Plasma/serum proteomics: depletion strategies for reducing high-abundance proteins for biomarker discovery
Plasma and serum are widely used for proteomics-based biomarker discovery. However, analysis of these biofluids is highly challenging due to the complexity and wide dynamic range of their proteomes. Notably, highly abundant proteins tend to obscure the detection of potential biomarkers that are usua...
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| Veröffentlicht in: | Bioanalysis 2019-10, Vol.11 (19), p.1799-1812 |
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| creator | Lee, Pey Yee Osman, Junaida Low, Teck Yew Jamal, Rahman |
| description | Plasma and serum are widely used for proteomics-based biomarker discovery. However, analysis of these biofluids is highly challenging due to the complexity and wide dynamic range of their proteomes. Notably, highly abundant proteins tend to obscure the detection of potential biomarkers that are usually of lower concentrations. Among the strategies to resolve this problem are: depletion of high-abundance proteins, enrichment of low abundant proteins of interest and prefractionation. In this review, we focus on current and emerging depletion techniques used to enhance the detection and identification of the less abundant proteins in plasma and serum. We discuss the applications and contributions of these methods to proteomics analysis of plasma and serum alongside their limitations and future perspectives. |
| doi_str_mv | 10.4155/bio-2019-0145 |
| format | Article |
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However, analysis of these biofluids is highly challenging due to the complexity and wide dynamic range of their proteomes. Notably, highly abundant proteins tend to obscure the detection of potential biomarkers that are usually of lower concentrations. Among the strategies to resolve this problem are: depletion of high-abundance proteins, enrichment of low abundant proteins of interest and prefractionation. In this review, we focus on current and emerging depletion techniques used to enhance the detection and identification of the less abundant proteins in plasma and serum. We discuss the applications and contributions of these methods to proteomics analysis of plasma and serum alongside their limitations and future perspectives.</description><identifier>ISSN: 1757-6180</identifier><identifier>EISSN: 1757-6199</identifier><identifier>DOI: 10.4155/bio-2019-0145</identifier><identifier>PMID: 31617391</identifier><language>eng</language><publisher>England: Newlands Press Ltd</publisher><subject>Animals ; Antibodies ; Apolipoproteins ; bacterial cellulose ; Binding sites ; biomarker ; Biomarkers ; Biomarkers - blood ; Blood Proteins - analysis ; Blood Proteins - isolation & purification ; Chemical Precipitation ; Chromatography ; Chromatography, Affinity - methods ; cibacron blue ; Collodion - chemistry ; combinatorial peptide ligand library (CPLL) ; cryogels ; Cryogels - chemistry ; depletion ; Efficiency ; Humans ; Ligands ; Methods ; molecular imprinted polymers ; Molecular Imprinting - methods ; Peptide Library ; Plasma ; Polymers - chemistry ; Proteins ; Proteomics ; Proteomics - methods ; serum</subject><ispartof>Bioanalysis, 2019-10, Vol.11 (19), p.1799-1812</ispartof><rights>2019 Newlands Press</rights><rights>Copyright Newlands Press Oct 2019</rights><lds50>peer_reviewed</lds50><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c371t-5e1d25c7ccdbeb917fe648f17fca6e041695d4daee0a68f406c646ba32d52beb3</citedby><cites>FETCH-LOGICAL-c371t-5e1d25c7ccdbeb917fe648f17fca6e041695d4daee0a68f406c646ba32d52beb3</cites><orcidid>0000-0001-7878-7534</orcidid></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><link.rule.ids>315,782,786,27931,27932</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/31617391$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Lee, Pey Yee</creatorcontrib><creatorcontrib>Osman, Junaida</creatorcontrib><creatorcontrib>Low, Teck Yew</creatorcontrib><creatorcontrib>Jamal, Rahman</creatorcontrib><title>Plasma/serum proteomics: depletion strategies for reducing high-abundance proteins for biomarker discovery</title><title>Bioanalysis</title><addtitle>Bioanalysis</addtitle><description>Plasma and serum are widely used for proteomics-based biomarker discovery. However, analysis of these biofluids is highly challenging due to the complexity and wide dynamic range of their proteomes. Notably, highly abundant proteins tend to obscure the detection of potential biomarkers that are usually of lower concentrations. Among the strategies to resolve this problem are: depletion of high-abundance proteins, enrichment of low abundant proteins of interest and prefractionation. In this review, we focus on current and emerging depletion techniques used to enhance the detection and identification of the less abundant proteins in plasma and serum. We discuss the applications and contributions of these methods to proteomics analysis of plasma and serum alongside their limitations and future perspectives.</description><subject>Animals</subject><subject>Antibodies</subject><subject>Apolipoproteins</subject><subject>bacterial cellulose</subject><subject>Binding sites</subject><subject>biomarker</subject><subject>Biomarkers</subject><subject>Biomarkers - blood</subject><subject>Blood Proteins - analysis</subject><subject>Blood Proteins - isolation & purification</subject><subject>Chemical Precipitation</subject><subject>Chromatography</subject><subject>Chromatography, Affinity - methods</subject><subject>cibacron blue</subject><subject>Collodion - chemistry</subject><subject>combinatorial peptide ligand library (CPLL)</subject><subject>cryogels</subject><subject>Cryogels - chemistry</subject><subject>depletion</subject><subject>Efficiency</subject><subject>Humans</subject><subject>Ligands</subject><subject>Methods</subject><subject>molecular imprinted polymers</subject><subject>Molecular Imprinting - methods</subject><subject>Peptide Library</subject><subject>Plasma</subject><subject>Polymers - chemistry</subject><subject>Proteins</subject><subject>Proteomics</subject><subject>Proteomics - methods</subject><subject>serum</subject><issn>1757-6180</issn><issn>1757-6199</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2019</creationdate><recordtype>article</recordtype><sourceid>EIF</sourceid><sourceid>ABUWG</sourceid><sourceid>AFKRA</sourceid><sourceid>AZQEC</sourceid><sourceid>BENPR</sourceid><sourceid>CCPQU</sourceid><sourceid>DWQXO</sourceid><sourceid>GNUQQ</sourceid><recordid>eNp1kM9PwyAcxYnRuGXu6NU08YyDFujwZhZ_JUv0oGdC4duNuZYJrcn-e1k6d5PLF5LPe9_HQ-iakjtGOZ9VzuOcUIkJZfwMjWnJSyyolOen-5yM0DTGDUmnyOeSyUs0KqigZSHpGG3etzo2ehYh9E22C74D3zgT7zMLuy10zrdZ7ILuYOUgZrUPWQDbG9eusrVbrbGu-tbq1sAgdu0ApWSNDl8QMuui8T8Q9lfootbbCNPjnKDPp8ePxQtevj2_Lh6W2BQl7TAHanNuSmNsBZWkZQ2Czes0jRZAGBWSW2Y1ANFiXjMijGCi0kVueZ4UxQTdDr4p0HcPsVMb34c2rVQ540yUPM9lovBAmeBjDFCrXXAp8l5Rog7lqvQFdShXHcpN_M3Rta8asCf6r8oEyAGo-64PEI2D1IoaXknhUmfwj_kvjQiLcw</recordid><startdate>20191001</startdate><enddate>20191001</enddate><creator>Lee, Pey Yee</creator><creator>Osman, Junaida</creator><creator>Low, Teck Yew</creator><creator>Jamal, Rahman</creator><general>Newlands Press Ltd</general><general>Newlands Press</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>7X7</scope><scope>7XB</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>FYUFA</scope><scope>GHDGH</scope><scope>GNUQQ</scope><scope>HCIFZ</scope><scope>K9.</scope><scope>LK8</scope><scope>M0S</scope><scope>M7P</scope><scope>PQEST</scope><scope>PQQKQ</scope><scope>PQUKI</scope><scope>PRINS</scope><orcidid>https://orcid.org/0000-0001-7878-7534</orcidid></search><sort><creationdate>20191001</creationdate><title>Plasma/serum proteomics: depletion strategies for reducing high-abundance proteins for biomarker discovery</title><author>Lee, Pey Yee ; Osman, Junaida ; Low, Teck Yew ; Jamal, Rahman</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c371t-5e1d25c7ccdbeb917fe648f17fca6e041695d4daee0a68f406c646ba32d52beb3</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2019</creationdate><topic>Animals</topic><topic>Antibodies</topic><topic>Apolipoproteins</topic><topic>bacterial cellulose</topic><topic>Binding sites</topic><topic>biomarker</topic><topic>Biomarkers</topic><topic>Biomarkers - blood</topic><topic>Blood Proteins - analysis</topic><topic>Blood Proteins - isolation & purification</topic><topic>Chemical Precipitation</topic><topic>Chromatography</topic><topic>Chromatography, Affinity - methods</topic><topic>cibacron blue</topic><topic>Collodion - chemistry</topic><topic>combinatorial peptide ligand library (CPLL)</topic><topic>cryogels</topic><topic>Cryogels - chemistry</topic><topic>depletion</topic><topic>Efficiency</topic><topic>Humans</topic><topic>Ligands</topic><topic>Methods</topic><topic>molecular imprinted polymers</topic><topic>Molecular Imprinting - methods</topic><topic>Peptide Library</topic><topic>Plasma</topic><topic>Polymers - chemistry</topic><topic>Proteins</topic><topic>Proteomics</topic><topic>Proteomics - methods</topic><topic>serum</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Lee, Pey Yee</creatorcontrib><creatorcontrib>Osman, Junaida</creatorcontrib><creatorcontrib>Low, Teck Yew</creatorcontrib><creatorcontrib>Jamal, Rahman</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>Health & Medical Collection</collection><collection>ProQuest Central (purchase pre-March 2016)</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>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>Biological Science Database</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><jtitle>Bioanalysis</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Lee, Pey Yee</au><au>Osman, Junaida</au><au>Low, Teck Yew</au><au>Jamal, Rahman</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Plasma/serum proteomics: depletion strategies for reducing high-abundance proteins for biomarker discovery</atitle><jtitle>Bioanalysis</jtitle><addtitle>Bioanalysis</addtitle><date>2019-10-01</date><risdate>2019</risdate><volume>11</volume><issue>19</issue><spage>1799</spage><epage>1812</epage><pages>1799-1812</pages><issn>1757-6180</issn><eissn>1757-6199</eissn><abstract>Plasma and serum are widely used for proteomics-based biomarker discovery. However, analysis of these biofluids is highly challenging due to the complexity and wide dynamic range of their proteomes. Notably, highly abundant proteins tend to obscure the detection of potential biomarkers that are usually of lower concentrations. Among the strategies to resolve this problem are: depletion of high-abundance proteins, enrichment of low abundant proteins of interest and prefractionation. In this review, we focus on current and emerging depletion techniques used to enhance the detection and identification of the less abundant proteins in plasma and serum. We discuss the applications and contributions of these methods to proteomics analysis of plasma and serum alongside their limitations and future perspectives.</abstract><cop>England</cop><pub>Newlands Press Ltd</pub><pmid>31617391</pmid><doi>10.4155/bio-2019-0145</doi><tpages>14</tpages><orcidid>https://orcid.org/0000-0001-7878-7534</orcidid></addata></record> |
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| subjects | Animals Antibodies Apolipoproteins bacterial cellulose Binding sites biomarker Biomarkers Biomarkers - blood Blood Proteins - analysis Blood Proteins - isolation & purification Chemical Precipitation Chromatography Chromatography, Affinity - methods cibacron blue Collodion - chemistry combinatorial peptide ligand library (CPLL) cryogels Cryogels - chemistry depletion Efficiency Humans Ligands Methods molecular imprinted polymers Molecular Imprinting - methods Peptide Library Plasma Polymers - chemistry Proteins Proteomics Proteomics - methods serum |
| title | Plasma/serum proteomics: depletion strategies for reducing high-abundance proteins for biomarker discovery |
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