<!DOCTYPE article PUBLIC "-//NLM//DTD Journal Publishing DTD 2.3 20070202//EN" "http://dtd.nlm.nih.gov/publishing/2.3/journalpublishing.dtd">
<article xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink" article-type="research-article">
	<front>
		<journal-meta>
			<journal-id journal-id-type="nlm-ta">J Proteomics Bioinform</journal-id>
			<journal-id journal-id-type="publisher-id">opg</journal-id>			
			<journal-title>Journal of Proteomics &amp; Bioinformatics</journal-title>
			<issn pub-type="epub">0974-276X</issn>
			<publisher>
				<publisher-name>OMICS Publishing Group</publisher-name>
				<publisher-loc>India, USA</publisher-loc>
			</publisher>
		</journal-meta>
		<article-meta>
			<article-id pub-id-type="doi">10.4172/jpb.s1000008</article-id>			
			<article-id pub-id-type="publisher-id">000063</article-id>
			<article-categories>
				<subj-group subj-group-type="heading">
					<subject>Research Article</subject>
				</subj-group>
				<subj-group subj-group-type="Discipline">
					<subject>Biochemistry</subject>
				</subj-group>
				<subj-group subj-group-type="System Taxonomy">
					<subject>Proteomics</subject>
					<subject>Bioinformatics</subject>
					<subject>Genomics</subject>
					<subject>Transcriptomics</subject>
					<subject>Biomarkers</subject>
				</subj-group>
			</article-categories>
			<title-group>
				<article-title>Computational analysis of mutations in Neonatal diabetes (KCNJ11) gene reveals no relation with microsatellites</article-title>
			</title-group>
			<contrib-group>
				<contrib contrib-type="author">
					<name>
						<surname>Appa Rao</surname>
						<given-names>Allam</given-names>
					</name>					
				</contrib>
				<contrib contrib-type="author">
					<name>
						<surname>Kishore</surname>
						<given-names>Gunna</given-names>
					</name>																									
				</contrib>
				<contrib contrib-type="author">
					<name>
						<surname>Satapati</surname>
						<given-names>Ravikanth</given-names>
					</name>															
				</contrib>
				<contrib contrib-type="author">
					<name>
						<surname>Gogula</surname>
						<given-names>Susmitha</given-names>
					</name>																									
				</contrib>												
			</contrib-group>
			<aff id="a1">Department of Computer Science and Systems Engineering, Andhra University, Visakhapatnam-530003, India</aff>						
			<author-notes>
				<corresp id="cor1">&ast; To whom correspondence should be addressed: Gunna Kishore, E-mail:<email>kishore_brbm@yahoo.co.in</email></corresp>
			</author-notes>
			<pub-date pub-type="collection">
			     <month>05</month>
				 <year>2008</year>
			</pub-date>
			<pub-date pub-type="epub">
				<day>25</day>
				<month>05</month>
				<year>2008</year>
			</pub-date>			
			<volume>S1</volume>
			<issue>1</issue>
			<fpage>S046</fpage>
			<lpage>S049</lpage>
			<history>
			<date date-type="received">
			     <day>20</day>
				 <month>04</month>
				 <year>2008</year>
			</date>
			<date date-type="accepted">
			      <day>15</day>
				  <month>05</month>
				  <year>2008</year>
			</date>
			</history>
			<permissions>			
			<copyright-statement><bold>Copyright:</bold> &copy; 2008 Allam AR, etal.</copyright-statement>
			<copyright-year>2008</copyright-year>
			<license license-type="open access">
			<p>This is an open-access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.</p>
			</license>
			</permissions>
			<abstract>
				<p>Gain-of-function mutations in the genes encoding the ATP-sensitive potassium (K (ATP)) channel subunit Kir6.2 (KCNJ11) is a common cause of neonatal diabetes mellitus.(<xref ref-type="bibr" rid="r11">de Wet H 2007 et al</xref>). Neonatal diabetes was defined as hyperglycemia thatrequires insulin treatment and occurs during the first month of life ,it is also known as monogenic diabetes of infancy, which includes both the permanent and the transient types (<xref ref-type="bibr" rid="r1">Barbetti F. Endocr Dev. 2007</xref>) and the mutations in KCNJ11 gene causes Neonatal diabetes(<xref ref-type="bibr" rid="r7">Mlynarski W 2007 et al</xref>). We tried to find out whether the presence of micro satellite or simple sequence repeats in the KCNJ11 gene has any significance in the generation of these mutations and checked whether these mutations are fallen in the regions of those microsatillites and if so is there any significance of these microsatillites in the functional domains of the each gene. Our analysis reveled that all the microsatellites (National diabetes information clearinghouse) of the KCNJ11 does not contain any mutations and these mutations also does not fall in the functional domains of the KCNJ11 thus indicating that here there is no role of microsatellites in the mutations of KCNJ11 gene.</p> 
			</abstract>
			<kwd-group>
				<kwd>Microsatellites</kwd>
				<kwd>Bioinformatics</kwd>
				<kwd>Neonatal Diabetes</kwd>												
			</kwd-group>
			<custom-meta-wrap>
				<custom-meta>
					<meta-name>citation</meta-name>
					<meta-value>Allam Appa Rao, Gunna Kishore, Ravikanth Satapati, Susmitha Gogula, etal. (2008) Computational analysis of mutations in Neonatal diabetes (KCNJ11) gene reveals no relation with microsatellites.</meta-value>
				</custom-meta>
			</custom-meta-wrap>
		</article-meta>
	</front>
	<body>	
	       <sec id="s1">
		   <title>Introduction</title>
		   <p>Neonatal diabetes mellitus is a rare form of Insulin dependent diabetes mellitus that present Within the first month of life, lasting at least two weeks and requiring insulin therapy. Intrauterine growth restriction, failure to thrive, fever, dehydration, hyperglycemia and acidosis with or without ketonuria are the clinical features of the disease. Monogenic forms of diabetes account for about 1 to 5 percent of all cases of diabetes in young people. In most cases of monogenic diabetes, the gene mutation is inherited; in the remaining cases the gene mutation develops spontaneously. Most mutations in monogenic diabetes reduce the body's ability to produce insulin, a protein produced in the pancreas that helps the body use glucose for energy. Neonatal diabetes mellitus (NDM) and maturity-onset diabetes of the young (MODY) are the two main forms of monogenic diabetes. MODY is much more common than NDM. NDM first occurs in newborns and young infants; MODY usually first occurs in children or adolescents but may be mild and not detected until adulthood . Micro satellites are known to be highly polymorphic due to the high rate of mutations in their tracts (<xref ref-type="bibr" rid="r2">Fan H , Chu, J.Y 2007</xref>). These mutations can be either in the form of increase / decrease of repeat units or in the form of single nucleotide substitutions/ deletions/insertions and other events (<xref ref-type="bibr" rid="r5">Li, Y.C., Korol, A.B., Fahima, T. and Nevo, E. 2004</xref>) . Increase or decrease of repeat units of micro satellites in coding regions might lead to shift in reading frames there by causing changes in protein product (<xref ref-type="bibr" rid="r6">Martin P 2005</xref>)and in non-coding regions are known to effect the gene regulation(<xref ref-type="bibr" rid="r9">Sibly 2003 et al</xref>). Point mutations (Substitutions and Indels) are also found to occur at a higher rate in micro satellites than elsewhere (<xref ref-type="bibr" rid="r10">Stenson 2003 et al</xref>). Micro satellite mutations with in or near certain genes are known to be responsible for some human neurodegenerative diseases. So, we made a brief study to check whether the mutations in this KCNJ11 gene have any relation with these micro satellites repeats and the study revealed the following results.</p>
		   </sec>
		   <sec sec-type="methods">
		   <title>Methods</title>
		   <p>All the 30 proved mutations except the mutations, which occur at codon numbers 12,23,34 and, 35 of the KCNJ11gene are falling inside the coding region and are eventually leading to phenotypic differences were collected from the Human Gene Mutation Database (HGMD)(<xref ref-type="bibr" rid="r8">Mudunuri S.B., Nagarajaram 2007</xref>). Micro satellites are obtained from the Imperfect Micro satellite Extractor (IMEX) (<xref ref-type="bibr" rid="r4">Letunic, I., et al 2004</xref>)tool using intermediate mode with default values 10 for single 5 for di 3 tri 3 for tetra 2 for penta and 2 for hexa and obtained only 4 micro satellites in KCN1J1. Since micro satellites are drawn from the nucleotide sequence and HGMD mutations are given for protein sequence we have used DNA to Amino Acid translator. We compared the microsatellite regions with the mutations whether they have mutations in those regions and found that no mutations fall in the microsatellite regions. Now we analyzed whether these mutations have fallen in the functional domains of those genes by using Simple Modular Architecture Research Tool (SMART)( Endocr Dev 2007) and the results are as follows.</p>
		   <fig id="t1">
		   <label>Table</label>		  
		   <graphic xlink:href="JPBS-01-041-t001.tif"/>
		   </fig>
		   <fig id="t2">
		   <label>Table</label>		  
		   <graphic xlink:href="JPBS-01-041-t002.tif"/>
		   </fig>
		   <p>The microsatellites found in KCNJ11 gene and the mutations of KCNJ11 gene are.</p>
		   <fig id="t3">
		   <label>Table 1</label>
		   <caption>
		   <title>List of Mutations HGMDMaterials.</title>
		   </caption>		  
		   <graphic xlink:href="JPBS-01-041-t003.tif"/>
		   </fig>
		   </sec>
		   <sec id="s3">
		   <title>Results and Discussion</title>
		   <p>The mutations in the KCNJ11 are causing the neonatal diabetes mellitus. These mutations result in reduced ATP sensitivity of theKATP channels compared with the wild types. The level of channel activity defect is responsible for different clinical features: the 'mild' form confers isolated permanent neonatal diabetes whereas the severe form combines diabetes and neurological symptoms such as epilepsy, developmental delay, muscle weakness and mild dysmorphic features.so to check whether is there any relationship is there between the microsatellites and the mutations. we analyzed and found that there are no mutations in the microsatellite regions and therefore can say that the microsatellites are not responsible for mutations in the KCNJ11 gene.</p>
		   </sec>		   
	</body>
	<back>
		<ack>
			<p>This work was supported by IIT up gradation grants of AUCE (A).</p>
		</ack>
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