Journal: The Journal of Neuroscience

Article Title: Single-Cell Microarray Analysis in Hippocampus CA1: Demonstration and Validation of Cellular Heterogeneity

doi: 10.1523/JNEUROSCI.23-09-03607.2003

Figure Lengend Snippet: Partial microarray image. The microarray was hybridized to a Cy3-labeled target generated from a single cell. The identities of seven genes are highlighted.

Article Snippet: The entire generated Cy3-labeled target was hybridized overnight at 42°C onto a single chip in a buffer containing 50% formamide and 1× Microarray Hybridization buffer (RPK-0325, Amersham Biosciences).

Techniques: Microarray, Labeling, Generated

Journal: The Journal of Neuroscience

Article Title: Single-Cell Microarray Analysis in Hippocampus CA1: Demonstration and Validation of Cellular Heterogeneity

doi: 10.1523/JNEUROSCI.23-09-03607.2003

Figure Lengend Snippet: Estimation of the sensitivity of the combination of laser capture microdissection, T7 aRNA amplification, and cDNA microarray analysis using quantitative RT-PCR

Article Snippet: The entire generated Cy3-labeled target was hybridized overnight at 42°C onto a single chip in a buffer containing 50% formamide and 1× Microarray Hybridization buffer (RPK-0325, Amersham Biosciences).

Techniques: Laser Capture Microdissection, Amplification, Microarray

Journal: The Journal of Neuroscience

Article Title: Single-Cell Microarray Analysis in Hippocampus CA1: Demonstration and Validation of Cellular Heterogeneity

doi: 10.1523/JNEUROSCI.23-09-03607.2003

Figure Lengend Snippet: Hierarchical clustering of the microarray data set. Each column represents a single cell, each row a gene. Three clusters are indicated by an orange box to the left of the columns and by roman numerals I–III to the right of the columns. These three clusters are shown in Figure ​Figure55.

Article Snippet: The entire generated Cy3-labeled target was hybridized overnight at 42°C onto a single chip in a buffer containing 50% formamide and 1× Microarray Hybridization buffer (RPK-0325, Amersham Biosciences).

Techniques: Microarray

Journal: The Journal of Neuroscience

Article Title: Single-Cell Microarray Analysis in Hippocampus CA1: Demonstration and Validation of Cellular Heterogeneity

doi: 10.1523/JNEUROSCI.23-09-03607.2003

Figure Lengend Snippet: Microarray data validation using double-labelingin situ hybridization. Five genes selected from two of the cluster described in Figure ​Figure55 were analyzed by in situ hybridization together with parvalbumin. Presence of parvalbumin mRNA is indicated by light-gray staining, and the colocalizing gene is indicated by black silver grains. The right column shows a nuclear counterstain, using YO-PRO, of the same field of view as the respective in situ hybridization. Scale bar, 50 μm.

Article Snippet: The entire generated Cy3-labeled target was hybridized overnight at 42°C onto a single chip in a buffer containing 50% formamide and 1× Microarray Hybridization buffer (RPK-0325, Amersham Biosciences).

Techniques: Microarray, Hybridization, In Situ Hybridization, Staining

Journal: Marine Biotechnology (New York, N.y.)

Article Title: Development and Experimental Validation of a 20K Atlantic Cod ( Gadus morhua ) Oligonucleotide Microarray Based on a Collection of over 150,000 ESTs

doi: 10.1007/s10126-010-9335-6

Figure Lengend Snippet: QPCR results for genes identified as Asal-responsive by microarray and SSH. Average relative quantity ( RQ ) values with SEM error bars. Gene expression differences were determined by t tests on RQ values with a p value cutoff of 0.05. Statistically significant differences between treatments within time points are indicated with an asterisk . Statistically significant differences between time points within treatments are indicated with letters ( lowercase for PBS, uppercase for A. salmonicida ; different letters indicate significant difference). Fold upregulation was calculated as (average RQ 24 HPI)/(average RQ 0 h) for both PBS and Asal groups. Fold downregulation was calculated as 1/(fold upregulation). CAMP, GmSCYA123, HAMP, and IL8 were analyzed previously by QPCR using the same spleen samples but with a different QPCR instrument and using technical duplicates instead of technical triplicates (Feng et al. ). QPCR for these genes was repeated for the current study to ensure that all genes were analyzed using the same instrument and protocol

Article Snippet: Probes were resuspended in sodium phosphate buffer (Schott-Nexterion Spot; Schott, Louisville, KY), to a final concentration of 30 μM, in Genetix X7020 384-well plates (Genetics, Boston, MA) using a Janus liquid-handling robot (PerkinElmer, Waltham, MA) and spotted in duplicate on epoxy microarray slides (Schott-Nexterion Slide E) using an OmniGrid 100 microarrayer (Genomic Solutions, Ann Arbor, MI) equipped with SMT-S50 silicon print pins (Parallel Synthesis Technologies, Santa Clara, CA).

Techniques: Microarray, Expressing

Journal: Marine Biotechnology (New York, N.y.)

Article Title: Development and Experimental Validation of a 20K Atlantic Cod ( Gadus morhua ) Oligonucleotide Microarray Based on a Collection of over 150,000 ESTs

doi: 10.1007/s10126-010-9335-6

Figure Lengend Snippet: QPCR results for genes identified as Asal-responsive by microarray only. Average relative quantity ( RQ ) values with SEM error bars. Gene expression differences were determined by t tests on RQ values with a p value cutoff of 0.05. Statistically significant differences between treatments within time points are indicated with an asterisk . Statistically significant differences between time points within treatments are indicated with letters ( lowercase for PBS, uppercase for A. salmonicida ; different letters indicate significant difference). Fold upregulation was calculated as (average RQ 24 HPI)/(average RQ 0 h) for both PBS and Asal groups. Fold downregulation was calculated as 1/(fold upregulation)

Article Snippet: Probes were resuspended in sodium phosphate buffer (Schott-Nexterion Spot; Schott, Louisville, KY), to a final concentration of 30 μM, in Genetix X7020 384-well plates (Genetics, Boston, MA) using a Janus liquid-handling robot (PerkinElmer, Waltham, MA) and spotted in duplicate on epoxy microarray slides (Schott-Nexterion Slide E) using an OmniGrid 100 microarrayer (Genomic Solutions, Ann Arbor, MI) equipped with SMT-S50 silicon print pins (Parallel Synthesis Technologies, Santa Clara, CA).

Techniques: Microarray, Expressing

Journal: Vaccines

Article Title: Antigen-Heterologous Vaccination Regimen Triggers Alternate Antibody Targeting in SARS-CoV-2-DNA-Vaccinated Mice

doi: 10.3390/vaccines12030218

Figure Lengend Snippet: Antibody binding to the receptor-binding domain (RBD). Peptide id. on the x -axis refers to the position of the last amino acid of each 10′mer peptide on the microarray. The y -axis indicates the level of antibody binding to each peptide measured as the average of duplicate determinations of spot fluorescence minus background fluorescence normalized according to a positive control included on each subarray. RBM = receptor-binding motif.

Article Snippet: The microarray was then reinserted into the PEPperPRINT microarray cassette and incubated with staining buffer for 15 min to equilibrate.

Techniques: Binding Assay, Microarray, Fluorescence, Positive Control

Journal: Vaccines

Article Title: Antigen-Heterologous Vaccination Regimen Triggers Alternate Antibody Targeting in SARS-CoV-2-DNA-Vaccinated Mice

doi: 10.3390/vaccines12030218

Figure Lengend Snippet: Serum-binding antibody profiles. Antibody binding to 10′mer overlapping peptides covering the entire SARS-CoV-2 Index strain spike ectodomain. The x -axis refers to the position of the last amino acid of each 10′mer peptide on the microarray. The y -axis ( A , B ) indicates the level of antibody binding to each peptide measured as the average of duplicate determinations of spot fluorescence minus background fluorescence normalized according to a positive control included on each subarray. ( A ) Individual binding profiles from antibody binding in pools of serum samples stratified according to vaccination regimen. Major peaks are labeled. ( B ) Full overview of antibody binding in all three groups relative to the different SARS-CoV-2 spike protein domains. S1 subunit (residues 14–685); S2 subunit (residues 686–1273); NTD = N-terminal domain; RBD = receptor-binding domain; SD1, SD2, SD3 = sub-domain 1, 2, 3; S1/S2 = furin cleavage site; UH = upstream helix; S2’ cleavage site; FP = fusion peptide; CR = connecting region; HR1 and HR2 = heptad repeat sequence 1 and 2; CH = central helix; CD = connector domain; TM = transmembrane helix; CD = connector domain. ( C ) Heatmap showing serum antibody binding relative to the different SARS-CoV-2 spike protein domains in the Index-strain-vaccinated group, the Beta-VOC-vaccinated group, and the mixed-vaccinated group.

Article Snippet: The microarray was then reinserted into the PEPperPRINT microarray cassette and incubated with staining buffer for 15 min to equilibrate.

Techniques: Binding Assay, Microarray, Fluorescence, Positive Control, Labeling, Sequencing