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In situ synthesis of peptide microarrays - shadow mask design [2]

ABSTRACT: An experiment was designed to use a computer program to create lithography masks using a pseudo-random pattern generator. The data in this file are results from immunosignaturing 8 different monoclonals using a 10,000 peptide random-sequence microarray. Peptides were synthesized by Sigma Aldrich, and printed onto glass slides and used to test several different parameters.

ORGANISM(S): Mus musculus synthetic construct

PROVIDER: GSE50044 | GEO | 2014/01/16

SECONDARY ACCESSION(S): PRJNA215859

REPOSITORIES: GEO

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In situ synthesis of peptide microarrays - shadow mask design [2]

Project description:An experiment was designed to use a computer program to create lithography masks using a pseudo-random pattern generator. The data in this file are results from immunosignaturing 8 different monoclonals using a 10,000 peptide random-sequence microarray. Peptides were synthesized by Sigma Aldrich, and printed onto glass slides and used to test several different parameters. One replicate of each peptide was printed on 1 CIM_10K_v2 peptide microarray. One microarray were tested for each sample. Image was qualified using in-house metrics for quality assurance.

2014-01-16 | E-GEOD-50044 | biostudies-arrayexpress

In situ synthesis of peptide microarrays - shadow mask design [1]

Project description:A computer program was used to create random amino acid sequences based on and restricted by physical shadow masks which will be used for lithography-based synthesis of peptides. The output from this algorithm was used to create peptides that were synthesized by Sigma Aldrich, and printed onto glass slides. The arrays contained 384 peptides printed in duplicate for each of 4 different mask designs. 52 different monoclonal antibodies were incubated on these microarrays and analyzed for their propensity to bind the peptides created from each mask set. The diversity of binding served as a proxy for the 'randomness' of these peptides, and provided information about how many masks are needed to truly generate random sequence peptides.

2014-01-16 | GSE49217 | GEO

In situ synthesis of peptide microarrays - shadow mask design [1]

2014-01-16 | E-GEOD-49217 | biostudies-arrayexpress

In situ synthesis of peptide microarrays - shadow mask design [3]

Project description:In this paper several computer programs were used to simulate in situ synthesis of peptides using shadow masks and BOC synthesis. The peptides were designed to be random, or pseudo-random, but fulfill requirements of immunosignaturing. This file contains data from actual 330,000 peptide arrays that used the first iteration of the peptide generation algorithm. Monoclonal antibodies were bound to the microarrays and the total number of peptides that distinguished each monoclonal was measured. This provides a baseline against which to compare purely random sequences. One replicate of each peptide was printed on 1 330k peptide microarray. One microarray were tested for each sample. Image was qualified using in-house metrics for quality assurance.

2014-01-16 | E-GEOD-50571 | biostudies-arrayexpress

In situ synthesis of peptide microarrays - shadow mask design [3]

2014-01-16 | GSE50571 | GEO

In situ synthesis of peptide microarrays - shadow mask design

Project description:This SuperSeries is composed of the SubSeries listed below.

2014-01-16 | GSE50045 | GEO

In situ synthesis of peptide microarrays - shadow mask design

Project description:This SuperSeries is composed of the SubSeries listed below. Refer to individual Series

2014-01-16 | E-GEOD-50045 | biostudies-arrayexpress

Characterization of Graphene-based FET Fabricated using a Shadow Mask.

Project description: Not available

| S-EPMC4864380 | biostudies-literature

Natural variation in gene expression between normal human individuals studies using Hu2304 cDNA arrays

Project description:Hu2304 arrays have been printed on aminosilane glass slides using 50% DMSO as the spotting solution (Quackenbush protocol; chapter 4). It has 2304 gene probes (including positive and negative controls) printed in duplicates. The probes for this array were primarily selected from the 384 well plates that contained maximum representation of genes expressed in blood (based on EST information). Keywords: Studying natural variation

2007-04-18 | GSE6554 | GEO

Activation of seed-specific genes in leaves and roots of the desiccation-tolerant plant, Xerophyta humilis

Project description:Measurement of changes in the mRNA transcript abundance of 1709 cDNAs in desiccated (5% RWC) and hydrated (100% RWC) Xerophyta humilis leaves and roots, and in mature seeds. 3105 cDNA clones (corresponding to 1709 unique cDNAs) were randomly selected from X. humilis cDNA libraries (Leaf Dehydration (LD), Leaf Rehydration (LR), Root Dehydration (RD) and Root Rehydration (RR)), amplified by PCR, and printed on each glass slide multiple times (ranging from 4 to 12X), such that each printed block contained a random unbiased mixture of cDNAs from the 4 different cDNA libraries. Total RNA extracted from each X. humilis leaf, root and seed sample was labelled with Cy3 and hybridized to the printed cDNA arrays. Data was recorded for three biological replicates for each of the samples being investigated.

2012-03-29 | E-GEOD-34951 | biostudies-arrayexpress

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