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  • 99
    Millipore mrna analysis
    Mrna Analysis, supplied by Millipore, used in various techniques. Bioz Stars score: 99/100, based on 125 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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    Illumina Inc analysis messenger rna mrna
    The LINC complex in <t>mRNA</t> export. ( A ) Efficiency of Nesprin-2 knockdown (KD) by shRNA treatment in HeLa cells is shown by immunofluorescence with Nesprin-2 specific antibodies pAbK1 and by western blot analysis. The quantitative determination of the knockdown is depicted in a bar graph (left). Scale bar, 5 µm. ( B ) <t>RNA</t> FISH analysis of Nesprin-2 depleted cells as shown by immunofluorescence analysis. Left side, distribution of the N/C intensity range. ( C ) The mean nuclear/cytoplasmic (N/C) intensity ratio of control and Nesprin-2 KD cells. The values represent the mean ± SD of more than 100 cells analyzed. ( D ) Immunofluorescence analysis of GFP-SUN1-ΔSUN expressing cells. Nesprin-2 was detected by pAbK1. Scale bar, 10 µm.
    Analysis Messenger Rna Mrna, supplied by Illumina Inc, used in various techniques. Bioz Stars score: 92/100, based on 3 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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    Agilent technologies data analysis messenger rna mrna
    Sialyl-glycolipid stage-specific embryonic antigen 4 (SSEA4) expression is regulated by CMP- N -acetylneuraminate-β-galactosamide-α-2,3-sialyltransferase 2 ( ST3GAL2 ). a Small interfering <t>RNA</t> (siRNA)–mediated knockdown of ST3GAL2 and ST3GAL3 significantly reduced the expression of their respective target messenger RNAs (mRNAs), but not the housekeeping gene GAPDH , as measured by quantitative real-time polymerase chain reaction. Each bar represents the expression intensity normalized to the Lipofectamine reagent (Life Technologies, Carlsbad, CA, USA)-only control. b Knockdown of ST3GAL2 significantly reduced the expression of SSEA4, whereas targeting of CD133 or the close paralog ST3GAL3 did not result in a significant change of SSEA4 expression. Knockdown of CD133 expression by the respective siRNA was used as a positive control of direct targeting. Each bar represents the mean fluorescence intensity (MFI) normalized to the Lipofectamine-only control. c Expression of ST3GAL2 <t>mRNA</t> was measured by two Affymetrix® (Affymetrix, Santa Clara, CA, USA) probes, 217650_x_at and 229336_at, in nine tumor models and plotted against the frequency of SSEA4-positive cells as measured by flow cytometry in the respective models, which showed a significant positive correlation. *** p
    Data Analysis Messenger Rna Mrna, supplied by Agilent technologies, used in various techniques. Bioz Stars score: 88/100, based on 3 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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    TaKaRa northern blot analysis messenger rna
    Sialyl-glycolipid stage-specific embryonic antigen 4 (SSEA4) expression is regulated by CMP- N -acetylneuraminate-β-galactosamide-α-2,3-sialyltransferase 2 ( ST3GAL2 ). a Small interfering <t>RNA</t> (siRNA)–mediated knockdown of ST3GAL2 and ST3GAL3 significantly reduced the expression of their respective target messenger RNAs (mRNAs), but not the housekeeping gene GAPDH , as measured by quantitative real-time polymerase chain reaction. Each bar represents the expression intensity normalized to the Lipofectamine reagent (Life Technologies, Carlsbad, CA, USA)-only control. b Knockdown of ST3GAL2 significantly reduced the expression of SSEA4, whereas targeting of CD133 or the close paralog ST3GAL3 did not result in a significant change of SSEA4 expression. Knockdown of CD133 expression by the respective siRNA was used as a positive control of direct targeting. Each bar represents the mean fluorescence intensity (MFI) normalized to the Lipofectamine-only control. c Expression of ST3GAL2 <t>mRNA</t> was measured by two Affymetrix® (Affymetrix, Santa Clara, CA, USA) probes, 217650_x_at and 229336_at, in nine tumor models and plotted against the frequency of SSEA4-positive cells as measured by flow cytometry in the respective models, which showed a significant positive correlation. *** p
    Northern Blot Analysis Messenger Rna, supplied by TaKaRa, used in various techniques. Bioz Stars score: 99/100, based on 4 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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    Agilent technologies messenger rna microarray analysis messenger rna microarray
    Sialyl-glycolipid stage-specific embryonic antigen 4 (SSEA4) expression is regulated by CMP- N -acetylneuraminate-β-galactosamide-α-2,3-sialyltransferase 2 ( ST3GAL2 ). a Small interfering <t>RNA</t> (siRNA)–mediated knockdown of ST3GAL2 and ST3GAL3 significantly reduced the expression of their respective target messenger RNAs (mRNAs), but not the housekeeping gene GAPDH , as measured by quantitative real-time polymerase chain reaction. Each bar represents the expression intensity normalized to the Lipofectamine reagent (Life Technologies, Carlsbad, CA, USA)-only control. b Knockdown of ST3GAL2 significantly reduced the expression of SSEA4, whereas targeting of CD133 or the close paralog ST3GAL3 did not result in a significant change of SSEA4 expression. Knockdown of CD133 expression by the respective siRNA was used as a positive control of direct targeting. Each bar represents the mean fluorescence intensity (MFI) normalized to the Lipofectamine-only control. c Expression of ST3GAL2 <t>mRNA</t> was measured by two Affymetrix® (Affymetrix, Santa Clara, CA, USA) probes, 217650_x_at and 229336_at, in nine tumor models and plotted against the frequency of SSEA4-positive cells as measured by flow cytometry in the respective models, which showed a significant positive correlation. *** p
    Messenger Rna Microarray Analysis Messenger Rna Microarray, supplied by Agilent technologies, used in various techniques. Bioz Stars score: 93/100, based on 3 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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    Thermo Fisher mrna analysis
    Sialyl-glycolipid stage-specific embryonic antigen 4 (SSEA4) expression is regulated by CMP- N -acetylneuraminate-β-galactosamide-α-2,3-sialyltransferase 2 ( ST3GAL2 ). a Small interfering <t>RNA</t> (siRNA)–mediated knockdown of ST3GAL2 and ST3GAL3 significantly reduced the expression of their respective target messenger RNAs (mRNAs), but not the housekeeping gene GAPDH , as measured by quantitative real-time polymerase chain reaction. Each bar represents the expression intensity normalized to the Lipofectamine reagent (Life Technologies, Carlsbad, CA, USA)-only control. b Knockdown of ST3GAL2 significantly reduced the expression of SSEA4, whereas targeting of CD133 or the close paralog ST3GAL3 did not result in a significant change of SSEA4 expression. Knockdown of CD133 expression by the respective siRNA was used as a positive control of direct targeting. Each bar represents the mean fluorescence intensity (MFI) normalized to the Lipofectamine-only control. c Expression of ST3GAL2 <t>mRNA</t> was measured by two Affymetrix® (Affymetrix, Santa Clara, CA, USA) probes, 217650_x_at and 229336_at, in nine tumor models and plotted against the frequency of SSEA4-positive cells as measured by flow cytometry in the respective models, which showed a significant positive correlation. *** p
    Mrna Analysis, supplied by Thermo Fisher, used in various techniques. Bioz Stars score: 92/100, based on 2466 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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    IGA Technology Services data analysis messenger rna sequencing mrna seq
    Sialyl-glycolipid stage-specific embryonic antigen 4 (SSEA4) expression is regulated by CMP- N -acetylneuraminate-β-galactosamide-α-2,3-sialyltransferase 2 ( ST3GAL2 ). a Small interfering <t>RNA</t> (siRNA)–mediated knockdown of ST3GAL2 and ST3GAL3 significantly reduced the expression of their respective target messenger RNAs (mRNAs), but not the housekeeping gene GAPDH , as measured by quantitative real-time polymerase chain reaction. Each bar represents the expression intensity normalized to the Lipofectamine reagent (Life Technologies, Carlsbad, CA, USA)-only control. b Knockdown of ST3GAL2 significantly reduced the expression of SSEA4, whereas targeting of CD133 or the close paralog ST3GAL3 did not result in a significant change of SSEA4 expression. Knockdown of CD133 expression by the respective siRNA was used as a positive control of direct targeting. Each bar represents the mean fluorescence intensity (MFI) normalized to the Lipofectamine-only control. c Expression of ST3GAL2 <t>mRNA</t> was measured by two Affymetrix® (Affymetrix, Santa Clara, CA, USA) probes, 217650_x_at and 229336_at, in nine tumor models and plotted against the frequency of SSEA4-positive cells as measured by flow cytometry in the respective models, which showed a significant positive correlation. *** p
    Data Analysis Messenger Rna Sequencing Mrna Seq, supplied by IGA Technology Services, used in various techniques. Bioz Stars score: 93/100, based on 8 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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    Illumina Inc analysis poly a rna seq libraries
    Sialyl-glycolipid stage-specific embryonic antigen 4 (SSEA4) expression is regulated by CMP- N -acetylneuraminate-β-galactosamide-α-2,3-sialyltransferase 2 ( ST3GAL2 ). a Small interfering <t>RNA</t> (siRNA)–mediated knockdown of ST3GAL2 and ST3GAL3 significantly reduced the expression of their respective target messenger RNAs (mRNAs), but not the housekeeping gene GAPDH , as measured by quantitative real-time polymerase chain reaction. Each bar represents the expression intensity normalized to the Lipofectamine reagent (Life Technologies, Carlsbad, CA, USA)-only control. b Knockdown of ST3GAL2 significantly reduced the expression of SSEA4, whereas targeting of CD133 or the close paralog ST3GAL3 did not result in a significant change of SSEA4 expression. Knockdown of CD133 expression by the respective siRNA was used as a positive control of direct targeting. Each bar represents the mean fluorescence intensity (MFI) normalized to the Lipofectamine-only control. c Expression of ST3GAL2 <t>mRNA</t> was measured by two Affymetrix® (Affymetrix, Santa Clara, CA, USA) probes, 217650_x_at and 229336_at, in nine tumor models and plotted against the frequency of SSEA4-positive cells as measured by flow cytometry in the respective models, which showed a significant positive correlation. *** p
    Analysis Poly A Rna Seq Libraries, supplied by Illumina Inc, used in various techniques. Bioz Stars score: 92/100, based on 4 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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    Illumina Inc mrna expression analysis
    Sialyl-glycolipid stage-specific embryonic antigen 4 (SSEA4) expression is regulated by CMP- N -acetylneuraminate-β-galactosamide-α-2,3-sialyltransferase 2 ( ST3GAL2 ). a Small interfering <t>RNA</t> (siRNA)–mediated knockdown of ST3GAL2 and ST3GAL3 significantly reduced the expression of their respective target messenger RNAs (mRNAs), but not the housekeeping gene GAPDH , as measured by quantitative real-time polymerase chain reaction. Each bar represents the expression intensity normalized to the Lipofectamine reagent (Life Technologies, Carlsbad, CA, USA)-only control. b Knockdown of ST3GAL2 significantly reduced the expression of SSEA4, whereas targeting of CD133 or the close paralog ST3GAL3 did not result in a significant change of SSEA4 expression. Knockdown of CD133 expression by the respective siRNA was used as a positive control of direct targeting. Each bar represents the mean fluorescence intensity (MFI) normalized to the Lipofectamine-only control. c Expression of ST3GAL2 <t>mRNA</t> was measured by two Affymetrix® (Affymetrix, Santa Clara, CA, USA) probes, 217650_x_at and 229336_at, in nine tumor models and plotted against the frequency of SSEA4-positive cells as measured by flow cytometry in the respective models, which showed a significant positive correlation. *** p
    Mrna Expression Analysis, supplied by Illumina Inc, used in various techniques. Bioz Stars score: 92/100, based on 30 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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    NanoString Technologies Inc nanostring mrna analysis
    <t>NanoString</t> <t>mRNA</t> analysis of six WHO grade I meningioma samples demonstrating the presence of mRNA transcripts for OCT4, NANOG, SOX2, KLF4, and c-MYC.
    Nanostring Mrna Analysis, supplied by NanoString Technologies Inc, used in various techniques. Bioz Stars score: 91/100, based on 26 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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    Illumina Inc microarray messenger rna expression analysis
    <t>NanoString</t> <t>mRNA</t> analysis of six WHO grade I meningioma samples demonstrating the presence of mRNA transcripts for OCT4, NANOG, SOX2, KLF4, and c-MYC.
    Microarray Messenger Rna Expression Analysis, supplied by Illumina Inc, used in various techniques. Bioz Stars score: 92/100, based on 3 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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    TaKaRa mrna analysis trizol reagent
    <t>NanoString</t> <t>mRNA</t> analysis of six WHO grade I meningioma samples demonstrating the presence of mRNA transcripts for OCT4, NANOG, SOX2, KLF4, and c-MYC.
    Mrna Analysis Trizol Reagent, supplied by TaKaRa, used in various techniques. Bioz Stars score: 90/100, based on 2 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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    Molecular Research Center inc real time polymerase chain reaction analysis total messenger rna mrna
    <t>NanoString</t> <t>mRNA</t> analysis of six WHO grade I meningioma samples demonstrating the presence of mRNA transcripts for OCT4, NANOG, SOX2, KLF4, and c-MYC.
    Real Time Polymerase Chain Reaction Analysis Total Messenger Rna Mrna, supplied by Molecular Research Center inc, used in various techniques. Bioz Stars score: 93/100, based on 2 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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    MOLOGEN mrna analysis
    <t>NanoString</t> <t>mRNA</t> analysis of six WHO grade I meningioma samples demonstrating the presence of mRNA transcripts for OCT4, NANOG, SOX2, KLF4, and c-MYC.
    Mrna Analysis, supplied by MOLOGEN, used in various techniques. Bioz Stars score: 93/100, based on 4 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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    TaKaRa mrna analysis
    miR-122 induced epithelial-like phenotypes and MET-like cellular marker alterations in miR-122-expressing HCC cells. ( A ) Phase contrast images showing the morphology of Sk-hep-1 and Bel-7402 cells expressing either the control vector or miR-122 (Original magnification: ×200). ( B ) <t>mRNA</t> levels of the indicated genes in miR-122-expressing Sk-hep-1 and Bel-7402 cells based on <t>qRT-PCR.</t> ( C ) Western blot analysis of the indicated proteins in miR-122-expressing Sk-hep-1 and Bel-7402 cells. ( D ) Gene ontology (GO) analysis of the up- and down-regulated genes (associated with EMT, migration, and metastasis) from miR-122- and empty vector-expressing Sk-hep-1 cells. We identified and classified mRNAs showing a greater than 2-fold effect in expression with P values below 0.05 using GO categories. ( E ) Graph illustrating the fold-changes in the expression of EMT-, migration- and metastasis-related genes between miR-122- and empty vector-expressing Sk-hep-1 cells. miR-122-expressing Sk-hep-1 and control cells were analyzed using Affymetrix arrays. To examine the effects of the loss of miR-122 expression in liver cancer cells, miR-122 expression was down-regulated using a miR-122 inhibitor in miR-122-overexpressing Bel-7402 cells (Figures 1A, B, C).
    Mrna Analysis, supplied by TaKaRa, used in various techniques. Bioz Stars score: 92/100, based on 338 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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    Agilent technologies mrna analysis
    Analysis of <t>mRNA</t> and protein from select genes in BJAB-MSCV and BJAB-RELΔTAD1 cells. (a ) Heat map of NF-κB-specific ABC-target gene expression in BJAB-RELΔTAD1 cells as compared to BJAB-MSCV cells. The map was created using the matrix2png program ( Pavlidis and Noble, 2003 ). The expression scale is shown below the map. ( b ) <t>RT-PCR</t> of the indicated mRNAs: BCL2, IRF4, CCR7, CD10, VCAM1, REL (as a positive control), and GAPDH (as a normalization control). Water control (-); BJAB-MSCV (MSCV); BJAB-RELΔTAD1 (RELΔTAD1). ( c ) Western blotting for REL, VCAM1, BCL2, CD40, CD10 and β-actin (as a normalization control) of extracts from BJAB-MSCV cells (MSCV) and BJAB-RELΔTAD1 cells (RELΔTAD1).
    Mrna Analysis, supplied by Agilent technologies, used in various techniques. Bioz Stars score: 92/100, based on 77 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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    Promega mrna analysis
    Analysis of <t>mRNA</t> and protein from select genes in BJAB-MSCV and BJAB-RELΔTAD1 cells. (a ) Heat map of NF-κB-specific ABC-target gene expression in BJAB-RELΔTAD1 cells as compared to BJAB-MSCV cells. The map was created using the matrix2png program ( Pavlidis and Noble, 2003 ). The expression scale is shown below the map. ( b ) <t>RT-PCR</t> of the indicated mRNAs: BCL2, IRF4, CCR7, CD10, VCAM1, REL (as a positive control), and GAPDH (as a normalization control). Water control (-); BJAB-MSCV (MSCV); BJAB-RELΔTAD1 (RELΔTAD1). ( c ) Western blotting for REL, VCAM1, BCL2, CD40, CD10 and β-actin (as a normalization control) of extracts from BJAB-MSCV cells (MSCV) and BJAB-RELΔTAD1 cells (RELΔTAD1).
    Mrna Analysis, supplied by Promega, used in various techniques. Bioz Stars score: 92/100, based on 105 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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    Aros Applied Biotechnology analysis mrna
    Analysis of <t>mRNA</t> and protein from select genes in BJAB-MSCV and BJAB-RELΔTAD1 cells. (a ) Heat map of NF-κB-specific ABC-target gene expression in BJAB-RELΔTAD1 cells as compared to BJAB-MSCV cells. The map was created using the matrix2png program ( Pavlidis and Noble, 2003 ). The expression scale is shown below the map. ( b ) <t>RT-PCR</t> of the indicated mRNAs: BCL2, IRF4, CCR7, CD10, VCAM1, REL (as a positive control), and GAPDH (as a normalization control). Water control (-); BJAB-MSCV (MSCV); BJAB-RELΔTAD1 (RELΔTAD1). ( c ) Western blotting for REL, VCAM1, BCL2, CD40, CD10 and β-actin (as a normalization control) of extracts from BJAB-MSCV cells (MSCV) and BJAB-RELΔTAD1 cells (RELΔTAD1).
    Analysis Mrna, supplied by Aros Applied Biotechnology, used in various techniques. Bioz Stars score: 88/100, based on 3 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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    Allen Institute for Brain Science mrna analysis
    Analysis of <t>mRNA</t> and protein from select genes in BJAB-MSCV and BJAB-RELΔTAD1 cells. (a ) Heat map of NF-κB-specific ABC-target gene expression in BJAB-RELΔTAD1 cells as compared to BJAB-MSCV cells. The map was created using the matrix2png program ( Pavlidis and Noble, 2003 ). The expression scale is shown below the map. ( b ) <t>RT-PCR</t> of the indicated mRNAs: BCL2, IRF4, CCR7, CD10, VCAM1, REL (as a positive control), and GAPDH (as a normalization control). Water control (-); BJAB-MSCV (MSCV); BJAB-RELΔTAD1 (RELΔTAD1). ( c ) Western blotting for REL, VCAM1, BCL2, CD40, CD10 and β-actin (as a normalization control) of extracts from BJAB-MSCV cells (MSCV) and BJAB-RELΔTAD1 cells (RELΔTAD1).
    Mrna Analysis, supplied by Allen Institute for Brain Science, used in various techniques. Bioz Stars score: 92/100, based on 4 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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    Illumina Inc mrna expression analysis metabric
    IGF-1 expression is increased in human ILC versus IDC. ( a , b ) Boxplots of expression for CDH1 , IGF1R and IGF1 genes from <t>METABRIC</t> ( a ) and TCGA ( b ) microarray <t>mRNA</t> expression datasets. All data points are ER-positive breast cancer samples. For further details, see Supplementary Table S5 . Boxplots display the median (line), 25th and 75th percentiles (box) and 1.5 × interquartile range (whiskers). Light blue, IDC; dark blue, ILC. **** P
    Mrna Expression Analysis Metabric, supplied by Illumina Inc, used in various techniques. Bioz Stars score: 92/100, based on 4 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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    Bio-Rad mrna analysis mrna levels
    IGF-1 expression is increased in human ILC versus IDC. ( a , b ) Boxplots of expression for CDH1 , IGF1R and IGF1 genes from <t>METABRIC</t> ( a ) and TCGA ( b ) microarray <t>mRNA</t> expression datasets. All data points are ER-positive breast cancer samples. For further details, see Supplementary Table S5 . Boxplots display the median (line), 25th and 75th percentiles (box) and 1.5 × interquartile range (whiskers). Light blue, IDC; dark blue, ILC. **** P
    Mrna Analysis Mrna Levels, supplied by Bio-Rad, used in various techniques. Bioz Stars score: 85/100, based on 3 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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    Millipore mrna analysis rna
    Kir family isoform profiling strategy. 1) Alignment of Kir channel isoform nucleic acid sequences revealed regions of high sequence similarity. Two conserved motifs, G(Y/F)G and ILE, in the pore and C terminal domains respectively, were selected and Kir isoforms cloned. 2) Poly A + <t>RNA</t> was isolated from a single cell type and 3) degenerate ( dg ) PCR performed with sub-family centred primers. Degenerate PCR products were radio end-labelled, recovered free of unincorporated nucleotides and cleaved with frequent-cutting restriction enzyme (ScrF I) and resolved by agarose gel electrophoresis.
    Mrna Analysis Rna, supplied by Millipore, used in various techniques. Bioz Stars score: 99/100, based on 4 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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    Image Search Results


    The LINC complex in mRNA export. ( A ) Efficiency of Nesprin-2 knockdown (KD) by shRNA treatment in HeLa cells is shown by immunofluorescence with Nesprin-2 specific antibodies pAbK1 and by western blot analysis. The quantitative determination of the knockdown is depicted in a bar graph (left). Scale bar, 5 µm. ( B ) RNA FISH analysis of Nesprin-2 depleted cells as shown by immunofluorescence analysis. Left side, distribution of the N/C intensity range. ( C ) The mean nuclear/cytoplasmic (N/C) intensity ratio of control and Nesprin-2 KD cells. The values represent the mean ± SD of more than 100 cells analyzed. ( D ) Immunofluorescence analysis of GFP-SUN1-ΔSUN expressing cells. Nesprin-2 was detected by pAbK1. Scale bar, 10 µm.

    Journal: Scientific Reports

    Article Title: The function of the inner nuclear envelope protein SUN1 in mRNA export is regulated by phosphorylation

    doi: 10.1038/s41598-017-08837-7

    Figure Lengend Snippet: The LINC complex in mRNA export. ( A ) Efficiency of Nesprin-2 knockdown (KD) by shRNA treatment in HeLa cells is shown by immunofluorescence with Nesprin-2 specific antibodies pAbK1 and by western blot analysis. The quantitative determination of the knockdown is depicted in a bar graph (left). Scale bar, 5 µm. ( B ) RNA FISH analysis of Nesprin-2 depleted cells as shown by immunofluorescence analysis. Left side, distribution of the N/C intensity range. ( C ) The mean nuclear/cytoplasmic (N/C) intensity ratio of control and Nesprin-2 KD cells. The values represent the mean ± SD of more than 100 cells analyzed. ( D ) Immunofluorescence analysis of GFP-SUN1-ΔSUN expressing cells. Nesprin-2 was detected by pAbK1. Scale bar, 10 µm.

    Article Snippet: Also, we relied in our studies on RNA-Seq for mRNA analysis, whereas the study by Wickramasinghe used Expression Bead Chips (Illumina) for hybridization .

    Techniques: shRNA, Immunofluorescence, Western Blot, Fluorescence In Situ Hybridization, Expressing

    Impact of serine 110 or 113 point mutations in the PKC recognition motif on mRNA export. ( A ) RNA FISH analysis shows differential distribution of nuclear and cytoplasmic RNA in HeLa cells treated with siRNA specific for SUN1 and transfected with GFP-SUN1 R expression vectors carrying the indicated mutations. Cells not expressing GFP fusion proteins represent SUN1 depleted cells. Size bar, 10 µm. ( B ) The nuclear/cytoplasmic (N/C) ratio of the poly(A)+RNA distribution in the various strains as determined by measuring the fluorescence intensity. The percentages of cells in the indicated N/C intensity ranges are shown. The results from one typical experiment are shown. The graph on the right shows the mean values with standard deviations (P value, ***

    Journal: Scientific Reports

    Article Title: The function of the inner nuclear envelope protein SUN1 in mRNA export is regulated by phosphorylation

    doi: 10.1038/s41598-017-08837-7

    Figure Lengend Snippet: Impact of serine 110 or 113 point mutations in the PKC recognition motif on mRNA export. ( A ) RNA FISH analysis shows differential distribution of nuclear and cytoplasmic RNA in HeLa cells treated with siRNA specific for SUN1 and transfected with GFP-SUN1 R expression vectors carrying the indicated mutations. Cells not expressing GFP fusion proteins represent SUN1 depleted cells. Size bar, 10 µm. ( B ) The nuclear/cytoplasmic (N/C) ratio of the poly(A)+RNA distribution in the various strains as determined by measuring the fluorescence intensity. The percentages of cells in the indicated N/C intensity ranges are shown. The results from one typical experiment are shown. The graph on the right shows the mean values with standard deviations (P value, ***

    Article Snippet: Also, we relied in our studies on RNA-Seq for mRNA analysis, whereas the study by Wickramasinghe used Expression Bead Chips (Illumina) for hybridization .

    Techniques: Fluorescence In Situ Hybridization, Transfection, Expressing, Fluorescence, Significance Assay

    Depleting HOXA5 perturbs epithelial characteristics A . Quantitative RT-PCR analysis of HOXA5 mRNA expression level in MCF10A-scr and HOXA5 depleted MCF10A -sh528 and MCF10A-sh529 cells. B . Western blot analysis of HOXA5 protein level in MCF10A-scr and HOXA5 depleted -sh528 and -sh529 cells. β-actin serves as the loading control. C . Hierarchical clustering heatmap showing genes differentially expressed between MCF10A-scr cells (n=2, biological duplicates) and HOXA5-depleted MCF10A-sh528 and MCF10A-sh529 cells (n=2 each, biological duplicates) that have an FDR

    Journal: Oncogene

    Article Title: HOXA5 determines cell fate transition and impedes tumor initiation and progression in breast cancer through regulation of E-cadherin and CD24

    doi: 10.1038/onc.2016.95

    Figure Lengend Snippet: Depleting HOXA5 perturbs epithelial characteristics A . Quantitative RT-PCR analysis of HOXA5 mRNA expression level in MCF10A-scr and HOXA5 depleted MCF10A -sh528 and MCF10A-sh529 cells. B . Western blot analysis of HOXA5 protein level in MCF10A-scr and HOXA5 depleted -sh528 and -sh529 cells. β-actin serves as the loading control. C . Hierarchical clustering heatmap showing genes differentially expressed between MCF10A-scr cells (n=2, biological duplicates) and HOXA5-depleted MCF10A-sh528 and MCF10A-sh529 cells (n=2 each, biological duplicates) that have an FDR

    Article Snippet: Gene expression array and analysis mRNA from MCF10A cells and MCF10A-shHOXA5 clones was hybridized onto Illumina’s HumanHT-12v4 BeadChip (Illumina, San Diego).

    Techniques: Quantitative RT-PCR, Expressing, Western Blot

    Sialyl-glycolipid stage-specific embryonic antigen 4 (SSEA4) expression is regulated by CMP- N -acetylneuraminate-β-galactosamide-α-2,3-sialyltransferase 2 ( ST3GAL2 ). a Small interfering RNA (siRNA)–mediated knockdown of ST3GAL2 and ST3GAL3 significantly reduced the expression of their respective target messenger RNAs (mRNAs), but not the housekeeping gene GAPDH , as measured by quantitative real-time polymerase chain reaction. Each bar represents the expression intensity normalized to the Lipofectamine reagent (Life Technologies, Carlsbad, CA, USA)-only control. b Knockdown of ST3GAL2 significantly reduced the expression of SSEA4, whereas targeting of CD133 or the close paralog ST3GAL3 did not result in a significant change of SSEA4 expression. Knockdown of CD133 expression by the respective siRNA was used as a positive control of direct targeting. Each bar represents the mean fluorescence intensity (MFI) normalized to the Lipofectamine-only control. c Expression of ST3GAL2 mRNA was measured by two Affymetrix® (Affymetrix, Santa Clara, CA, USA) probes, 217650_x_at and 229336_at, in nine tumor models and plotted against the frequency of SSEA4-positive cells as measured by flow cytometry in the respective models, which showed a significant positive correlation. *** p

    Journal: Breast Cancer Research : BCR

    Article Title: The sialyl-glycolipid stage-specific embryonic antigen 4 marks a subpopulation of chemotherapy-resistant breast cancer cells with mesenchymal features

    doi: 10.1186/s13058-015-0652-6

    Figure Lengend Snippet: Sialyl-glycolipid stage-specific embryonic antigen 4 (SSEA4) expression is regulated by CMP- N -acetylneuraminate-β-galactosamide-α-2,3-sialyltransferase 2 ( ST3GAL2 ). a Small interfering RNA (siRNA)–mediated knockdown of ST3GAL2 and ST3GAL3 significantly reduced the expression of their respective target messenger RNAs (mRNAs), but not the housekeeping gene GAPDH , as measured by quantitative real-time polymerase chain reaction. Each bar represents the expression intensity normalized to the Lipofectamine reagent (Life Technologies, Carlsbad, CA, USA)-only control. b Knockdown of ST3GAL2 significantly reduced the expression of SSEA4, whereas targeting of CD133 or the close paralog ST3GAL3 did not result in a significant change of SSEA4 expression. Knockdown of CD133 expression by the respective siRNA was used as a positive control of direct targeting. Each bar represents the mean fluorescence intensity (MFI) normalized to the Lipofectamine-only control. c Expression of ST3GAL2 mRNA was measured by two Affymetrix® (Affymetrix, Santa Clara, CA, USA) probes, 217650_x_at and 229336_at, in nine tumor models and plotted against the frequency of SSEA4-positive cells as measured by flow cytometry in the respective models, which showed a significant positive correlation. *** p

    Article Snippet: Microarray hybridization and data analysis Messenger RNA (mRNA) and microRNA (miRNA) expression profiling was performed using Agilent microarrays (Agilent Technologies, Santa Clara, CA, USA) according to the manufacturer’s instructions.

    Techniques: Expressing, Small Interfering RNA, Real-time Polymerase Chain Reaction, Positive Control, Fluorescence, Flow Cytometry, Cytometry

    NanoString mRNA analysis of six WHO grade I meningioma samples demonstrating the presence of mRNA transcripts for OCT4, NANOG, SOX2, KLF4, and c-MYC.

    Journal: Frontiers in Surgery

    Article Title: Expression of Embryonic Stem Cell Markers on the Microvessels of WHO Grade I Meningioma

    doi: 10.3389/fsurg.2018.00065

    Figure Lengend Snippet: NanoString mRNA analysis of six WHO grade I meningioma samples demonstrating the presence of mRNA transcripts for OCT4, NANOG, SOX2, KLF4, and c-MYC.

    Article Snippet: Nanostring mRNA analysis RNA was extracted from snap-frozen MG samples of the same six patients used for CISH, were subjected to NanoString mRNA analysis (NanoString Technologies, Seattle, WA, United States) for mRNA transcripts, OCT4 (POU5F1, NM_002701.4), NANOG (NM_024865.2), SOX2 (NM_003106.2), KLF4 (NM_004235.4), c-MYC (NM_002467.3) and the house-keeping gene GusB (NM_000181.1), performed by New Zealand Genomics (Dunedin, New Zealand).

    Techniques:

    miR-122 induced epithelial-like phenotypes and MET-like cellular marker alterations in miR-122-expressing HCC cells. ( A ) Phase contrast images showing the morphology of Sk-hep-1 and Bel-7402 cells expressing either the control vector or miR-122 (Original magnification: ×200). ( B ) mRNA levels of the indicated genes in miR-122-expressing Sk-hep-1 and Bel-7402 cells based on qRT-PCR. ( C ) Western blot analysis of the indicated proteins in miR-122-expressing Sk-hep-1 and Bel-7402 cells. ( D ) Gene ontology (GO) analysis of the up- and down-regulated genes (associated with EMT, migration, and metastasis) from miR-122- and empty vector-expressing Sk-hep-1 cells. We identified and classified mRNAs showing a greater than 2-fold effect in expression with P values below 0.05 using GO categories. ( E ) Graph illustrating the fold-changes in the expression of EMT-, migration- and metastasis-related genes between miR-122- and empty vector-expressing Sk-hep-1 cells. miR-122-expressing Sk-hep-1 and control cells were analyzed using Affymetrix arrays. To examine the effects of the loss of miR-122 expression in liver cancer cells, miR-122 expression was down-regulated using a miR-122 inhibitor in miR-122-overexpressing Bel-7402 cells (Figures 1A, B, C).

    Journal: PLoS ONE

    Article Title: MicroRNA-122 Triggers Mesenchymal-Epithelial Transition and Suppresses Hepatocellular Carcinoma Cell Motility and Invasion by Targeting RhoA

    doi: 10.1371/journal.pone.0101330

    Figure Lengend Snippet: miR-122 induced epithelial-like phenotypes and MET-like cellular marker alterations in miR-122-expressing HCC cells. ( A ) Phase contrast images showing the morphology of Sk-hep-1 and Bel-7402 cells expressing either the control vector or miR-122 (Original magnification: ×200). ( B ) mRNA levels of the indicated genes in miR-122-expressing Sk-hep-1 and Bel-7402 cells based on qRT-PCR. ( C ) Western blot analysis of the indicated proteins in miR-122-expressing Sk-hep-1 and Bel-7402 cells. ( D ) Gene ontology (GO) analysis of the up- and down-regulated genes (associated with EMT, migration, and metastasis) from miR-122- and empty vector-expressing Sk-hep-1 cells. We identified and classified mRNAs showing a greater than 2-fold effect in expression with P values below 0.05 using GO categories. ( E ) Graph illustrating the fold-changes in the expression of EMT-, migration- and metastasis-related genes between miR-122- and empty vector-expressing Sk-hep-1 cells. miR-122-expressing Sk-hep-1 and control cells were analyzed using Affymetrix arrays. To examine the effects of the loss of miR-122 expression in liver cancer cells, miR-122 expression was down-regulated using a miR-122 inhibitor in miR-122-overexpressing Bel-7402 cells (Figures 1A, B, C).

    Article Snippet: Quantitative real-time PCR (qRT-PCR) for the expression of mRNA analysis was performed using SYBR Green qRT-PCR master mix (TaKaRa) as described using GAPDH for normalization on a Stratagene Mx3005P qRT-PCR System.

    Techniques: Marker, Expressing, Plasmid Preparation, Quantitative RT-PCR, Western Blot, Migration

    Analysis of mRNA and protein from select genes in BJAB-MSCV and BJAB-RELΔTAD1 cells. (a ) Heat map of NF-κB-specific ABC-target gene expression in BJAB-RELΔTAD1 cells as compared to BJAB-MSCV cells. The map was created using the matrix2png program ( Pavlidis and Noble, 2003 ). The expression scale is shown below the map. ( b ) RT-PCR of the indicated mRNAs: BCL2, IRF4, CCR7, CD10, VCAM1, REL (as a positive control), and GAPDH (as a normalization control). Water control (-); BJAB-MSCV (MSCV); BJAB-RELΔTAD1 (RELΔTAD1). ( c ) Western blotting for REL, VCAM1, BCL2, CD40, CD10 and β-actin (as a normalization control) of extracts from BJAB-MSCV cells (MSCV) and BJAB-RELΔTAD1 cells (RELΔTAD1).

    Journal: Oncogene

    Article Title: Overexpression of an activated REL mutant enhances the transformed state of the human B-lymphoma BJAB cell line and alters its gene expression profile

    doi: 10.1038/onc.2009.74

    Figure Lengend Snippet: Analysis of mRNA and protein from select genes in BJAB-MSCV and BJAB-RELΔTAD1 cells. (a ) Heat map of NF-κB-specific ABC-target gene expression in BJAB-RELΔTAD1 cells as compared to BJAB-MSCV cells. The map was created using the matrix2png program ( Pavlidis and Noble, 2003 ). The expression scale is shown below the map. ( b ) RT-PCR of the indicated mRNAs: BCL2, IRF4, CCR7, CD10, VCAM1, REL (as a positive control), and GAPDH (as a normalization control). Water control (-); BJAB-MSCV (MSCV); BJAB-RELΔTAD1 (RELΔTAD1). ( c ) Western blotting for REL, VCAM1, BCL2, CD40, CD10 and β-actin (as a normalization control) of extracts from BJAB-MSCV cells (MSCV) and BJAB-RELΔTAD1 cells (RELΔTAD1).

    Article Snippet: mRNA analysis: microarrays, data analysis and reverse transcriptase-PCR The Agilent Whole Human Genome Microarray platform (product number G4112, Agilent Technology, Santa Clara, CA).

    Techniques: Expressing, Reverse Transcription Polymerase Chain Reaction, Positive Control, Western Blot

    IGF-1 expression is increased in human ILC versus IDC. ( a , b ) Boxplots of expression for CDH1 , IGF1R and IGF1 genes from METABRIC ( a ) and TCGA ( b ) microarray mRNA expression datasets. All data points are ER-positive breast cancer samples. For further details, see Supplementary Table S5 . Boxplots display the median (line), 25th and 75th percentiles (box) and 1.5 × interquartile range (whiskers). Light blue, IDC; dark blue, ILC. **** P

    Journal: Scientific Reports

    Article Title: E-cadherin loss induces targetable autocrine activation of growth factor signalling in lobular breast cancer

    doi: 10.1038/s41598-018-33525-5

    Figure Lengend Snippet: IGF-1 expression is increased in human ILC versus IDC. ( a , b ) Boxplots of expression for CDH1 , IGF1R and IGF1 genes from METABRIC ( a ) and TCGA ( b ) microarray mRNA expression datasets. All data points are ER-positive breast cancer samples. For further details, see Supplementary Table S5 . Boxplots display the median (line), 25th and 75th percentiles (box) and 1.5 × interquartile range (whiskers). Light blue, IDC; dark blue, ILC. **** P

    Article Snippet: mRNA expression analysis METABRIC (Illumina v3 microarray) and TCGA provisional (microarray and RNA-Seq v2) mRNA expression data (expression Z -scores; Z -score threshold ±2) were extracted from the cBioportal website ( http://www.cbioportal.org/ ) for the genes of interest.

    Techniques: Expressing, Microarray

    Kir family isoform profiling strategy. 1) Alignment of Kir channel isoform nucleic acid sequences revealed regions of high sequence similarity. Two conserved motifs, G(Y/F)G and ILE, in the pore and C terminal domains respectively, were selected and Kir isoforms cloned. 2) Poly A + RNA was isolated from a single cell type and 3) degenerate ( dg ) PCR performed with sub-family centred primers. Degenerate PCR products were radio end-labelled, recovered free of unincorporated nucleotides and cleaved with frequent-cutting restriction enzyme (ScrF I) and resolved by agarose gel electrophoresis.

    Journal: BMC Genomics

    Article Title: Multigene family isoform profiling from blood cell lineages

    doi: 10.1186/1471-2164-3-22

    Figure Lengend Snippet: Kir family isoform profiling strategy. 1) Alignment of Kir channel isoform nucleic acid sequences revealed regions of high sequence similarity. Two conserved motifs, G(Y/F)G and ILE, in the pore and C terminal domains respectively, were selected and Kir isoforms cloned. 2) Poly A + RNA was isolated from a single cell type and 3) degenerate ( dg ) PCR performed with sub-family centred primers. Degenerate PCR products were radio end-labelled, recovered free of unincorporated nucleotides and cleaved with frequent-cutting restriction enzyme (ScrF I) and resolved by agarose gel electrophoresis.

    Article Snippet: mRNA analysis RNA was extracted using TRI Reagent (Sigma, Poole, UK) and stored in 70% ethanol at -70°C.

    Techniques: Sequencing, Isolation, Polymerase Chain Reaction, Agarose Gel Electrophoresis