Log In Sign up
The largest database of trusted experimental protocols

Fireplex analysis workbench software

Manufactured by Abcam
Visit Supplier
Sourced in United States

FirePlex Analysis Workbench software is a data analysis platform designed for processing and visualizing data generated from FirePlex multiplexed assays. The software provides tools for data import, quality control, and analysis.

Automatically generated - may contain errors

Lab products found in correlation

Multiplex circulating mirna assay, by Abcam (2 mentions) Guava 8ht flow cytometer, by Merck Group (2 mentions) Fireplex particle technology, by Abcam (2 mentions) Spss software program version 26, by IBM (1 mentions) Guava easycyte 8ht, by Merck Group (1 mentions)

Spelling variants of this product

Fireplex Analysis Workbench (2 citations)

6 protocols using fireplex analysis workbench software

1

Circulating miRNA Profiling in Metabolic Disorders

Cited 1 time
Check if the same lab product or an alternative is used in the 5 most similar protocols
Eighty-eight miRNA candidates were generated from a PubMed literature
review with search terms including “miRNA” and “Type I and
Type 2 diabetes, GDM, preeclampsia, adipogenesis, obesity, and nonalcoholic
fatty liver disease” 13 (link),
18 (link)–33 (link) (Supplemental Table 1). Individual
candidate miRNA abundance was measured via Multiplex Circulating miRNA assay
(Abcam, FirePlex, Cambridge, MA). Samples were digested and hybridized to miRNA
specific hydrogel particles with a universal biotinylated adapter labeled with a
fluorescent reporter, and quantified with EMD Millipore Guava 8HT flow
cytometer. Positive and negative controls were included to reduce inter-plate
and inter-well variability. MiRNA spike-in target probes measured hybridization
success. Blank hydrogel particles were run to define background fluorescence.
Abcam FirePlex Analysis Workbench software was used for data analysis (https://www.abcam.com/kits/multiplex-immunoassays-firefly-analysis-workbench-software).
Normalization was performed via geNorm algorithm using the three most stable
miRNAs across all samples (hsa-let-7d-5p, hsa-mir-107, and hsa-mir-342-3p)
34 35 . Data was log converted to
eliminate directional bias. Geometric mean and fold changes were calculated for
each miRNA based on normalized expression data.
Joshi A., Azuma R., Akumuo R., Goetzl L, & Pinney S.E. (2019). Gestational diabetes and maternal obesity are associated with sex-specific changes in miRNA and target gene expression in the fetus. International journal of obesity (2005), 44(7), 1497-1507.
+ Open protocol
+ Expand
2

Circulating miRNA Profiling in Metabolic Disorders

Cited 1 time
Check if the same lab product or an alternative is used in the 5 most similar protocols
Eighty-eight miRNA candidates were generated from a PubMed literature
review with search terms including “miRNA” and “Type I and
Type 2 diabetes, GDM, preeclampsia, adipogenesis, obesity, and nonalcoholic
fatty liver disease” 13 (link),
18 (link)–33 (link) (Supplemental Table 1). Individual
candidate miRNA abundance was measured via Multiplex Circulating miRNA assay
(Abcam, FirePlex, Cambridge, MA). Samples were digested and hybridized to miRNA
specific hydrogel particles with a universal biotinylated adapter labeled with a
fluorescent reporter, and quantified with EMD Millipore Guava 8HT flow
cytometer. Positive and negative controls were included to reduce inter-plate
and inter-well variability. MiRNA spike-in target probes measured hybridization
success. Blank hydrogel particles were run to define background fluorescence.
Abcam FirePlex Analysis Workbench software was used for data analysis (https://www.abcam.com/kits/multiplex-immunoassays-firefly-analysis-workbench-software).
Normalization was performed via geNorm algorithm using the three most stable
miRNAs across all samples (hsa-let-7d-5p, hsa-mir-107, and hsa-mir-342-3p)
34 35 . Data was log converted to
eliminate directional bias. Geometric mean and fold changes were calculated for
each miRNA based on normalized expression data.
Joshi A., Azuma R., Akumuo R., Goetzl L, & Pinney S.E. (2019). Gestational diabetes and maternal obesity are associated with sex-specific changes in miRNA and target gene expression in the fetus. International journal of obesity (2005), 44(7), 1497-1507.
+ Open protocol
+ Expand
3

Cancer Cell Proliferation Assay

Check if the same lab product or an alternative is used in the 5 most similar protocols
All experiments were repeated three times, each time using a different donor and each in duplicate. SPSS software program version 26.0 (IBM SPSS Statistics, SPSS, IL, USA) was utilized for statistical analyses. The proliferation rate of the cancer cells was calculated by dividing the number of cancer cells on days 2 and 3 by the number of cancer cells on day 1. One-way analysis of variance (ANOVA) followed by the Bonferroni post-hoc test was used to examine the statistical significance between the different groups.
Flow cytometer output for cytokine release was analyzed using FirePlex™ Analysis Workbench software (https://www.abcam.com/kits/fireplex-analysis-workbench-software). Concentrations were interpolated from the standard curve obtained in duplicate. Due to donor variation, the data were log-normalized and processed as fold changes (raw data included as Supplement Table 2). Statistical analysis for cytokine release was calculated with a One-Sample t-test.
P-values <0.05 were regarded as significant and are presented as follows: * <0.05 and ** < 0.01.
Sieviläinen M., Saavalainen J., Adnan-Awad S., Salo T, & Al-Samadi A. (2022). IDO1 Inhibition Reduces Immune Cell Exclusion Through Inducing Cell Migration While PD-1 Blockage Increases IL-6 and -8 Secretion From T Cells in Head and Neck Cancer. Frontiers in Immunology, 13, 812822.
+ Open protocol
+ Expand
4

Multiplex miRNA Profiling in EAE Mice

Check if the same lab product or an alternative is used in the 5 most similar protocols
The levels of miRNAs in sera of normal (naïve controls) and diseased (EAE) mice were tested using Multiplex miRNA assays with FirePlex Particle Technology (Abcam, Cambridge, MA, USA). Briefly, blood samples were collected from mice on days 18–20 after MOG35–55 injection for the purpose of induction of EAE. Thereafter, serum was prepared from blood and 20 μL of each sample was subjected to multiplex miRNA assay [65 (link)]. The results obtained by Multiplex assay were analyzed using FirePlex Analysis Workbench software (Ver. 2.0.234, Abcam, Cambridge, MA, USA). The data was presented after normalizing with appropriate normalizing controls.
Venkatesha S.H., Dudics S., Song Y., Mahurkar A, & Moudgil K.D. (2018). The miRNA Expression Profile of Experimental Autoimmune Encephalomyelitis Reveals Novel Potential Disease Biomarkers. International Journal of Molecular Sciences, 19(12), 3990.
+ Open protocol
+ Expand
5

Fireplex miRNA Assay Data Analysis

Check if the same lab product or an alternative is used in the 5 most similar protocols
Data from the Fireplex miRNA assay were further analysed using FirePlex® Analysis Workbench Software version 2.0 (Abcam) Fireplex Analysis Workbench software (Abcam). Gene target prediction was performed with miRWalk 3.0 considering only miRNAs targeting the 3′UTR sequence and a score above 0.95 (Dweep et al., 2014 (link)). Panther Classification System online software was used for pathway enrichment analysis (Thomas et al., 2003 (link)). Only pathways with a minimum number of five genes were considered in the classification.
Kholia S., Herrera Sanchez M.B., Cedrino M., Papadimitriou E., Tapparo M., Deregibus M.C., Bruno S., Antico F., Brizzi M.F., Quesenberry P.J, & Camussi G. (2020). Mesenchymal Stem Cell Derived Extracellular Vesicles Ameliorate Kidney Injury in Aristolochic Acid Nephropathy. Frontiers in Cell and Developmental Biology, 8, 188.
+ Open protocol
+ Expand
6

Quantifying miRNA Expression in Skin Cells

Check if the same lab product or an alternative is used in the 5 most similar protocols
miRNA was isolated from HaCaT and HaSKpwC7 cells using miRNeasy mini kit (Qiaqen). The transcription of miRNAs was measured via flowcytometric quantification of barcode-labelled fluorescent miRNA-hydrogel-microparticle (“FirePlex Particle Technology “, Abcam) according to the manufacturer’s protocol. Briefly, one µg of RNA was added to customized firefly particles (~ 35 µL) and incubated under shaking (~ 750 rpm) at 37 °C for 90 min. After binding of miRNAs, the particles, which contain complementary sequence were rinsed with rinse buffer twice and followed by a labelling reaction (RT, 45 min, 750 rpm). During labelling each miR is ligated to two linkers. After washing a fluorescent reporter was added (RT, 45 min, 750 rpm) that binds to the miR-linker-complex. Fluorescence of the particles was then measured by flow cytometry (with e.g. Guava easycyte 8HT, Millipore). The raw data obtained from flow cytometry were then processed with the “FirePlex Analysis Workbench software” (Abcam). For normalization the geometric mean of transcription of RNU6B, RNU44 and RNU48 was determined. A miRNA is regarded as differentially expressed when the fold change is ≥ 1.5.
Pavez Lorie E., Stricker N., Plitta-Michalak B., Chen I.P., Volkmer B., Greinert R., Jauch A., Boukamp P, & Rapp A. (2020). Characterisation of the novel spontaneously immortalized and invasively growing human skin keratinocyte line HaSKpw. Scientific Reports, 10, 15196.
+ 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?

Sign up for free.
Registration takes 20 seconds.
Available from any computer
No download required

Sign up now

Revolutionizing how scientists
search and build protocols!