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microarray suite version 5 mas5 algorithms  (Thermo Fisher)


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    Structured Review

    Thermo Fisher microarray suite version 5 mas5 algorithms
    Overlay of expression detection between MPSS and microarray for sense and antisense transcripts malignant and normal breast epithelium . Human transcriptome clusters (HTR) were used to measure the concordance in detecting sense and antisense transcripts for the Breast Cancer DSA (green), Affymetrix HG U133 Plus 2.0 (blue) and MPSS (red) in both the malignant breast epithelium and normal luminal epithelium. The presence of a MPPS tag was determined if a MPSS tag had at least a count of 3 tpm in these samples. For the two microarray platforms, a HTR cluster was called present when its containing sense (top section) or antisense (bottom section) probe set obtained a present calls with the <t>MAS5</t> algorithm.
    Microarray Suite Version 5 Mas5 Algorithms, supplied by Thermo Fisher, used in various techniques. Bioz Stars score: 86/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/product/microarray+suite+algorithm+version+5+(mas5/pmc02721853-161-12-11
    Average 86 stars, based on 1 article reviews
    microarray suite version 5 mas5 algorithms - by Bioz Stars, 2026-09
    86/100 stars

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    1) Product Images from "Identification of differentially expressed sense and antisense transcript pairs in breast epithelial tissues"

    Article Title: Identification of differentially expressed sense and antisense transcript pairs in breast epithelial tissues

    Journal: BMC Genomics

    doi: 10.1186/1471-2164-10-324

    Overlay of expression detection between MPSS and microarray for sense and antisense transcripts malignant and normal breast epithelium . Human transcriptome clusters (HTR) were used to measure the concordance in detecting sense and antisense transcripts for the Breast Cancer DSA (green), Affymetrix HG U133 Plus 2.0 (blue) and MPSS (red) in both the malignant breast epithelium and normal luminal epithelium. The presence of a MPPS tag was determined if a MPSS tag had at least a count of 3 tpm in these samples. For the two microarray platforms, a HTR cluster was called present when its containing sense (top section) or antisense (bottom section) probe set obtained a present calls with the MAS5 algorithm.
    Figure Legend Snippet: Overlay of expression detection between MPSS and microarray for sense and antisense transcripts malignant and normal breast epithelium . Human transcriptome clusters (HTR) were used to measure the concordance in detecting sense and antisense transcripts for the Breast Cancer DSA (green), Affymetrix HG U133 Plus 2.0 (blue) and MPSS (red) in both the malignant breast epithelium and normal luminal epithelium. The presence of a MPPS tag was determined if a MPSS tag had at least a count of 3 tpm in these samples. For the two microarray platforms, a HTR cluster was called present when its containing sense (top section) or antisense (bottom section) probe set obtained a present calls with the MAS5 algorithm.

    Techniques Used: Expressing, Microarray

    Related Articles

    Microarray:

    Article Title: Intraflagellar Transport Gene Expression Associated with Short Cilia in Smoking and COPD
    Article Snippet: .. Microarray data were processed using the MAS5 algorithm (Affymetrix Microarray Suite Version 5 software) and GeneSpring software. ..

    Article Title: Up-regulation of ACE2, the SARS-CoV-2 receptor, in asthmatics on maintenance inhaled corticosteroids
    Article Snippet: .. The MAS5 algorithm (GeneSpring version 7.3, Affymetrix Microarray Suite Version 5) was used to normalize the data per array to the median expression value of each sample. .. Each gene was represented by one probeset, selected based on highest specificity and sensitivity scores (Affymetrix) and its expression level was assessed relatively to the gene expression of all other genes on the array (n = 14,465).

    Article Title: Microarray and gene ontology analyses reveal downregulation of DNA repair and apoptotic pathways in diethylstilbestrol-exposed testicular Leydig cells.
    Article Snippet: The scanned chip was analyzed using GeneChip Analysis Suite software (Affymetrix). .. A representative signal value and detection P value for each probe set were calculated with the Microarray Suite version 5 algorithm (MAS5; Affymetrix). .. Analysis of gene expression profiles Data were imported into the GeneSpring software, version GX7.3.1 (Agilent, Santa Clara, CA, USA), and the following normalizations were applied: data transformation set measurements < 0.01 to 0.01 and per-chip normalization (total chip normalization to the 50th percentile).

    Article Title: Deep Learning Prediction of Adverse Drug Reactions in Drug Discovery Using Open TG–GATEs and FAERS Databases
    Article Snippet: In Open TG–GATEs, gene expression profiles were measured using Microarray technology (Affymetrix GeneChip). .. The Affymetrix CEL files were downloaded from http://toxico. nibiohn.go.jp, and were preprocessed using the affy package (Gautier et al., 2004) from R Bioconductor (https:// bioconductor.org/); Affymetrix Microarray Suite algorithm version 5 (mas5) was applied with the default parameters provided in affy, wherein normalization TRUE. ..

    Article Title: Expression of the SARS-CoV-2 ACE2 Receptor in the Human Airway Epithelium
    Article Snippet: .. The MAS5 algorithm (GeneSpring version 7.3, Affymetrix Microarray Suite Version 5) was used to normalize the data per array to the median expression value of each sample. .. ACE2 gene was represented by one probe (219962_at) selected based on highest specificity and sensitivity scores (Affymetrix) and expression level is presented as relative gene expression compared to all other genes on the array (n=14,465, each represented by one probe set/gene).

    Software:

    Article Title: Intraflagellar Transport Gene Expression Associated with Short Cilia in Smoking and COPD
    Article Snippet: .. Microarray data were processed using the MAS5 algorithm (Affymetrix Microarray Suite Version 5 software) and GeneSpring software. ..

    Expressing:

    Article Title: Up-regulation of ACE2, the SARS-CoV-2 receptor, in asthmatics on maintenance inhaled corticosteroids
    Article Snippet: .. The MAS5 algorithm (GeneSpring version 7.3, Affymetrix Microarray Suite Version 5) was used to normalize the data per array to the median expression value of each sample. .. Each gene was represented by one probeset, selected based on highest specificity and sensitivity scores (Affymetrix) and its expression level was assessed relatively to the gene expression of all other genes on the array (n = 14,465).

    Article Title: Expression of the SARS-CoV-2 ACE2 Receptor in the Human Airway Epithelium
    Article Snippet: .. The MAS5 algorithm (GeneSpring version 7.3, Affymetrix Microarray Suite Version 5) was used to normalize the data per array to the median expression value of each sample. .. ACE2 gene was represented by one probe (219962_at) selected based on highest specificity and sensitivity scores (Affymetrix) and expression level is presented as relative gene expression compared to all other genes on the array (n=14,465, each represented by one probe set/gene).

    other:

    Article Title: Differential Gamma-Synuclein Expression in Acute and Chronic Retinal Ganglion Cell Death in the Retina and Optic Nerve.
    Article Snippet: We used genetic naturally occurring glaucoma (DBA/2J) and experimentally induced optic nerve crush (ONC) as models to study gamma-synuclein expression change in retinal ganglion cells and optic nerves.. Gene chip microarray analysis demonstrated downregulated expression of the gamma-synuclein gene inDBA/2Jmice as they developed age-associated glaucomawith concomitant with retinal ganglion cell loss.. Real-time PCR,Western blot, and immunostaining results confirmed that the expression of gamma-synuclein at themRNAand protein level was significantly reduced in the retinas and optic nerves of agedDBA/2Jmice.We also observed similar reduced expression of gamma-synuclein in the retinas from mice after optic nerve crush.

    Article Title: Advax, a Delta Inulin Microparticle, Potentiates In-built Adjuvant Property of Co-administered Vaccines
    Article Snippet: The resulting digital image files were preprocessed using the Affymetrix Microarray Suite version 5.0 algorithm (MAS5.0).

    Article Title: Effects of filtering by Present call on analysis of microarray experiments
    Article Snippet: The Affymetrix Microarray Suite version 5 (MAS5) algorithm uses the probe-pair data in different ways to calculate the detection call and the signal.



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    Overlay of expression detection between MPSS and microarray for sense and antisense transcripts malignant and normal breast epithelium . Human transcriptome clusters (HTR) were used to measure the concordance in detecting sense and antisense transcripts for the Breast Cancer DSA (green), Affymetrix HG U133 Plus 2.0 (blue) and MPSS (red) in both the malignant breast epithelium and normal luminal epithelium. The presence of a MPPS tag was determined if a MPSS tag had at least a count of 3 tpm in these samples. For the two microarray platforms, a HTR cluster was called present when its containing sense (top section) or antisense (bottom section) probe set obtained a present calls with the <t>MAS5</t> algorithm.
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    Overlay of expression detection between MPSS and microarray for sense and antisense transcripts malignant and normal breast epithelium . Human transcriptome clusters (HTR) were used to measure the concordance in detecting sense and antisense transcripts for the Breast Cancer DSA (green), Affymetrix HG U133 Plus 2.0 (blue) and MPSS (red) in both the malignant breast epithelium and normal luminal epithelium. The presence of a MPPS tag was determined if a MPSS tag had at least a count of 3 tpm in these samples. For the two microarray platforms, a HTR cluster was called present when its containing sense (top section) or antisense (bottom section) probe set obtained a present calls with the <t>MAS5</t> algorithm.
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    Image Search Results


    Overlay of expression detection between MPSS and microarray for sense and antisense transcripts malignant and normal breast epithelium . Human transcriptome clusters (HTR) were used to measure the concordance in detecting sense and antisense transcripts for the Breast Cancer DSA (green), Affymetrix HG U133 Plus 2.0 (blue) and MPSS (red) in both the malignant breast epithelium and normal luminal epithelium. The presence of a MPPS tag was determined if a MPSS tag had at least a count of 3 tpm in these samples. For the two microarray platforms, a HTR cluster was called present when its containing sense (top section) or antisense (bottom section) probe set obtained a present calls with the MAS5 algorithm.

    Journal: BMC Genomics

    Article Title: Identification of differentially expressed sense and antisense transcript pairs in breast epithelial tissues

    doi: 10.1186/1471-2164-10-324

    Figure Lengend Snippet: Overlay of expression detection between MPSS and microarray for sense and antisense transcripts malignant and normal breast epithelium . Human transcriptome clusters (HTR) were used to measure the concordance in detecting sense and antisense transcripts for the Breast Cancer DSA (green), Affymetrix HG U133 Plus 2.0 (blue) and MPSS (red) in both the malignant breast epithelium and normal luminal epithelium. The presence of a MPPS tag was determined if a MPSS tag had at least a count of 3 tpm in these samples. For the two microarray platforms, a HTR cluster was called present when its containing sense (top section) or antisense (bottom section) probe set obtained a present calls with the MAS5 algorithm.

    Article Snippet: Secondly, analysis was performed on the Breast Cancer DSA with the Affymetrix Microarray Suite version 5 (MAS5) algorithms, which uses the probe-pair data to calculate the detection call.

    Techniques: Expressing, Microarray