Serveur d'exploration Cyberinfrastructure

Attention, ce site est en cours de développement !
Attention, site généré par des moyens informatiques à partir de corpus bruts.
Les informations ne sont donc pas validées.

The life cycle of a genome project: perspectives and guidelines inspired by insect genome projects

Identifieur interne : 000009 ( Main/Exploration ); précédent : 000008; suivant : 000010

The life cycle of a genome project: perspectives and guidelines inspired by insect genome projects

Auteurs : Alexie Papanicolaou [Australie]

Source :

RBID : PMC:4798206

Abstract

Many research programs on non-model species biology have been empowered by genomics. In turn, genomics is underpinned by a reference sequence and ancillary information created by so-called “genome projects”. The most reliable genome projects are the ones created as part of an active research program and designed to address specific questions but their life extends past publication. In this opinion paper I outline four key insights that have facilitated maintaining genomic communities: the key role of computational capability, the iterative process of building genomic resources, the value of community participation and the importance of manual curation. Taken together, these ideas can and do ensure the longevity of genome projects and the growing non-model species community can use them to focus a discussion with regards to its future genomic infrastructure.


Url:
DOI: 10.12688/f1000research.7559.1
PubMed: 27006757
PubMed Central: 4798206


Affiliations:


Links toward previous steps (curation, corpus...)


Le document en format XML

<record>
<TEI>
<teiHeader>
<fileDesc>
<titleStmt>
<title xml:lang="en">The life cycle of a genome project: perspectives and guidelines inspired by insect genome projects</title>
<author>
<name sortKey="Papanicolaou, Alexie" sort="Papanicolaou, Alexie" uniqKey="Papanicolaou A" first="Alexie" last="Papanicolaou">Alexie Papanicolaou</name>
<affiliation wicri:level="1">
<nlm:aff id="a1">Hawkesbury Institute for the Environment, University of Western Sydney, Richmond, NSW 2753, Australia</nlm:aff>
<country xml:lang="fr">Australie</country>
<wicri:regionArea>Hawkesbury Institute for the Environment, University of Western Sydney, Richmond, NSW 2753</wicri:regionArea>
<wicri:noRegion>NSW 2753</wicri:noRegion>
</affiliation>
</author>
</titleStmt>
<publicationStmt>
<idno type="wicri:source">PMC</idno>
<idno type="pmid">27006757</idno>
<idno type="pmc">4798206</idno>
<idno type="url">http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4798206</idno>
<idno type="RBID">PMC:4798206</idno>
<idno type="doi">10.12688/f1000research.7559.1</idno>
<date when="2016">2016</date>
<idno type="wicri:Area/Pmc/Corpus">000097</idno>
<idno type="wicri:Area/Pmc/Curation">000097</idno>
<idno type="wicri:Area/Pmc/Checkpoint">000007</idno>
<idno type="wicri:Area/Ncbi/Merge">000719</idno>
<idno type="wicri:Area/Ncbi/Curation">000719</idno>
<idno type="wicri:Area/Ncbi/Checkpoint">000719</idno>
<idno type="wicri:Area/Main/Merge">000009</idno>
<idno type="wicri:Area/Main/Curation">000009</idno>
<idno type="wicri:Area/Main/Exploration">000009</idno>
</publicationStmt>
<sourceDesc>
<biblStruct>
<analytic>
<title xml:lang="en" level="a" type="main">The life cycle of a genome project: perspectives and guidelines inspired by insect genome projects</title>
<author>
<name sortKey="Papanicolaou, Alexie" sort="Papanicolaou, Alexie" uniqKey="Papanicolaou A" first="Alexie" last="Papanicolaou">Alexie Papanicolaou</name>
<affiliation wicri:level="1">
<nlm:aff id="a1">Hawkesbury Institute for the Environment, University of Western Sydney, Richmond, NSW 2753, Australia</nlm:aff>
<country xml:lang="fr">Australie</country>
<wicri:regionArea>Hawkesbury Institute for the Environment, University of Western Sydney, Richmond, NSW 2753</wicri:regionArea>
<wicri:noRegion>NSW 2753</wicri:noRegion>
</affiliation>
</author>
</analytic>
<series>
<title level="j">F1000Research</title>
<idno type="eISSN">2046-1402</idno>
<imprint>
<date when="2016">2016</date>
</imprint>
</series>
</biblStruct>
</sourceDesc>
</fileDesc>
<profileDesc>
<textClass></textClass>
</profileDesc>
</teiHeader>
<front>
<div type="abstract" xml:lang="en">
<p>Many research programs on non-model species biology have been empowered by genomics. In turn, genomics is underpinned by a reference sequence and ancillary information created by so-called “genome projects”. The most reliable genome projects are the ones created as part of an active research program and designed to address specific questions but their life extends past publication. In this opinion paper I outline four key insights that have facilitated maintaining genomic communities: the key role of computational capability, the iterative process of building genomic resources, the value of community participation and the importance of manual curation. Taken together, these ideas can and do ensure the longevity of genome projects and the growing non-model species community can use them to focus a discussion with regards to its future genomic infrastructure.</p>
</div>
</front>
<back>
<div1 type="bibliography">
<listBibl>
<biblStruct></biblStruct>
<biblStruct>
<analytic>
<author>
<name sortKey="Edwards, Or" uniqKey="Edwards O">OR Edwards</name>
</author>
<author>
<name sortKey="Papanicolaou, A" uniqKey="Papanicolaou A">A Papanicolaou</name>
</author>
</analytic>
</biblStruct>
<biblStruct>
<analytic>
<author>
<name sortKey="Myers, Ew" uniqKey="Myers E">EW Myers</name>
</author>
<author>
<name sortKey="Sutton, Gg" uniqKey="Sutton G">GG Sutton</name>
</author>
<author>
<name sortKey="Delcher, Al" uniqKey="Delcher A">AL Delcher</name>
</author>
</analytic>
</biblStruct>
<biblStruct>
<analytic>
<author>
<name sortKey="Watson, Jd" uniqKey="Watson J">JD Watson</name>
</author>
<author>
<name sortKey="Berry, A" uniqKey="Berry A">A Berry</name>
</author>
</analytic>
</biblStruct>
<biblStruct>
<analytic>
<author>
<name sortKey="Myers, Ew" uniqKey="Myers E">EW Myers</name>
</author>
<author>
<name sortKey="Weber, Jl" uniqKey="Weber J">JL Weber</name>
</author>
</analytic>
</biblStruct>
<biblStruct>
<analytic>
<author>
<name sortKey="Collins, Fs" uniqKey="Collins F">FS Collins</name>
</author>
<author>
<name sortKey="Morgan, M" uniqKey="Morgan M">M Morgan</name>
</author>
<author>
<name sortKey="Patrinos, A" uniqKey="Patrinos A">A Patrinos</name>
</author>
</analytic>
</biblStruct>
<biblStruct>
<analytic>
<author>
<name sortKey="Papanicolaou, A" uniqKey="Papanicolaou A">A Papanicolaou</name>
</author>
<author>
<name sortKey="Stierli, R" uniqKey="Stierli R">R Stierli</name>
</author>
<author>
<name sortKey="Ffrench Constant, Rh" uniqKey="Ffrench Constant R">RH Ffrench-Constant</name>
</author>
</analytic>
</biblStruct>
<biblStruct>
<analytic>
<author>
<name sortKey="Haas, Bj" uniqKey="Haas B">BJ Haas</name>
</author>
<author>
<name sortKey="Papanicolaou, A" uniqKey="Papanicolaou A">A Papanicolaou</name>
</author>
<author>
<name sortKey="Yassour, M" uniqKey="Yassour M">M Yassour</name>
</author>
</analytic>
</biblStruct>
<biblStruct>
<analytic>
<author>
<name sortKey="Hudson, Nj" uniqKey="Hudson N">NJ Hudson</name>
</author>
<author>
<name sortKey="Dalrymple, Bp" uniqKey="Dalrymple B">BP Dalrymple</name>
</author>
<author>
<name sortKey="Reverter, A" uniqKey="Reverter A">A Reverter</name>
</author>
</analytic>
</biblStruct>
<biblStruct>
<analytic>
<author>
<name sortKey="Richards, S" uniqKey="Richards S">S Richards</name>
</author>
<author>
<name sortKey="Murali, Sc" uniqKey="Murali S">SC Murali</name>
</author>
</analytic>
</biblStruct>
<biblStruct>
<analytic>
<author>
<name sortKey="Briscoe, Ad" uniqKey="Briscoe A">AD Briscoe</name>
</author>
<author>
<name sortKey="Macias Mu Oz, A" uniqKey="Macias Mu Oz A">A Macias-Muñoz</name>
</author>
<author>
<name sortKey="Kozak, Km" uniqKey="Kozak K">KM Kozak</name>
</author>
</analytic>
</biblStruct>
<biblStruct>
<analytic>
<author>
<name sortKey="English, Ac" uniqKey="English A">AC English</name>
</author>
<author>
<name sortKey="Richards, S" uniqKey="Richards S">S Richards</name>
</author>
<author>
<name sortKey="Han, Y" uniqKey="Han Y">Y Han</name>
</author>
</analytic>
</biblStruct>
<biblStruct>
<analytic>
<author>
<name sortKey="Mccoy, Rc" uniqKey="Mccoy R">RC McCoy</name>
</author>
<author>
<name sortKey="Taylor, Rw" uniqKey="Taylor R">RW Taylor</name>
</author>
<author>
<name sortKey="Blauwkamp, Ta" uniqKey="Blauwkamp T">TA Blauwkamp</name>
</author>
</analytic>
</biblStruct>
<biblStruct>
<analytic>
<author>
<name sortKey="Heckel, Dg" uniqKey="Heckel D">DG Heckel</name>
</author>
</analytic>
</biblStruct>
<biblStruct>
<analytic>
<author>
<name sortKey="Rastas, P" uniqKey="Rastas P">P Rastas</name>
</author>
<author>
<name sortKey="Paulin, L" uniqKey="Paulin L">L Paulin</name>
</author>
<author>
<name sortKey="Hanski, I" uniqKey="Hanski I">I Hanski</name>
</author>
</analytic>
</biblStruct>
<biblStruct>
<analytic>
<author>
<name sortKey="Burton, Jn" uniqKey="Burton J">JN Burton</name>
</author>
<author>
<name sortKey="Adey, A" uniqKey="Adey A">A Adey</name>
</author>
<author>
<name sortKey="Patwardhan, Rp" uniqKey="Patwardhan R">RP Patwardhan</name>
</author>
</analytic>
</biblStruct>
<biblStruct>
<analytic>
<author>
<name sortKey="Gnerre, S" uniqKey="Gnerre S">S Gnerre</name>
</author>
<author>
<name sortKey="Maccallum, I" uniqKey="Maccallum I">I MacCallum</name>
</author>
<author>
<name sortKey="Przybylski, D" uniqKey="Przybylski D">D Przybylski</name>
</author>
</analytic>
</biblStruct>
<biblStruct>
<analytic>
<author>
<name sortKey="Xia, Q" uniqKey="Xia Q">Q Xia</name>
</author>
<author>
<name sortKey="Zhou, Z" uniqKey="Zhou Z">Z Zhou</name>
</author>
<author>
<name sortKey="Lu, C" uniqKey="Lu C">C Lu</name>
</author>
</analytic>
</biblStruct>
<biblStruct>
<analytic>
<author>
<name sortKey="Mita, K" uniqKey="Mita K">K Mita</name>
</author>
<author>
<name sortKey="Kasahara, M" uniqKey="Kasahara M">M Kasahara</name>
</author>
<author>
<name sortKey="Sasaki, S" uniqKey="Sasaki S">S Sasaki</name>
</author>
</analytic>
</biblStruct>
<biblStruct></biblStruct>
<biblStruct>
<analytic>
<author>
<name sortKey="Verma, Im" uniqKey="Verma I">IM Verma</name>
</author>
</analytic>
</biblStruct>
<biblStruct>
<analytic>
<author>
<name sortKey="Jones, Cm" uniqKey="Jones C">CM Jones</name>
</author>
<author>
<name sortKey="Papanicolaou, A" uniqKey="Papanicolaou A">A Papanicolaou</name>
</author>
<author>
<name sortKey="Mironidis, Gk" uniqKey="Mironidis G">GK Mironidis</name>
</author>
</analytic>
</biblStruct>
<biblStruct>
<analytic>
<author>
<name sortKey="Ficklin, Sp" uniqKey="Ficklin S">SP Ficklin</name>
</author>
<author>
<name sortKey="Sanderson, La" uniqKey="Sanderson L">LA Sanderson</name>
</author>
<author>
<name sortKey="Cheng, Ch" uniqKey="Cheng C">CH Cheng</name>
</author>
</analytic>
</biblStruct>
<biblStruct>
<analytic>
<author>
<name sortKey="Papanicolaou, A" uniqKey="Papanicolaou A">A Papanicolaou</name>
</author>
<author>
<name sortKey="Heckel, Dg" uniqKey="Heckel D">DG Heckel</name>
</author>
</analytic>
</biblStruct>
<biblStruct>
<analytic>
<author>
<name sortKey="Hubbard, T" uniqKey="Hubbard T">T Hubbard</name>
</author>
<author>
<name sortKey="Barker, D" uniqKey="Barker D">D Barker</name>
</author>
<author>
<name sortKey="Birney, E" uniqKey="Birney E">E Birney</name>
</author>
</analytic>
</biblStruct>
<biblStruct>
<analytic>
<author>
<name sortKey="Kalderimis, A" uniqKey="Kalderimis A">A Kalderimis</name>
</author>
<author>
<name sortKey="Lyne, R" uniqKey="Lyne R">R Lyne</name>
</author>
<author>
<name sortKey="Butano, D" uniqKey="Butano D">D Butano</name>
</author>
</analytic>
</biblStruct>
<biblStruct>
<analytic>
<author>
<name sortKey="Goff, Sa" uniqKey="Goff S">SA Goff</name>
</author>
<author>
<name sortKey="Vaughn, M" uniqKey="Vaughn M">M Vaughn</name>
</author>
<author>
<name sortKey="Mckay, S" uniqKey="Mckay S">S McKay</name>
</author>
</analytic>
</biblStruct>
<biblStruct>
<analytic>
<author>
<name sortKey="Goldman, M" uniqKey="Goldman M">M Goldman</name>
</author>
<author>
<name sortKey="Craft, B" uniqKey="Craft B">B Craft</name>
</author>
<author>
<name sortKey="Swatloski, T" uniqKey="Swatloski T">T Swatloski</name>
</author>
</analytic>
</biblStruct>
<biblStruct>
<analytic>
<author>
<name sortKey="Poelchau, M" uniqKey="Poelchau M">M Poelchau</name>
</author>
<author>
<name sortKey="Childers, C" uniqKey="Childers C">C Childers</name>
</author>
<author>
<name sortKey="Moore, G" uniqKey="Moore G">G Moore</name>
</author>
</analytic>
</biblStruct>
<biblStruct>
<analytic>
<author>
<name sortKey="Lewis, Se" uniqKey="Lewis S">SE Lewis</name>
</author>
<author>
<name sortKey="Searle, Sm" uniqKey="Searle S">SM Searle</name>
</author>
<author>
<name sortKey="Harris, N" uniqKey="Harris N">N Harris</name>
</author>
</analytic>
</biblStruct>
<biblStruct>
<analytic>
<author>
<name sortKey="Elsik, Cg" uniqKey="Elsik C">CG Elsik</name>
</author>
<author>
<name sortKey="Worley, Kc" uniqKey="Worley K">KC Worley</name>
</author>
<author>
<name sortKey="Zhang, L" uniqKey="Zhang L">L Zhang</name>
</author>
</analytic>
</biblStruct>
<biblStruct>
<analytic>
<author>
<name sortKey="Skinner, Me" uniqKey="Skinner M">ME Skinner</name>
</author>
<author>
<name sortKey="Uzilov, Av" uniqKey="Uzilov A">AV Uzilov</name>
</author>
<author>
<name sortKey="Stein, Ld" uniqKey="Stein L">LD Stein</name>
</author>
</analytic>
</biblStruct>
<biblStruct>
<analytic>
<author>
<name sortKey="Lee, E" uniqKey="Lee E">E Lee</name>
</author>
<author>
<name sortKey="Helt, Ga" uniqKey="Helt G">GA Helt</name>
</author>
<author>
<name sortKey="Reese, Jt" uniqKey="Reese J">JT Reese</name>
</author>
</analytic>
</biblStruct>
</listBibl>
</div1>
</back>
</TEI>
<affiliations>
<list>
<country>
<li>Australie</li>
</country>
</list>
<tree>
<country name="Australie">
<noRegion>
<name sortKey="Papanicolaou, Alexie" sort="Papanicolaou, Alexie" uniqKey="Papanicolaou A" first="Alexie" last="Papanicolaou">Alexie Papanicolaou</name>
</noRegion>
</country>
</tree>
</affiliations>
</record>

Pour manipuler ce document sous Unix (Dilib)

EXPLOR_STEP=$WICRI_ROOT/Ticri/CIDE/explor/CyberinfraV1/Data/Main/Exploration
HfdSelect -h $EXPLOR_STEP/biblio.hfd -nk 000009 | SxmlIndent | more

Ou

HfdSelect -h $EXPLOR_AREA/Data/Main/Exploration/biblio.hfd -nk 000009 | SxmlIndent | more

Pour mettre un lien sur cette page dans le réseau Wicri

{{Explor lien
   |wiki=    Ticri/CIDE
   |area=    CyberinfraV1
   |flux=    Main
   |étape=   Exploration
   |type=    RBID
   |clé=     PMC:4798206
   |texte=   The life cycle of a genome project: perspectives and guidelines inspired by insect genome projects
}}

Pour générer des pages wiki

HfdIndexSelect -h $EXPLOR_AREA/Data/Main/Exploration/RBID.i   -Sk "pubmed:27006757" \
       | HfdSelect -Kh $EXPLOR_AREA/Data/Main/Exploration/biblio.hfd   \
       | NlmPubMed2Wicri -a CyberinfraV1 

Wicri

This area was generated with Dilib version V0.6.25.
Data generation: Thu Oct 27 09:30:58 2016. Site generation: Sun Mar 10 23:08:40 2024