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Rq manager software

Manufactured by Thermo Fisher Scientific
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RQ Manager software is a data management and analysis tool developed by Thermo Fisher Scientific. It is designed to work with the company's line of respiratory gas analysis instruments, providing users with a platform to collect, organize, and interpret respiratory quotient (RQ) data.

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Lab products found in correlation

High capacity cdna reverse transcription kit, by Thermo Fisher Scientific (10 mentions) 7900ht fast real time pcr system, by Thermo Fisher Scientific (10 mentions) Trizol reagent, by Thermo Fisher Scientific (6 mentions) Sds 2, by Thermo Fisher Scientific (5 mentions) Rneasy kit, by Qiagen (4 mentions) Nucleospin rna kit, by Macherey-Nagel (3 mentions) 7900ht fast rt pcr system, by Thermo Fisher Scientific (3 mentions) Mirneasy mini kit, by Qiagen (3 mentions) Rneasy mini kit, by Qiagen (2 mentions) Megaplex rt primers, by Thermo Fisher Scientific (2 mentions) Iscript cdna synthesis kit, by Bio-Rad (2 mentions) Taqman gene expression assay, by Thermo Fisher Scientific (2 mentions) Multiscribe reverse transcriptase, by Thermo Fisher Scientific (2 mentions) Taqman mirna reverse transcription kit, by Thermo Fisher Scientific (2 mentions) Taqman universal pcr master mix, by Thermo Fisher Scientific (2 mentions) Abi 7900ht instrument, by Thermo Fisher Scientific (2 mentions) 7900ht real time pcr system, by Thermo Fisher Scientific (2 mentions) Trizol, by Thermo Fisher Scientific (2 mentions) Taqman fast universal pcr master mix, by Thermo Fisher Scientific (2 mentions) Rneasy plus mini kit, by Qiagen (2 mentions)

Spelling variants of this product

RQ Manager (29 citations) RQ software (11 citations) RQ Manager software v1.2.1 (8 citations) RQ manager software v2.4 (7 citations) SDS RQ Manager Software (5 citations) RQ Manager software version 1.2 (5 citations)

49 protocols using rq manager software

1

Quantitative PCR Analysis of Uterine and Endometriosis Tissues

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RNA was extracted from control uterine biopsies recovered from naïve mice, peritoneal biopsies from naïve and endometriosis mice, endometriosis lesions and dorsal root ganglia using an RNeasy kit (QIAGEN) according to the manufacturers instructions. RNA was quantified using a NanoDrop ND 1000. Quantitative PCR was performed as detailed in refs 59 (link),60 (link); briefly, cDNA was synthesized using SuperScript VILO enzyme (Invitrogen) with 100ng starting template. PCRs were performed using Roche Universal Probe Library (Roche Applied Science) using primer sequences detailed in Supplementary Table 2. 18S was used as a reference gene. Thermal cycling was performed on a 7900 Fast real-time PCR machine. Data was analysed with RQ manager software (Applied Biosystems) using the ∆∆Ct method; samples were normalised to a uterine control sample.
Greaves E., Horne A.W., Jerina H., Mikolajczak M., Hilferty L., Mitchell R., Fleetwood-Walker S.M, & Saunders P.T. (2017). EP2 receptor antagonism reduces peripheral and central hyperalgesia in a preclinical mouse model of endometriosis. Scientific Reports, 7, 44169.
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2

Reverse Transcription qPCR Protocol

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With 1 μg of total RNA isolated from frozen cell pellets or mice liver tissues using an RNeasy Mini Kit (Qiagen) and then quantitated at Nano-Drop 200 (Nanodrop), reverse transcription were conducted with High Capacity RNA-to-cDNA kit (Applied Biosystems) according to the manufacturer’s protocol: 37 °C for 60 min, 94 °C for 5 min, and 4 °C for 10 min. RT q-PCR was performed at ABI 7900HT system (Applied Biosystems) with target gene-specific Taqman primer and probe sets from ABI (Supplementary Table 1), for 40 cycles of 15 s at 94 °C and 1 min at 60 °C. By using RQ manager software (Applied Biosystems) for quantification, the relative gene expression values for the target mRNA were normalized to GAPDH or 18 s RNA, calculated using the 2−ΔΔCT method, and expressed as fold increases in comparison with control treatments.
Kim J., Kang W., Kang S.H., Park S.H., Kim J.Y., Yang S., Ha S.Y, & Paik Y.H. (2020). Proline-rich tyrosine kinase 2 mediates transforming growth factor-beta-induced hepatic stellate cell activation and liver fibrosis. Scientific Reports, 10, 21018.
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3

Quantitative RT-PCR Analysis of Calcium Channel Genes

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Total RNA extracted using the NucleoSpin RNA Kit (Macherey-Nagel) was reverse transcribed into cDNA using the high-capacity cDNA reverse transcription kit (Applied Biosystems) according to the manufacturer's instructions. The RT-PCR reactions were performed using predesigned single tube TaqMan gene expression assays (GAPDH: Hs03929097_g1; CACNA1D: Hs00167753_m1; CACNA1C: Hs00167681_m1; CACNA1F: Hs00913730_m1; CACNA1S: Hs00163885_m1) and were analysed with the 7900HT fast RT-PCR System (Applied Biosystems). Data were studied using RQ Manager Software (Applied Biosystems).
Jacquemet G., Baghirov H., Georgiadou M., Sihto H., Peuhu E., Cettour-Janet P., He T., Perälä M., Kronqvist P., Joensuu H, & Ivaska J. (2016). L-type calcium channels regulate filopodia stability and cancer cell invasion downstream of integrin signalling. Nature Communications, 7, 13297.
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4

Quantitative Analysis of TLNRD1 Expression

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Total RNA extracted using the NucleoSpin RNA Kit (Macherey-Nagel) was reverse-transcribed into cDNA using the high-capacity cDNA reverse transcription kit (Applied Biosystems) according to the manufacturer’s instructions. The RT-PCR reactions were performed using predesigned single tube TaqMan gene expression assays and were analyzed with the 7900HT fast RT-PCR System (Applied Biosystems). Data were studied using RQ Manager Software (Applied Biosystems). TLNRD1 primers were from Thermo Fisher Scientific (cat. no. 4351372; probe ID Ss06942862_s1).
Cowell A.R., Jacquemet G., Singh A.K., Varela L., Nylund A.S., Ammon Y.C., Brown D.G., Akhmanova A., Ivaska J, & Goult B.T. (2021). Talin rod domain–containing protein 1 (TLNRD1) is a novel actin-bundling protein which promotes filopodia formation. The Journal of Cell Biology, 220(9), e202005214.
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5

Profiling Murine Immune Cell miRNAs

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Taqman low-density array (TLDA) was performed using TaqMan® Array Rodent MicroRNA A + B Cards Set v2.0 (Applied Biosystems) as previously described
[55 (link)]. Samples used were whole cell, cytoplasmic and nuclear RNA from LSK, promyelocytes, myelocytes and granulocytes. Briefly, reverse transcription reaction was performed using rodent Megaplex™ RT primers (Applied Biosystems), which contain a pool of 750 individual miRNA-specific primers, according to the manufacturer’s instructions. Real-time quantitative PCR (RT-qPCR) was then carried out on an ABI 7900HT real-time PCR machine with the LDA thermal cycler block, using pre-defined TLDA thermal cycling conditions. RT-qPCR data were analyzed using SDS 2.3 and RQ Manager Software (Applied Biosystems). The whole cell and cytoplasmic miRNA CT values correlated with R2 values of 0.9126 (LSK), 0.9112 (promyelocyte), 0.9244 (myelocyte) and 0.9406 (granulocyte). Raw data were deposited in the Gene Expression Omnibus database (accession number GSE57624).
Wong J.J., Ritchie W., Gao D., Lau K.A., Gonzalez M., Choudhary A., Taft R.J., Rasko J.E, & Holst J. (2014). Identification of nuclear-enriched miRNAs during mouse granulopoiesis. Journal of Hematology & Oncology, 7, 42.
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6

Quantitative RT-PCR Analysis of Gene Expression

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Five hundred nanograms of total RNA were reverse-transcribed using the iScript cDNA synthesis kit (Bio-Rad, Hercules, CA, USA) following the manufacturer’s protocol. The cDNA synthesized was measured by RT-qPCR using FAST SYBR Green Master Mix (Applied Biosystems) following the manufacturer’s recommendations. The PCR program was as follows: 95°C for 20 s then 40 cycles of denaturation at 95°C for 1 s and hybridization and elongation at 60°C for 20 s on a 7900HT Fast Real-Time PCR System. Relative expression analysis was performed using RQ Manager Software (Applied Biosystems) with the RPL4 gene as a reference. Primers were designed using the NCBI Primer-Blast algorithm. All primers are listed in Table S2 in Supplementary Material.
Roche M., Wierinckx A., Croze S., Rey C., Legras-Lachuer C., Morel A.P., Fusco A., Raverot G., Trouillas J, & Lachuer J. (2015). Deregulation of miR-183 and KIAA0101 in Aggressive and Malignant Pituitary Tumors. Frontiers in Medicine, 2, 54.
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7

Lung Tissue Gene Expression Analysis

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Total RNA was extracted from lung tissues of the OVA anti-IgG1-NPs, and OVA-anti-IL4Rα-NPs groups of mice (n=6 per treatment) (RNeasy Mini kit, Qiagen, CA, USA). Real-time PCR amplification of the cDNA targets was performed using a Power SYBR Green PCR Kit (Applied Biosystems, CA, USA). Primers specific for each cDNA (Integrated DNA Technologies, Belgium) were used to determine the expression of IL-4, IL-5, TGF- β, IFN-γ, IL-13 Eotaxin-1, muc5ac, muc2, TGF-β, MCP-4 using the 7900HT fast real-time quantitative PCR system (Applied Biosystems). GAPDH was used as an internal control. The primer sequences are shown in Supplementary Table S1. The relative expression levels of all genes of interest were normalized to GAPDH and determined by the ΔΔCt method using the RQ Manager Software developed by Applied Biosystems.
Halwani R., Sultana Shaik A., Ratemi E., Afzal S., Kenana R., Al-Muhsen S, & Al Faraj A. (2016). A novel anti-IL4Rα nanoparticle efficiently controls lung inflammation during asthma. Experimental & Molecular Medicine, 48(10), e262-.
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8

Quantifying mRNA Expression Levels

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Total RNA was isolated from cultures using TRIzol™ Plus RNA Purification Kit (Cat. No. 12183555, Invitrogen™, Waltham, MA). cDNA was synthesized using High-Capacity cDNA Reverse Transcription Kit (Cat. No. 4368814, Applied Biosystems, Foster City, CA). cDNA (1:2 dilution, 4 μl) was amplified by real-time PCR using Power SYBR™ Green PCR Master Mix (Cat. No. K9021, Applied Biosystems, Foster City, CA). Samples were standardized to GAPDH. Synthetic oligonucleotides were used for human apoE (forward: 5’-TTCCTGGCAGGATGCCAGGC-3’ and reverse: 5’-GGTCAGTTGTTCCTCCAGTTC-3’), mouse Lcn2 (forward: 5’-AATGACTCTCACGGGGATTG-3’ and reverse: 5’-AGTGGTGGGGATGACTTCAG-3’), mouse Serpina3n (forward: 5’-CCCTGAGGAAGTGGAAGAAT-3’ and reverse: 5’-CCTGATGCCCAGCTTTGAAA-3’), mouse TNFα (forward: 5’-GGTGCCTATGTCTCAGCCTCTT-3’ and reverse: 5’-GCCATAGAACTGATGAGAGGGAG-3’), and mouse GAPDH (forward: 5’-GTGTTTCC-TCGTCCCGTAGA-3’ and reverse: 5’-AATCCGTTCACACCGACCTT-3’). Each individual sample was analyzed in triplicate and RNA levels were reported as fold difference compared to control (vehicle or APOE3 genotype). Analysis of the qRT-PCR data was done on SDS 2.3 (Applied Biosystems, Foster City, CA) and relative expression was calculated using RQ Manager software (Applied Biosystems, Foster City, CA). The resulting data was analyzed using the double delta Ct method.
Lanfranco M.F., Sepulveda J., Kopetsky G, & Rebeck G.W. (2021). Expression and secretion of apoE isoforms in astrocytes and microglia during inflammation. Glia, 69(6), 1478-1493.
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9

Quantitative RT-PCR Analysis of Gene Expression

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Total RNA was isolated from cultured cell lines using Trizol reagent (Life Technologies), treated with DNase I (Promega) and reverse transcribed into cDNA with SuperScript III First-strand Synthesis kit (Life Technologies). qPCR was carried out using SYBR green PCR master mix (Life Technologies) on an Applied Biosystems 7900HT instrument. Data were normalized against β-actin levels and analysed using Applied Biosystems RQ manager software. The gene-specific primers used are listed in Supplemental Table 4.
Todd J.R., Ryall K.A., Vyse S., Wong J.P., Natrajan R.C., Yuan Y., Tan A.C, & Huang P.H. (2016). Systematic analysis of tumour cell-extracellular matrix adhesion identifies independent prognostic factors in breast cancer. Oncotarget, 7(39), 62939-62953.
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10

Quantitative Analysis of Gene Expression in Pancreatic Cells

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RT-quantitative PCR (qPCR) was performed with the AgPath-ID One-Step RT-PCR Kit (Ambion) using the following TaqMan Gene Expression Assays (Applied Biosystems): Gapdh (Mm99999915_g1), Tle3/Grg3 (Mm00437097_m1), Tle1/Grg1 (Mm00495643_m1), Gcg (Mm00801712_m1), Arx (Mm00545903_m1), Ins1 (Mm01259683_g1), Ins2 (Mm00731595_gH), Slc2a2/Glut2 (Mm00446229_m1), Chga (Mm00514341_m1), Nkx6.1 (Mm00454962_m1), hPdx1 (Hs00236830_m1), hGapdh (Hs02758991_g1), and hTle3/Grg3 (Hs00183222_m1). Reactions were run on the 7900HT Fast Real-Time PCR System (Applied Biosystems) and quantitated by RQ Manager software (Applied Biosystems) using the ΔΔCT method. Expression was normalized to Gapdh, except for adult pancreas, which was normalized with the panendocrine marker Chga.
Metzger D.E., Liu C., Ziaie A.S., Naji A, & Zaret K.S. (2014). Grg3/TLE3 and Grg1/TLE1 Induce Monohormonal Pancreatic β-Cells While Repressing α-Cell Functions. Diabetes, 63(5), 1804-1816.
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