Z curve


Z curve

The Z curve (or Z-curve) method is a bioinformatics algorithm for genome analysis. The Z-curve is a three-dimensional curve that constitutes a unique representation of a DNA sequence, i.e., for the Z-curve and the given DNA sequence each can be uniquely reconstructed from the other. [cite journal
author = Zhang CT, Zhang R, Ou HY
year = 2003
title = The Z curve database: a graphic representation of genome sequences
journal = Bioinformatics
volume = 19
issue = 5
pages = 593–99
url=http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=pubmed&cmd=Retrieve&dopt=AbstractPlus&list_uids=12651717&query_hl=2&itool=pubmed_DocSum
accessdate=2007-01-26
doi = 10.1093/bioinformatics/btg041
] The resulting curve has a zigzag shape, hence the name Z-curve. The Z-curve method has been used in many different areas of genome research, such as replication origin identification, [cite journal
author = Zhang R, Zhang CT
year = 2005
title = Identification of replication origins in archaeal genomes based on the Z-curve method
journal = Archaea
volume = 1
issue = 5
pages = 335–46
url = http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=pubmed&cmd=Retrieve&dopt=AbstractPlus&list_uids=15876567&query_hl=2&itool=pubmed_docsum
accessdate=2007-01-26
] "ab initio" gene prediction, [cite journal
author = Guo FB, Ou HY, Zhang CT
year = 2003
title = ZCURVE: a new system for recognizing protein-coding genes in bacterial and archaeal genomes
journal = Nucleic Acids Research
volume = 31
issue =
pages = 1780–89
url = http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=pubmed&cmd=Retrieve&dopt=AbstractPlus&list_uids=12626720&query_hl=2&itool=pubmed_DocSum
accessdate=2007-01-26
doi = 10.1093/nar/gkg254
]
isochore identification, [cite journal
author = Zhang CT, Zhang R
year = 2004
title = Isochore structures in the mouse genome
journal = Genomics
volume = 83
issue = 3
pages = 384–94
url = http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=pubmed&cmd=Retrieve&dopt=AbstractPlus&list_uids=14962664&query_hl=2&itool=pubmed_docsum
accessdate=2007-01-26
doi = 10.1016/j.ygeno.2003.09.011
]
genomic island identification [cite journal
author = Zhang R, Zhang CT
year = 2004
title = A systematic method to identify genomic islands and its applications in analyzing the genomes of Corynebacterium glutamicum and Vibrio vulnificus CMCP6 chromosome I
journal = Bioinformatics
volume = 20
issue = 5
pages = 612–22
url = http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=pubmed&cmd=Retrieve&dopt=AbstractPlus&list_uids=15033867&query_hl=2&itool=pubmed_docsum
accessdate=2007-01-26
doi = 10.1093/bioinformatics/btg453
] and comparative genomics. [cite journal
author = Zhang R, Zhang CT
year = 2003
title = Identification of genomic islands in the genome of Bacillus cereus by comparative analysis with Bacillus anthracis
journal = Physiological Genomics
volume = 16
issue =
pages = 19–23
url = http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=pubmed&cmd=Retrieve&dopt=AbstractPlus&list_uids=14600214&query_hl=2&itool=pubmed_docsum
accessdate=2007-01-26
doi = 10.1152/physiolgenomics.00170.2003
]

References

External links

* [http://tubic.tju.edu.cn/zcurve/ The Z curve database]


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