Evidence map›Paper›PMID 18084027›Full record

ArticleNucleic acids research2008

In situ oligonucleotide synthesis on carbon materials: stable substrates for microarray fabrication.

Margaret F Phillips, Matthew R Lockett, Matthew J Rodesch, Michael R Shortreed, Franco Cerrina, Lloyd M Smith

Abstract readComparative Study
In one paragraph

Article in Nucleic acids research, 2008. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 21 papers.

0numbers the graph read from it
0cells of the map it votes in
21citing papers in PubMed
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

21 citing papers in PubMed.

  1. Article
  2. Article
  3. Article
  4. Article
  5. Article
  6. Article
  7. Parallel DNA Synthesis on Poly(ethylene terephthalate).Chembiochem : a European journal of chemical biology · 2017
    Article
  8. Article
  9. Carbon Substrates: A Stable Foundation for Biomolecular Arrays.Annual review of analytical chemistry (Palo Alto, Calif.) · 2015
    Review
  10. RNA-mediated gene assembly from DNA arrays.Angewandte Chemie (International ed. in English) · 2012
    Article
  11. In situ Synthesis of Oligonucleotide Arrays on Surfaces Coated with Crosslinked Polymer Multilayers.Chemistry of materials : a publication of the American Chemical Society · 2012
    Article
  12. Article
  13. Article
  14. Photopatterned thiol surfaces for biomolecule immobilization.Langmuir : the ACS journal of surfaces and colloids · 2009
    Article
  15. Article
  16. Article
  17. Controlling oligonucleotide surface density in light-directed DNA array fabrication.Langmuir : the ACS journal of surfaces and colloids · 2009
    Article
  18. Article
  19. Article
  20. Article
4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

6 authors.

Margaret F PhillipsDepartment of Chemistry, University of Wisconsin - Madison, 1101 University Ave. Madison, Madison, WI 53706, USA.
Matthew R Lockett
Matthew J Rodesch
Michael R Shortreed
Franco Cerrina
Lloyd M Smith

Funding

Light-directed synthesis of genes &other biomoleculesR01HG003275 · NHGRI · UNIVERSITY OF WISCONSIN-MADISON · PI CERRINA, FRANCESCO · 2004 to 2007
$4.5M
SNP Analysis by Surface Invasive Cleavage on DNA ArraysR01HG002298 · NHGRI · UNIVERSITY OF WISCONSIN-MADISON · PI SMITH, LLOYD M · 2001 to 2007
$2.7M
HIGH FIDELITY SURFACES AND DNA ARRAYSR01EB000269 · NIBIB · UNIVERSITY OF WISCONSIN MADISON · PI SMITH, LLOYD M · 2002 to 2003
$814k
NHGRI NIH HHS R01 HG002298NHGRI NIH HHS R01 HG003275NHGRI NIH HHS R01HG003275NHGRI NIH HHS R01HG02298NIBIB NIH HHS R01 EB000269NIBIB NIH HHS R01EB00269
6 · The paper itself

Abstract

Glass has become the standard substrate for the preparation of DNA arrays. Typically, glass is modified using silane chemistries to provide an appropriate functional group for nucleic acid synthesis or oligonucleotide immobilization. We have found substantial issues with the stability of these surfaces as manifested in the unwanted release of oligomers from the surface when incubated in aqueous buffers at moderate temperatures. To address this issue, we have explored the use of carbon-based substrates. Here, we demonstrate in situ synthesis of oligonucleotide probes on carbon-based substrates using light-directed photolithographic phosphoramidite chemistry and evaluate the stabilities of the resultant DNA arrays compared to those fabricated on silanized glass slides. DNA arrays on carbon-based substrates are substantially more stable than arrays prepared on glass. This superior stability enables the use of high-density DNA arrays for applications involving high temperatures, basic conditions, or where serial hybridization and dehybridization is desired.

Indexed as

Oligonucleotide Array Sequence AnalysisCarbonDiamondFluorescent DyesGlassMicroscopy, FluorescenceOligonucleotide ProbesPolymerase Chain ReactionTemperatureCarbonDiamondFluorescent DyesOligonucleotide Probes

Identifiers

PMID18084027
PMCPMC2248760

What OpenQuestion holds

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LicenceCC BY-NC
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Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.