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Profiler pcr array

Manufactured by Qiagen
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The Profiler PCR Array is a lab equipment product by Qiagen. It is a pre-configured PCR array designed for rapid and reliable gene expression profiling.

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Lab products found in correlation

Rnaeasy micro kit, by Qiagen (2 mentions) Trizol, by Thermo Fisher Scientific (2 mentions) High capacity cdna reverse transcription kit, by Thermo Fisher Scientific (2 mentions) Agilent 2100 bioanalyzer, by Agilent Technologies (2 mentions) First strand kit, by Qiagen (2 mentions) Rnaeasy plus micro kit, by Qiagen (2 mentions) Smarter stranded total rna seq kit, by Takara Bio (2 mentions) Pico input mammalian, by Takara Bio (2 mentions) D1000 screentape, by Agilent Technologies (2 mentions) Qubit rna assay kit, by Thermo Fisher Scientific (2 mentions) Nextseq 500, by Illumina (2 mentions) Steponeplus real time pcr system, by Thermo Fisher Scientific (2 mentions) 7500 instrument, by Thermo Fisher Scientific (1 mentions) Rt2 real time sybr green pcr master mix, by Qiagen (1 mentions) Rnaeasy mini kit, by Qiagen (1 mentions) Rt2 sybr green rox fast mastermix, by Qiagen (1 mentions) Rotor gene 3000, by Qiagen (1 mentions) Faststart sybr green master, by Roche (1 mentions) Qscript cdna synthesis kit, by Quantabio (1 mentions) Rlt lysis buffer, by Qiagen (1 mentions)

19 protocols using profiler pcr array

1

RNA Isolation and qPCR Analysis of Inflammatory and Fibrosis Genes

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Harvested tissues were stabilized with RNAlater (Qiagen) and homogenized
in RLT lysis buffer (Qiagen) with gentleMACS Dissociator (Miltenyi Biotec).
QIAshredder and RNeasy Plus Kits (Qiagen) was used to isolate RNA following
manufacturer instructions. cDNA was prepared using qScript cDNA synthesis kit
(Quantabio). Quantitative real-time PCR was performed with CFX96 Touch Real Time
PCR Detection System (Bio-Rad) as described previously9 (link). Primers used are listed in Supplemental Table 1.
Inflammatory Cytokines and Receptors RT2 (link) Profiler PCR Array (Qiagen, Cat# PAMM-011Z) and Fibrosis
RT2 (link) Profiler PCR Array
(Qiagen, Cat# PAMM-120Z) were run according to the manufacturer’s
protocol. Data analysis was performed with the data analysis center tools
(Qiagen).
Lu S., Strand K.A., Mutryn M.F., Tucker R.M., Jolly A.J., Furgeson S.B., Moulton K.S., Nemenoff R.A, & Weiser-Evans M.C. (2019). PTEN protects against Angiotensin II-induced pathological vascular fibrosis and remodeling. Arteriosclerosis, thrombosis, and vascular biology, 40(2), 394-403.
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2

NF-κB Signaling Target Expression Analysis

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Quantitative mRNA expression analysis of genes was performed with the human NF-κB signaling target RT2 (link) profiler PCR array (SABiosciences, QIAGEN). Total RNA was extracted from HeLa cells using RNAEasy Mini Kit (Qiagen). Reverse transcription was performed on total RNA (1 μg) using RT2 (link) First strand kit following the manufacturer’s instruction, then real-time PCR array was performed in a 7500 instrument (Applied Biosystems) with the RT2 Real-Time SYBR Green PCR Master Mix (SABiosciences, QIAGEN) according to the manufacturer’s instruction.
Ben Khalifa Y., Luco S., Besson B., Sonthonnax F., Archambaud M., Grimes J.M., Larrous F, & Bourhy H. (2016). The matrix protein of rabies virus binds to RelAp43 to modulate NF-κB-dependent gene expression related to innate immunity. Scientific Reports, 6, 39420.
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3

Real-time PCR Analysis of Mesenchymal Stem Cells

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Real-time PCRs were carried out using the designed primers at a concentration of 300 nM and FastStart SYBR Green Master (Roche, Monza, Italy) on a Rotor-Gene 3000 (Corbett Research, Sydney, Australia). Real-time PCR was also performed according to the user’s manual for the human mesenchymal stem cell Profiler PCR Array (SABiosciences, Frederick, MD, USA) and using RT2 SYBR Green ROX FAST Master Mix (Qiagen, Milan, Italy). The data were analyzed using Excel-based PCR Array Data Analysis Templates (SABiosciences). The thermal cycling conditions were as follows: 15 min denaturation at 95 °C, followed by 40 cycles of 15 s denaturation at 95 °C, annealing for 30 s at 60 °C, and 20 s elongation at 72 °C. Differences in gene expression were evaluated by the 2ΔΔCt method. Values were normalized to the expression of glyceraldehyde-3-phosphate dehydrogenase (GAPDH) internal reference whose abundance did not change under our experimental conditions. Experiments were performed with three different cell preparations and repeated at least three times.
The results are reported as ratios with respect to the mRNA expression of enzymatic fat digestion.
De Francesco F., Mannucci S., Conti G., Dai Prè E., Sbarbati A, & Riccio M. (2018). A Non-Enzymatic Method to Obtain a Fat Tissue Derivative Highly Enriched in Adipose Stem Cells (ASCs) from Human Lipoaspirates: Preliminary Results. International Journal of Molecular Sciences, 19(7), 2061.
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4

Dura Mater RNA Profiling Using PCR Array

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Dura mater was homogenized using Trizol (Invitrogen), and total RNA was extracted using the RNAeasy MicroKit-Qiagen #74004. RNA integrity and concentration were assessed using an Agilent 2100 bioanalyzer (Agilent Technologies, Palo Alto, California). Samples with RIN values equal to or above 8 were converted to cDNA using the Applied Biosystems™ High-Capacity cDNA Reverse Transcription Kit (#4368814). The cDNA was used on the real-time RT (Edwards et al., 2003 (link)) Profiler PCR Array (QIAGEN, Cat. no. CLAM38697) in combination with RT (Edwards et al., 2003 (link)) SYBR®Green qPCR Mastermix (Cat. no. 330503). Each array plate contained one set of 96 wells with a panel of Qiagen designed primers for mouse IL-6, TNF alpha, Hdc, Tph1, VEGF-C, and CMA1. Positive PCR controls were included in each 96-well set on each plate. Glyceraldehyde-3-phosphate-dehydrogenase (GAPDH) was used as the assay reference gene. Each array contained samples from control and test groups.
Duque-Wilckens N., Teis R., Sarno E., Stoelting F., Khalid S., Dairi Z., Douma A., Maradiaga N., Hench S., Dharshika C.D., Thelen K.M., Gulbransen B., Robison A.J, & Moeser A.J. (2022). Early life adversity drives sex-specific anhedonia and meningeal immune gene expression through mast cell activation. Brain, behavior, and immunity, 103, 73-84.
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5

Dura Mater RNA Profiling Using PCR Array

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Dura mater was homogenized using Trizol (Invitrogen), and total RNA was extracted using the RNAeasy MicroKit-Qiagen #74004. RNA integrity and concentration were assessed using an Agilent 2100 bioanalyzer (Agilent Technologies, Palo Alto, California). Samples with RIN values equal to or above 8 were converted to cDNA using the Applied Biosystems™ High-Capacity cDNA Reverse Transcription Kit (#4368814). The cDNA was used on the real-time RT (Edwards et al., 2003 (link)) Profiler PCR Array (QIAGEN, Cat. no. CLAM38697) in combination with RT (Edwards et al., 2003 (link)) SYBR®Green qPCR Mastermix (Cat. no. 330503). Each array plate contained one set of 96 wells with a panel of Qiagen designed primers for mouse IL-6, TNF alpha, Hdc, Tph1, VEGF-C, and CMA1. Positive PCR controls were included in each 96-well set on each plate. Glyceraldehyde-3-phosphate-dehydrogenase (GAPDH) was used as the assay reference gene. Each array contained samples from control and test groups.
Duque-Wilckens N., Teis R., Sarno E., Stoelting F., Khalid S., Dairi Z., Douma A., Maradiaga N., Hench S., Dharshika C.D., Thelen K.M., Gulbransen B., Robison A.J, & Moeser A.J. (2022). Early life adversity drives sex-specific anhedonia and meningeal immune gene expression through mast cell activation. Brain, behavior, and immunity, 103, 73-84.
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6

Glucose Metabolism Gene Expression Profiling

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A total RNA was extracted using E.Z.N.A Total RNA kit I (OMEGA Biotek, Nocross, USA) according to the manufacturer’s protocol and reverse transcribed to cDNA using Reverse transcriptase First strand kit (Qiagen, Hilden, Germany). The human glucose metabolism RT2 (link) Profiler PCR Array (Qiagen, Hilden, Germany) was used to screen 84 genes in a LightCycler 480 Real-time PCR system using the LightCycler 480 SYBR Green I Master (Roche, Basel, Switzerland). For data analysis, fold-changes in each gene expression were calculated using the ΔΔCt method, after normalization to housekeeping gene (RPLP0) using a data analysis RT2 (link) profiler platform (http://pcrdataanalysis.sabiosciences.com/pcr/arrayanalysis.php).
Soukupova J., Malfettone A., Hyroššová P., Hernández-Alvarez M.I., Peñuelas-Haro I., Bertran E., Junza A., Capellades J., Giannelli G., Yanes O., Zorzano A., Perales J.C, & Fabregat I. (2017). Role of the Transforming Growth Factor-β in regulating hepatocellular carcinoma oxidative metabolism. Scientific Reports, 7, 12486.
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7

Statistical Analysis of Molecular Data

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Profiler PCR Array data were analyzed using the Qiagen web-based software. qRT-PCR data were analyzed using 1-way ANOVAs followed by posthoc tests (Bonferroni) or planned comparisons (2-tailed Student tests) (SPSS 20). Western-blot data were also analyzed by 1-way ANOVAs followed by posthoc tests (Fisher’s LSD) or planned comparisons (StatView, SAS). Individual planned comparisons were used in specific cases where the difference between SR and SS rats was based on an empirical framework. Correlations between RT2 Profiler PCR Arrays and qRT-PCR data were assessed using linear regression (SPSS 20). All data are presented as means ± SEM and considered statistically significant when P ≤ .05.
Torres O.V., Jayanthi S., McCoy M.T, & Cadet J.L. (2017). Selective Activation of Striatal NGF-TrkA/p75NTR/MAPK Intracellular Signaling in Rats That Show Suppression of Methamphetamine Intake 30 Days following Drug Abstinence. International Journal of Neuropsychopharmacology, 21(3), 281-290.
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8

Chemokine Expression Profiling in Hdc-GFP Cells

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cDNA from isolated HdcGFP cells was used in the RT2 (link) Profiler PCR Array (Qiagen) for Mouse Chemokines and Receptors. The manufacturer’s protocols were followed.
Jiang Z., Waterbury Q.T., Malagola E., Fu N., Kim W., Ochiai Y., Wu F., Guha C., Shawber C.J., Yan K.S, & Wang T.C. (2023). Microbial-Dependent Recruitment of Immature Myeloid Cells Promotes Intestinal Regeneration. Cellular and Molecular Gastroenterology and Hepatology, 17(3), 321-346.
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9

Stem Cell Signaling Profiling with Icaritin

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Quantitative PCR array analysis was performed using mouse Stem Cell Signaling RT. Profiler PCR Array to examine the expression of 84 genes (Qiagen). mESCs were treated with or without 10 nM Icaritin for 24 h. Total RNA was extracted, reverse transcribed and PCR amplified according to manufacturer’s instructions. Data were analyzed using SABiosciences RT2 Profiler PCR Data Analysis software, available at http://pcrdataanalysis.sabiosciences.com/pcr/arrayanalysis.php.
Tsang W.P., Zhang F., He Q., Cai W., Huang J., Chan W.Y., Shen Z, & Wan C. (2017). Icaritin enhances mESC self-renewal through upregulating core pluripotency transcription factors mediated by ERα. Scientific Reports, 7, 40894.
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10

Human Stem Cell Gene Expression Analysis

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A human stem cell RT2 (link) Profiler PCR array (Qiagen Inc., Valencia, CA, USA) was used to evaluate the expression of 84 specific genes. Cells were treated with JNK-IN-8 (2.5 μM) for 48 h, and then total RNA was extracted from the cells using the miRNeasy mini kit (Qiagen Inc.) according to the manufacturer’s instructions. cDNA was synthesized using the RT2 (link) First Strand Kit (Qiagen Inc.) and dispensed into the RT2 (link) Profiler PCR array. Each PCR array included five housekeeping genes (B2M, HPRT1, RPL13A, GAPDH, and ACTB), a control for genomic DNA contamination, a reverse transcription control, and a positive PCR control. The data were analyzed using Qiagen software (http://www.sabiosciences.com/pcr/arrayanalysis.php). The criteria used to define differential expression of genes between each pair of classes tested were P < 0.05 and false discovery rate < 0.2.
Xie X., Kaoud T.S., Edupuganti R., Zhang T., Kogawa T., Zhao Y., Chauhan G.B., Giannoukos D.N., Qi Y., Tripathy D., Wang J., Gray N.S., Dalby K.N., Bartholomeusz C, & Ueno N.T. (2016). c-Jun N-terminal kinase promotes stem cell phenotype in triple-negative breast cancer through up-regulation of Notch1 via activation of c-Jun. Oncogene, 36(18), 2599-2608.
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