpG islands, and approximately 10 % genes have one of four putative initiator motifs. The occurrence of the promoter elements is tightly associated with the base composition features in the promoter regions, and the associations of the base composition features with occurrence of the promoter elements in the promoter regions mediate tissue-wide expression of the genes in human. The occurrence of two or more promoter elements in the promoter regions is required for the medium- and wide-range expression profiles of the human genes on Chr22. Thus, the reported data shed light on the characteristics of the PPRs of the human genes on Chr22, which may improve our understanding of regulatory roles of the PPRs with occurrence of the promoter elements in gene expression.

Keywordsgenetics; chromosome 22; human DNA
ANZSRC Field of Research 2020310508. Genome structure and regulation
310299. Bioinformatics and computational biology not elsewhere classified
Public Notes

There are no files associated with this item.

Byline AffiliationsDepartment of Biological and Physical Sciences
Permalink -

https://research.usq.edu.au/item/9zvx6/structural-and-functional-characteristics-of-the-promoter-regions-of-the-genes-on-human-chromosome-22

Log in to edit

Download files

Other Documentation
Liu_2007_Proceedings.pdf
File access level: Anyone

  • 777
    total views
  • 189
    total downloads
  • 1
    views this month
  • 0
    downloads this month

Export as

Related outputs

Functional hemispheric asynchrony: an optical imaging study
Liu, Guang Bin and Pettigrew, John. 2002. "Functional hemispheric asynchrony: an optical imaging study." 22nd Annual Meeting of the Australian Neuroscience Society (ANS 2002). Sydney, Australia Mar 2002 Sydney.
Fourth generation of the BiReme system
Liu, Guang Bin and Pettigrew, John. 2004. "Fourth generation of the BiReme system." 24th Annual Meeting of the Australian Neuroscience Society (ANS 2004). Melbourne, Australia 27 - 30 Jan 2004 Melbourne, Australia.
Structural and functional evolution of the TLR genes: a cross-species phylogenetic study and comparison with human oncogenes
Liu, Guang Bin. 2007. "Structural and functional evolution of the TLR genes: a cross-species phylogenetic study and comparison with human oncogenes." 2007 Bioinformatics Australia Conference. Brisbane, Australia 22 - 23 Oct 2007 Brisbane.
Comparison of epigenetic changes that have predisposed protein kinase genes to become oncogenes
Liu, Guang Bin, Pioth, Gabriel and Zheng, Qing Yin. 2009. "Comparison of epigenetic changes that have predisposed protein kinase genes to become oncogenes." Case Comprehensive Cancer Center Breast Cancer Retreat 2009. Cleveland, United States 05 - 06 Oct 2009 Cleveland, Ohio, United States.
Development of auditory function in the tammar wallaby Macropus eugenii
Hill, Kenneth G., Cone-Wesson, Barbara and Liu, Guang-Bin. 1998. "Development of auditory function in the tammar wallaby Macropus eugenii." Hearing Research. 117 (1-2), pp. 97-106. https://doi.org/10.1016/S0378-5955(97)00211-6
Virus, oncolytic virus and human prostate cancer
Liu, Guang Bin, Zhao, Liang, Zhang, Lifang and Zhao, Kong-Nan. 2017. "Virus, oncolytic virus and human prostate cancer ." Current Cancer Drug Targets. 17 (6), pp. 522-533. https://doi.org/10.2174/1568009616666161216095308
Cross-species comparison of CpG density in the promoter regions of protein kinase oncogenes
Pioth, Gabriel G., Zhao, Kong-Nan and Liu, Guang B.. 2015. "Cross-species comparison of CpG density in the promoter regions of protein kinase oncogenes." Bioengineering and Bioscience. 3 (3), pp. 29-38. https://doi.org/10.13189/bb.2015.030301
Association of human papillomavirus with Fanconi anemia promotes carcinogenesis in Fanconi anemia patients
Liu, Guang Bin, Chen, Jiezhong, Wu, Zhan He and Zhao, Kong-Nan. 2015. "Association of human papillomavirus with Fanconi anemia promotes carcinogenesis in Fanconi anemia patients." Reviews in Medical Virology. 25 (6), pp. 345-353. https://doi.org/10.1002/rmv.1834
The significance of non-coding sequence
Liu, Guang Bin. 2010. "The significance of non-coding sequence." China-Australia Science and Technology Forum 2010. Qing Dao, China 11 - 17 Oct 2010 China.
Bioinformatics today
Liu, Guang Bin. 2010. "Bioinformatics today." China-Australia Science and Technology Forum 2010. Qing Dao, China 11 - 17 Oct 2010 China.
Bioinformatic analysis indicates a relationship between CpG islands & nuclear protein function, as well as a Stop Codon Usage Bias
Berkman, Paul and Liu, Guang Bin. 2008. "Bioinformatic analysis indicates a relationship between CpG islands & nuclear protein function, as well as a Stop Codon Usage Bias." Bioinformatics Australia Conference (2008). Gold Coast, Queensland 01 - 03 Dec 2008 Gold Coast, Australia.
Dichoptic viewing methods for binocular rivalry research: prospects for large-scale clinical and genetic studies
Law, Phillip C. F, Paton, Bryan K., Thomson, Richard H., Liu, Guang B., Miller, Steven M. and Ngo, Trung T.. 2013. "Dichoptic viewing methods for binocular rivalry research: prospects for large-scale clinical and genetic studies." Twin Research and Human Genetics. 16 (6), pp. 1033-1078. https://doi.org/10.1017/thg.2013.76
Estrogen-induced cholestasis: pathogenesis and therapeutic implications
Chen, Jiezhong, Zhao, Kong-Nan and Liu, Guang Bin. 2013. "Estrogen-induced cholestasis: pathogenesis and therapeutic implications." Hepato-Gastroenterology: current medical and surgical trends. 60 (126), pp. 1296-1299. https://doi.org/10.5754/hge121061
Development of auditory sensitivity in the inferior colliculus of the tammar wallaby (Macropus eugenii)
Liu, Guang Bin, Hill, K. G. and Mark, R. F.. 1997. "Development of auditory sensitivity in the inferior colliculus of the tammar wallaby (Macropus eugenii)." Syka, Josef (ed.) International Symposium on Acoustical Signal Processing in the Central Auditory System (1997). Prague, Czech Republic 04 - 07 Sep 1996 Berlin, Germany. https://doi.org/10.1007/978-1-4419-8712-9_27
Development of a binocular rivalry testing system for large-scale psychiatric and genetic studies
Law, P. C. F., Paton, B., Liu, G. B., Ngo, T. T. and Miller, S. M.. 2011. "Development of a binocular rivalry testing system for large-scale psychiatric and genetic studies." 1st Scientific Meeting of Biological Psychiatry Australia. Melbourne, Australia 07 - 08 Nov 2011 Melbourne, Australia.
Auditory brainstem response in tammar wallaby (Macropus eugenii)
Cone-Wesson, Barbara, Hill, Kenneth G. and Liu, Guang B.. 1997. "Auditory brainstem response in tammar wallaby (Macropus eugenii)." Hearing Research. 105 (1-2), pp. 119-129. https://doi.org/10.1016/S0378-5955(96)00199-2
Neural responses to free-field auditory stimulation in the superior colliculus of the wallaby (Macropus eugenii)
Withington, D. J., Mark, R. F., Thornton, S. K., Liu, G. B. and Hill, K. G.. 1995. "Neural responses to free-field auditory stimulation in the superior colliculus of the wallaby (Macropus eugenii) ." Experimental Brain Research. 105 (2), pp. 233-240. https://doi.org/10.1007/BF00240959
Binocular rivalry and perceptual coherence
Ngo, Trung T., Miller, Steven M., Liu, Guang B. and Pettigrew, John D.. 2000. "Binocular rivalry and perceptual coherence ." Current Biology. 10 (4), pp. R134-R136. https://doi.org/10.1016/S0960-9822(00)00399-7
Functional development of the inferior colliculus (IC) and its relationship with the auditory brainstem response (ABR) in the tammar wallaby (Macropus eugenii)
Liu, Guang B. and Mark, Richard F.. 2001. "Functional development of the inferior colliculus (IC) and its relationship with the auditory brainstem response (ABR) in the tammar wallaby (Macropus eugenii) ." Hearing Research. 157 (1-2), pp. 112-123. https://doi.org/10.1016/S0378-5955(01)00289-1
Spreading and synchronization of intrinsic signals in visual cortex of macaque monkey evoked by a localized visual stimulus
Liu, Guang B., Zhang, Ying, Pettigrew, John D., Xu, Wei F. and Li, Chao-Yi. 2003. "Spreading and synchronization of intrinsic signals in visual cortex of macaque monkey evoked by a localized visual stimulus." Brain Research. 985 (1), pp. 13-20. https://doi.org/10.1016/S0006-8993(03)03049-X
Interhemispheric switching mediates perceptual rivalry
Miller, Steven M., Liu, Guang B., Ngo, Trung T., Hooper, Greg, Riek, Stephan, Carson, Richard G. and Pettigrew, John D.. 2000. "Interhemispheric switching mediates perceptual rivalry." Current Biology. 10 (7), pp. 383-392. https://doi.org/10.1016/S0960-9822(00)00416-4
Temporal relationship between the auditory brainstem response and focal responses of auditory nerve root and cochlear nucleus during development in the tammar wallaby (Macropus eugenii)
Liu, G. B., Hill, K. G. and Mark, R. F.. 2001. "Temporal relationship between the auditory brainstem response and focal responses of auditory nerve root and cochlear nucleus during development in the tammar wallaby (Macropus eugenii)." Audiology and Neurotology. 6 (3), pp. 140-153. https://doi.org/10.1159/000046821
Functional development of the auditory brainstem in the tammar wallaby (Macropus eugenii): the superior olivary complex and its relationship with the auditory brainstem response (ABR)
Liu, Guang B.. 2003. "Functional development of the auditory brainstem in the tammar wallaby (Macropus eugenii): the superior olivary complex and its relationship with the auditory brainstem response (ABR)." Hearing Research. 175 (1), pp. 152-164. https://doi.org/10.1016/S0378-5955(02)00733-5
Comprehensive analysis of prokaryotic mechanosensation genes: their characteristics in codon usage
Chen, Rong, Yan, Hong, Zhao, Kong-Nan, Martinac, Boris and Liu, Guang B.. 2007. "Comprehensive analysis of prokaryotic mechanosensation genes: their characteristics in codon usage." DNA Sequence. 18 (4), pp. 269-278. https://doi.org/10.1080/10425170601136564
Computational analysis of base composition pattern and promoter elements in the putative promoter regions in relation to expression profiles of 682 human genes on chromosome 22
Liu, Guang Bin, Jiang, Ya Fang, Yan, Hong and Zhao, Kong-Nan. 2006. "Computational analysis of base composition pattern and promoter elements in the putative promoter regions in relation to expression profiles of 682 human genes on chromosome 22." Mitochondrial DNA Part A: DNA Mapping, Sequencing, and Analysis. 17 (4), pp. 270-281. https://doi.org/10.1080/10425170600886136
The correlation between the mutation of protein kinase genes and the clinical characteristics of breast cancer progression
Birney, Genevieve, Liu, Guang B. and Daggard, Grant. 2010. "The correlation between the mutation of protein kinase genes and the clinical characteristics of breast cancer progression." ASMR Queensland Postgraduate Student Conference 2010. St Lucia, Australia 02 Jun 2010 St. Lucia, Australia.
Genetic contribution to individual variation in binocular rivalry rate
Miller, Steven M., Hansell, Narelle K., Ngo, Trung T., Liu, Guang B., Pettigrew, John D., Martin, Nicholas G. and Wright, Margaret J.. 2010. "Genetic contribution to individual variation in binocular rivalry rate." University of Adelaide. 107 (6), pp. 2664-2668. https://doi.org/10.1073/pnas.0912149107
Reciprocal interaction between three areas of the visual cortex of the cat revealed with optical imaging of intrinsic signals
Liu, Guang B., Zhang, Ying, Li, Chao-Yi and Pettigrew, John D.. 2003. "Reciprocal interaction between three areas of the visual cortex of the cat revealed with optical imaging of intrinsic signals." Australian Neuroscience Society 23rd Annual Meeting . Adelaide, Australia 28 - 31 Jan 2003 Adelaide.
The properties of CpG islands in the putative promoter regions of human immunoglobulin (Ig) genes
Liu, Guang B., Yan, Hong, Jiang, Ya F., Chen, Rong, Pettigrew, John D. and Zhao, Kong-Nan. 2005. "The properties of CpG islands in the putative promoter regions of human immunoglobulin (Ig) genes." Gene. 358 (1), pp. 127-138. https://doi.org/10.1016/j.gene.2005.06.002
Contradictory influence of context on binocular rivalry
Carter, Olivia L., Campbell, Thomas G., Liu, Guang B. and Wallis, Guy M.. 2004. "Contradictory influence of context on binocular rivalry." Clinical and Experimental Optometry. 87 (3), pp. 153-162. https://doi.org/10.1111/j.1444-0938.2004.tb03168.x
The changing face of perceptual rivalry
Ngo, Trung T., Liu, Guang B., Tilley, Andrew J., Pettigrew, John D. and Miller, Steven M.. 2008. "The changing face of perceptual rivalry." Brain Research Bulletin. 75 (5), pp. 610-618. https://doi.org/10.1016/j.brainresbull.2007.10.006
Modulating the rate and rhythmicity of perceptual rivalry alternations with the mixed 5-HT2A and 5-HT1A agonist psilocybin
Carter, Olivia L., Pettigrew, John D., Hasler, Felix, Wallis, Guy M., Liu, Guang B., Hell, Daniel and Vollenweider, Franz X.. 2005. "Modulating the rate and rhythmicity of perceptual rivalry alternations with the mixed 5-HT2A and 5-HT1A agonist psilocybin." Neuropsychopharmacology. 30 (6), pp. 1154-1162. https://doi.org/10.1038/sj.npp.1300621
Psilocybin links binocular rivalry switch rate to attention and subjective arousal levels in humans
Carter, Olivia L., Hasler, Felix, Pettigrew, John D., Wallis, Guy M., Liu, Guang B. and Vollenweider, Franz X.. 2007. "Psilocybin links binocular rivalry switch rate to attention and subjective arousal levels in humans." Psychopharmacology. 195 (3), pp. 415-424. https://doi.org/10.1007/s00213-007-0930-9
Slow binocular rivalry in bipolar disorder
Miller, S. M., Gynther, B. D., Heslop, K. R., Liu, G. B., Mitchell, P. B., Ngo, T. T., Pettigrew, J. D. and Geffen, L. B.. 2003. "Slow binocular rivalry in bipolar disorder." Psychological Medicine. 33 (4), pp. 683-692. https://doi.org/10.1017/S0033291703007475
Orientation mosaic in barn owl’s visual Wulst revealed by optical imaging: comparison with cat and monkey striate and extra-striate areas
Liu, Guang Bin and Pettigrew, John Douglas. 2003. "Orientation mosaic in barn owl’s visual Wulst revealed by optical imaging: comparison with cat and monkey striate and extra-striate areas ." Brain Research. 961 (1), pp. 153-158. https://doi.org/10.1016/S0006-8993(02)03747-2
Caloric vestibular stimulation reveals discrete neural mechanisms for coherence rivalry and eye rivalry: a meta-rivalry model
Ngo, Trung T., Liu, Guang B., Tilley, Andrew J., Pettigrew, John D. and Miller, Steven M.. 2007. "Caloric vestibular stimulation reveals discrete neural mechanisms for coherence rivalry and eye rivalry: a meta-rivalry model." Vision Research. 47 (21), pp. 2685-2699. https://doi.org/10.1016/j.visres.2007.03.024
Meditation alters perceptual rivalry in Tibetan Buddhist monks
Carter, O. L., Presti, D. E., Callistemon, C., Ungerer, Y., Liu, G. B. and Pettigrew, J. D.. 2005. "Meditation alters perceptual rivalry in Tibetan Buddhist monks." Current Biology. 15 (11), pp. R412-R413. https://doi.org/10.1016/j.cub.2005.05.043
Codon usage analysis of prokaryotic mechanosensation genes
Liu, Guang B., Chen, Rong, Martinac, Boris and Zhao, Kong-Nan. 2006. "Codon usage analysis of prokaryotic mechanosensation genes." Gaeta, Bruno (ed.) Bioinformatics Australia 2006. Sydney, Australia 21 - 22 Nov 2006 Australia.