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dna microarray data analysis raw data  (Thermo Fisher)


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    Structured Review

    Thermo Fisher dna microarray data analysis raw data
    Validation of <t> DNA </t> <t> Microarray </t> Results by qPCR
    Dna Microarray Data Analysis Raw Data, supplied by Thermo Fisher, used in various techniques. Bioz Stars score: 99/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/product/microarray+data+analysis+raw+data/DNA/pmc02869047-101-0-17
    Average 99 stars, based on 1 article reviews
    dna microarray data analysis raw data - by Bioz Stars, 2026-09
    99/100 stars

    Images

    1) Product Images from "Perimysial Fibroblasts of Extraocular Muscle, as Unique as the Muscle Fibers"

    Article Title: Perimysial Fibroblasts of Extraocular Muscle, as Unique as the Muscle Fibers

    Journal: Investigative Ophthalmology & Visual Science

    doi: 10.1167/iovs.08-2857

    Validation of  DNA   Microarray  Results by qPCR
    Figure Legend Snippet: Validation of DNA Microarray Results by qPCR

    Techniques Used: Biomarker Discovery, Microarray

    Related Articles

    DNA Extraction:

    Article Title: A national study confirms a low occurrence of antimicrobial resistance amongst Escherichia coli isolates from the caecae of Australian meat chickens
    Article Snippet: .. DNA was extracted using the MagMAXTM Multi-Sample DNA Extraction Kit (Thermo Fisher Scientific, USA), following the manufacturer’s instructions. .. DNA libraries were prepared using the Celero chemistry (Tecan) with a modified reaction volume deviating from the manufacturer’s standard protocol.

    Concentration Assay:

    Article Title: Development of a high-resolution multiplex qPCR method to profile microbial consortia in spaceflight water recovery systems
    Article Snippet: 3 mL of broth culture from each strain was harvested by centrifugation and the genomic DNA was extracted using the DNeasy Blood & Tissue Kit (Qiagen), following the manufacturer's protocol for cultured cells. .. DNA concentration and purity were assessed using a NanoDrop spectrophotometer. ..

    Article Title: Integrated genomic, transcriptomic, and metabolomic profile analysis reveals molecular mechanism underlying meat quality traits in Chinese Kangle chickens
    Article Snippet: .. We extracted genomic DNA from blood samples using the phenol/chloroform method and quantified DNA concentration/quality using a Nanodrop-2000 spectrophotometer (Thermo Fisher Scientific, MA, USA). .. In total, 273 Chinese Kangle chickens were genotyped for 52,180 SNPs using the “Jingxin NO.1” 55 K Beadchip by following the manufacturer's protocol (Chinese Academy of Agricultural Sciences, Beijing, China) ( ).

    Spectrophotometry:

    Article Title: Development of a high-resolution multiplex qPCR method to profile microbial consortia in spaceflight water recovery systems
    Article Snippet: 3 mL of broth culture from each strain was harvested by centrifugation and the genomic DNA was extracted using the DNeasy Blood & Tissue Kit (Qiagen), following the manufacturer's protocol for cultured cells. .. DNA concentration and purity were assessed using a NanoDrop spectrophotometer. ..

    Article Title: Integrated genomic, transcriptomic, and metabolomic profile analysis reveals molecular mechanism underlying meat quality traits in Chinese Kangle chickens
    Article Snippet: .. We extracted genomic DNA from blood samples using the phenol/chloroform method and quantified DNA concentration/quality using a Nanodrop-2000 spectrophotometer (Thermo Fisher Scientific, MA, USA). .. In total, 273 Chinese Kangle chickens were genotyped for 52,180 SNPs using the “Jingxin NO.1” 55 K Beadchip by following the manufacturer's protocol (Chinese Academy of Agricultural Sciences, Beijing, China) ( ).

    Polymerase Chain Reaction:

    Article Title: Combinatorial engineering of enzyme and pathway for efficient β-farnesene bioproduction in Yarrowia lipolytica
    Article Snippet: The codon-optimized exogenous AaFS gene and its mutant variants synthesized by GenScript (Nanjing, China) were tailored for Y. lipolytica expression. .. PCR amplification was performed using primers listed in (Phusion® High-Fidelity DNA Polymerase, Thermo Fisher Scientific). ..

    Amplification:

    Article Title: Combinatorial engineering of enzyme and pathway for efficient β-farnesene bioproduction in Yarrowia lipolytica
    Article Snippet: The codon-optimized exogenous AaFS gene and its mutant variants synthesized by GenScript (Nanjing, China) were tailored for Y. lipolytica expression. .. PCR amplification was performed using primers listed in (Phusion® High-Fidelity DNA Polymerase, Thermo Fisher Scientific). ..

    Viscosity:

    Article Title: Protocol for the assessment of the impact of mycotoxins and glyphosate residues on the gut microbiome and resistome of European fallow deer
    Article Snippet: .. Qubit quantification indicated acceptable DNA concentrations; however, NanoDrop measurements showed low 260/230 ratios (e.g., 0.3–1.2), and the DNA exhibited a brown coloration and increased viscosity. ..

    other:

    Article Title: Integrative genomic analysis and gene expression patterns reveal a cardio-neuroendocrine signaling network for heat adaptation in geographically diverse chickens
    Article Snippet: DNA extraction was performed, checked for DNA quality using 1% agarose gel electrophoresis and NanoDrop 2000 (A260/280 ratio), and finally libraries were sequenced on the DNBSEQ-T7 platform.

    Modification:

    Article Title: Amino acid starvation and iron limitation facilitate the biofilm formation of Klebsiella pneumoniae within urine
    Article Snippet: .. All enzymes required for restriction digestion and DNA modification were sourced from Thermo Fisher Scientific (Waltham, MA, USA) and handled in accordance with the supplier's protocols. ..

    Purification:

    Article Title: Identification of biofilm-associated genes in Arcobacter butzleri
    Article Snippet: For that, the DNA of the P8 strain was extracted using Lysing Matrix E tubes (MP Biomedicals, France) and a Bead Mill 4 Mini Homogenizer (Fisher Scientific, USA). .. After purification with AMPure XP beads (Beckman Coulter, USA), DNA quantification was performed by a Qubit fluorometer (Invitrogen, USA) using the Qubit 1X dsDNA HS assay kit (Invitrogen, USA). .. DNA libraries were then prepared using the Rapid Sequencing Kit V14 (Oxford Nanopore Technologies, UK) and loaded into a Flonge flow cell (Oxford Nanopore Technologies, UK) for sequencing.



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    Image Search Results


    Microarray analysis using mRNA from p16−/− BMDM compared to p16+/+ BMDM showed (A) decreased mRNA expression of classically activated macrophages-associated genes and (B) increased mRNA expression of alternatively activated macrophages-associated genes. Data is expressed as fold change relative to p16+/+ BMDM. (C) Differential gene expression in p16−/− BMDM relative to p16+/+ BMDM was correlated with the changes induced in IL-4-induced p16+/+ AAMφ. The figure shows 2log values of the probesets significantly (p<0.05) regulated only in p16−/− BMDM (red dots), only in IL-4-polarized p16+/+ AAMφ (green dots) and by both conditions (blue dots), compared to p16+/+ BMDM. The X-axis represents differences in gene expression induced by IL-4, whereas the Y-axis represents the effect of p16INKa-deficiency. These comparisons are depicted in the schematic representation of the protocol in the corresponding colors. Pearson Correlation analysis was done for probesets differentially expressed by both conditions (blue). (D) Heat map of p16+/+ BMDM, p16−/− BMDM, IL-4-polarized p16+/+ and p16−/− AAMφ gene expression profiles. Colors fluctuate from blue (poorly expressed) to green (intermediate expression) and yellow (high expression). Additional information regarding gene description, fold induction, and p-value can be found in Table S3.

    Journal: Blood

    Article Title: p16 INK4a deficiency promotes IL-4-induced polarization and inhibits proinflammatory signaling in macrophages

    doi: 10.1182/blood-2010-10-313106

    Figure Lengend Snippet: Microarray analysis using mRNA from p16−/− BMDM compared to p16+/+ BMDM showed (A) decreased mRNA expression of classically activated macrophages-associated genes and (B) increased mRNA expression of alternatively activated macrophages-associated genes. Data is expressed as fold change relative to p16+/+ BMDM. (C) Differential gene expression in p16−/− BMDM relative to p16+/+ BMDM was correlated with the changes induced in IL-4-induced p16+/+ AAMφ. The figure shows 2log values of the probesets significantly (p<0.05) regulated only in p16−/− BMDM (red dots), only in IL-4-polarized p16+/+ AAMφ (green dots) and by both conditions (blue dots), compared to p16+/+ BMDM. The X-axis represents differences in gene expression induced by IL-4, whereas the Y-axis represents the effect of p16INKa-deficiency. These comparisons are depicted in the schematic representation of the protocol in the corresponding colors. Pearson Correlation analysis was done for probesets differentially expressed by both conditions (blue). (D) Heat map of p16+/+ BMDM, p16−/− BMDM, IL-4-polarized p16+/+ and p16−/− AAMφ gene expression profiles. Colors fluctuate from blue (poorly expressed) to green (intermediate expression) and yellow (high expression). Additional information regarding gene description, fold induction, and p-value can be found in Table S3.

    Article Snippet: We thank E. Vallez for mouse breeding, J. Brozek (Genfit SA, Loos, France) for microarray raw data analysis, T. Coevoet, N. Jouy and A. Lucas for technical assistance.

    Techniques: Microarray, Expressing, Gene Expression

    Representation of the relative microarray intensity values from a selection of down-regulated genes in p16+/+ and p16−/− BMDM with or without polarization (AAMφ) by 15 ng/mL IL-4 from day 0 of differentiation. Statistically significant differences are indicated (a: p<0.05 compared to p16+/+ BMDM; b: p<0.05 compared to p16−/− BMDM; c: p<0.05 compared to p16+/+ AAMφ.)

    Journal: Blood

    Article Title: p16 INK4a deficiency promotes IL-4-induced polarization and inhibits proinflammatory signaling in macrophages

    doi: 10.1182/blood-2010-10-313106

    Figure Lengend Snippet: Representation of the relative microarray intensity values from a selection of down-regulated genes in p16+/+ and p16−/− BMDM with or without polarization (AAMφ) by 15 ng/mL IL-4 from day 0 of differentiation. Statistically significant differences are indicated (a: p<0.05 compared to p16+/+ BMDM; b: p<0.05 compared to p16−/− BMDM; c: p<0.05 compared to p16+/+ AAMφ.)

    Article Snippet: We thank E. Vallez for mouse breeding, J. Brozek (Genfit SA, Loos, France) for microarray raw data analysis, T. Coevoet, N. Jouy and A. Lucas for technical assistance.

    Techniques: Microarray, Selection

    Validation of  DNA   Microarray  Results by qPCR

    Journal: Investigative Ophthalmology & Visual Science

    Article Title: Perimysial Fibroblasts of Extraocular Muscle, as Unique as the Muscle Fibers

    doi: 10.1167/iovs.08-2857

    Figure Lengend Snippet: Validation of DNA Microarray Results by qPCR

    Article Snippet: DNA Microarray Data Analysis Raw data from microarray scans were analyzed with microarray analysis software (GCOS 2.0; Affymetrix).

    Techniques: Biomarker Discovery, Microarray