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mouse genome 430a 2.0 microarray dataset  (Thermo Fisher)


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    Thermo Fisher mouse genome 430a 2.0 microarray dataset
    (A) Fold change in the expression of Thbs1 mRNA in soleus following 30 days of microgravity exposure (space flight) compared to control. Microarray dataset GEO: <t>GSE80223</t> was analyzed from the Gene Expression Omnibus repository. Error bars denote ±SEM from n = 3 biologically independent animals per group; ** p < 0.01 by two-tailed unpaired Student’s t test. (B) RT-qPCR for Thbs1 , Thbs2 , Thbs3 , Thbs4 , and Thbs5 mRNA in the right tibialis anterior (TA) of 12-week-old wild-type (WT) mice subjected to 3 or 6 days (d) of unilateral hindlimb denervation, compared contralateral sham-operated leg. Error denote ±SEM from n = 3–5 biologically independent animals per group. * p < 0.05 by two-tailed unpaired Student’s t test. (C) Western blot for Thbs1 and Gapdh control in right TA of 12-week-old WT mice subjected to 3 or 10 days (d) of unilateral hindlimb denervation, compared to contralateral, sham-operated TA. n = 2 biologically independent animals per time point. (D) Representative immunohistochemistry for endogenous Thbs1 (green) and BiP (red) to visualize the endoplasmic reticulum (ER) on cryo-embedded TA of WT mice subjected to 10 days (d) of denervation compared to sham-operated controls at 12 weeks of age. Nuclei are shown in blue with DAPI. Scale bars represent 50 μm. (E) RT-qPCR for Thbs1 mRNA from TA of 8-week-old mice fed ad libitum or fasted for 48 h. Data are presented as fold expression over fed WT; error bars denote ±SEM from n = 4 biologically independent animals analyzed per group. * p < 0.05 by two-tailed unpaired Student’s t test. (F and G) Western blot for Thbs1 and Gapdh in TA of 8-week-old mice fed ad libitum or fasted for 48 h (F), and in young (12 weeks of age) and old (24 months of age) WT quadriceps (G). (H) Representative immunohistochemistry for endogenous Thbs1 (green), BiP (red), and the nucleus (DAPI, blue) on cryo-embedded 12-week-old (“young”) and 24-month-old (“old”) WT quadriceps. Scale bars represent 50 μm.
    Mouse Genome 430a 2.0 Microarray Dataset, 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/mouse+microarray+datasets/pmc11217783-340-8-7
    Average 90 stars, based on 1 article reviews
    mouse genome 430a 2.0 microarray dataset - by Bioz Stars, 2026-10
    90/100 stars

    Images

    1) Product Images from "Thbs1 regulates skeletal muscle mass in a TGFβ-Smad2/3-ATF4-dependent manner"

    Article Title: Thbs1 regulates skeletal muscle mass in a TGFβ-Smad2/3-ATF4-dependent manner

    Journal: Cell reports

    doi: 10.1016/j.celrep.2024.114149

    (A) Fold change in the expression of Thbs1 mRNA in soleus following 30 days of microgravity exposure (space flight) compared to control. Microarray dataset GEO: GSE80223 was analyzed from the Gene Expression Omnibus repository. Error bars denote ±SEM from n = 3 biologically independent animals per group; ** p < 0.01 by two-tailed unpaired Student’s t test. (B) RT-qPCR for Thbs1 , Thbs2 , Thbs3 , Thbs4 , and Thbs5 mRNA in the right tibialis anterior (TA) of 12-week-old wild-type (WT) mice subjected to 3 or 6 days (d) of unilateral hindlimb denervation, compared contralateral sham-operated leg. Error denote ±SEM from n = 3–5 biologically independent animals per group. * p < 0.05 by two-tailed unpaired Student’s t test. (C) Western blot for Thbs1 and Gapdh control in right TA of 12-week-old WT mice subjected to 3 or 10 days (d) of unilateral hindlimb denervation, compared to contralateral, sham-operated TA. n = 2 biologically independent animals per time point. (D) Representative immunohistochemistry for endogenous Thbs1 (green) and BiP (red) to visualize the endoplasmic reticulum (ER) on cryo-embedded TA of WT mice subjected to 10 days (d) of denervation compared to sham-operated controls at 12 weeks of age. Nuclei are shown in blue with DAPI. Scale bars represent 50 μm. (E) RT-qPCR for Thbs1 mRNA from TA of 8-week-old mice fed ad libitum or fasted for 48 h. Data are presented as fold expression over fed WT; error bars denote ±SEM from n = 4 biologically independent animals analyzed per group. * p < 0.05 by two-tailed unpaired Student’s t test. (F and G) Western blot for Thbs1 and Gapdh in TA of 8-week-old mice fed ad libitum or fasted for 48 h (F), and in young (12 weeks of age) and old (24 months of age) WT quadriceps (G). (H) Representative immunohistochemistry for endogenous Thbs1 (green), BiP (red), and the nucleus (DAPI, blue) on cryo-embedded 12-week-old (“young”) and 24-month-old (“old”) WT quadriceps. Scale bars represent 50 μm.
    Figure Legend Snippet: (A) Fold change in the expression of Thbs1 mRNA in soleus following 30 days of microgravity exposure (space flight) compared to control. Microarray dataset GEO: GSE80223 was analyzed from the Gene Expression Omnibus repository. Error bars denote ±SEM from n = 3 biologically independent animals per group; ** p < 0.01 by two-tailed unpaired Student’s t test. (B) RT-qPCR for Thbs1 , Thbs2 , Thbs3 , Thbs4 , and Thbs5 mRNA in the right tibialis anterior (TA) of 12-week-old wild-type (WT) mice subjected to 3 or 6 days (d) of unilateral hindlimb denervation, compared contralateral sham-operated leg. Error denote ±SEM from n = 3–5 biologically independent animals per group. * p < 0.05 by two-tailed unpaired Student’s t test. (C) Western blot for Thbs1 and Gapdh control in right TA of 12-week-old WT mice subjected to 3 or 10 days (d) of unilateral hindlimb denervation, compared to contralateral, sham-operated TA. n = 2 biologically independent animals per time point. (D) Representative immunohistochemistry for endogenous Thbs1 (green) and BiP (red) to visualize the endoplasmic reticulum (ER) on cryo-embedded TA of WT mice subjected to 10 days (d) of denervation compared to sham-operated controls at 12 weeks of age. Nuclei are shown in blue with DAPI. Scale bars represent 50 μm. (E) RT-qPCR for Thbs1 mRNA from TA of 8-week-old mice fed ad libitum or fasted for 48 h. Data are presented as fold expression over fed WT; error bars denote ±SEM from n = 4 biologically independent animals analyzed per group. * p < 0.05 by two-tailed unpaired Student’s t test. (F and G) Western blot for Thbs1 and Gapdh in TA of 8-week-old mice fed ad libitum or fasted for 48 h (F), and in young (12 weeks of age) and old (24 months of age) WT quadriceps (G). (H) Representative immunohistochemistry for endogenous Thbs1 (green), BiP (red), and the nucleus (DAPI, blue) on cryo-embedded 12-week-old (“young”) and 24-month-old (“old”) WT quadriceps. Scale bars represent 50 μm.

    Techniques Used: Expressing, Control, Microarray, Two Tailed Test, Quantitative RT-PCR, Western Blot, Immunohistochemistry


    Figure Legend Snippet:

    Techniques Used: Virus, Recombinant, Electron Microscopy, Plasmid Preparation, SYBR Green Assay, Membrane, Blocking Assay, Staining, Enzyme-linked Immunosorbent Assay, Activity Assay, Protein Extraction, Clone Assay, Expressing, Software, Microscopy, Real-time Polymerase Chain Reaction

    Related Articles

    Microarray:

    Article Title: Cell-Type-Specific Predictive Network Yields Novel Insights into Mouse Embryonic Stem Cell Self-Renewal and Cell Fate
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    Article Title: Transcriptomic-based clustering of human atherosclerotic plaques identifies subgroups with different underlying biology and clinical presentation
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    Gene Expression:

    Article Title: Nidogen-1 Contributes to the Interaction Network Involved in Pro-B Cell Retention in the Peri-sinusoidal Hematopoietic Stem Cell Niche.
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    Article Title: Key hepatic signatures of human and mouse nonalcoholic steatohepatitis: A transcriptome-proteome data meta-analysis.
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    Single Cell:

    Article Title: Nidogen-1 Contributes to the Interaction Network Involved in Pro-B Cell Retention in the Peri-sinusoidal Hematopoietic Stem Cell Niche.
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    RNA sequencing:

    Article Title: Nidogen-1 Contributes to the Interaction Network Involved in Pro-B Cell Retention in the Peri-sinusoidal Hematopoietic Stem Cell Niche.
    Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Icam1 TaqMan Gene Expression Assays Thermo Fisher Mm00516024_g1 Il7 TaqMan Gene Expression Assays Thermo Fisher Mm00434291_m1 Itgav TaqMan Gene Expression Assays Thermo Fisher Mm00434486_m1 Jam2 TaqMan Gene Expression Assays Thermo Fisher Mm00470197_m1 Kitl TaqMan Gene Expression Assays Thermo Fisher Mm00442972_m1 Lama4 TaqMan Gene Expression Assays Thermo Fisher Mm01193660_m1 Lepr TaqMan Gene Expression Assays Thermo Fisher Mm00440181_m1 Nid1 TaqMan Gene Expression Assays Thermo Fisher Mm00477827_m1 Prrx1 TaqMan Gene Expression Assays Thermo Fisher Mm00440932_m1 Pdgfra TaqMan Gene Expression Assays Thermo Fisher Mm00440701_m1 Runx2 TaqMan Gene Expression Assays Thermo Fisher Mm00501584_m1 Vcam1 TaqMan Gene Expression Assays Thermo Fisher Mm01320970_m1 Deposited Data Affimetrix Microarray datasets This paper GEO: GSE90588 Affimetrix Microarray datasets Ding et al., 2012 GEO: GSE33158 Affimetrix Microarray datasets Greenbaum et al., 2013 GEO: GSE43613 Affimetrix Microarray datasets https://www.ncbi.nlm.nih. gov/geo/ GEO: GSE66206 Affimetrix Microarray datasets Nakamura et al., 2010 GEO: GSE17597 Affimetrix Microarray datasets http://www.immgen.org GEO: GSE15907 Affimetrix Microarray datasets Lee et al., 2018 GEO: GSE114469 Affimetrix Microarray datasets Decker et al., 2017 GEO: GSE84387 Affimetrix Microarray datasets Méndez-Ferrer et al., 2010 GEO: GSE55802 Affimetrix Microarray datasets James et al., 2015 ArrayExpress: A-GEOD-11339 single cell RNaseq datasets This paper GEO: GSE121568 Experimental Models: Organisms/Strains Mouse: IL7-Cre Repass et al., 2009 N/A Mouse: C57BL/6J Gt(ROSA)26Sortm1(EYFP)Cos/J The Jackson Laboratory JAX: 006148 Mouse: Nid1Tm1Ron Murshed et al., 2000 N/A Mouse: C57BL/6JRj Janvier labs N/A Mouse: C57BL/6NRj Janvier labs N/A Software and algorithms DIVA version 8.01 BD Biosciences http://www.bdbiosciences.com/ FlowJo version 10 TreeStar https://www.flowjo.com/ Fiji version 1.52 g ImageJ https://fiji.sc/ MATLAB version 9 MathWorks https://www.mathworks.com/ R studio version 8 Rstudio https://www.rstudio.com/ Prism version 5 GraphPad https://www.graphpad.com/ .. Further information and requests for resources and reagents should be directed to and will be fulfilled by the Lead Contact, Stéphane J.C. Mancini (stephane.mancini@inserm.fr).

    Software:

    Article Title: Nidogen-1 Contributes to the Interaction Network Involved in Pro-B Cell Retention in the Peri-sinusoidal Hematopoietic Stem Cell Niche.
    Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Icam1 TaqMan Gene Expression Assays Thermo Fisher Mm00516024_g1 Il7 TaqMan Gene Expression Assays Thermo Fisher Mm00434291_m1 Itgav TaqMan Gene Expression Assays Thermo Fisher Mm00434486_m1 Jam2 TaqMan Gene Expression Assays Thermo Fisher Mm00470197_m1 Kitl TaqMan Gene Expression Assays Thermo Fisher Mm00442972_m1 Lama4 TaqMan Gene Expression Assays Thermo Fisher Mm01193660_m1 Lepr TaqMan Gene Expression Assays Thermo Fisher Mm00440181_m1 Nid1 TaqMan Gene Expression Assays Thermo Fisher Mm00477827_m1 Prrx1 TaqMan Gene Expression Assays Thermo Fisher Mm00440932_m1 Pdgfra TaqMan Gene Expression Assays Thermo Fisher Mm00440701_m1 Runx2 TaqMan Gene Expression Assays Thermo Fisher Mm00501584_m1 Vcam1 TaqMan Gene Expression Assays Thermo Fisher Mm01320970_m1 Deposited Data Affimetrix Microarray datasets This paper GEO: GSE90588 Affimetrix Microarray datasets Ding et al., 2012 GEO: GSE33158 Affimetrix Microarray datasets Greenbaum et al., 2013 GEO: GSE43613 Affimetrix Microarray datasets https://www.ncbi.nlm.nih. gov/geo/ GEO: GSE66206 Affimetrix Microarray datasets Nakamura et al., 2010 GEO: GSE17597 Affimetrix Microarray datasets http://www.immgen.org GEO: GSE15907 Affimetrix Microarray datasets Lee et al., 2018 GEO: GSE114469 Affimetrix Microarray datasets Decker et al., 2017 GEO: GSE84387 Affimetrix Microarray datasets Méndez-Ferrer et al., 2010 GEO: GSE55802 Affimetrix Microarray datasets James et al., 2015 ArrayExpress: A-GEOD-11339 single cell RNaseq datasets This paper GEO: GSE121568 Experimental Models: Organisms/Strains Mouse: IL7-Cre Repass et al., 2009 N/A Mouse: C57BL/6J Gt(ROSA)26Sortm1(EYFP)Cos/J The Jackson Laboratory JAX: 006148 Mouse: Nid1Tm1Ron Murshed et al., 2000 N/A Mouse: C57BL/6JRj Janvier labs N/A Mouse: C57BL/6NRj Janvier labs N/A Software and algorithms DIVA version 8.01 BD Biosciences http://www.bdbiosciences.com/ FlowJo version 10 TreeStar https://www.flowjo.com/ Fiji version 1.52 g ImageJ https://fiji.sc/ MATLAB version 9 MathWorks https://www.mathworks.com/ R studio version 8 Rstudio https://www.rstudio.com/ Prism version 5 GraphPad https://www.graphpad.com/ .. Further information and requests for resources and reagents should be directed to and will be fulfilled by the Lead Contact, Stéphane J.C. Mancini (stephane.mancini@inserm.fr).

    Article Title: Key hepatic signatures of human and mouse nonalcoholic steatohepatitis: A transcriptome-proteome data meta-analysis.
    Article Snippet: .. Affymetrix microarray raw data (.CEL files) were downloaded, and gene expression values were processed using Affymetrix Expression Console software (Affymetrix, FIGURE 1 Flow diagram on the selection process of human and mouse NASH transcriptome datasets. frontiersin.org Santa Clara, CA, USA) with robust multiarray averaging (RMA) or microarray analysis suite 5.0 (MAS5) normalization. .. Processed Illumina BeadChip data were downloaded from NCBI GEO and probeset intensity normalization was performed using the ACTB and GAPDH genes as internal controls.

    other:

    Article Title: Transcriptomic-based clustering of human atherosclerotic plaques identifies subgroups with different underlying biology and clinical presentation
    Article Snippet: Correlation with mouse dataset We have accessed three transcriptomics datasets Apoe#1 (Affymetrix HT-MG-430 PM microarray, whole aorta from the arch to the mid-abdomen): GSE66569 49 , Apoe#2 (RNA-seq, vascular tissue): GSE186252 50 and LDLR (RNA-seq, aortic arch): GSE163206 51 .

    Article Title: Method for preparing induced paraxial mesoderm progenitor (IPAM) cells and their use
    Article Snippet: DNA Microarrays Mouse E9.5 embryo PSMs were microdissected and processed as previously described (Krol et al, 2011), and prepared samples were run on Affymetrix GeneChip arrays.

    Article Title: Large-scale comparative transcriptomic analysis of temperature-responsive genes in Arabidopsis thaliana.
    Article Snippet: All the datasets were analyzed using the ATH1-121501 Affymetrix Arabidopsis ATH1 Genome Array (GEO microarray platform: GPL198), which contains 22,810 probes and 21,314 unique genes.

    Expressing:

    Article Title: Key hepatic signatures of human and mouse nonalcoholic steatohepatitis: A transcriptome-proteome data meta-analysis.
    Article Snippet: .. Affymetrix microarray raw data (.CEL files) were downloaded, and gene expression values were processed using Affymetrix Expression Console software (Affymetrix, FIGURE 1 Flow diagram on the selection process of human and mouse NASH transcriptome datasets. frontiersin.org Santa Clara, CA, USA) with robust multiarray averaging (RMA) or microarray analysis suite 5.0 (MAS5) normalization. .. Processed Illumina BeadChip data were downloaded from NCBI GEO and probeset intensity normalization was performed using the ACTB and GAPDH genes as internal controls.

    Selection:

    Article Title: Key hepatic signatures of human and mouse nonalcoholic steatohepatitis: A transcriptome-proteome data meta-analysis.
    Article Snippet: .. Affymetrix microarray raw data (.CEL files) were downloaded, and gene expression values were processed using Affymetrix Expression Console software (Affymetrix, FIGURE 1 Flow diagram on the selection process of human and mouse NASH transcriptome datasets. frontiersin.org Santa Clara, CA, USA) with robust multiarray averaging (RMA) or microarray analysis suite 5.0 (MAS5) normalization. .. Processed Illumina BeadChip data were downloaded from NCBI GEO and probeset intensity normalization was performed using the ACTB and GAPDH genes as internal controls.

    Transcriptomics:

    Article Title: Transcriptomic-based clustering of human atherosclerotic plaques identifies subgroups with different underlying biology and clinical presentation
    Article Snippet: .. We have accessed three transcriptomics datasets Apoe#1 (Affymetrix HT-MG-430 PM microarray, whole aorta from the arch to the mid-abdomen): GSE66569 49 , Apoe#2 (RNA-seq, vascular tissue): GSE186252 50 and LDLR (RNA-seq, aortic arch): GSE163206 51 . ..

    RNA Sequencing:

    Article Title: Transcriptomic-based clustering of human atherosclerotic plaques identifies subgroups with different underlying biology and clinical presentation
    Article Snippet: .. We have accessed three transcriptomics datasets Apoe#1 (Affymetrix HT-MG-430 PM microarray, whole aorta from the arch to the mid-abdomen): GSE66569 49 , Apoe#2 (RNA-seq, vascular tissue): GSE186252 50 and LDLR (RNA-seq, aortic arch): GSE163206 51 . ..



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    Differential expression analysis of <t>microarray</t> data from experimental and human colorectal cancer tissue. ( A , B ) Principal component analysis (PCA) plots of public microarray datasets from mouse GSE86299 ( A ) and human GSE8671 ( B ) tissue, comparing normal colon (blue) and colorectal cancer <t>(CRC)</t> (red). Mouse n = 8 per group; human n = 32 per group. These are representative datasets of a total of three analyzed . ( C , D ) Volcano plots displaying differential gene expression comparing murine ( C ) and human ( D ) CRC tissue with adjacent normal tissue. Genes down- and upregulated in cancer tissue are highlighted in blue and red, respectively. ( E ) Venn diagram illustrating the most common up- and downregulated genes across three experimental mouse models of colitis-associated colorectal cancer (CAC) derived from Gene Expression Omnibus (GEO) datasets. ( F ) Venn diagram illustrating the most common up- and downregulated genes across three human CRC datasets from GEO. The analysis was performed using the limma package version 3.16.2 with cut-offs of false discovery rate ( FDR ) < 0.05 (Benjamini–Hochberg method) and log 2 F C (fold change) < − 1 and > 1 .
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    mouse genome 430a 2.0 microarray dataset  (Thermo Fisher)
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    Thermo Fisher mouse genome 430a 2.0 microarray dataset
    (A) Fold change in the expression of Thbs1 mRNA in soleus following 30 days of microgravity exposure (space flight) compared to control. Microarray dataset GEO: <t>GSE80223</t> was analyzed from the Gene Expression Omnibus repository. Error bars denote ±SEM from n = 3 biologically independent animals per group; ** p < 0.01 by two-tailed unpaired Student’s t test. (B) RT-qPCR for Thbs1 , Thbs2 , Thbs3 , Thbs4 , and Thbs5 mRNA in the right tibialis anterior (TA) of 12-week-old wild-type (WT) mice subjected to 3 or 6 days (d) of unilateral hindlimb denervation, compared contralateral sham-operated leg. Error denote ±SEM from n = 3–5 biologically independent animals per group. * p < 0.05 by two-tailed unpaired Student’s t test. (C) Western blot for Thbs1 and Gapdh control in right TA of 12-week-old WT mice subjected to 3 or 10 days (d) of unilateral hindlimb denervation, compared to contralateral, sham-operated TA. n = 2 biologically independent animals per time point. (D) Representative immunohistochemistry for endogenous Thbs1 (green) and BiP (red) to visualize the endoplasmic reticulum (ER) on cryo-embedded TA of WT mice subjected to 10 days (d) of denervation compared to sham-operated controls at 12 weeks of age. Nuclei are shown in blue with DAPI. Scale bars represent 50 μm. (E) RT-qPCR for Thbs1 mRNA from TA of 8-week-old mice fed ad libitum or fasted for 48 h. Data are presented as fold expression over fed WT; error bars denote ±SEM from n = 4 biologically independent animals analyzed per group. * p < 0.05 by two-tailed unpaired Student’s t test. (F and G) Western blot for Thbs1 and Gapdh in TA of 8-week-old mice fed ad libitum or fasted for 48 h (F), and in young (12 weeks of age) and old (24 months of age) WT quadriceps (G). (H) Representative immunohistochemistry for endogenous Thbs1 (green), BiP (red), and the nucleus (DAPI, blue) on cryo-embedded 12-week-old (“young”) and 24-month-old (“old”) WT quadriceps. Scale bars represent 50 μm.
    Mouse Genome 430a 2.0 Microarray Dataset, 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
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    mouse dataset 2 microarray  (Thermo Fisher)
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    Thermo Fisher mouse dataset 2 microarray
    (A) Fold change in the expression of Thbs1 mRNA in soleus following 30 days of microgravity exposure (space flight) compared to control. Microarray dataset GEO: <t>GSE80223</t> was analyzed from the Gene Expression Omnibus repository. Error bars denote ±SEM from n = 3 biologically independent animals per group; ** p < 0.01 by two-tailed unpaired Student’s t test. (B) RT-qPCR for Thbs1 , Thbs2 , Thbs3 , Thbs4 , and Thbs5 mRNA in the right tibialis anterior (TA) of 12-week-old wild-type (WT) mice subjected to 3 or 6 days (d) of unilateral hindlimb denervation, compared contralateral sham-operated leg. Error denote ±SEM from n = 3–5 biologically independent animals per group. * p < 0.05 by two-tailed unpaired Student’s t test. (C) Western blot for Thbs1 and Gapdh control in right TA of 12-week-old WT mice subjected to 3 or 10 days (d) of unilateral hindlimb denervation, compared to contralateral, sham-operated TA. n = 2 biologically independent animals per time point. (D) Representative immunohistochemistry for endogenous Thbs1 (green) and BiP (red) to visualize the endoplasmic reticulum (ER) on cryo-embedded TA of WT mice subjected to 10 days (d) of denervation compared to sham-operated controls at 12 weeks of age. Nuclei are shown in blue with DAPI. Scale bars represent 50 μm. (E) RT-qPCR for Thbs1 mRNA from TA of 8-week-old mice fed ad libitum or fasted for 48 h. Data are presented as fold expression over fed WT; error bars denote ±SEM from n = 4 biologically independent animals analyzed per group. * p < 0.05 by two-tailed unpaired Student’s t test. (F and G) Western blot for Thbs1 and Gapdh in TA of 8-week-old mice fed ad libitum or fasted for 48 h (F), and in young (12 weeks of age) and old (24 months of age) WT quadriceps (G). (H) Representative immunohistochemistry for endogenous Thbs1 (green), BiP (red), and the nucleus (DAPI, blue) on cryo-embedded 12-week-old (“young”) and 24-month-old (“old”) WT quadriceps. Scale bars represent 50 μm.
    Mouse Dataset 2 Microarray, 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
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    dy417 deposited data microarray dataset peritoneal macrophages  (R&D Systems)
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    R&D Systems dy417 deposited data microarray dataset peritoneal macrophages
    (A) Fold change in the expression of Thbs1 mRNA in soleus following 30 days of microgravity exposure (space flight) compared to control. Microarray dataset GEO: <t>GSE80223</t> was analyzed from the Gene Expression Omnibus repository. Error bars denote ±SEM from n = 3 biologically independent animals per group; ** p < 0.01 by two-tailed unpaired Student’s t test. (B) RT-qPCR for Thbs1 , Thbs2 , Thbs3 , Thbs4 , and Thbs5 mRNA in the right tibialis anterior (TA) of 12-week-old wild-type (WT) mice subjected to 3 or 6 days (d) of unilateral hindlimb denervation, compared contralateral sham-operated leg. Error denote ±SEM from n = 3–5 biologically independent animals per group. * p < 0.05 by two-tailed unpaired Student’s t test. (C) Western blot for Thbs1 and Gapdh control in right TA of 12-week-old WT mice subjected to 3 or 10 days (d) of unilateral hindlimb denervation, compared to contralateral, sham-operated TA. n = 2 biologically independent animals per time point. (D) Representative immunohistochemistry for endogenous Thbs1 (green) and BiP (red) to visualize the endoplasmic reticulum (ER) on cryo-embedded TA of WT mice subjected to 10 days (d) of denervation compared to sham-operated controls at 12 weeks of age. Nuclei are shown in blue with DAPI. Scale bars represent 50 μm. (E) RT-qPCR for Thbs1 mRNA from TA of 8-week-old mice fed ad libitum or fasted for 48 h. Data are presented as fold expression over fed WT; error bars denote ±SEM from n = 4 biologically independent animals analyzed per group. * p < 0.05 by two-tailed unpaired Student’s t test. (F and G) Western blot for Thbs1 and Gapdh in TA of 8-week-old mice fed ad libitum or fasted for 48 h (F), and in young (12 weeks of age) and old (24 months of age) WT quadriceps (G). (H) Representative immunohistochemistry for endogenous Thbs1 (green), BiP (red), and the nucleus (DAPI, blue) on cryo-embedded 12-week-old (“young”) and 24-month-old (“old”) WT quadriceps. Scale bars represent 50 μm.
    Dy417 Deposited Data Microarray Dataset Peritoneal Macrophages, supplied by R&D Systems, used in various techniques. Bioz Stars score: 96/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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    mouse liver illumina sentrix mouse-6 v1.1 expression microarray dataset  (Illumina Inc)
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    Illumina Inc mouse liver illumina sentrix mouse-6 v1.1 expression microarray dataset
    (A) Fold change in the expression of Thbs1 mRNA in soleus following 30 days of microgravity exposure (space flight) compared to control. Microarray dataset GEO: <t>GSE80223</t> was analyzed from the Gene Expression Omnibus repository. Error bars denote ±SEM from n = 3 biologically independent animals per group; ** p < 0.01 by two-tailed unpaired Student’s t test. (B) RT-qPCR for Thbs1 , Thbs2 , Thbs3 , Thbs4 , and Thbs5 mRNA in the right tibialis anterior (TA) of 12-week-old wild-type (WT) mice subjected to 3 or 6 days (d) of unilateral hindlimb denervation, compared contralateral sham-operated leg. Error denote ±SEM from n = 3–5 biologically independent animals per group. * p < 0.05 by two-tailed unpaired Student’s t test. (C) Western blot for Thbs1 and Gapdh control in right TA of 12-week-old WT mice subjected to 3 or 10 days (d) of unilateral hindlimb denervation, compared to contralateral, sham-operated TA. n = 2 biologically independent animals per time point. (D) Representative immunohistochemistry for endogenous Thbs1 (green) and BiP (red) to visualize the endoplasmic reticulum (ER) on cryo-embedded TA of WT mice subjected to 10 days (d) of denervation compared to sham-operated controls at 12 weeks of age. Nuclei are shown in blue with DAPI. Scale bars represent 50 μm. (E) RT-qPCR for Thbs1 mRNA from TA of 8-week-old mice fed ad libitum or fasted for 48 h. Data are presented as fold expression over fed WT; error bars denote ±SEM from n = 4 biologically independent animals analyzed per group. * p < 0.05 by two-tailed unpaired Student’s t test. (F and G) Western blot for Thbs1 and Gapdh in TA of 8-week-old mice fed ad libitum or fasted for 48 h (F), and in young (12 weeks of age) and old (24 months of age) WT quadriceps (G). (H) Representative immunohistochemistry for endogenous Thbs1 (green), BiP (red), and the nucleus (DAPI, blue) on cryo-embedded 12-week-old (“young”) and 24-month-old (“old”) WT quadriceps. Scale bars represent 50 μm.
    Mouse Liver Illumina Sentrix Mouse 6 V1.1 Expression Microarray Dataset, supplied by Illumina Inc, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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    mouse gene 1.0 st microarray dataset  (Thermo Fisher)
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    Thermo Fisher mouse gene 1.0 st microarray dataset
    (A) Fold change in the expression of Thbs1 mRNA in soleus following 30 days of microgravity exposure (space flight) compared to control. Microarray dataset GEO: <t>GSE80223</t> was analyzed from the Gene Expression Omnibus repository. Error bars denote ±SEM from n = 3 biologically independent animals per group; ** p < 0.01 by two-tailed unpaired Student’s t test. (B) RT-qPCR for Thbs1 , Thbs2 , Thbs3 , Thbs4 , and Thbs5 mRNA in the right tibialis anterior (TA) of 12-week-old wild-type (WT) mice subjected to 3 or 6 days (d) of unilateral hindlimb denervation, compared contralateral sham-operated leg. Error denote ±SEM from n = 3–5 biologically independent animals per group. * p < 0.05 by two-tailed unpaired Student’s t test. (C) Western blot for Thbs1 and Gapdh control in right TA of 12-week-old WT mice subjected to 3 or 10 days (d) of unilateral hindlimb denervation, compared to contralateral, sham-operated TA. n = 2 biologically independent animals per time point. (D) Representative immunohistochemistry for endogenous Thbs1 (green) and BiP (red) to visualize the endoplasmic reticulum (ER) on cryo-embedded TA of WT mice subjected to 10 days (d) of denervation compared to sham-operated controls at 12 weeks of age. Nuclei are shown in blue with DAPI. Scale bars represent 50 μm. (E) RT-qPCR for Thbs1 mRNA from TA of 8-week-old mice fed ad libitum or fasted for 48 h. Data are presented as fold expression over fed WT; error bars denote ±SEM from n = 4 biologically independent animals analyzed per group. * p < 0.05 by two-tailed unpaired Student’s t test. (F and G) Western blot for Thbs1 and Gapdh in TA of 8-week-old mice fed ad libitum or fasted for 48 h (F), and in young (12 weeks of age) and old (24 months of age) WT quadriceps (G). (H) Representative immunohistochemistry for endogenous Thbs1 (green), BiP (red), and the nucleus (DAPI, blue) on cryo-embedded 12-week-old (“young”) and 24-month-old (“old”) WT quadriceps. Scale bars represent 50 μm.
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    mouse microarray datasets  (Allen Institute for Brain Science)
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    Allen Institute for Brain Science mouse microarray datasets
    (A) Fold change in the expression of Thbs1 mRNA in soleus following 30 days of microgravity exposure (space flight) compared to control. Microarray dataset GEO: <t>GSE80223</t> was analyzed from the Gene Expression Omnibus repository. Error bars denote ±SEM from n = 3 biologically independent animals per group; ** p < 0.01 by two-tailed unpaired Student’s t test. (B) RT-qPCR for Thbs1 , Thbs2 , Thbs3 , Thbs4 , and Thbs5 mRNA in the right tibialis anterior (TA) of 12-week-old wild-type (WT) mice subjected to 3 or 6 days (d) of unilateral hindlimb denervation, compared contralateral sham-operated leg. Error denote ±SEM from n = 3–5 biologically independent animals per group. * p < 0.05 by two-tailed unpaired Student’s t test. (C) Western blot for Thbs1 and Gapdh control in right TA of 12-week-old WT mice subjected to 3 or 10 days (d) of unilateral hindlimb denervation, compared to contralateral, sham-operated TA. n = 2 biologically independent animals per time point. (D) Representative immunohistochemistry for endogenous Thbs1 (green) and BiP (red) to visualize the endoplasmic reticulum (ER) on cryo-embedded TA of WT mice subjected to 10 days (d) of denervation compared to sham-operated controls at 12 weeks of age. Nuclei are shown in blue with DAPI. Scale bars represent 50 μm. (E) RT-qPCR for Thbs1 mRNA from TA of 8-week-old mice fed ad libitum or fasted for 48 h. Data are presented as fold expression over fed WT; error bars denote ±SEM from n = 4 biologically independent animals analyzed per group. * p < 0.05 by two-tailed unpaired Student’s t test. (F and G) Western blot for Thbs1 and Gapdh in TA of 8-week-old mice fed ad libitum or fasted for 48 h (F), and in young (12 weeks of age) and old (24 months of age) WT quadriceps (G). (H) Representative immunohistochemistry for endogenous Thbs1 (green), BiP (red), and the nucleus (DAPI, blue) on cryo-embedded 12-week-old (“young”) and 24-month-old (“old”) WT quadriceps. Scale bars represent 50 μm.
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    Image Search Results


    Differential expression analysis of microarray data from experimental and human colorectal cancer tissue. ( A , B ) Principal component analysis (PCA) plots of public microarray datasets from mouse GSE86299 ( A ) and human GSE8671 ( B ) tissue, comparing normal colon (blue) and colorectal cancer (CRC) (red). Mouse n = 8 per group; human n = 32 per group. These are representative datasets of a total of three analyzed . ( C , D ) Volcano plots displaying differential gene expression comparing murine ( C ) and human ( D ) CRC tissue with adjacent normal tissue. Genes down- and upregulated in cancer tissue are highlighted in blue and red, respectively. ( E ) Venn diagram illustrating the most common up- and downregulated genes across three experimental mouse models of colitis-associated colorectal cancer (CAC) derived from Gene Expression Omnibus (GEO) datasets. ( F ) Venn diagram illustrating the most common up- and downregulated genes across three human CRC datasets from GEO. The analysis was performed using the limma package version 3.16.2 with cut-offs of false discovery rate ( FDR ) < 0.05 (Benjamini–Hochberg method) and log 2 F C (fold change) < − 1 and > 1 .

    Journal: International Journal of Molecular Sciences

    Article Title: Downregulation of Enteroendocrine Genes Predicts Survival in Colon Cancer: A Bioinformatics-Based Analysis

    doi: 10.3390/ijms262211127

    Figure Lengend Snippet: Differential expression analysis of microarray data from experimental and human colorectal cancer tissue. ( A , B ) Principal component analysis (PCA) plots of public microarray datasets from mouse GSE86299 ( A ) and human GSE8671 ( B ) tissue, comparing normal colon (blue) and colorectal cancer (CRC) (red). Mouse n = 8 per group; human n = 32 per group. These are representative datasets of a total of three analyzed . ( C , D ) Volcano plots displaying differential gene expression comparing murine ( C ) and human ( D ) CRC tissue with adjacent normal tissue. Genes down- and upregulated in cancer tissue are highlighted in blue and red, respectively. ( E ) Venn diagram illustrating the most common up- and downregulated genes across three experimental mouse models of colitis-associated colorectal cancer (CAC) derived from Gene Expression Omnibus (GEO) datasets. ( F ) Venn diagram illustrating the most common up- and downregulated genes across three human CRC datasets from GEO. The analysis was performed using the limma package version 3.16.2 with cut-offs of false discovery rate ( FDR ) < 0.05 (Benjamini–Hochberg method) and log 2 F C (fold change) < − 1 and > 1 .

    Article Snippet: We explored the presence or absence of secretory IEC markers by analyzing three different mouse CRC microarray datasets from the National Center for Biotechnology Information (NCBI) Gene Expression Omnibus (GEO) database ( GSE86299 , GSE31105 , and GSE64658 ).

    Techniques: Quantitative Proteomics, Microarray, Gene Expression, Derivative Assay

    (A) Fold change in the expression of Thbs1 mRNA in soleus following 30 days of microgravity exposure (space flight) compared to control. Microarray dataset GEO: GSE80223 was analyzed from the Gene Expression Omnibus repository. Error bars denote ±SEM from n = 3 biologically independent animals per group; ** p < 0.01 by two-tailed unpaired Student’s t test. (B) RT-qPCR for Thbs1 , Thbs2 , Thbs3 , Thbs4 , and Thbs5 mRNA in the right tibialis anterior (TA) of 12-week-old wild-type (WT) mice subjected to 3 or 6 days (d) of unilateral hindlimb denervation, compared contralateral sham-operated leg. Error denote ±SEM from n = 3–5 biologically independent animals per group. * p < 0.05 by two-tailed unpaired Student’s t test. (C) Western blot for Thbs1 and Gapdh control in right TA of 12-week-old WT mice subjected to 3 or 10 days (d) of unilateral hindlimb denervation, compared to contralateral, sham-operated TA. n = 2 biologically independent animals per time point. (D) Representative immunohistochemistry for endogenous Thbs1 (green) and BiP (red) to visualize the endoplasmic reticulum (ER) on cryo-embedded TA of WT mice subjected to 10 days (d) of denervation compared to sham-operated controls at 12 weeks of age. Nuclei are shown in blue with DAPI. Scale bars represent 50 μm. (E) RT-qPCR for Thbs1 mRNA from TA of 8-week-old mice fed ad libitum or fasted for 48 h. Data are presented as fold expression over fed WT; error bars denote ±SEM from n = 4 biologically independent animals analyzed per group. * p < 0.05 by two-tailed unpaired Student’s t test. (F and G) Western blot for Thbs1 and Gapdh in TA of 8-week-old mice fed ad libitum or fasted for 48 h (F), and in young (12 weeks of age) and old (24 months of age) WT quadriceps (G). (H) Representative immunohistochemistry for endogenous Thbs1 (green), BiP (red), and the nucleus (DAPI, blue) on cryo-embedded 12-week-old (“young”) and 24-month-old (“old”) WT quadriceps. Scale bars represent 50 μm.

    Journal: Cell reports

    Article Title: Thbs1 regulates skeletal muscle mass in a TGFβ-Smad2/3-ATF4-dependent manner

    doi: 10.1016/j.celrep.2024.114149

    Figure Lengend Snippet: (A) Fold change in the expression of Thbs1 mRNA in soleus following 30 days of microgravity exposure (space flight) compared to control. Microarray dataset GEO: GSE80223 was analyzed from the Gene Expression Omnibus repository. Error bars denote ±SEM from n = 3 biologically independent animals per group; ** p < 0.01 by two-tailed unpaired Student’s t test. (B) RT-qPCR for Thbs1 , Thbs2 , Thbs3 , Thbs4 , and Thbs5 mRNA in the right tibialis anterior (TA) of 12-week-old wild-type (WT) mice subjected to 3 or 6 days (d) of unilateral hindlimb denervation, compared contralateral sham-operated leg. Error denote ±SEM from n = 3–5 biologically independent animals per group. * p < 0.05 by two-tailed unpaired Student’s t test. (C) Western blot for Thbs1 and Gapdh control in right TA of 12-week-old WT mice subjected to 3 or 10 days (d) of unilateral hindlimb denervation, compared to contralateral, sham-operated TA. n = 2 biologically independent animals per time point. (D) Representative immunohistochemistry for endogenous Thbs1 (green) and BiP (red) to visualize the endoplasmic reticulum (ER) on cryo-embedded TA of WT mice subjected to 10 days (d) of denervation compared to sham-operated controls at 12 weeks of age. Nuclei are shown in blue with DAPI. Scale bars represent 50 μm. (E) RT-qPCR for Thbs1 mRNA from TA of 8-week-old mice fed ad libitum or fasted for 48 h. Data are presented as fold expression over fed WT; error bars denote ±SEM from n = 4 biologically independent animals analyzed per group. * p < 0.05 by two-tailed unpaired Student’s t test. (F and G) Western blot for Thbs1 and Gapdh in TA of 8-week-old mice fed ad libitum or fasted for 48 h (F), and in young (12 weeks of age) and old (24 months of age) WT quadriceps (G). (H) Representative immunohistochemistry for endogenous Thbs1 (green), BiP (red), and the nucleus (DAPI, blue) on cryo-embedded 12-week-old (“young”) and 24-month-old (“old”) WT quadriceps. Scale bars represent 50 μm.

    Article Snippet: A literature search yielded a publicly available Affymetrix Mouse Genome 430A 2.0 microarray dataset (NCBI GEO Repository, GSE80223) in which Gambara G. et al. compared the gene expression adaptation in soleus from adult C57Bl/n6 mice that were flown in space aboard the BION-M1 biosatelite for 30 days in orbit ( n = 3), and from sex- and age-matched control mice that were housed in standard vivarium cages ( n = 3).

    Techniques: Expressing, Control, Microarray, Two Tailed Test, Quantitative RT-PCR, Western Blot, Immunohistochemistry

    Journal: Cell reports

    Article Title: Thbs1 regulates skeletal muscle mass in a TGFβ-Smad2/3-ATF4-dependent manner

    doi: 10.1016/j.celrep.2024.114149

    Figure Lengend Snippet:

    Article Snippet: A literature search yielded a publicly available Affymetrix Mouse Genome 430A 2.0 microarray dataset (NCBI GEO Repository, GSE80223) in which Gambara G. et al. compared the gene expression adaptation in soleus from adult C57Bl/n6 mice that were flown in space aboard the BION-M1 biosatelite for 30 days in orbit ( n = 3), and from sex- and age-matched control mice that were housed in standard vivarium cages ( n = 3).

    Techniques: Virus, Recombinant, Electron Microscopy, Plasmid Preparation, SYBR Green Assay, Membrane, Blocking Assay, Staining, Enzyme-linked Immunosorbent Assay, Activity Assay, Protein Extraction, Clone Assay, Expressing, Software, Microscopy, Real-time Polymerase Chain Reaction