Pyromark q24 application software 2

Manufactured by Qiagen

Sourced in Germany

The PyroMark Q24 Application Software 2.0 is a software package designed to operate the PyroMark Q24 system, a real-time pyrosequencing platform. The software enables the management and analysis of pyrosequencing data generated by the PyroMark Q24 instrument.

Automatically generated - may contain errors

Lab products found in correlation

Pyromark q24 system, by Qiagen (2 mentions) Epitect plus dna bisulfite kit, by Qiagen (2 mentions) Pyromark pcr kit, by Qiagen (1 mentions) Qiaamp dna ffpe tissue kit, by Qiagen (1 mentions) Streptavidin beads, by GE Healthcare (1 mentions) Pyromark q96 id, by Qiagen (1 mentions)

Spelling variants of this product

PyroMark Q24 (386 citations) PyroMark Q24 Software 2.0 (11 citations) PyroMark Q24 2.0.6 Software (7 citations)

4 protocols using pyromark q24 application software 2

PIK3CA Mutation Detection by Pyrosequencing

Check if the same lab product or an alternative is used in the 5 most similar protocols

DNA extraction for mutational analysis was performed using the QIAamp DNA FFPE Tissue Kit (Qiagen, Hilden, Germany). Thereafter, pyrosequencing was used to detect PIK3CA mutations of exons 4, 7, 9, and 20 (Fig. 2 and 3). For pyrosequencing, the regions of interest were amplified via polymerase chain reaction (PCR) using the PyroMark PCR Kit (Qiagen, Hilden, Germany). We used the PCR primers for PIK3CA exons 20 and 9 as in Nosho et al. [38 (link)]. However, while the sequencing primers for PIK3CA exon 20 were based on the primers in Nosho et al., we slightly modified them for PIK3CA exon 9 (9RS-1 and 9RS-3) [38 (link)].
Pyrosequencing was performed on a PyroMark Q24 MDx Instrument according to the manufacturer’s user manual (Qiagen, Hilden, Germany). To design the different pyrosequencing assays and to analyze the results, we used the PyroMark Q24 Application Software 2.0 (version 2.0.6) (Qiagen, Hilden, Germany).

Magometschnigg H., Pinker K., Helbich T., Brandstetter A., Rudas M., Nakuz T., Baltzer P., Wadsak W., Hacker M., Weber M., Dubsky P, & Filipits M. (2019). PIK3CA Mutational Status is Associated with High Glycolytic Activity in ER+/HER2- Early Invasive Breast Cancer: a Molecular Imaging study using [18F]FDG PET/CT. Molecular imaging and biology, 21(5), 991-1002.

+ Open protocol

+ Expand

Pyrosequencing of BRAF, KRAS, and PIK3CA

Cited 1 time

Check if the same lab product or an alternative is used in the 5 most similar protocols

Pyrosequencing of BRAF (codon 600), exon 3 of KRAS (codons 12 and 13), and PIK3CA (exon 9) was performed using the PyroMark Q96 ID QIAGEN software 2.5 system according to the manufacturer’s manual. For pyrosequencing, we used specific primers one of which was biotinylated to immobilize with streptavidin beads (GE healthcare) and to amplify each target region. The pyrosequencing reaction applied to Roche PCR 480 contained 20 ng of genomic DNA and results were analyzed by PyroMark Q24 Application Software 2.0 (v.2.0.6, Qiagen, Hilden, Germany). Finally, the results were double-checked by a High-Resolution Melting (HRM) analysis [21 (link)].

Shariati A., Razavi S., Ghaznavi-Rad E., Jahanbin B., Akbari A., Norzaee S, & Darban-Sarokhalil D. (2021). Association between colorectal cancer and Fusobacterium nucleatum and Bacteroides fragilis bacteria in Iranian patients: a preliminary study. Infectious Agents and Cancer, 16, 41.

+ Open protocol

+ Expand

Epigenetic Profiling of RIG-I/DDX58 Promoter

Check if the same lab product or an alternative is used in the 5 most similar protocols

Pyrosequencing was conducted for four CpGs sites within the RIG-I/DDX58 promoter region. Briefly, 500 ng of each genomic DNA sample was bisulfite-converted using the EpiTect Plus DNA bisulfite kit (Qiagen, Hilden, Germany). The primer sequences used for bisulfate pyrosequencing are listed in Supplementary Table S1. The PCR program was 95 °C for 5 min, 40 cycles of 94 °C for 30 s, 56 °C for 30 s and 72 °C for 30 s, followed by a final extension at 72 °C for 10 min. Single-stranded DNA templates were prepared from the biotinylated PCR product using streptavidin-coated sepharose beads (streptavidin sepharose high performance, GE Healthcare, Inc., Chicago, IL, USA), where the sequence primer was annealed. Primed templates were sequenced using the PyroMark Q24 System (Qiagen, Inc.) and the assay setup was generated using PyroMark Q24 Application Software 2.0 (Qiagen, Inc.).

Lin H.Y., Chuang J.H., Wang P.W., Lin T.K., Wu M.T., Hsu W.M, & Chuang H.C. (2020). 5-aza-2′-Deoxycytidine Induces a RIG-I-Related Innate Immune Response by Modulating Mitochondria Stress in Neuroblastoma. Cells, 9(9), 1920.

+ Open protocol

+ Expand

DNA Methylation Analysis by Pyrosequencing

Check if the same lab product or an alternative is used in the 5 most similar protocols

Pyrosequencing was conducted for 4 of 5CpGs including the Target id: cg25152348 according to the standard protocol (Fig 1). Briefly, 500 ng of each genomic DNA sample was bisulfite-converted using EpiTect Plus DNA Bisulfite Kit (Qiagen, Inc.), purified and recovered. Amplifications were performed in a total volume of 25 μl containing 12.5 μl of 2✕ PyroMark PCR Master Mix, 2.5 μl of 10✕ CoralLoad Concentrate, 0.5 μl of 10 μM forward primer (5′-GTTTAAATTGGTGGTAGTTTAAAGT-3′), 0.5 μl of 10 μM biotin labeled reverse primer (5′- -biotin-TCCACCTCCCAATTCTTAATAAAATC-3′), 1.0 μl of the bisulfited DNA, and PCR-grade water. The thermal profile was 95°C for 15 min, 45 cycles of 94°C for 30 sec, 56°C for 30 sec and 72°C for 30 sec, followed by a final extension at 72°C for 10 min. Single-stranded DNA templates were prepared from 20 μL of the biotinylated PCR product using Streptavidin-coated Sepharose beads (Streptavidin Sepharose High Performance. GE Healthcare, Inc.) and 0.3 μM sequence primer (5′-TTTGGGAGGGAATAGTAAAA-3′) annealed to this. Primed templates were sequenced using PyroMark Q24 System (Qiagen, Inc.) and the assay setup generated using PyroMark Q24 Application Software 2.0 (Qiagen, Inc.).

Kobayashi N., Shinagawa S., Nagata T., Shimada K., Shibata N., Ohnuma T., Kasanuki K., Arai H., Yamada H., Nakayama K, & Kondo K. (2016). Development of Biomarkers Based on DNA Methylation in the NCAPH2/LMF2 Promoter Region for Diagnosis of Alzheimer’s Disease and Amnesic Mild Cognitive Impairment. PLoS ONE, 11(1), e0146449.

+ Open protocol

+ Expand

About PubCompare

Our mission is to provide scientists with the largest repository of trustworthy protocols and intelligent analytical tools, thereby offering them extensive information to design robust protocols aimed at minimizing the risk of failures.

We believe that the most crucial aspect is to grant scientists access to a wide range of reliable sources and new useful tools that surpass human capabilities.

However, we trust in allowing scientists to determine how to construct their own protocols based on this information, as they are the experts in their field.

Ready to get started?

Revolutionizing how scientists
search and build protocols!