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'''Jared C. Roach''' is an American [[biologist]] who introduced the [[Shotgun sequencing#Paired-end sequencing|pairwise end sequencing]] strategy while at the [[University of Washington]].<ref name="pmid27110816">{{cite journal| author=Xiao W, Wu L, Yavas G, Simonyan V, Ning B, Hong H| title=Challenges, Solutions, and Quality Metrics of Personal Genome Assembly in Advancing Precision Medicine. | journal=Pharmaceutics | year= 2016 | volume= 8 | issue= 2 | pages= | pmid=27110816 | doi=10.3390/pharmaceutics8020015 | pmc=4932478 | url=https://www.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pubmed&tool=sumsearch.org/cite&retmode=ref&cmd=prlinks&id=27110816 }}</ref><ref name="Timmerman">{{cite book |last= Timmerman|first= Luke|date= August 10, 2016|title= Hood: Trailblazer of the Genomics Age |publisher= Bandera Press|page= 265|isbn=978-0997709308}}</ref><ref name="Jones&Pevzner" />
'''Jared C. Roach''' is an American [[biologist]] who introduced the [[Shotgun sequencing#Paired-end sequencing|pairwise end sequencing]] strategy while at the [[University of Washington]].<ref name="pmid27110816">{{cite journal| author=Xiao W, Wu L, Yavas G, Simonyan V, Ning B, Hong H| title=Challenges, Solutions, and Quality Metrics of Personal Genome Assembly in Advancing Precision Medicine. | journal=Pharmaceutics | year= 2016 | volume= 8 | issue= 2 | page=15 | pmid=27110816 | doi=10.3390/pharmaceutics8020015 | pmc=4932478 | doi-access=free }}</ref><ref name="Timmerman">{{cite book |last= Timmerman|first= Luke|date= August 10, 2016|title= Hood: Trailblazer of the Genomics Age |publisher= Bandera Press|page= 265|isbn=978-0997709308}}</ref><ref name="Jones&Pevzner" />


== Education and early career ==
== Education and early career ==
Line 25: Line 25:


==Career==
==Career==
Starting as graduate student in the 1990s, Roach worked on the [[Human Genome Project]] from its early days through the end of the project in 2003.<ref name="CV">{{cite web |url= https://www.strategicgenomics.com/Jared/resume.htm |title=Jared Carter Roach |website=Strategic Genomics |access-date= February 8, 2021 }}</ref><ref name="KUOW">{{Cite episode |title= Genomes and Future Technology |series= Weekday |url= https://kuow.org/authors/weekday|first= Steve |last= Scher| station=KUOW | network = NPR |date= October 24, 2011}}</ref> He contributed strategic and algorithmic designs to the Human Genome Project, including the pairwise end-sequencing strategy.<ref name="Pairwise">{{Cite journal|last=Roach|first=Jared|date=1995|title=Pairwise end sequencing: a unified approach to genomic mapping and sequencing|journal=Genomics|volume=26|issue=2|pages=345–353|doi=10.1016/0888-7543(95)80219-C|pmid=7601461}}</ref><ref name="Jones&Pevzner">{{Cite book|last=Jones, Neil C.|first=|url=https://www.worldcat.org/oclc/57559562|title=An introduction to bioinformatics algorithms|date=2004|publisher=MIT Press|others=Pevzner, Pavel.|year=|isbn=978-0-262-25643-8|location=Cambridge, MA|pages=300|oclc=57559562}}</ref>
Starting as graduate student in the 1990s, Roach worked on the [[Human Genome Project]] from its early days through the end of the project in 2003.<ref name="CV">{{cite web |url= https://www.strategicgenomics.com/Jared/resume.htm |title=Jared Carter Roach |website=Strategic Genomics |access-date= February 8, 2021 }}</ref><ref name="KUOW">{{Cite episode |title= Genomes and Future Technology |series= Weekday |url= https://kuow.org/authors/weekday|first= Steve |last= Scher| station=KUOW | network = NPR |date= October 24, 2011}}</ref> He contributed strategic and algorithmic designs to the Human Genome Project, including the pairwise end-sequencing strategy.<ref name="Pairwise">{{Cite journal|last=Roach|first=Jared|date=1995|title=Pairwise end sequencing: a unified approach to genomic mapping and sequencing|journal=Genomics|volume=26|issue=2|pages=345–353|doi=10.1016/0888-7543(95)80219-C|pmid=7601461}}</ref><ref name="Jones&Pevzner">{{Cite book|last=Jones, Neil C.|url=https://www.worldcat.org/oclc/57559562|title=An introduction to bioinformatics algorithms|date=2004|publisher=MIT Press|others=Pevzner, Pavel.|isbn=978-0-262-25643-8|location=Cambridge, MA|pages=300|oclc=57559562}}</ref>


Roach was a Senior Fellow at the Department of Molecular Biotechnology at the University of Washington from 1999-2000. In 2001, he became a Research Scientist at the [[Institute for Systems Biology]].<ref name="GenomeWeb1">{{cite news |url= https://www.genomeweb.com/arrays/isb-s-jared-roach-why-two-technologies-are-better-one |title= ISB's Jared Roach on Why Two Technologies Are Better than One |date= June 8, 2005 |author=<!--Staff writer(s); no by-line.--> |work= GenomeWeb |access-date= October 23, 2020}}</ref><ref name="CV" />
Roach was a Senior Fellow at the Department of Molecular Biotechnology at the University of Washington from 1999-2000. In 2001, he became a Research Scientist at the [[Institute for Systems Biology]].<ref name="GenomeWeb1">{{cite news |url= https://www.genomeweb.com/arrays/isb-s-jared-roach-why-two-technologies-are-better-one |title= ISB's Jared Roach on Why Two Technologies Are Better than One |date= June 8, 2005 |author=<!--Staff writer(s); no by-line.--> |work= GenomeWeb |access-date= October 23, 2020}}</ref><ref name="CV" />


In 2009, he was a leader of a team that sequenced the whole genomes of a human family of four.<ref name="NYT">{{cite news |first= Nicholas|last= Wade|title= Disease Cause is Pinpointed with Genome |url= https://www.nytimes.com/2010/03/11/health/research/11gene.html |work= New York Times | page = 1 | date= March 11, 2010}}</ref><ref name="Salt Lake Tribune">{{cite news |first= Kirsten|last= Stewart|title= Unraveling one family's genome |url= https://archive.sltrib.com/story.php?ref=/utah/ci_14648608 |work= The Salt Lake Tribune |date= March 10, 2010}}</ref> This effort identified the cause of [[Miller syndrome]], a simple recessive [[Mendelian disorder]].<ref>{{cite web |url=https://www.omim.org/entry/126064 |title=DIHYDROOROTATE DEHYDROGENASE; DHODH |author=Ada Hamosh |date= February 16, 2017 |website= Online Mendelian Inheritance in Man (OMIM) |publisher= National Library of Medicine |access-date= February 8, 2021}}</ref> It also produced the first complete whole-chromosomal haplotypes in humans.<ref name="GenomeTechnology2011" /> Haplotyping is the process of assigning all the variants in the genome to paternal and maternal chromosomes.<ref>{{Cite journal|last=Chen|first=Rui|last2=Snyder|first2=Michael|date=January 2013|title=Promise of personalized omics to precision medicine|url=https://pubmed.ncbi.nlm.nih.gov/23184638|journal=Wiley Interdisciplinary Reviews. Systems Biology and Medicine|volume=5|issue=1|pages=73–82|doi=10.1002/wsbm.1198|issn=1939-005X|pmc=4154620|pmid=23184638|via=}}</ref> The team applied these techniques to identify the causes of several [[Mendelian diseases]], including genes for [[Adams-Oliver syndrome]], [[alternating hemiplegia of childhood]], [[epilepsy]], [[palmoplantar keratoderma]], and [[Fanconi anemia]].<ref>{{Cite journal|last=Capuano|first=Alessandro|last2=Garone|first2=Giacomo|last3=Tiralongo|first3=Giuseppe|last4=Graziola|first4=Federica|date=2020|title=Alternating Hemiplegia of Childhood: Understanding the Genotype-Phenotype Relationship of ATP1A3 Variations|url=https://pubmed.ncbi.nlm.nih.gov/32280259|journal=The Application of Clinical Genetics|volume=13|pages=71–81|doi=10.2147/TACG.S210325|issn=1178-704X|pmc=7125306|pmid=32280259}}</ref><ref>{{Cite journal|last=Ceccaldi|first=Raphael|last2=Sarangi|first2=Prabha|last3=D'Andrea|first3=Alan D.|date= June 2016|title=The Fanconi anaemia pathway: new players and new functions|url=https://pubmed.ncbi.nlm.nih.gov/27145721|journal=Nature Reviews. Molecular Cell Biology|volume=17|issue=6|pages=337–349|doi=10.1038/nrm.2016.48|issn=1471-0080|pmid=27145721}}</ref><ref>{{cite web |url=https://www.omim.org/entry/616589 |title=ADAMS-OLIVER SYNDROME 6; AOS6 |author=Marla J. F. O'Neill |date= October 5, 2015 |website= Online Mendelian Inheritance in Man (OMIM) |publisher= National Library of Medicine |access-date= February 8, 2021}}</ref><ref>{{cite web |url=https://www.omim.org/entry/601485 |title=SYNTAXIN 1B; STX1B |author=Cassandra L. Kniffin |date= January 8, 2015 |website= Online Mendelian Inheritance in Man (OMIM) |publisher= National Library of Medicine |access-date= February 8, 2021}}</ref><ref>{{cite web |url=https://www.omim.org/entry/607066 |title=TRANSIENT RECEPTOR POTENTIAL CATION CHANNEL, SUBFAMILY V, MEMBER 3; TRPV3 |author=Marla J. F. O'Neill |date= June 1, 2015 |website= Online Mendelian Inheritance in Man (OMIM) |publisher= National Library of Medicine |access-date= February 8, 2021}}</ref>
In 2009, he was a leader of a team that sequenced the whole genomes of a human family of four.<ref name="NYT">{{cite news |first= Nicholas|last= Wade|title= Disease Cause is Pinpointed with Genome |url= https://www.nytimes.com/2010/03/11/health/research/11gene.html |work= New York Times | page = 1 | date= March 11, 2010}}</ref><ref name="Salt Lake Tribune">{{cite news |first= Kirsten|last= Stewart|title= Unraveling one family's genome |url= https://archive.sltrib.com/story.php?ref=/utah/ci_14648608 |work= The Salt Lake Tribune |date= March 10, 2010}}</ref> This effort identified the cause of [[Miller syndrome]], a simple recessive [[Mendelian disorder]].<ref>{{cite web |url=https://www.omim.org/entry/126064 |title=DIHYDROOROTATE DEHYDROGENASE; DHODH |author=Ada Hamosh |date= February 16, 2017 |website= Online Mendelian Inheritance in Man (OMIM) |publisher= National Library of Medicine |access-date= February 8, 2021}}</ref> It also produced the first complete whole-chromosomal haplotypes in humans.<ref name="GenomeTechnology2011" /> Haplotyping is the process of assigning all the variants in the genome to paternal and maternal chromosomes.<ref>{{Cite journal|last1=Chen|first1=Rui|last2=Snyder|first2=Michael|date=January 2013|title=Promise of personalized omics to precision medicine|journal=Wiley Interdisciplinary Reviews. Systems Biology and Medicine|volume=5|issue=1|pages=73–82|doi=10.1002/wsbm.1198|issn=1939-005X|pmc=4154620|pmid=23184638}}</ref> The team applied these techniques to identify the causes of several [[Mendelian diseases]], including genes for [[Adams-Oliver syndrome]], [[alternating hemiplegia of childhood]], [[epilepsy]], [[palmoplantar keratoderma]], and [[Fanconi anemia]].<ref>{{Cite journal|last1=Capuano|first1=Alessandro|last2=Garone|first2=Giacomo|last3=Tiralongo|first3=Giuseppe|last4=Graziola|first4=Federica|date=2020|title=Alternating Hemiplegia of Childhood: Understanding the Genotype-Phenotype Relationship of ATP1A3 Variations|journal=The Application of Clinical Genetics|volume=13|pages=71–81|doi=10.2147/TACG.S210325|issn=1178-704X|pmc=7125306|pmid=32280259}}</ref><ref>{{Cite journal|last1=Ceccaldi|first1=Raphael|last2=Sarangi|first2=Prabha|last3=D'Andrea|first3=Alan D.|date= June 2016|title=The Fanconi anaemia pathway: new players and new functions|url=https://pubmed.ncbi.nlm.nih.gov/27145721|journal=Nature Reviews. Molecular Cell Biology|volume=17|issue=6|pages=337–349|doi=10.1038/nrm.2016.48|issn=1471-0080|pmid=27145721|s2cid=1712640 }}</ref><ref>{{cite web |url=https://www.omim.org/entry/616589 |title=ADAMS-OLIVER SYNDROME 6; AOS6 |author=Marla J. F. O'Neill |date= October 5, 2015 |website= Online Mendelian Inheritance in Man (OMIM) |publisher= National Library of Medicine |access-date= February 8, 2021}}</ref><ref>{{cite web |url=https://www.omim.org/entry/601485 |title=SYNTAXIN 1B; STX1B |author=Cassandra L. Kniffin |date= January 8, 2015 |website= Online Mendelian Inheritance in Man (OMIM) |publisher= National Library of Medicine |access-date= February 8, 2021}}</ref><ref>{{cite web |url=https://www.omim.org/entry/607066 |title=TRANSIENT RECEPTOR POTENTIAL CATION CHANNEL, SUBFAMILY V, MEMBER 3; TRPV3 |author=Marla J. F. O'Neill |date= June 1, 2015 |website= Online Mendelian Inheritance in Man (OMIM) |publisher= National Library of Medicine |access-date= February 8, 2021}}</ref>


From 2007 to 2009, he was Scientific Director of the High-throughput Data Analysis Laboratory at [[Seattle Children's|Seattle Children’s Research Institute]]. Since then, he has been a Senior Research Scientist at the [[Institute for Systems Biology]]. Roach's group currently applies systems biology and genomics to complex diseases, focussing on the systems biology architecture of [[Alzheimer’s disease]].<ref name="ISB">{{cite web|title=Institute for Systems Biology|url=https://isbscience.org/bio/jared-roach-md-phd/|access-date=February 8, 2021|website=ISB}}</ref>
From 2007 to 2009, he was Scientific Director of the High-throughput Data Analysis Laboratory at [[Seattle Children's|Seattle Children’s Research Institute]]. Since then, he has been a Senior Research Scientist at the [[Institute for Systems Biology]]. Roach's group currently applies systems biology and genomics to complex diseases, focussing on the systems biology architecture of [[Alzheimer’s disease]].<ref name="ISB">{{cite web|title=Institute for Systems Biology|url=https://isbscience.org/bio/jared-roach-md-phd/|access-date=February 8, 2021|website=ISB}}</ref>


In 2020, Roach was a spokesperson for the molecular phylogenetics of SARS-CoV-2.<ref name = "Kamb1">{{cite news |first= Lewis|last= Kamb|title= Flood of coronavirus data overwhelms Washington state’s disease-reporting system, leading to lag in data |url= https://www.seattletimes.com/seattle-news/flood-of-coronavirus-data-overwhelms-states-disease-reporting-system-leading-to-lag-in-data/ |work= Seattle Times |date= March 31, 2020}}</ref><ref name = "Kamb2">{{cite news |first= Lewis|last= Kamb|title= When did coronavirus really hit Washington? 2 Snohomish County residents with antibodies were ill in December |url= https://www.seattletimes.com/seattle-news/antibody-test-results-of-2-snohomish-county-residents-throw-into-question-timeline-of-coronaviruss-u-s-arrival/ |work= Seattle Times |date= May 14, 2020}}</ref><ref name = "Doughton1">{{cite news |first= Sandi|last= Doughton|title= New analysis may rewrite the history of Washington state’s coronavirus outbreak |url= https://www.seattletimes.com/seattle-news/health/genetic-analysis-raises-more-questions-about-the-history-of-washington-states-coronavirus-outbreak/ |work= Seattle Times |date= May 26, 2020}}</ref><ref name = "KIRO">{{cite episode |first = Gary | last = Horcher | title= Doctors: Seattle COVID patient only third in US to be reinfected after recovering |url= https://www.kiro7.com/news/local/only-third-case-world-seattle-area-man-reinfected-with-coronavirus/PU5XQ5CK3FA7PPOKZBA33VGEYI |date= September 30, 2020 |access-date= October 1, 2020 |series= KIRO 7 News | network= CBS | station = KIRO | location = Seattle, WA}}</ref>
In 2020, Roach was a spokesperson for the molecular phylogenetics of SARS-CoV-2.<ref name = "Kamb1">{{cite news |first= Lewis|last= Kamb|title= Flood of coronavirus data overwhelms Washington state's disease-reporting system, leading to lag in data |url= https://www.seattletimes.com/seattle-news/flood-of-coronavirus-data-overwhelms-states-disease-reporting-system-leading-to-lag-in-data/ |work= Seattle Times |date= March 31, 2020}}</ref><ref name = "Kamb2">{{cite news |first= Lewis|last= Kamb|title= When did coronavirus really hit Washington? 2 Snohomish County residents with antibodies were ill in December |url= https://www.seattletimes.com/seattle-news/antibody-test-results-of-2-snohomish-county-residents-throw-into-question-timeline-of-coronaviruss-u-s-arrival/ |work= Seattle Times |date= May 14, 2020}}</ref><ref name = "Doughton1">{{cite news |first= Sandi|last= Doughton|title= New analysis may rewrite the history of Washington state's coronavirus outbreak |url= https://www.seattletimes.com/seattle-news/health/genetic-analysis-raises-more-questions-about-the-history-of-washington-states-coronavirus-outbreak/ |work= Seattle Times |date= May 26, 2020}}</ref><ref name = "KIRO">{{cite episode |first = Gary | last = Horcher | title= Doctors: Seattle COVID patient only third in US to be reinfected after recovering |url= https://www.kiro7.com/news/local/only-third-case-world-seattle-area-man-reinfected-with-coronavirus/PU5XQ5CK3FA7PPOKZBA33VGEYI |date= September 30, 2020 |access-date= October 1, 2020 |series= KIRO 7 News | network= CBS | station = KIRO | location = Seattle, WA}}</ref>


== Selected publications ==
== Selected publications ==
Line 39: Line 39:
|translator-last1=Roach |translator-first1=Jared |date= 2004 |title=Mastering the Basics of Go |publisher=Slate and Shell |isbn=978-1932001181 |url = https://www.slateandshell.com}}</ref> His most-cited articles are:
|translator-last1=Roach |translator-first1=Jared |date= 2004 |title=Mastering the Basics of Go |publisher=Slate and Shell |isbn=978-1932001181 |url = https://www.slateandshell.com}}</ref> His most-cited articles are:
* {{cite journal |pmid= 12142439|year= 2002|last1= Aparicio|first1= S.|last2= Chapman|first2= J.|last3= Stupka|first3= E.|last4= Putnam|first4= N.|last5= Chia|first5= J. M.|last6= Dehal|first6= P.|last7= Christoffels|first7= A.|last8= Rash|first8= S.|last9= Hoon|first9= S.|last10= Smit|first10= A.|last11= Gelpke|first11= M. D.|last12= Roach|first12= J.|last13= Oh|first13= T.|last14= Ho|first14= I. Y.|last15= Wong|first15= M.|last16= Detter|first16= C.|last17= Verhoef|first17= F.|last18= Predki|first18= P.|last19= Tay|first19= A.|last20= Lucas|first20= S.|last21= Richardson|first21= P.|last22= Smith|first22= S. F.|last23= Clark|first23= M. S.|last24= Edwards|first24= Y. J.|last25= Doggett|first25= N.|last26= Zharkikh|first26= A.|last27= Tavtigian|first27= S. V.|last28= Pruss|first28= D.|last29= Barnstead|first29= M.|last30= Evans|first30= C.|title= Whole-genome shotgun assembly and analysis of the genome of Fugu rubripes|journal= Science|volume= 297|issue= 5585|pages= 1301–10|doi= 10.1126/science.1072104|bibcode= 2002Sci...297.1301A|s2cid= 10310355|display-authors= 29}} ''(1677 citations)''
* {{cite journal |pmid= 12142439|year= 2002|last1= Aparicio|first1= S.|last2= Chapman|first2= J.|last3= Stupka|first3= E.|last4= Putnam|first4= N.|last5= Chia|first5= J. M.|last6= Dehal|first6= P.|last7= Christoffels|first7= A.|last8= Rash|first8= S.|last9= Hoon|first9= S.|last10= Smit|first10= A.|last11= Gelpke|first11= M. D.|last12= Roach|first12= J.|last13= Oh|first13= T.|last14= Ho|first14= I. Y.|last15= Wong|first15= M.|last16= Detter|first16= C.|last17= Verhoef|first17= F.|last18= Predki|first18= P.|last19= Tay|first19= A.|last20= Lucas|first20= S.|last21= Richardson|first21= P.|last22= Smith|first22= S. F.|last23= Clark|first23= M. S.|last24= Edwards|first24= Y. J.|last25= Doggett|first25= N.|last26= Zharkikh|first26= A.|last27= Tavtigian|first27= S. V.|last28= Pruss|first28= D.|last29= Barnstead|first29= M.|last30= Evans|first30= C.|title= Whole-genome shotgun assembly and analysis of the genome of Fugu rubripes|journal= Science|volume= 297|issue= 5585|pages= 1301–10|doi= 10.1126/science.1072104|bibcode= 2002Sci...297.1301A|s2cid= 10310355|display-authors= 29}} ''(1677 citations)''
*{{cite journal |pmid= 15976025|year= 2005|last1= Roach|first1= J. C.|last2= Glusman|first2= G.|last3= Rowen|first3= L.|last4= Kaur|first4= A.|last5= Purcell|first5= M. K.|last6= Smith|first6= K. D.|last7= Hood|first7= L. E.|last8= Aderem|first8= A.|title= The evolution of vertebrate Toll-like receptors|journal= Proceedings of the National Academy of Sciences of the United States of America|volume= 102|issue= 27|pages= 9577–82|doi= 10.1073/pnas.0502272102|pmc= 1172252|bibcode= 2005PNAS..102.9577R}} ''(1187 citations)''
*{{cite journal |pmid= 15976025|year= 2005|last1= Roach|first1= J. C.|last2= Glusman|first2= G.|last3= Rowen|first3= L.|last4= Kaur|first4= A.|last5= Purcell|first5= M. K.|last6= Smith|first6= K. D.|last7= Hood|first7= L. E.|last8= Aderem|first8= A.|title= The evolution of vertebrate Toll-like receptors|journal= Proceedings of the National Academy of Sciences of the United States of America|volume= 102|issue= 27|pages= 9577–82|doi= 10.1073/pnas.0502272102|pmc= 1172252|bibcode= 2005PNAS..102.9577R|doi-access= free}} ''(1187 citations)''
* {{cite journal |pmid= 7601461|year= 1995|last1= Roach|first1= J. C.|last2= Boysen|first2= C.|last3= Wang|first3= K.|last4= Hood|first4= L.|title= Pairwise end sequencing: A unified approach to genomic mapping and sequencing|journal= Genomics|volume= 26|issue= 2|pages= 345–53|doi= 10.1016/0888-7543(95)80219-c}}(171 citations)
* {{cite journal |pmid= 7601461|year= 1995|last1= Roach|first1= J. C.|last2= Boysen|first2= C.|last3= Wang|first3= K.|last4= Hood|first4= L.|title= Pairwise end sequencing: A unified approach to genomic mapping and sequencing|journal= Genomics|volume= 26|issue= 2|pages= 345–53|doi= 10.1016/0888-7543(95)80219-c}}(171 citations)
*{{cite journal |pmid= 20220176|year= 2010|last1= Roach|first1= J. C.|last2= Glusman|first2= G.|last3= Smit|first3= A. F.|last4= Huff|first4= C. D.|last5= Hubley|first5= R.|last6= Shannon|first6= P. T.|last7= Rowen|first7= L.|last8= Pant|first8= K. P.|last9= Goodman|first9= N.|last10= Bamshad|first10= M.|last11= Shendure|first11= J.|last12= Drmanac|first12= R.|last13= Jorde|first13= L. B.|last14= Hood|first14= L.|last15= Galas|first15= D. J.|title= Analysis of genetic inheritance in a family quartet by whole-genome sequencing|journal= Science|volume= 328|issue= 5978|pages= 636–9|doi= 10.1126/science.1186802|pmc= 3037280|bibcode= 2010Sci...328..636R}} ''(1090 citations)''
*{{cite journal |pmid= 20220176|year= 2010|last1= Roach|first1= J. C.|last2= Glusman|first2= G.|last3= Smit|first3= A. F.|last4= Huff|first4= C. D.|last5= Hubley|first5= R.|last6= Shannon|first6= P. T.|last7= Rowen|first7= L.|last8= Pant|first8= K. P.|last9= Goodman|first9= N.|last10= Bamshad|first10= M.|last11= Shendure|first11= J.|last12= Drmanac|first12= R.|last13= Jorde|first13= L. B.|last14= Hood|first14= L.|last15= Galas|first15= D. J.|title= Analysis of genetic inheritance in a family quartet by whole-genome sequencing|journal= Science|volume= 328|issue= 5978|pages= 636–9|doi= 10.1126/science.1186802|pmc= 3037280|bibcode= 2010Sci...328..636R}} ''(1090 citations)''

Revision as of 02:34, 10 June 2022

Jared Roach
Roach in 2011
CitizenshipUnited States
Alma materUniversity of Washington
Cornell University
Known forPairwise End Sequencing, Systems Biology, Human Genome Project
Scientific career
FieldsBiotechnology, Genomics
InstitutionsInstitute for Systems Biology
ThesisRandom subcloning, pairwise end sequencing, and the molecular evolution of the vertebrate trypsinogens (1998)
Doctoral advisorLeroy Hood
Websitestrategicgenomics.com

Jared C. Roach is an American biologist who introduced the pairwise end sequencing strategy while at the University of Washington.[1][2][3]

Education and early career

Roach attended Cornell University, where he received his Bachelor of Science in Biology in 1990. He then attended the University of Washington, where he received his PhD in Immunology in 1998, and his MD in 1999. He trained in Internal Medicine at the University of Utah through 2001.[4]

Career

Starting as graduate student in the 1990s, Roach worked on the Human Genome Project from its early days through the end of the project in 2003.[5][6] He contributed strategic and algorithmic designs to the Human Genome Project, including the pairwise end-sequencing strategy.[7][3]

Roach was a Senior Fellow at the Department of Molecular Biotechnology at the University of Washington from 1999-2000. In 2001, he became a Research Scientist at the Institute for Systems Biology.[8][5]

In 2009, he was a leader of a team that sequenced the whole genomes of a human family of four.[9][10] This effort identified the cause of Miller syndrome, a simple recessive Mendelian disorder.[11] It also produced the first complete whole-chromosomal haplotypes in humans.[4] Haplotyping is the process of assigning all the variants in the genome to paternal and maternal chromosomes.[12] The team applied these techniques to identify the causes of several Mendelian diseases, including genes for Adams-Oliver syndrome, alternating hemiplegia of childhood, epilepsy, palmoplantar keratoderma, and Fanconi anemia.[13][14][15][16][17]

From 2007 to 2009, he was Scientific Director of the High-throughput Data Analysis Laboratory at Seattle Children’s Research Institute. Since then, he has been a Senior Research Scientist at the Institute for Systems Biology. Roach's group currently applies systems biology and genomics to complex diseases, focussing on the systems biology architecture of Alzheimer’s disease.[18]

In 2020, Roach was a spokesperson for the molecular phylogenetics of SARS-CoV-2.[19][20][21][22]

Selected publications

Roach has over 80 publications with over 8000 citations. He has also translated a book on the Asian game of Go.[23] His most-cited articles are:

  • Aparicio, S.; Chapman, J.; Stupka, E.; Putnam, N.; Chia, J. M.; Dehal, P.; Christoffels, A.; Rash, S.; Hoon, S.; Smit, A.; Gelpke, M. D.; Roach, J.; Oh, T.; Ho, I. Y.; Wong, M.; Detter, C.; Verhoef, F.; Predki, P.; Tay, A.; Lucas, S.; Richardson, P.; Smith, S. F.; Clark, M. S.; Edwards, Y. J.; Doggett, N.; Zharkikh, A.; Tavtigian, S. V.; Pruss, D.; Barnstead, M.; et al. (2002). "Whole-genome shotgun assembly and analysis of the genome of Fugu rubripes". Science. 297 (5585): 1301–10. Bibcode:2002Sci...297.1301A. doi:10.1126/science.1072104. PMID 12142439. S2CID 10310355. (1677 citations)
  • Roach, J. C.; Glusman, G.; Rowen, L.; Kaur, A.; Purcell, M. K.; Smith, K. D.; Hood, L. E.; Aderem, A. (2005). "The evolution of vertebrate Toll-like receptors". Proceedings of the National Academy of Sciences of the United States of America. 102 (27): 9577–82. Bibcode:2005PNAS..102.9577R. doi:10.1073/pnas.0502272102. PMC 1172252. PMID 15976025. (1187 citations)
  • Roach, J. C.; Boysen, C.; Wang, K.; Hood, L. (1995). "Pairwise end sequencing: A unified approach to genomic mapping and sequencing". Genomics. 26 (2): 345–53. doi:10.1016/0888-7543(95)80219-c. PMID 7601461.(171 citations)
  • Roach, J. C.; Glusman, G.; Smit, A. F.; Huff, C. D.; Hubley, R.; Shannon, P. T.; Rowen, L.; Pant, K. P.; Goodman, N.; Bamshad, M.; Shendure, J.; Drmanac, R.; Jorde, L. B.; Hood, L.; Galas, D. J. (2010). "Analysis of genetic inheritance in a family quartet by whole-genome sequencing". Science. 328 (5978): 636–9. Bibcode:2010Sci...328..636R. doi:10.1126/science.1186802. PMC 3037280. PMID 20220176. (1090 citations)
  • Roach, J. C.; Glusman, G.; Hubley, R.; Montsaroff, S. Z.; Holloway, A. K.; Mauldin, D. E.; Srivastava, D.; Garg, V.; Pollard, K. S.; Galas, D. J.; Hood, L.; Smit, A. F. (2011). "Chromosomal haplotypes by genetic phasing of human families". American Journal of Human Genetics. 89 (3): 382–97. doi:10.1016/j.ajhg.2011.07.023. PMC 3169815. PMID 21855840. (56 citations)
  • Roach, J. C. (1995). "Random subcloning". Genome Research. 5 (5): 464–73. doi:10.1101/gr.5.5.464. PMID 8808467. (35 citations)

References

  1. ^ Xiao W, Wu L, Yavas G, Simonyan V, Ning B, Hong H (2016). "Challenges, Solutions, and Quality Metrics of Personal Genome Assembly in Advancing Precision Medicine". Pharmaceutics. 8 (2): 15. doi:10.3390/pharmaceutics8020015. PMC 4932478. PMID 27110816.{{cite journal}}: CS1 maint: multiple names: authors list (link)
  2. ^ Timmerman, Luke (August 10, 2016). Hood: Trailblazer of the Genomics Age. Bandera Press. p. 265. ISBN 978-0997709308.
  3. ^ a b Jones, Neil C. (2004). An introduction to bioinformatics algorithms. Pevzner, Pavel. Cambridge, MA: MIT Press. p. 300. ISBN 978-0-262-25643-8. OCLC 57559562.
  4. ^ a b Vence, Tracy (November 2011). "Genome analysis: With New Algorithm, Researchers Generate Haplotypes for Two Families". Genome Technology. November 2011.
  5. ^ a b "Jared Carter Roach". Strategic Genomics. Retrieved February 8, 2021.
  6. ^ Scher, Steve (October 24, 2011). "Genomes and Future Technology". Weekday. NPR. KUOW.
  7. ^ Roach, Jared (1995). "Pairwise end sequencing: a unified approach to genomic mapping and sequencing". Genomics. 26 (2): 345–353. doi:10.1016/0888-7543(95)80219-C. PMID 7601461.
  8. ^ "ISB's Jared Roach on Why Two Technologies Are Better than One". GenomeWeb. June 8, 2005. Retrieved October 23, 2020.
  9. ^ Wade, Nicholas (March 11, 2010). "Disease Cause is Pinpointed with Genome". New York Times. p. 1.
  10. ^ Stewart, Kirsten (March 10, 2010). "Unraveling one family's genome". The Salt Lake Tribune.
  11. ^ Ada Hamosh (February 16, 2017). "DIHYDROOROTATE DEHYDROGENASE; DHODH". Online Mendelian Inheritance in Man (OMIM). National Library of Medicine. Retrieved February 8, 2021.
  12. ^ Chen, Rui; Snyder, Michael (January 2013). "Promise of personalized omics to precision medicine". Wiley Interdisciplinary Reviews. Systems Biology and Medicine. 5 (1): 73–82. doi:10.1002/wsbm.1198. ISSN 1939-005X. PMC 4154620. PMID 23184638.
  13. ^ Capuano, Alessandro; Garone, Giacomo; Tiralongo, Giuseppe; Graziola, Federica (2020). "Alternating Hemiplegia of Childhood: Understanding the Genotype-Phenotype Relationship of ATP1A3 Variations". The Application of Clinical Genetics. 13: 71–81. doi:10.2147/TACG.S210325. ISSN 1178-704X. PMC 7125306. PMID 32280259.{{cite journal}}: CS1 maint: unflagged free DOI (link)
  14. ^ Ceccaldi, Raphael; Sarangi, Prabha; D'Andrea, Alan D. (June 2016). "The Fanconi anaemia pathway: new players and new functions". Nature Reviews. Molecular Cell Biology. 17 (6): 337–349. doi:10.1038/nrm.2016.48. ISSN 1471-0080. PMID 27145721. S2CID 1712640.
  15. ^ Marla J. F. O'Neill (October 5, 2015). "ADAMS-OLIVER SYNDROME 6; AOS6". Online Mendelian Inheritance in Man (OMIM). National Library of Medicine. Retrieved February 8, 2021.
  16. ^ Cassandra L. Kniffin (January 8, 2015). "SYNTAXIN 1B; STX1B". Online Mendelian Inheritance in Man (OMIM). National Library of Medicine. Retrieved February 8, 2021.
  17. ^ Marla J. F. O'Neill (June 1, 2015). "TRANSIENT RECEPTOR POTENTIAL CATION CHANNEL, SUBFAMILY V, MEMBER 3; TRPV3". Online Mendelian Inheritance in Man (OMIM). National Library of Medicine. Retrieved February 8, 2021.
  18. ^ "Institute for Systems Biology". ISB. Retrieved February 8, 2021.
  19. ^ Kamb, Lewis (March 31, 2020). "Flood of coronavirus data overwhelms Washington state's disease-reporting system, leading to lag in data". Seattle Times.
  20. ^ Kamb, Lewis (May 14, 2020). "When did coronavirus really hit Washington? 2 Snohomish County residents with antibodies were ill in December". Seattle Times.
  21. ^ Doughton, Sandi (May 26, 2020). "New analysis may rewrite the history of Washington state's coronavirus outbreak". Seattle Times.
  22. ^ Horcher, Gary (September 30, 2020). "Doctors: Seattle COVID patient only third in US to be reinfected after recovering". KIRO 7 News. Seattle, WA. CBS. KIRO. Retrieved October 1, 2020.
  23. ^ Lim, Eugene; Dickey, Herve (2004). Mastering the Basics of Go. Translated by Roach, Jared. Slate and Shell. ISBN 978-1932001181.

External links

  • Articles for Jared Roach, at the Institute for Systems Biology
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