Journal: Journal of Biomedical Discovery and Collaboration

Article Title: The emergence and diffusion of DNA microarray technology

doi: 10.1186/1747-5333-1-11

Figure Lengend Snippet: Organizations Receiving the Most Federal Grants for Research Using Microarrays (1993–2004)

Article Snippet: SYMYX TECHNOLOGIES , High throughput chemical discovery and analysis on microarrays , Y.

Techniques:

Journal: Journal of Biomedical Discovery and Collaboration

Article Title: The emergence and diffusion of DNA microarray technology

doi: 10.1186/1747-5333-1-11

Figure Lengend Snippet: Selected Organizations Frequently Citing Affymetrix Patents

Article Snippet: SYMYX TECHNOLOGIES , High throughput chemical discovery and analysis on microarrays , Y.

Techniques: Microscopy, DNA Hybridization, Sequencing, Amplification, Expressing, Imaging, Quantitation Assay, Gene Expression, Drug discovery, Gene Knockout, Sample Prep, Medications, Software, Biomarker Discovery, High Throughput Screening Assay, Diagnostic Assay

Journal: Journal of Biomedical Discovery and Collaboration

Article Title: The emergence and diffusion of DNA microarray technology

doi: 10.1186/1747-5333-1-11

Figure Lengend Snippet: Federal Funding to Perlegen

Article Snippet: SYMYX TECHNOLOGIES , High throughput chemical discovery and analysis on microarrays , Y.

Techniques: Microarray, Sequencing, Genome Wide

Journal: Frontiers in Immunology

Article Title: Altered circular RNA expressions in extracellular vesicles from bronchoalveolar lavage fluids in mice after bacterial infections

doi: 10.3389/fimmu.2024.1354676

Figure Lengend Snippet: Validation of individual circRNAs detected in microarray profiling using RT-qPCR. WT mice were exposed to Acid (0.1 N HCl) or LPS (1µg) for 1 day. BALF EVs and cells were collected and circRNAs were evaluated using qPCR (normalized to β-actin or GAPDH). (A) To validate the specific circRNAs using RT-qPCR, we first designed the specific primers targeting the BSJ region to detect circular forms of RNAs, as illustrated here (left panel). The specific sequence of each specific circRNAs is listed on the right panel. (B) Validation of specific circRNAs using RT-qPCR in BALF EVs. We selected five circRNAs that were highly altered in the BALF EVs using microarray profiling. Next, we validated the expression and alteration of each circRNA using RT-qPCR in BALF EVs. *p<0.05. (C) To confirm that the specific primers used to detect circRNAs fail to detect the linear form host RNA. Using circ30884 as an example, we confirmed that using the primer listed above, we failed to detect its host linear RNA XDH. The figures shown here represent repeats from three independent experiments. *p<0.05. (D) AMs and neutrophils were separately isolated from LPS-exposed mouse lung as the above. Circular RNAs were then detected using RT-qPCR. *p<0.05, ns, not significant.

Article Snippet: We first used the high-throughput RNA-sequencing microarray screening by Arraystar.

Techniques: Biomarker Discovery, Microarray, Quantitative RT-PCR, Sequencing, Expressing, Isolation

Journal: Oncotarget

Article Title: Peptide microarray of pediatric acute myeloid leukemia is related to relapse and reveals involvement of DNA damage response and repair

doi: 10.18632/oncotarget.27086

Figure Lengend Snippet: ( A ) The overview of study design for peptide microarray profiling of pediatric AML samples to identify active signaling cascade and potential druggable targets depicted in this figure. PepChipTM microarray data of 96 AML patients were analyzed using unsupervised hierarchical clustering. Patients characteristics were correlated with clusters. Provisional scheme of the activated signal transduction pathways between two clusters was analyzed by Metacore GenoGo software. ( B ) Unsupervised hierarchical clustering of the activated peptides of the array using average linkage algorithm is presented in this figure. The heat map graphically represents the 192 activated peptides constructed from quantile normalized peptide activation intensities. Patients are significantly separated into two actual clusters by gap statistics depending on the peptide activation intensities. The patient karyotypes are marked in the bottom of the figure. Peptide activation activity is scaled so that green represents lower activation and red represents higher activation. The 192 peptides names corresponding with the phosphorylation consensus sequences of the proteins they originated from were presented in ( C ) Bar diagram shows the significant fold differences for a selective group of interesting categorized peptides between the AML samples of two clusters (cluster-1 and cluster-2) and CD34+ NBM controls ( n = 4). Proteins from which the peptide sequences are derived and the explicit peptide phosphorylation sites are indicated in the graph.

Article Snippet: In this study, using a high-throughput PepChipTM Kinomics microarray system, pediatric AML samples were analyzed to gain insights of active signal transduction pathway.

Techniques: Peptide Microarray, Microarray, Transduction, Software, Construct, Activation Assay, Activity Assay, Phospho-proteomics, Derivative Assay

Journal: PLoS ONE

Article Title: MicroRNA Profiling during Cardiomyocyte-Specific Differentiation of Murine Embryonic Stem Cells Based on Two Different miRNA Array Platforms

doi: 10.1371/journal.pone.0025809

Figure Lengend Snippet: Number of present miRNAs at different stages (day 0, day 12, day 19 and day 26) during cardiomyocyte specific differentiation and maturation.

Article Snippet: In the present manuscript paper, a transgenic mouse ES cell clone was used to generate uniform Cor.At® cardiomyocytes. miRNAs were profiled for undifferentiated transgenic ES cells (day 0) and at time points day 12, day 19 and day 26 during cardiomyocyte-specific differentiation and maturation using 2 high throughput microarray platforms provided from Affymetrix and Febit.

Techniques:

Journal: PLoS ONE

Article Title: MicroRNA Profiling during Cardiomyocyte-Specific Differentiation of Murine Embryonic Stem Cells Based on Two Different miRNA Array Platforms

doi: 10.1371/journal.pone.0025809

Figure Lengend Snippet: The number of up/down regulated miRNAs at different maturation stages (day 12, day 19 and day 26) compared to undifferentiated ES cells were denoted with arrows up/down.

Article Snippet: In the present manuscript paper, a transgenic mouse ES cell clone was used to generate uniform Cor.At® cardiomyocytes. miRNAs were profiled for undifferentiated transgenic ES cells (day 0) and at time points day 12, day 19 and day 26 during cardiomyocyte-specific differentiation and maturation using 2 high throughput microarray platforms provided from Affymetrix and Febit.

Techniques: