Sequencing by hybridization: towards an automated sequencing of one million M13 clones arrayed on membranes.
Identifieur interne : 004715 ( Main/Curation ); précédent : 004714; suivant : 004716Sequencing by hybridization: towards an automated sequencing of one million M13 clones arrayed on membranes.
Auteurs : R. Drmanac [États-Unis] ; S. Drmanac ; I. Labat ; R. Crkvenjakov ; A. Vicentic ; A. GemmellSource :
- Electrophoresis [ 0173-0835 ] ; 1992.
Descripteurs français
- KwdFr :
- MESH :
English descriptors
- KwdEn :
- MESH :
- chemical , chemistry : DNA.
- genetics : Bacteriophage M13.
- Base Sequence, Cloning, Molecular, Membranes, Artificial, Molecular Sequence Data, Nucleic Acid Hybridization, Oligonucleotide Probes, Phosphorus Radioisotopes, Polymerase Chain Reaction, Robotics.
Abstract
An immediately applicable variant of the sequencing by hybridization (SBH) method is under development with the capacity to determine up to 100 million base pairs per year. The proposed method comprises six steps: (i) arraying genomic or cDNA M13 clones in 864-well plates (wells of 2 mm); (ii) preparation of DNA samples for spotting by growth of the M13 clones or by polymerase chain reaction (PCR) of the inserts using standard 96-well plates, or plates having as many as 864 correspondingly smaller wells; (iii) robotic spotting of 13,824 samples on an 8 x 12 cm nylon membrane, or correspondingly more, on up to 6 times larger filters, by offset printing with a 96 or 864 0.4 mm pin device; (iv) hybridization of dotted samples with 200-2000 32P-labeled probes comprising 16-256 10-mers having a common 8-mer, 7-mer, or 6-mer in the middle (20 probes per day, each hybridized with 250,000 dots); (v) scoring hybridization signals of 5 million sample-probe pairs per day using storage phosphor plates; and (vi) computing clone order and partial-to-complete DNA sequences using various heuristic algorithms. Genome sequencing based on a combination of this method and gel sequencing techniques may be significantly more economical than gel methods alone.
DOI: 10.1002/elps.11501301115
PubMed: 1451694
Links toward previous steps (curation, corpus...)
- to stream PubMed, to step Corpus: Pour aller vers cette notice dans l'étape Curation :002952
- to stream PubMed, to step Curation: Pour aller vers cette notice dans l'étape Curation :002952
- to stream PubMed, to step Checkpoint: Pour aller vers cette notice dans l'étape Curation :002795
- to stream Ncbi, to step Merge: Pour aller vers cette notice dans l'étape Curation :000235
- to stream Ncbi, to step Curation: Pour aller vers cette notice dans l'étape Curation :000235
- to stream Ncbi, to step Checkpoint: Pour aller vers cette notice dans l'étape Curation :000235
- to stream Main, to step Merge: Pour aller vers cette notice dans l'étape Curation :004785
Links to Exploration step
pubmed:1451694Le document en format XML
<record><TEI><teiHeader><fileDesc><titleStmt><title xml:lang="en">Sequencing by hybridization: towards an automated sequencing of one million M13 clones arrayed on membranes.</title>
<author><name sortKey="Drmanac, R" sort="Drmanac, R" uniqKey="Drmanac R" first="R" last="Drmanac">R. Drmanac</name>
<affiliation wicri:level="2"><nlm:affiliation>Biological and Medical Research Division, Argonne National Laboratory, IL 60439-4833.</nlm:affiliation>
<country xml:lang="fr">États-Unis</country>
<placeName><region type="state">Illinois</region>
</placeName>
<wicri:cityArea>Biological and Medical Research Division, Argonne National Laboratory</wicri:cityArea>
</affiliation>
</author>
<author><name sortKey="Drmanac, S" sort="Drmanac, S" uniqKey="Drmanac S" first="S" last="Drmanac">S. Drmanac</name>
</author>
<author><name sortKey="Labat, I" sort="Labat, I" uniqKey="Labat I" first="I" last="Labat">I. Labat</name>
</author>
<author><name sortKey="Crkvenjakov, R" sort="Crkvenjakov, R" uniqKey="Crkvenjakov R" first="R" last="Crkvenjakov">R. Crkvenjakov</name>
</author>
<author><name sortKey="Vicentic, A" sort="Vicentic, A" uniqKey="Vicentic A" first="A" last="Vicentic">A. Vicentic</name>
</author>
<author><name sortKey="Gemmell, A" sort="Gemmell, A" uniqKey="Gemmell A" first="A" last="Gemmell">A. Gemmell</name>
</author>
</titleStmt>
<publicationStmt><idno type="wicri:source">PubMed</idno>
<date when="1992">1992</date>
<idno type="RBID">pubmed:1451694</idno>
<idno type="pmid">1451694</idno>
<idno type="doi">10.1002/elps.11501301115</idno>
<idno type="wicri:Area/PubMed/Corpus">002952</idno>
<idno type="wicri:explorRef" wicri:stream="PubMed" wicri:step="Corpus" wicri:corpus="PubMed">002952</idno>
<idno type="wicri:Area/PubMed/Curation">002952</idno>
<idno type="wicri:explorRef" wicri:stream="PubMed" wicri:step="Curation">002952</idno>
<idno type="wicri:Area/PubMed/Checkpoint">002795</idno>
<idno type="wicri:explorRef" wicri:stream="Checkpoint" wicri:step="PubMed">002795</idno>
<idno type="wicri:Area/Ncbi/Merge">000235</idno>
<idno type="wicri:Area/Ncbi/Curation">000235</idno>
<idno type="wicri:Area/Ncbi/Checkpoint">000235</idno>
<idno type="wicri:doubleKey">0173-0835:1992:Drmanac R:sequencing:by:hybridization</idno>
<idno type="wicri:Area/Main/Merge">004785</idno>
<idno type="wicri:Area/Main/Curation">004715</idno>
</publicationStmt>
<sourceDesc><biblStruct><analytic><title xml:lang="en">Sequencing by hybridization: towards an automated sequencing of one million M13 clones arrayed on membranes.</title>
<author><name sortKey="Drmanac, R" sort="Drmanac, R" uniqKey="Drmanac R" first="R" last="Drmanac">R. Drmanac</name>
<affiliation wicri:level="2"><nlm:affiliation>Biological and Medical Research Division, Argonne National Laboratory, IL 60439-4833.</nlm:affiliation>
<country xml:lang="fr">États-Unis</country>
<placeName><region type="state">Illinois</region>
</placeName>
<wicri:cityArea>Biological and Medical Research Division, Argonne National Laboratory</wicri:cityArea>
</affiliation>
</author>
<author><name sortKey="Drmanac, S" sort="Drmanac, S" uniqKey="Drmanac S" first="S" last="Drmanac">S. Drmanac</name>
</author>
<author><name sortKey="Labat, I" sort="Labat, I" uniqKey="Labat I" first="I" last="Labat">I. Labat</name>
</author>
<author><name sortKey="Crkvenjakov, R" sort="Crkvenjakov, R" uniqKey="Crkvenjakov R" first="R" last="Crkvenjakov">R. Crkvenjakov</name>
</author>
<author><name sortKey="Vicentic, A" sort="Vicentic, A" uniqKey="Vicentic A" first="A" last="Vicentic">A. Vicentic</name>
</author>
<author><name sortKey="Gemmell, A" sort="Gemmell, A" uniqKey="Gemmell A" first="A" last="Gemmell">A. Gemmell</name>
</author>
</analytic>
<series><title level="j">Electrophoresis</title>
<idno type="ISSN">0173-0835</idno>
<imprint><date when="1992" type="published">1992</date>
</imprint>
</series>
</biblStruct>
</sourceDesc>
</fileDesc>
<profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>Bacteriophage M13 (genetics)</term>
<term>Base Sequence</term>
<term>Cloning, Molecular</term>
<term>DNA (chemistry)</term>
<term>Membranes, Artificial</term>
<term>Molecular Sequence Data</term>
<term>Nucleic Acid Hybridization</term>
<term>Oligonucleotide Probes</term>
<term>Phosphorus Radioisotopes</term>
<term>Polymerase Chain Reaction</term>
<term>Robotics</term>
</keywords>
<keywords scheme="KwdFr" xml:lang="fr"><term>ADN ()</term>
<term>Bactériophage M13 (génétique)</term>
<term>Clonage moléculaire</term>
<term>Données de séquences moléculaires</term>
<term>Hybridation d'acides nucléiques</term>
<term>Membrane artificielle</term>
<term>Radio-isotopes du phosphore</term>
<term>Robotique</term>
<term>Réaction de polymérisation en chaîne</term>
<term>Sondes oligonucléotidiques</term>
<term>Séquence nucléotidique</term>
</keywords>
<keywords scheme="MESH" type="chemical" qualifier="chemistry" xml:lang="en"><term>DNA</term>
</keywords>
<keywords scheme="MESH" qualifier="genetics" xml:lang="en"><term>Bacteriophage M13</term>
</keywords>
<keywords scheme="MESH" qualifier="génétique" xml:lang="fr"><term>Bactériophage M13</term>
</keywords>
<keywords scheme="MESH" xml:lang="en"><term>Base Sequence</term>
<term>Cloning, Molecular</term>
<term>Membranes, Artificial</term>
<term>Molecular Sequence Data</term>
<term>Nucleic Acid Hybridization</term>
<term>Oligonucleotide Probes</term>
<term>Phosphorus Radioisotopes</term>
<term>Polymerase Chain Reaction</term>
<term>Robotics</term>
</keywords>
<keywords scheme="MESH" xml:lang="fr"><term>ADN</term>
<term>Clonage moléculaire</term>
<term>Données de séquences moléculaires</term>
<term>Hybridation d'acides nucléiques</term>
<term>Membrane artificielle</term>
<term>Radio-isotopes du phosphore</term>
<term>Robotique</term>
<term>Réaction de polymérisation en chaîne</term>
<term>Sondes oligonucléotidiques</term>
<term>Séquence nucléotidique</term>
</keywords>
</textClass>
</profileDesc>
</teiHeader>
<front><div type="abstract" xml:lang="en">An immediately applicable variant of the sequencing by hybridization (SBH) method is under development with the capacity to determine up to 100 million base pairs per year. The proposed method comprises six steps: (i) arraying genomic or cDNA M13 clones in 864-well plates (wells of 2 mm); (ii) preparation of DNA samples for spotting by growth of the M13 clones or by polymerase chain reaction (PCR) of the inserts using standard 96-well plates, or plates having as many as 864 correspondingly smaller wells; (iii) robotic spotting of 13,824 samples on an 8 x 12 cm nylon membrane, or correspondingly more, on up to 6 times larger filters, by offset printing with a 96 or 864 0.4 mm pin device; (iv) hybridization of dotted samples with 200-2000 32P-labeled probes comprising 16-256 10-mers having a common 8-mer, 7-mer, or 6-mer in the middle (20 probes per day, each hybridized with 250,000 dots); (v) scoring hybridization signals of 5 million sample-probe pairs per day using storage phosphor plates; and (vi) computing clone order and partial-to-complete DNA sequences using various heuristic algorithms. Genome sequencing based on a combination of this method and gel sequencing techniques may be significantly more economical than gel methods alone.</div>
</front>
</TEI>
</record>
Pour manipuler ce document sous Unix (Dilib)
EXPLOR_STEP=$WICRI_ROOT/Sante/explor/MersV1/Data/Main/Curation
HfdSelect -h $EXPLOR_STEP/biblio.hfd -nk 004715 | SxmlIndent | more
Ou
HfdSelect -h $EXPLOR_AREA/Data/Main/Curation/biblio.hfd -nk 004715 | SxmlIndent | more
Pour mettre un lien sur cette page dans le réseau Wicri
{{Explor lien |wiki= Sante |area= MersV1 |flux= Main |étape= Curation |type= RBID |clé= pubmed:1451694 |texte= Sequencing by hybridization: towards an automated sequencing of one million M13 clones arrayed on membranes. }}
Pour générer des pages wiki
HfdIndexSelect -h $EXPLOR_AREA/Data/Main/Curation/RBID.i -Sk "pubmed:1451694" \ | HfdSelect -Kh $EXPLOR_AREA/Data/Main/Curation/biblio.hfd \ | NlmPubMed2Wicri -a MersV1
![]() | This area was generated with Dilib version V0.6.33. | ![]() |