Development of an Informatics Platform for Therapeutic Protein and Peptide Analytics
The momentum gained by research on biologics has not been met yet with equal thrust on the informatics side. There is a noticeable lack of software for data management that empowers the bench scientists working on the development of biologic therapeutics. SARvision|Biologics is a tool to analyze dat...
Gespeichert in:
| Veröffentlicht in: | Journal of chemical information and modeling 2013-10, Vol.53 (10), p.2774-2779 |
|---|---|
| Hauptverfasser: | , , |
| Format: | Artikel |
| Sprache: | eng |
| Schlagworte: | |
| Online-Zugang: | Volltext |
| Tags: |
Tag hinzufügen
Keine Tags, Fügen Sie den ersten Tag hinzu!
|
| container_end_page | 2779 |
|---|---|
| container_issue | 10 |
| container_start_page | 2774 |
| container_title | Journal of chemical information and modeling |
| container_volume | 53 |
| creator | Hansen, Mark R Villar, Hugo O Feyfant, Eric |
| description | The momentum gained by research on biologics has not been met yet with equal thrust on the informatics side. There is a noticeable lack of software for data management that empowers the bench scientists working on the development of biologic therapeutics. SARvision|Biologics is a tool to analyze data associated with biopolymers, including peptides, antibodies, and protein therapeutics programs. The program brings under a single user interface tools to filter, mine, and visualize data as well as those algorithms needed to organize sequences. As part of the data-analysis tools, we introduce two new concepts: mutation cliffs and invariant maps. Invariant maps show the variability of properties when a monomer is maintained constant in a position of the biopolymer. Mutation cliff maps draw attention to pairs of sequences where a single or limited number of point mutations elicit a large change in a property of interest. We illustrate the program and its applications using a peptide data set collected from the literature. |
| doi_str_mv | 10.1021/ci400333x |
| format | Article |
| fullrecord | <record><control><sourceid>proquest_cross</sourceid><recordid>TN_cdi_proquest_miscellaneous_1446873768</recordid><sourceformat>XML</sourceformat><sourcesystem>PC</sourcesystem><sourcerecordid>3118072871</sourcerecordid><originalsourceid>FETCH-LOGICAL-a373t-791b84199b867da96c3e708a39feb7e5568ac7126e83acfc9e25e1d0bbbd8203</originalsourceid><addsrcrecordid>eNpl0ElLxDAUB_AgivvBLyABEfQwmjT7UdxhwDnMwVt5TV-x0s2kFf32dpxxQS9ZyC_vPf6EHHB2xlnCz30pGRNCvK2Rba6kmzjNHte_zsrpLbIT4_PCOJ1skq1EMuekZttkfoWvWLVdjU1P24JCQ--bog019KWPdFZBv7jRcaHzJwzQ4TC-0Floeyyb0ed0hl1f5kgvGqjeF9_2yEYBVcT91b5L5jfX88u7yfTh9v7yYjoBYUQ_MY5nVnLnMqtNDk57gYZZEK7AzKBS2oI3PNFoBfjCO0wU8pxlWZbbhIldcrIs24X2ZcDYp3UZPVYVNNgOMeVSamuE0XakR3_oczuEcd5PZZVSiVKjOl0qH9oYAxZpF8oawnvKWbpIOv1OerSHq4pDVmP-Lb-iHcHxCkD0UBUBGl_GH2esVVLyHwc-_prqX8MP-WeROQ</addsrcrecordid><sourcetype>Aggregation Database</sourcetype><iscdi>true</iscdi><recordtype>article</recordtype><pqid>1448555255</pqid></control><display><type>article</type><title>Development of an Informatics Platform for Therapeutic Protein and Peptide Analytics</title><source>MEDLINE</source><source>ACS Publications</source><creator>Hansen, Mark R ; Villar, Hugo O ; Feyfant, Eric</creator><creatorcontrib>Hansen, Mark R ; Villar, Hugo O ; Feyfant, Eric</creatorcontrib><description>The momentum gained by research on biologics has not been met yet with equal thrust on the informatics side. There is a noticeable lack of software for data management that empowers the bench scientists working on the development of biologic therapeutics. SARvision|Biologics is a tool to analyze data associated with biopolymers, including peptides, antibodies, and protein therapeutics programs. The program brings under a single user interface tools to filter, mine, and visualize data as well as those algorithms needed to organize sequences. As part of the data-analysis tools, we introduce two new concepts: mutation cliffs and invariant maps. Invariant maps show the variability of properties when a monomer is maintained constant in a position of the biopolymer. Mutation cliff maps draw attention to pairs of sequences where a single or limited number of point mutations elicit a large change in a property of interest. We illustrate the program and its applications using a peptide data set collected from the literature.</description><identifier>ISSN: 1549-9596</identifier><identifier>EISSN: 1549-960X</identifier><identifier>DOI: 10.1021/ci400333x</identifier><identifier>PMID: 24099460</identifier><language>eng</language><publisher>Washington, DC: American Chemical Society</publisher><subject>Algorithms ; Anti-Bacterial Agents - chemistry ; Anti-Bacterial Agents - pharmacology ; Antibodies - chemistry ; Antibodies - pharmacology ; Applied sciences ; Biological and medical sciences ; Biological Products - chemistry ; Biological Products - pharmacology ; Biomarkers, Pharmacological ; Biopolymers ; Biotechnology ; Computational Biology - instrumentation ; Computational Biology - methods ; Computational Biology - statistics & numerical data ; Computer science; control theory; systems ; Exact sciences and technology ; Fundamental and applied biological sciences. Psychology ; Humans ; Lactococcus lactis - drug effects ; Lactococcus lactis - genetics ; Lactococcus lactis - growth & development ; Methods. Procedures. Technologies ; Microbial Sensitivity Tests ; Micrococcus luteus - drug effects ; Micrococcus luteus - genetics ; Micrococcus luteus - growth & development ; Mutation ; Peptides ; Peptides - chemistry ; Peptides - pharmacology ; Point Mutation ; Protein engineering ; Proteins ; Software ; Software engineering ; Staphylococcus aureus - drug effects ; Staphylococcus aureus - genetics ; Staphylococcus aureus - growth & development ; Structure-Activity Relationship ; User-Computer Interface</subject><ispartof>Journal of chemical information and modeling, 2013-10, Vol.53 (10), p.2774-2779</ispartof><rights>Copyright © 2013 American Chemical Society</rights><rights>2014 INIST-CNRS</rights><rights>Copyright American Chemical Society Oct 28, 2013</rights><lds50>peer_reviewed</lds50><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-a373t-791b84199b867da96c3e708a39feb7e5568ac7126e83acfc9e25e1d0bbbd8203</citedby><cites>FETCH-LOGICAL-a373t-791b84199b867da96c3e708a39feb7e5568ac7126e83acfc9e25e1d0bbbd8203</cites></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktopdf>$$Uhttps://pubs.acs.org/doi/pdf/10.1021/ci400333x$$EPDF$$P50$$Gacs$$H</linktopdf><linktohtml>$$Uhttps://pubs.acs.org/doi/10.1021/ci400333x$$EHTML$$P50$$Gacs$$H</linktohtml><link.rule.ids>314,777,781,2752,27057,27905,27906,56719,56769</link.rule.ids><backlink>$$Uhttp://pascal-francis.inist.fr/vibad/index.php?action=getRecordDetail&idt=27885441$$DView record in Pascal Francis$$Hfree_for_read</backlink><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/24099460$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Hansen, Mark R</creatorcontrib><creatorcontrib>Villar, Hugo O</creatorcontrib><creatorcontrib>Feyfant, Eric</creatorcontrib><title>Development of an Informatics Platform for Therapeutic Protein and Peptide Analytics</title><title>Journal of chemical information and modeling</title><addtitle>J. Chem. Inf. Model</addtitle><description>The momentum gained by research on biologics has not been met yet with equal thrust on the informatics side. There is a noticeable lack of software for data management that empowers the bench scientists working on the development of biologic therapeutics. SARvision|Biologics is a tool to analyze data associated with biopolymers, including peptides, antibodies, and protein therapeutics programs. The program brings under a single user interface tools to filter, mine, and visualize data as well as those algorithms needed to organize sequences. As part of the data-analysis tools, we introduce two new concepts: mutation cliffs and invariant maps. Invariant maps show the variability of properties when a monomer is maintained constant in a position of the biopolymer. Mutation cliff maps draw attention to pairs of sequences where a single or limited number of point mutations elicit a large change in a property of interest. We illustrate the program and its applications using a peptide data set collected from the literature.</description><subject>Algorithms</subject><subject>Anti-Bacterial Agents - chemistry</subject><subject>Anti-Bacterial Agents - pharmacology</subject><subject>Antibodies - chemistry</subject><subject>Antibodies - pharmacology</subject><subject>Applied sciences</subject><subject>Biological and medical sciences</subject><subject>Biological Products - chemistry</subject><subject>Biological Products - pharmacology</subject><subject>Biomarkers, Pharmacological</subject><subject>Biopolymers</subject><subject>Biotechnology</subject><subject>Computational Biology - instrumentation</subject><subject>Computational Biology - methods</subject><subject>Computational Biology - statistics & numerical data</subject><subject>Computer science; control theory; systems</subject><subject>Exact sciences and technology</subject><subject>Fundamental and applied biological sciences. Psychology</subject><subject>Humans</subject><subject>Lactococcus lactis - drug effects</subject><subject>Lactococcus lactis - genetics</subject><subject>Lactococcus lactis - growth & development</subject><subject>Methods. Procedures. Technologies</subject><subject>Microbial Sensitivity Tests</subject><subject>Micrococcus luteus - drug effects</subject><subject>Micrococcus luteus - genetics</subject><subject>Micrococcus luteus - growth & development</subject><subject>Mutation</subject><subject>Peptides</subject><subject>Peptides - chemistry</subject><subject>Peptides - pharmacology</subject><subject>Point Mutation</subject><subject>Protein engineering</subject><subject>Proteins</subject><subject>Software</subject><subject>Software engineering</subject><subject>Staphylococcus aureus - drug effects</subject><subject>Staphylococcus aureus - genetics</subject><subject>Staphylococcus aureus - growth & development</subject><subject>Structure-Activity Relationship</subject><subject>User-Computer Interface</subject><issn>1549-9596</issn><issn>1549-960X</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2013</creationdate><recordtype>article</recordtype><sourceid>EIF</sourceid><recordid>eNpl0ElLxDAUB_AgivvBLyABEfQwmjT7UdxhwDnMwVt5TV-x0s2kFf32dpxxQS9ZyC_vPf6EHHB2xlnCz30pGRNCvK2Rba6kmzjNHte_zsrpLbIT4_PCOJ1skq1EMuekZttkfoWvWLVdjU1P24JCQ--bog019KWPdFZBv7jRcaHzJwzQ4TC-0Floeyyb0ed0hl1f5kgvGqjeF9_2yEYBVcT91b5L5jfX88u7yfTh9v7yYjoBYUQ_MY5nVnLnMqtNDk57gYZZEK7AzKBS2oI3PNFoBfjCO0wU8pxlWZbbhIldcrIs24X2ZcDYp3UZPVYVNNgOMeVSamuE0XakR3_oczuEcd5PZZVSiVKjOl0qH9oYAxZpF8oawnvKWbpIOv1OerSHq4pDVmP-Lb-iHcHxCkD0UBUBGl_GH2esVVLyHwc-_prqX8MP-WeROQ</recordid><startdate>20131028</startdate><enddate>20131028</enddate><creator>Hansen, Mark R</creator><creator>Villar, Hugo O</creator><creator>Feyfant, Eric</creator><general>American Chemical Society</general><scope>IQODW</scope><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>7SC</scope><scope>7SR</scope><scope>7U5</scope><scope>8BQ</scope><scope>8FD</scope><scope>JG9</scope><scope>JQ2</scope><scope>L7M</scope><scope>L~C</scope><scope>L~D</scope><scope>7X8</scope></search><sort><creationdate>20131028</creationdate><title>Development of an Informatics Platform for Therapeutic Protein and Peptide Analytics</title><author>Hansen, Mark R ; Villar, Hugo O ; Feyfant, Eric</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-a373t-791b84199b867da96c3e708a39feb7e5568ac7126e83acfc9e25e1d0bbbd8203</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2013</creationdate><topic>Algorithms</topic><topic>Anti-Bacterial Agents - chemistry</topic><topic>Anti-Bacterial Agents - pharmacology</topic><topic>Antibodies - chemistry</topic><topic>Antibodies - pharmacology</topic><topic>Applied sciences</topic><topic>Biological and medical sciences</topic><topic>Biological Products - chemistry</topic><topic>Biological Products - pharmacology</topic><topic>Biomarkers, Pharmacological</topic><topic>Biopolymers</topic><topic>Biotechnology</topic><topic>Computational Biology - instrumentation</topic><topic>Computational Biology - methods</topic><topic>Computational Biology - statistics & numerical data</topic><topic>Computer science; control theory; systems</topic><topic>Exact sciences and technology</topic><topic>Fundamental and applied biological sciences. Psychology</topic><topic>Humans</topic><topic>Lactococcus lactis - drug effects</topic><topic>Lactococcus lactis - genetics</topic><topic>Lactococcus lactis - growth & development</topic><topic>Methods. Procedures. Technologies</topic><topic>Microbial Sensitivity Tests</topic><topic>Micrococcus luteus - drug effects</topic><topic>Micrococcus luteus - genetics</topic><topic>Micrococcus luteus - growth & development</topic><topic>Mutation</topic><topic>Peptides</topic><topic>Peptides - chemistry</topic><topic>Peptides - pharmacology</topic><topic>Point Mutation</topic><topic>Protein engineering</topic><topic>Proteins</topic><topic>Software</topic><topic>Software engineering</topic><topic>Staphylococcus aureus - drug effects</topic><topic>Staphylococcus aureus - genetics</topic><topic>Staphylococcus aureus - growth & development</topic><topic>Structure-Activity Relationship</topic><topic>User-Computer Interface</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Hansen, Mark R</creatorcontrib><creatorcontrib>Villar, Hugo O</creatorcontrib><creatorcontrib>Feyfant, Eric</creatorcontrib><collection>Pascal-Francis</collection><collection>Medline</collection><collection>MEDLINE</collection><collection>MEDLINE (Ovid)</collection><collection>MEDLINE</collection><collection>MEDLINE</collection><collection>PubMed</collection><collection>CrossRef</collection><collection>Computer and Information Systems Abstracts</collection><collection>Engineered Materials Abstracts</collection><collection>Solid State and Superconductivity Abstracts</collection><collection>METADEX</collection><collection>Technology Research Database</collection><collection>Materials Research Database</collection><collection>ProQuest Computer Science Collection</collection><collection>Advanced Technologies Database with Aerospace</collection><collection>Computer and Information Systems Abstracts Academic</collection><collection>Computer and Information Systems Abstracts Professional</collection><collection>MEDLINE - Academic</collection><jtitle>Journal of chemical information and modeling</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Hansen, Mark R</au><au>Villar, Hugo O</au><au>Feyfant, Eric</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Development of an Informatics Platform for Therapeutic Protein and Peptide Analytics</atitle><jtitle>Journal of chemical information and modeling</jtitle><addtitle>J. Chem. Inf. Model</addtitle><date>2013-10-28</date><risdate>2013</risdate><volume>53</volume><issue>10</issue><spage>2774</spage><epage>2779</epage><pages>2774-2779</pages><issn>1549-9596</issn><eissn>1549-960X</eissn><abstract>The momentum gained by research on biologics has not been met yet with equal thrust on the informatics side. There is a noticeable lack of software for data management that empowers the bench scientists working on the development of biologic therapeutics. SARvision|Biologics is a tool to analyze data associated with biopolymers, including peptides, antibodies, and protein therapeutics programs. The program brings under a single user interface tools to filter, mine, and visualize data as well as those algorithms needed to organize sequences. As part of the data-analysis tools, we introduce two new concepts: mutation cliffs and invariant maps. Invariant maps show the variability of properties when a monomer is maintained constant in a position of the biopolymer. Mutation cliff maps draw attention to pairs of sequences where a single or limited number of point mutations elicit a large change in a property of interest. We illustrate the program and its applications using a peptide data set collected from the literature.</abstract><cop>Washington, DC</cop><pub>American Chemical Society</pub><pmid>24099460</pmid><doi>10.1021/ci400333x</doi><tpages>6</tpages></addata></record> |
| fulltext | fulltext |
| identifier | ISSN: 1549-9596 |
| ispartof | Journal of chemical information and modeling, 2013-10, Vol.53 (10), p.2774-2779 |
| issn | 1549-9596 1549-960X |
| language | eng |
| recordid | cdi_proquest_miscellaneous_1446873768 |
| source | MEDLINE; ACS Publications |
| subjects | Algorithms Anti-Bacterial Agents - chemistry Anti-Bacterial Agents - pharmacology Antibodies - chemistry Antibodies - pharmacology Applied sciences Biological and medical sciences Biological Products - chemistry Biological Products - pharmacology Biomarkers, Pharmacological Biopolymers Biotechnology Computational Biology - instrumentation Computational Biology - methods Computational Biology - statistics & numerical data Computer science control theory systems Exact sciences and technology Fundamental and applied biological sciences. Psychology Humans Lactococcus lactis - drug effects Lactococcus lactis - genetics Lactococcus lactis - growth & development Methods. Procedures. Technologies Microbial Sensitivity Tests Micrococcus luteus - drug effects Micrococcus luteus - genetics Micrococcus luteus - growth & development Mutation Peptides Peptides - chemistry Peptides - pharmacology Point Mutation Protein engineering Proteins Software Software engineering Staphylococcus aureus - drug effects Staphylococcus aureus - genetics Staphylococcus aureus - growth & development Structure-Activity Relationship User-Computer Interface |
| title | Development of an Informatics Platform for Therapeutic Protein and Peptide Analytics |
| url | https://sfx.bib-bvb.de/sfx_tum?ctx_ver=Z39.88-2004&ctx_enc=info:ofi/enc:UTF-8&ctx_tim=2025-01-19T02%3A16%3A35IST&url_ver=Z39.88-2004&url_ctx_fmt=infofi/fmt:kev:mtx:ctx&rfr_id=info:sid/primo.exlibrisgroup.com:primo3-Article-proquest_cross&rft_val_fmt=info:ofi/fmt:kev:mtx:journal&rft.genre=article&rft.atitle=Development%20of%20an%20Informatics%20Platform%20for%20Therapeutic%20Protein%20and%20Peptide%20Analytics&rft.jtitle=Journal%20of%20chemical%20information%20and%20modeling&rft.au=Hansen,%20Mark%20R&rft.date=2013-10-28&rft.volume=53&rft.issue=10&rft.spage=2774&rft.epage=2779&rft.pages=2774-2779&rft.issn=1549-9596&rft.eissn=1549-960X&rft_id=info:doi/10.1021/ci400333x&rft_dat=%3Cproquest_cross%3E3118072871%3C/proquest_cross%3E%3Curl%3E%3C/url%3E&disable_directlink=true&sfx.directlink=off&sfx.report_link=0&rft_id=info:oai/&rft_pqid=1448555255&rft_id=info:pmid/24099460&rfr_iscdi=true |