RPS13, a potential universal reference gene for normalisation of gene expression in multiple human normal and cancer tissue samples
Background Reference genes are considered stable genes and are used for normalizing the gene expression profile across different cell types; as well as, in normal and diseased samples. However, these gene associates with different biological processes, and hence expression vary in different patholog...
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| Veröffentlicht in: | Molecular biology reports 2021-12, Vol.48 (12), p.7967-7974 |
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| creator | Rashid, Mudasir Shah, Sanket Girish Natu, Abhiram Verma, Tripti Rauniyar, Sukanya Gera, Poonam B. Gupta, Sanjay |
| description | Background
Reference genes are considered stable genes and are used for normalizing the gene expression profile across different cell types; as well as, in normal and diseased samples. However, these gene associates with different biological processes, and hence expression vary in different pathological conditions. Therefore, in the present study, eight different reference genes were used and compared to identify common reference gene usable for an array of different cell types and human cancers.
Methods and results
The expression stability of the eight reference genes across eleven normal and cancerous tissues was confirmed through real time-qPCR. Ribosomal protein S13 (RPS13) was found to be a common and stable reference gene across intra- and inter-comparison between various normal and tumor tissue types. Further, TCGA data analysis across and between normal and tumor tissue types also showed minimum deviation in expression of RPS13 gene out of eight routinely used reference genes.
Conclusion
RPS13 is the common stable reference gene in normalization for gene expression based analysis in cancer research. |
| doi_str_mv | 10.1007/s11033-021-06828-6 |
| format | Article |
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Reference genes are considered stable genes and are used for normalizing the gene expression profile across different cell types; as well as, in normal and diseased samples. However, these gene associates with different biological processes, and hence expression vary in different pathological conditions. Therefore, in the present study, eight different reference genes were used and compared to identify common reference gene usable for an array of different cell types and human cancers.
Methods and results
The expression stability of the eight reference genes across eleven normal and cancerous tissues was confirmed through real time-qPCR. Ribosomal protein S13 (RPS13) was found to be a common and stable reference gene across intra- and inter-comparison between various normal and tumor tissue types. Further, TCGA data analysis across and between normal and tumor tissue types also showed minimum deviation in expression of RPS13 gene out of eight routinely used reference genes.
Conclusion
RPS13 is the common stable reference gene in normalization for gene expression based analysis in cancer research.</description><identifier>ISSN: 0301-4851</identifier><identifier>EISSN: 1573-4978</identifier><identifier>DOI: 10.1007/s11033-021-06828-6</identifier><identifier>PMID: 34657252</identifier><language>eng</language><publisher>Dordrecht: Springer Netherlands</publisher><subject>Animal Anatomy ; Animal Biochemistry ; Biomedical and Life Sciences ; Cancer research ; Databases, Genetic ; Gene expression ; Gene Expression - genetics ; Gene Expression Profiling - methods ; Gene Expression Profiling - standards ; Histology ; Humans ; Life Sciences ; Morphology ; Neoplasms - diagnosis ; Neoplasms - genetics ; Original Article ; Real-Time Polymerase Chain Reaction - methods ; Reference Standards ; Ribosomal protein S13 ; Ribosomal Proteins - genetics ; Ribosomal Proteins - metabolism ; Transcriptome - genetics ; Tumors</subject><ispartof>Molecular biology reports, 2021-12, Vol.48 (12), p.7967-7974</ispartof><rights>The Author(s), under exclusive licence to Springer Nature B.V. 2021</rights><rights>2021. The Author(s), under exclusive licence to Springer Nature B.V.</rights><rights>The Author(s), under exclusive licence to Springer Nature B.V. 2021.</rights><lds50>peer_reviewed</lds50><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c375t-9e8935d94243715f0a4e6fc59e6e07e1a25c8ed5cadd1b10ee1b52ecc1801eba3</citedby><cites>FETCH-LOGICAL-c375t-9e8935d94243715f0a4e6fc59e6e07e1a25c8ed5cadd1b10ee1b52ecc1801eba3</cites></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktopdf>$$Uhttps://link.springer.com/content/pdf/10.1007/s11033-021-06828-6$$EPDF$$P50$$Gspringer$$H</linktopdf><linktohtml>$$Uhttps://link.springer.com/10.1007/s11033-021-06828-6$$EHTML$$P50$$Gspringer$$H</linktohtml><link.rule.ids>314,776,780,27901,27902,41464,42533,51294</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/34657252$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Rashid, Mudasir</creatorcontrib><creatorcontrib>Shah, Sanket Girish</creatorcontrib><creatorcontrib>Natu, Abhiram</creatorcontrib><creatorcontrib>Verma, Tripti</creatorcontrib><creatorcontrib>Rauniyar, Sukanya</creatorcontrib><creatorcontrib>Gera, Poonam B.</creatorcontrib><creatorcontrib>Gupta, Sanjay</creatorcontrib><title>RPS13, a potential universal reference gene for normalisation of gene expression in multiple human normal and cancer tissue samples</title><title>Molecular biology reports</title><addtitle>Mol Biol Rep</addtitle><addtitle>Mol Biol Rep</addtitle><description>Background
Reference genes are considered stable genes and are used for normalizing the gene expression profile across different cell types; as well as, in normal and diseased samples. However, these gene associates with different biological processes, and hence expression vary in different pathological conditions. Therefore, in the present study, eight different reference genes were used and compared to identify common reference gene usable for an array of different cell types and human cancers.
Methods and results
The expression stability of the eight reference genes across eleven normal and cancerous tissues was confirmed through real time-qPCR. Ribosomal protein S13 (RPS13) was found to be a common and stable reference gene across intra- and inter-comparison between various normal and tumor tissue types. Further, TCGA data analysis across and between normal and tumor tissue types also showed minimum deviation in expression of RPS13 gene out of eight routinely used reference genes.
Conclusion
RPS13 is the common stable reference gene in normalization for gene expression based analysis in cancer research.</description><subject>Animal Anatomy</subject><subject>Animal Biochemistry</subject><subject>Biomedical and Life Sciences</subject><subject>Cancer research</subject><subject>Databases, Genetic</subject><subject>Gene expression</subject><subject>Gene Expression - genetics</subject><subject>Gene Expression Profiling - methods</subject><subject>Gene Expression Profiling - standards</subject><subject>Histology</subject><subject>Humans</subject><subject>Life Sciences</subject><subject>Morphology</subject><subject>Neoplasms - diagnosis</subject><subject>Neoplasms - genetics</subject><subject>Original Article</subject><subject>Real-Time Polymerase Chain Reaction - methods</subject><subject>Reference Standards</subject><subject>Ribosomal protein S13</subject><subject>Ribosomal Proteins - genetics</subject><subject>Ribosomal Proteins - metabolism</subject><subject>Transcriptome - genetics</subject><subject>Tumors</subject><issn>0301-4851</issn><issn>1573-4978</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2021</creationdate><recordtype>article</recordtype><sourceid>EIF</sourceid><sourceid>BENPR</sourceid><recordid>eNp9kU2P1SAUhonRONfRP-DCkLhxYZUDpdClmYwfySQz8WNNuPR0ZNLSymnNuPaPD9deNXHhCsJ53hfCw9hTEK9ACPOaAIRSlZBQicZKWzX32A60UVXdGnuf7YQSUNVWwwl7RHQjhKjB6IfsRNWNNlLLHfv58eoTqJfc83laMC3RD3xN8TtmKruMPWZMAfk1JuT9lHma8uiHSH6JU-JTv03wds5IdDiKiY_rsMR5QP51HX06RrhPHQ--lGW-RKIVOfmxUPSYPej9QPjkuJ6yL2_PP5-9ry4u3304e3NRBWX0UrVoW6W7tpa1MqB74Wts-qBbbFAYBC91sNjp4LsO9iAQYa8lhgBWAO69OmUvtt45T99WpMWNkQIOg084reSktkqBsUYU9Pk_6M205lReV6i2laZpmwMlNyrkiah8lptzHH3-4UC4gyK3KXJFkfulyDUl9OxYve5H7P5EfjspgNoAKqN0jfnv3f-pvQMtw53c</recordid><startdate>20211201</startdate><enddate>20211201</enddate><creator>Rashid, Mudasir</creator><creator>Shah, Sanket Girish</creator><creator>Natu, Abhiram</creator><creator>Verma, Tripti</creator><creator>Rauniyar, Sukanya</creator><creator>Gera, Poonam B.</creator><creator>Gupta, Sanjay</creator><general>Springer Netherlands</general><general>Springer Nature B.V</general><scope>CGR</scope><scope>CUY</scope><scope>CVF</scope><scope>ECM</scope><scope>EIF</scope><scope>NPM</scope><scope>AAYXX</scope><scope>CITATION</scope><scope>3V.</scope><scope>7TK</scope><scope>7TM</scope><scope>7X7</scope><scope>7XB</scope><scope>88A</scope><scope>88E</scope><scope>88I</scope><scope>8AO</scope><scope>8FD</scope><scope>8FE</scope><scope>8FH</scope><scope>8FI</scope><scope>8FJ</scope><scope>8FK</scope><scope>ABUWG</scope><scope>AFKRA</scope><scope>AZQEC</scope><scope>BBNVY</scope><scope>BENPR</scope><scope>BHPHI</scope><scope>CCPQU</scope><scope>DWQXO</scope><scope>FR3</scope><scope>FYUFA</scope><scope>GHDGH</scope><scope>GNUQQ</scope><scope>HCIFZ</scope><scope>K9.</scope><scope>LK8</scope><scope>M0S</scope><scope>M1P</scope><scope>M2P</scope><scope>M7P</scope><scope>P64</scope><scope>PQEST</scope><scope>PQQKQ</scope><scope>PQUKI</scope><scope>PRINS</scope><scope>Q9U</scope><scope>RC3</scope><scope>7X8</scope></search><sort><creationdate>20211201</creationdate><title>RPS13, a potential universal reference gene for normalisation of gene expression in multiple human normal and cancer tissue samples</title><author>Rashid, Mudasir ; Shah, Sanket Girish ; Natu, Abhiram ; Verma, Tripti ; Rauniyar, Sukanya ; Gera, Poonam B. ; Gupta, Sanjay</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c375t-9e8935d94243715f0a4e6fc59e6e07e1a25c8ed5cadd1b10ee1b52ecc1801eba3</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2021</creationdate><topic>Animal Anatomy</topic><topic>Animal Biochemistry</topic><topic>Biomedical and Life Sciences</topic><topic>Cancer research</topic><topic>Databases, Genetic</topic><topic>Gene expression</topic><topic>Gene Expression - genetics</topic><topic>Gene Expression Profiling - methods</topic><topic>Gene Expression Profiling - standards</topic><topic>Histology</topic><topic>Humans</topic><topic>Life Sciences</topic><topic>Morphology</topic><topic>Neoplasms - diagnosis</topic><topic>Neoplasms - genetics</topic><topic>Original Article</topic><topic>Real-Time Polymerase Chain Reaction - methods</topic><topic>Reference Standards</topic><topic>Ribosomal protein S13</topic><topic>Ribosomal Proteins - genetics</topic><topic>Ribosomal Proteins - metabolism</topic><topic>Transcriptome - genetics</topic><topic>Tumors</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Rashid, Mudasir</creatorcontrib><creatorcontrib>Shah, Sanket Girish</creatorcontrib><creatorcontrib>Natu, Abhiram</creatorcontrib><creatorcontrib>Verma, Tripti</creatorcontrib><creatorcontrib>Rauniyar, Sukanya</creatorcontrib><creatorcontrib>Gera, Poonam B.</creatorcontrib><creatorcontrib>Gupta, Sanjay</creatorcontrib><collection>Medline</collection><collection>MEDLINE</collection><collection>MEDLINE (Ovid)</collection><collection>MEDLINE</collection><collection>MEDLINE</collection><collection>PubMed</collection><collection>CrossRef</collection><collection>ProQuest Central (Corporate)</collection><collection>Neurosciences Abstracts</collection><collection>Nucleic Acids Abstracts</collection><collection>Health & Medical Collection</collection><collection>ProQuest Central (purchase pre-March 2016)</collection><collection>Biology Database (Alumni Edition)</collection><collection>Medical Database (Alumni Edition)</collection><collection>Science Database (Alumni Edition)</collection><collection>ProQuest Pharma Collection</collection><collection>Technology Research Database</collection><collection>ProQuest SciTech Collection</collection><collection>ProQuest Natural Science Collection</collection><collection>Hospital Premium Collection</collection><collection>Hospital Premium Collection (Alumni Edition)</collection><collection>ProQuest Central (Alumni) (purchase pre-March 2016)</collection><collection>ProQuest Central (Alumni Edition)</collection><collection>ProQuest Central UK/Ireland</collection><collection>ProQuest Central Essentials</collection><collection>Biological Science Collection</collection><collection>ProQuest Central</collection><collection>Natural Science Collection</collection><collection>ProQuest One Community College</collection><collection>ProQuest Central Korea</collection><collection>Engineering Research Database</collection><collection>Health Research Premium Collection</collection><collection>Health Research Premium Collection (Alumni)</collection><collection>ProQuest Central Student</collection><collection>SciTech Premium Collection</collection><collection>ProQuest Health & Medical Complete (Alumni)</collection><collection>ProQuest Biological Science Collection</collection><collection>Health & Medical Collection (Alumni Edition)</collection><collection>Medical Database</collection><collection>Science Database</collection><collection>Biological Science Database</collection><collection>Biotechnology and BioEngineering Abstracts</collection><collection>ProQuest One Academic Eastern Edition (DO NOT USE)</collection><collection>ProQuest One Academic</collection><collection>ProQuest One Academic UKI Edition</collection><collection>ProQuest Central China</collection><collection>ProQuest Central Basic</collection><collection>Genetics Abstracts</collection><collection>MEDLINE - Academic</collection><jtitle>Molecular biology reports</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Rashid, Mudasir</au><au>Shah, Sanket Girish</au><au>Natu, Abhiram</au><au>Verma, Tripti</au><au>Rauniyar, Sukanya</au><au>Gera, Poonam B.</au><au>Gupta, Sanjay</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>RPS13, a potential universal reference gene for normalisation of gene expression in multiple human normal and cancer tissue samples</atitle><jtitle>Molecular biology reports</jtitle><stitle>Mol Biol Rep</stitle><addtitle>Mol Biol Rep</addtitle><date>2021-12-01</date><risdate>2021</risdate><volume>48</volume><issue>12</issue><spage>7967</spage><epage>7974</epage><pages>7967-7974</pages><issn>0301-4851</issn><eissn>1573-4978</eissn><abstract>Background
Reference genes are considered stable genes and are used for normalizing the gene expression profile across different cell types; as well as, in normal and diseased samples. However, these gene associates with different biological processes, and hence expression vary in different pathological conditions. Therefore, in the present study, eight different reference genes were used and compared to identify common reference gene usable for an array of different cell types and human cancers.
Methods and results
The expression stability of the eight reference genes across eleven normal and cancerous tissues was confirmed through real time-qPCR. Ribosomal protein S13 (RPS13) was found to be a common and stable reference gene across intra- and inter-comparison between various normal and tumor tissue types. Further, TCGA data analysis across and between normal and tumor tissue types also showed minimum deviation in expression of RPS13 gene out of eight routinely used reference genes.
Conclusion
RPS13 is the common stable reference gene in normalization for gene expression based analysis in cancer research.</abstract><cop>Dordrecht</cop><pub>Springer Netherlands</pub><pmid>34657252</pmid><doi>10.1007/s11033-021-06828-6</doi><tpages>8</tpages></addata></record> |
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| subjects | Animal Anatomy Animal Biochemistry Biomedical and Life Sciences Cancer research Databases, Genetic Gene expression Gene Expression - genetics Gene Expression Profiling - methods Gene Expression Profiling - standards Histology Humans Life Sciences Morphology Neoplasms - diagnosis Neoplasms - genetics Original Article Real-Time Polymerase Chain Reaction - methods Reference Standards Ribosomal protein S13 Ribosomal Proteins - genetics Ribosomal Proteins - metabolism Transcriptome - genetics Tumors |
| title | RPS13, a potential universal reference gene for normalisation of gene expression in multiple human normal and cancer tissue samples |
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