(Q36676530)

15 August 2017

A study of the relationships between oligonucleotide properties and hybridization signal intensities from NimbleGen microarray datasets (English)

1 reference

15 August 2017

1 reference

9

Sunduz Keles

1 reference

15 August 2017

Hairong Wei

1

1 reference

15 August 2017

Pei Fen Kuan

2

1 reference

15 August 2017

Shulan Tian

3

1 reference

15 August 2017

Chuhu Yang

4

1 reference

15 August 2017

Jeff Nie

5

1 reference

15 August 2017

Srikumar Sengupta

6

1 reference

15 August 2017

Victor Ruotti

7

1 reference

15 August 2017

Gudrun A Jonsdottir

8

1 reference

15 August 2017

James A Thomson

10

1 reference

15 August 2017

Ron Stewart

11

1 reference

15 August 2017

language of work or name

English

0 references

publication date

1 April 2008

1 reference

15 August 2017

Nucleic Acids Research

1 reference

15 August 2017

36

1 reference

15 August 2017

9

1 reference

15 August 2017

2926-2938

1 reference

Model-based analysis of two-color arrays (MA2C).

15 August 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2396435

Influence of secondary structure on kinetics and reaction mechanism of DNA hybridization

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2396435

Assessing the need for sequence-based normalization in tiling microarray experiments

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2396435

Free energy of DNA duplex formation on short oligonucleotide microarrays

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2396435

Effects of target length on the hybridization efficiency and specificity of rRNA-based oligonucleotide microarrays

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2396435

Competitive displacement of DNA during surface hybridization

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2396435

Microarray oligonucleotide probes

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2396435

The complexity of the mammalian transcriptome

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2396435

Secondary structure effects on DNA hybridization kinetics: a solution versus surface comparison

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2396435

Reliability and reproducibility issues in DNA microarray measurements

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2396435

Effects of DNA secondary structure on oligonucleotide probe binding efficiency

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2396435

The transcriptional landscape of the mammalian genome

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2396435

Empirical establishment of oligonucleotide probe design criteria

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2396435

Secondary structure in the target as a confounding factor in synthetic oligomer microarray design

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2396435

Global identification of human transcribed sequences with genome tiling arrays

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2396435

In control: systematic assessment of microarray performance

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2396435

Optimization of probe length and the number of probes per gene for optimal microarray analysis of gene expression

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2396435

Solid Phase DNA Amplification: A Simple Monte Carlo Lattice Model

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2396435

Solving the riddle of the bright mismatches: labeling and effective binding in oligonucleotide arrays

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2396435

Exploration, normalization, and summaries of high density oligonucleotide array probe level data

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2396435

Modeling of DNA microarray data by using physical properties of hybridization

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2396435

Gene expression analysis using oligonucleotide arrays produced by maskless photolithography

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2396435

A new non-linear normalization method for reducing variability in DNA microarray experiments

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2396435

The effect of surface probe density on DNA hybridization

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2396435

Expression profiling using microarrays fabricated by an ink-jet oligonucleotide synthesizer

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2396435

Hybridization of single-stranded DNA targets to immobilized complementary DNA probes: comparison of hairpin versus linear capture probes

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2396435

Assessment of the sensitivity and specificity of oligonucleotide (50mer) microarrays

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2396435

Immobilization of nucleic acids at solid surfaces: effect of oligonucleotide length on layer assembly

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2396435

Differential destabilization of repetitive sequence hybrids in fluorescence in situ hybridization

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2396435

A unified view of polymer, dumbbell, and oligonucleotide DNA nearest-neighbor thermodynamics

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2396435

Improved thermodynamic parameters and helix initiation factor to predict stability of DNA duplexes

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2396435

The biophysics of DNA hybridization with immobilized oligonucleotide probes.

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2396435

Optimization of the annealing temperature for DNA amplification in vitro

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2396435

Hybridization of synthetic oligodeoxyribonucleotides to ΦX174 DNA: the effect of single base pair mismatch

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2396435

Rates of formation and thermal stabilities of RNA:DNA and DNA:DNA duplexes at high concentrations of formamide

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2396435

Temperature effects on DNA chip experiments from surface plasmon resonance imaging: isotherms and melting curves

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2396435

Whole-genome analysis of histone H3 lysine 4 and lysine 27 methylation in human embryonic stem cells

28 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2396435

Optical study of DNA surface hybridization reveals DNA surface density as a key parameter for microarray hybridization kinetics

5 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2396435

The mammalian transcriptome and the cellular complexity of the brain

5 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2396435

Design considerations for array CGH to oligonucleotide arrays

5 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2396435

Amplicon secondary structure prevents target hybridization to oligonucleotide microarrays

5 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2396435

Hybridization dynamics of surface immobilized DNA.

5 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2396435

Hybridization at a surface: the role of spacers in DNA microarrays

5 September 2018

1 reference

12 December 2020

Effect of secondary structure on single nucleotide polymorphism detection with a porous microarray matrix; implications for probe selection

1 reference

12 December 2020

Possible sources of dye-related signal correlation bias in two-color DNA microarray assays

1 reference

12 December 2020

Long oligonucleotide microarrays in wheat: evaluation of hybridization signal amplification and an oligonucleotide-design computer script

1 reference

12 December 2020

Identifiers

DOI

10.1093/NAR/GKN133

1 reference

15 August 2017

1 reference

15 August 2017

PubMed publication ID

18385155

1 reference