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®-generated protein microarray set data  (Thermo Fisher)


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    Structured Review

    Thermo Fisher ®-generated protein microarray set data
    ® Generated Protein Microarray Set Data, supplied by Thermo Fisher, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/product/protein+microarray+data/us09721067-172-13-12
    Average 90 stars, based on 1 article reviews
    ®-generated protein microarray set data - by Bioz Stars, 2026-10
    90/100 stars

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    Related Articles

    RNA Expression:

    Article Title: A gentle introduction to understanding preclinical data for cancer pharmaco-omic modeling.
    Article Snippet: A central goal of precision oncology is to administer an optimal drug treatment to each cancer patient.. A common preclinical approach to tackle this problem has been to characterize the tumors of patients at the molecular and drug response levels, and employ the resulting datasets for predictive in silico modeling (mostly using machine learning).. Understanding how and why the different variants of these datasets are generated is an important component of this process.

    DNA Methylation Assay:

    Article Title: A gentle introduction to understanding preclinical data for cancer pharmaco-omic modeling.
    Article Snippet: A central goal of precision oncology is to administer an optimal drug treatment to each cancer patient.. A common preclinical approach to tackle this problem has been to characterize the tumors of patients at the molecular and drug response levels, and employ the resulting datasets for predictive in silico modeling (mostly using machine learning).. Understanding how and why the different variants of these datasets are generated is an important component of this process.

    Microarray:

    Article Title: A gentle introduction to understanding preclinical data for cancer pharmaco-omic modeling.
    Article Snippet: A central goal of precision oncology is to administer an optimal drug treatment to each cancer patient.. A common preclinical approach to tackle this problem has been to characterize the tumors of patients at the molecular and drug response levels, and employ the resulting datasets for predictive in silico modeling (mostly using machine learning).. Understanding how and why the different variants of these datasets are generated is an important component of this process.

    Article Title: MiRNA expression as outcome predictor in pediatric AML: systematic evaluation of a new model
    Article Snippet: .. The data were sequenced using a non-coding RNA microarray (Affymetrix GeneChip miRNA 4.0). ..

    Article Title: AML Subtype Is a Major Determinant of the Association between Prognostic Gene Expression Signatures and Their Clinical Significance.
    Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies H3K27acetylation antibody Abcam #ab4729; RRID: 2118291 Biological Samples Pediatric AML patient samples Dutch Childhood Oncology Group https://www.skion.nl Critical Commercial Assays TruSeq ChIP Sample Prep Kit Illumina IP-202-1012 TruSeq Stranded mRNA Library Prep Illumina #20020594 EasySep Human CD33 Positive Selection Kit StemCell Technologies #18257 EasySep Human CD34 Positive Selection Kit StemCell Technologies #18056 Dynabeads Protein G Life Technologies #10004D Deposited Data Raw and processed data This paper GEO: GSE117994 Pediatric AML RNA-sequencing data TARGET AML https://ocg.cancer.gov/programs/target/data-matrix/ ATAC hematopoietic cell types Corces et al., 2016 GEO: GSE74912 RNA-seq hematopoietic stem cells Corces et al., 2016 GEO: GSE74246 Adult AML RNA microarray data Verhaak et al., 2009 GEO: GSE6891 Adult AML RNA microarray data Metzeler et al., 2008 GEO: GSE12417 CD34+ primary cells H3K27ac ChIP-seq Roadmap Epigenomics GEO: GSE17312 CD14+ primary cells H3K27ac ChIP-seq ENCODE ENCSR000ASJ Software and Algorithms Bowtie version 1.1.1 Langmead and Salzberg, 2012 http://bowtie-bio.sourceforge.net Samtools version 1.5 Li et al., 2009 http://samtools.sourceforge.net/ MACS2 version 2.1.1 Zhang et al., 2008 http://liulab.dfci.harvard.edu/MACS/ Bedtools version 2.26.0 Quinlan and Hall, 2010 http://bedtools.readthedocs.io/en/latest/ R version 3.5.1 R Development Core Team, 2012 https://cran.r-project.org IGV version 2.3.40 Robinson et al., 2011 http://software.broadinstitute.org/software/igv T-SNE R package van der Maarten and Hinton, 2008 https://cran.r-project.org/web/packages/tsne/ DESeq2 R package Love et al., 2014 https://bioconductor.org/packages/release/bioc/ html/DESeq2.html GSEA Subramanian et al., 2005 https://software.broadinstitute.org/gsea/index.jsp HISAT2 version 2.0.5 Kim et al., 2015 https://login.proxy.library.uu.nl/login?auth= eng&qurl=https://ccb.jhu.edu%2fsoftware% 2fhisat2%2fmanual.shtml DAVID Gene Ontology version 6.8 Huang et al., 2009 https://david.ncifcrf.gov REVIGO Supek et al., 2011 http://revigo.irb.hr AME, MEME Suite McLeay and Bailey, 2010 http://meme-suite.org/doc/ame.html Survival R package Moreno-Betancur et al., 2017 https://cran.r-project.org/web/packages/survival/ index.html WGCNA R package Langfelder and Horvath, 2008 https://cran.r-project.org/web/packages/WGCNA/ index.html Cytoscape version 3.5.1. ..

    Article Title: Comparative analysis of weighted gene co-expression networks in human and mouse
    Article Snippet: .. We analyzed a published protein-coding transcriptome data set consisting of Affymetrix microarray data from 73 human and 72 mouse tissue types [ ]. ..

    RNA Sequencing:

    Article Title: A gentle introduction to understanding preclinical data for cancer pharmaco-omic modeling.
    Article Snippet: A central goal of precision oncology is to administer an optimal drug treatment to each cancer patient.. A common preclinical approach to tackle this problem has been to characterize the tumors of patients at the molecular and drug response levels, and employ the resulting datasets for predictive in silico modeling (mostly using machine learning).. Understanding how and why the different variants of these datasets are generated is an important component of this process.

    Article Title: AML Subtype Is a Major Determinant of the Association between Prognostic Gene Expression Signatures and Their Clinical Significance.
    Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies H3K27acetylation antibody Abcam #ab4729; RRID: 2118291 Biological Samples Pediatric AML patient samples Dutch Childhood Oncology Group https://www.skion.nl Critical Commercial Assays TruSeq ChIP Sample Prep Kit Illumina IP-202-1012 TruSeq Stranded mRNA Library Prep Illumina #20020594 EasySep Human CD33 Positive Selection Kit StemCell Technologies #18257 EasySep Human CD34 Positive Selection Kit StemCell Technologies #18056 Dynabeads Protein G Life Technologies #10004D Deposited Data Raw and processed data This paper GEO: GSE117994 Pediatric AML RNA-sequencing data TARGET AML https://ocg.cancer.gov/programs/target/data-matrix/ ATAC hematopoietic cell types Corces et al., 2016 GEO: GSE74912 RNA-seq hematopoietic stem cells Corces et al., 2016 GEO: GSE74246 Adult AML RNA microarray data Verhaak et al., 2009 GEO: GSE6891 Adult AML RNA microarray data Metzeler et al., 2008 GEO: GSE12417 CD34+ primary cells H3K27ac ChIP-seq Roadmap Epigenomics GEO: GSE17312 CD14+ primary cells H3K27ac ChIP-seq ENCODE ENCSR000ASJ Software and Algorithms Bowtie version 1.1.1 Langmead and Salzberg, 2012 http://bowtie-bio.sourceforge.net Samtools version 1.5 Li et al., 2009 http://samtools.sourceforge.net/ MACS2 version 2.1.1 Zhang et al., 2008 http://liulab.dfci.harvard.edu/MACS/ Bedtools version 2.26.0 Quinlan and Hall, 2010 http://bedtools.readthedocs.io/en/latest/ R version 3.5.1 R Development Core Team, 2012 https://cran.r-project.org IGV version 2.3.40 Robinson et al., 2011 http://software.broadinstitute.org/software/igv T-SNE R package van der Maarten and Hinton, 2008 https://cran.r-project.org/web/packages/tsne/ DESeq2 R package Love et al., 2014 https://bioconductor.org/packages/release/bioc/ html/DESeq2.html GSEA Subramanian et al., 2005 https://software.broadinstitute.org/gsea/index.jsp HISAT2 version 2.0.5 Kim et al., 2015 https://login.proxy.library.uu.nl/login?auth= eng&qurl=https://ccb.jhu.edu%2fsoftware% 2fhisat2%2fmanual.shtml DAVID Gene Ontology version 6.8 Huang et al., 2009 https://david.ncifcrf.gov REVIGO Supek et al., 2011 http://revigo.irb.hr AME, MEME Suite McLeay and Bailey, 2010 http://meme-suite.org/doc/ame.html Survival R package Moreno-Betancur et al., 2017 https://cran.r-project.org/web/packages/survival/ index.html WGCNA R package Langfelder and Horvath, 2008 https://cran.r-project.org/web/packages/WGCNA/ index.html Cytoscape version 3.5.1. ..

    Sequencing:

    Article Title: A gentle introduction to understanding preclinical data for cancer pharmaco-omic modeling.
    Article Snippet: A central goal of precision oncology is to administer an optimal drug treatment to each cancer patient.. A common preclinical approach to tackle this problem has been to characterize the tumors of patients at the molecular and drug response levels, and employ the resulting datasets for predictive in silico modeling (mostly using machine learning).. Understanding how and why the different variants of these datasets are generated is an important component of this process.

    Methylation Sequencing:

    Article Title: A gentle introduction to understanding preclinical data for cancer pharmaco-omic modeling.
    Article Snippet: A central goal of precision oncology is to administer an optimal drug treatment to each cancer patient.. A common preclinical approach to tackle this problem has been to characterize the tumors of patients at the molecular and drug response levels, and employ the resulting datasets for predictive in silico modeling (mostly using machine learning).. Understanding how and why the different variants of these datasets are generated is an important component of this process.

    other:

    Article Title: Implications of differential transcription start site selection on chronic myeloid leukemia and prostate cancer cell protein expression
    Article Snippet: One Shot TOP10 Chemically Competent E. coli , Thermo-Fisher , Cat#C404010.

    Article Title: Frequent PTEN genomic alterations and activated phosphatidylinositol 3-kinase pathway in basal-like breast cancer cells
    Article Snippet: For example, transcriptomic microarray analysis revealed that the type II inositol polyphosphate-4-phosphatase mRNAs were expressed at significantly lower levels in BLCs compared with HER2+ human tumours (INPP4B reporter 205376_at from Affymetrix; p = 0.0001, data not shown).


    Chromatin Immunoprecipitation:

    Article Title: AML Subtype Is a Major Determinant of the Association between Prognostic Gene Expression Signatures and Their Clinical Significance.
    Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies H3K27acetylation antibody Abcam #ab4729; RRID: 2118291 Biological Samples Pediatric AML patient samples Dutch Childhood Oncology Group https://www.skion.nl Critical Commercial Assays TruSeq ChIP Sample Prep Kit Illumina IP-202-1012 TruSeq Stranded mRNA Library Prep Illumina #20020594 EasySep Human CD33 Positive Selection Kit StemCell Technologies #18257 EasySep Human CD34 Positive Selection Kit StemCell Technologies #18056 Dynabeads Protein G Life Technologies #10004D Deposited Data Raw and processed data This paper GEO: GSE117994 Pediatric AML RNA-sequencing data TARGET AML https://ocg.cancer.gov/programs/target/data-matrix/ ATAC hematopoietic cell types Corces et al., 2016 GEO: GSE74912 RNA-seq hematopoietic stem cells Corces et al., 2016 GEO: GSE74246 Adult AML RNA microarray data Verhaak et al., 2009 GEO: GSE6891 Adult AML RNA microarray data Metzeler et al., 2008 GEO: GSE12417 CD34+ primary cells H3K27ac ChIP-seq Roadmap Epigenomics GEO: GSE17312 CD14+ primary cells H3K27ac ChIP-seq ENCODE ENCSR000ASJ Software and Algorithms Bowtie version 1.1.1 Langmead and Salzberg, 2012 http://bowtie-bio.sourceforge.net Samtools version 1.5 Li et al., 2009 http://samtools.sourceforge.net/ MACS2 version 2.1.1 Zhang et al., 2008 http://liulab.dfci.harvard.edu/MACS/ Bedtools version 2.26.0 Quinlan and Hall, 2010 http://bedtools.readthedocs.io/en/latest/ R version 3.5.1 R Development Core Team, 2012 https://cran.r-project.org IGV version 2.3.40 Robinson et al., 2011 http://software.broadinstitute.org/software/igv T-SNE R package van der Maarten and Hinton, 2008 https://cran.r-project.org/web/packages/tsne/ DESeq2 R package Love et al., 2014 https://bioconductor.org/packages/release/bioc/ html/DESeq2.html GSEA Subramanian et al., 2005 https://software.broadinstitute.org/gsea/index.jsp HISAT2 version 2.0.5 Kim et al., 2015 https://login.proxy.library.uu.nl/login?auth= eng&qurl=https://ccb.jhu.edu%2fsoftware% 2fhisat2%2fmanual.shtml DAVID Gene Ontology version 6.8 Huang et al., 2009 https://david.ncifcrf.gov REVIGO Supek et al., 2011 http://revigo.irb.hr AME, MEME Suite McLeay and Bailey, 2010 http://meme-suite.org/doc/ame.html Survival R package Moreno-Betancur et al., 2017 https://cran.r-project.org/web/packages/survival/ index.html WGCNA R package Langfelder and Horvath, 2008 https://cran.r-project.org/web/packages/WGCNA/ index.html Cytoscape version 3.5.1. ..

    Sample Prep:

    Article Title: AML Subtype Is a Major Determinant of the Association between Prognostic Gene Expression Signatures and Their Clinical Significance.
    Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies H3K27acetylation antibody Abcam #ab4729; RRID: 2118291 Biological Samples Pediatric AML patient samples Dutch Childhood Oncology Group https://www.skion.nl Critical Commercial Assays TruSeq ChIP Sample Prep Kit Illumina IP-202-1012 TruSeq Stranded mRNA Library Prep Illumina #20020594 EasySep Human CD33 Positive Selection Kit StemCell Technologies #18257 EasySep Human CD34 Positive Selection Kit StemCell Technologies #18056 Dynabeads Protein G Life Technologies #10004D Deposited Data Raw and processed data This paper GEO: GSE117994 Pediatric AML RNA-sequencing data TARGET AML https://ocg.cancer.gov/programs/target/data-matrix/ ATAC hematopoietic cell types Corces et al., 2016 GEO: GSE74912 RNA-seq hematopoietic stem cells Corces et al., 2016 GEO: GSE74246 Adult AML RNA microarray data Verhaak et al., 2009 GEO: GSE6891 Adult AML RNA microarray data Metzeler et al., 2008 GEO: GSE12417 CD34+ primary cells H3K27ac ChIP-seq Roadmap Epigenomics GEO: GSE17312 CD14+ primary cells H3K27ac ChIP-seq ENCODE ENCSR000ASJ Software and Algorithms Bowtie version 1.1.1 Langmead and Salzberg, 2012 http://bowtie-bio.sourceforge.net Samtools version 1.5 Li et al., 2009 http://samtools.sourceforge.net/ MACS2 version 2.1.1 Zhang et al., 2008 http://liulab.dfci.harvard.edu/MACS/ Bedtools version 2.26.0 Quinlan and Hall, 2010 http://bedtools.readthedocs.io/en/latest/ R version 3.5.1 R Development Core Team, 2012 https://cran.r-project.org IGV version 2.3.40 Robinson et al., 2011 http://software.broadinstitute.org/software/igv T-SNE R package van der Maarten and Hinton, 2008 https://cran.r-project.org/web/packages/tsne/ DESeq2 R package Love et al., 2014 https://bioconductor.org/packages/release/bioc/ html/DESeq2.html GSEA Subramanian et al., 2005 https://software.broadinstitute.org/gsea/index.jsp HISAT2 version 2.0.5 Kim et al., 2015 https://login.proxy.library.uu.nl/login?auth= eng&qurl=https://ccb.jhu.edu%2fsoftware% 2fhisat2%2fmanual.shtml DAVID Gene Ontology version 6.8 Huang et al., 2009 https://david.ncifcrf.gov REVIGO Supek et al., 2011 http://revigo.irb.hr AME, MEME Suite McLeay and Bailey, 2010 http://meme-suite.org/doc/ame.html Survival R package Moreno-Betancur et al., 2017 https://cran.r-project.org/web/packages/survival/ index.html WGCNA R package Langfelder and Horvath, 2008 https://cran.r-project.org/web/packages/WGCNA/ index.html Cytoscape version 3.5.1. ..

    Selection:

    Article Title: AML Subtype Is a Major Determinant of the Association between Prognostic Gene Expression Signatures and Their Clinical Significance.
    Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies H3K27acetylation antibody Abcam #ab4729; RRID: 2118291 Biological Samples Pediatric AML patient samples Dutch Childhood Oncology Group https://www.skion.nl Critical Commercial Assays TruSeq ChIP Sample Prep Kit Illumina IP-202-1012 TruSeq Stranded mRNA Library Prep Illumina #20020594 EasySep Human CD33 Positive Selection Kit StemCell Technologies #18257 EasySep Human CD34 Positive Selection Kit StemCell Technologies #18056 Dynabeads Protein G Life Technologies #10004D Deposited Data Raw and processed data This paper GEO: GSE117994 Pediatric AML RNA-sequencing data TARGET AML https://ocg.cancer.gov/programs/target/data-matrix/ ATAC hematopoietic cell types Corces et al., 2016 GEO: GSE74912 RNA-seq hematopoietic stem cells Corces et al., 2016 GEO: GSE74246 Adult AML RNA microarray data Verhaak et al., 2009 GEO: GSE6891 Adult AML RNA microarray data Metzeler et al., 2008 GEO: GSE12417 CD34+ primary cells H3K27ac ChIP-seq Roadmap Epigenomics GEO: GSE17312 CD14+ primary cells H3K27ac ChIP-seq ENCODE ENCSR000ASJ Software and Algorithms Bowtie version 1.1.1 Langmead and Salzberg, 2012 http://bowtie-bio.sourceforge.net Samtools version 1.5 Li et al., 2009 http://samtools.sourceforge.net/ MACS2 version 2.1.1 Zhang et al., 2008 http://liulab.dfci.harvard.edu/MACS/ Bedtools version 2.26.0 Quinlan and Hall, 2010 http://bedtools.readthedocs.io/en/latest/ R version 3.5.1 R Development Core Team, 2012 https://cran.r-project.org IGV version 2.3.40 Robinson et al., 2011 http://software.broadinstitute.org/software/igv T-SNE R package van der Maarten and Hinton, 2008 https://cran.r-project.org/web/packages/tsne/ DESeq2 R package Love et al., 2014 https://bioconductor.org/packages/release/bioc/ html/DESeq2.html GSEA Subramanian et al., 2005 https://software.broadinstitute.org/gsea/index.jsp HISAT2 version 2.0.5 Kim et al., 2015 https://login.proxy.library.uu.nl/login?auth= eng&qurl=https://ccb.jhu.edu%2fsoftware% 2fhisat2%2fmanual.shtml DAVID Gene Ontology version 6.8 Huang et al., 2009 https://david.ncifcrf.gov REVIGO Supek et al., 2011 http://revigo.irb.hr AME, MEME Suite McLeay and Bailey, 2010 http://meme-suite.org/doc/ame.html Survival R package Moreno-Betancur et al., 2017 https://cran.r-project.org/web/packages/survival/ index.html WGCNA R package Langfelder and Horvath, 2008 https://cran.r-project.org/web/packages/WGCNA/ index.html Cytoscape version 3.5.1. ..

    Software:

    Article Title: AML Subtype Is a Major Determinant of the Association between Prognostic Gene Expression Signatures and Their Clinical Significance.
    Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies H3K27acetylation antibody Abcam #ab4729; RRID: 2118291 Biological Samples Pediatric AML patient samples Dutch Childhood Oncology Group https://www.skion.nl Critical Commercial Assays TruSeq ChIP Sample Prep Kit Illumina IP-202-1012 TruSeq Stranded mRNA Library Prep Illumina #20020594 EasySep Human CD33 Positive Selection Kit StemCell Technologies #18257 EasySep Human CD34 Positive Selection Kit StemCell Technologies #18056 Dynabeads Protein G Life Technologies #10004D Deposited Data Raw and processed data This paper GEO: GSE117994 Pediatric AML RNA-sequencing data TARGET AML https://ocg.cancer.gov/programs/target/data-matrix/ ATAC hematopoietic cell types Corces et al., 2016 GEO: GSE74912 RNA-seq hematopoietic stem cells Corces et al., 2016 GEO: GSE74246 Adult AML RNA microarray data Verhaak et al., 2009 GEO: GSE6891 Adult AML RNA microarray data Metzeler et al., 2008 GEO: GSE12417 CD34+ primary cells H3K27ac ChIP-seq Roadmap Epigenomics GEO: GSE17312 CD14+ primary cells H3K27ac ChIP-seq ENCODE ENCSR000ASJ Software and Algorithms Bowtie version 1.1.1 Langmead and Salzberg, 2012 http://bowtie-bio.sourceforge.net Samtools version 1.5 Li et al., 2009 http://samtools.sourceforge.net/ MACS2 version 2.1.1 Zhang et al., 2008 http://liulab.dfci.harvard.edu/MACS/ Bedtools version 2.26.0 Quinlan and Hall, 2010 http://bedtools.readthedocs.io/en/latest/ R version 3.5.1 R Development Core Team, 2012 https://cran.r-project.org IGV version 2.3.40 Robinson et al., 2011 http://software.broadinstitute.org/software/igv T-SNE R package van der Maarten and Hinton, 2008 https://cran.r-project.org/web/packages/tsne/ DESeq2 R package Love et al., 2014 https://bioconductor.org/packages/release/bioc/ html/DESeq2.html GSEA Subramanian et al., 2005 https://software.broadinstitute.org/gsea/index.jsp HISAT2 version 2.0.5 Kim et al., 2015 https://login.proxy.library.uu.nl/login?auth= eng&qurl=https://ccb.jhu.edu%2fsoftware% 2fhisat2%2fmanual.shtml DAVID Gene Ontology version 6.8 Huang et al., 2009 https://david.ncifcrf.gov REVIGO Supek et al., 2011 http://revigo.irb.hr AME, MEME Suite McLeay and Bailey, 2010 http://meme-suite.org/doc/ame.html Survival R package Moreno-Betancur et al., 2017 https://cran.r-project.org/web/packages/survival/ index.html WGCNA R package Langfelder and Horvath, 2008 https://cran.r-project.org/web/packages/WGCNA/ index.html Cytoscape version 3.5.1. ..

    Quantitative RT-PCR:

    Article Title: MAL2 mediates the formation of stable HER2 signaling complexes within lipid raft-rich membrane protrusions in breast cancer cells
    Article Snippet: RNA was isolated using TRIzol (Invitrogen). .. Quantitative RT-PCR was performed with the SuperScript III Platinum One-Step qRT-PCR Kit (Invitrogen) using a Step One Plus Real-Time PCR System (Applied Biosystems) and the following TaqMan primer sets: flotillin1, Hs00195134_m1; MAL, Hs00707014_s1; MAL2, Hs01043579_u1; PMCA2, Hs01090447_m1; Ezrin, Hs00931646_m1; NHERF1, Hs00188594_m1. .. Human HPRT1 (4326321E) (Invitrogen) was used as a reference gene.

    Real-time Polymerase Chain Reaction:

    Article Title: MAL2 mediates the formation of stable HER2 signaling complexes within lipid raft-rich membrane protrusions in breast cancer cells
    Article Snippet: RNA was isolated using TRIzol (Invitrogen). .. Quantitative RT-PCR was performed with the SuperScript III Platinum One-Step qRT-PCR Kit (Invitrogen) using a Step One Plus Real-Time PCR System (Applied Biosystems) and the following TaqMan primer sets: flotillin1, Hs00195134_m1; MAL, Hs00707014_s1; MAL2, Hs01043579_u1; PMCA2, Hs01090447_m1; Ezrin, Hs00931646_m1; NHERF1, Hs00188594_m1. .. Human HPRT1 (4326321E) (Invitrogen) was used as a reference gene.



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