Log In Sign up
The largest database of trusted experimental protocols

Genechip mirna 4.0 microarrays

Manufactured by Thermo Fisher Scientific
Visit Supplier
Sourced in Spain

The GeneChip miRNA 4.0 microarrays are a lab equipment product designed for the detection and analysis of microRNA (miRNA) expression. The microarrays provide comprehensive coverage of mature miRNA sequences from multiple species. The product enables researchers to study miRNA profiles and their role in various biological processes.

Automatically generated - may contain errors

Lab products found in correlation

Genechip scanner 3000 7g system, by Thermo Fisher Scientific (4 mentions) Recoverall total nucleic acid isolation kit, by Thermo Fisher Scientific (1 mentions) Flashtag biotin hsr rna labeling kit, by Thermo Fisher Scientific (1 mentions) Genespring, by Agilent Technologies (1 mentions)

Spelling variants of this product

GeneChips (22 citations) GeneChip microarrays (21 citations) GeneChip miRNA 4.0 (14 citations) GeneChip miRNA microarray (2 citations)

5 protocols using genechip mirna 4.0 microarrays

1

Microarray Analysis of Colorectal Tumorigenesis

Cited 1 time
Check if the same lab product or an alternative is used in the 5 most similar protocols
For microarray analysis, we performed polyadenylation and labeling of RNA (200 ng) using a FlashTag Biotin HSR RNA Labeling kit. The RNA was then treated with DNA ligase, hybridized to GeneChip miRNA 4.0 microarrays (Thermo Fisher Scientific) by incubation for 16 h at 48°C, washed, and stained using streptavidin-PE solution. Next, scanning of the stained arrays was carried out using a GeneChip Scanner 3000 7G System (Thermo Fisher Scientific). The Affymetrix miRNA 4.0 microarray used in this study contained 6,631 probes, with 2,570 mature miRNA probes. The methods used here were described in detail in a previous study (22 (link)).
To identify candidate miRNAs associated with colorectal tumorigenesis, we then assessed miRNA expression based on the following criteria: less than or greater than 1.5 fold-change in expression compared with normal glands and a p value less than 0.05 based on Student’s t-test (without multiple comparison tests).
Sugai T., Osakabe M., Niinuma T., Sugimoto R., Eizuka M., Tanaka Y., Yanagawa N., Otsuka K., Sasaki A., Matsumoto T, & Suzuki H. (2022). Genome-Wide Analysis of microRNA and mRNA Expression in Colorectal Intramucosal Neoplasia and Colorectal Cancer With a Microsatellite-Stable Phenotype Based on Adenoma-Carcinoma Sequences. Frontiers in Oncology, 12, 831100.
+ Open protocol
+ Expand
2

Microarray Analysis of miRNA Expression

Cited 1 time
Check if the same lab product or an alternative is used in the 5 most similar protocols
For microarray analysis, 200 ng RNA was polyadenylated and labelled using a FlashTag™ Biotin HSR RNA Labelling kit and then treated with DNA ligase. The labeled RNA was hybridized to GeneChip miRNA 4.0 microarrays (Thermo Fisher Scientific) at 48°C for 16 h, followed by washing and staining using a streptavidin-PE solution. The stained arrays were scanned using a GeneChip™ Scanner 3000 7G System (Thermo Fisher Scientific). The Affymetrix miRNA 4.0 microarray contains 6,631 probes on the array, including 2,570 mature miRNA probes. Detailed methods have been described previously (26 (link)).
Sato C., Osakabe M., Nagasawa T., Suzuki H., Itamochi H., Baba T, & Sugai T. (2020). Genome-wide analysis of microRNA to evaluate prognostic markers in isolated cancer glands and surrounding stroma in high-grade serous ovarian carcinoma. Oncology Letters, 20(6), 338.
+ Open protocol
+ Expand
3

Microarray Analysis of miRNA Expression

Cited 1 time
Check if the same lab product or an alternative is used in the 5 most similar protocols
For microarray analysis, 200 ng RNA was polyadenylated and labeled using a FlashTag Biotin HSR RNA Labeling kit and then treated with DNA ligase. The labeled RNA was hybridized to GeneChip miRNA 4.0 microarrays (Thermo Fisher Scientific) at 48 °C for 16 h, followed by washing and staining using a streptavidin–PE solution. The Affymetrix miRNA 4.0 microarray contains 6631 probes, including 2570 mature miR probes. The stained arrays were assessed using a GeneChip Scanner 3000 7G System (Thermo Fisher Scientific). Detailed methods have been described previously [15 (link)].
Sugai T., Sugimoto R., Eizuka M., Osakabe M., Yamada S., Yanagawa N., Matsumoto T, & Suzuki H. (2022). Comprehensive Analysis of microRNA Expression During the Progression of Colorectal Tumors. Digestive Diseases and Sciences, 68(3), 813-823.
+ Open protocol
+ Expand
4

miRNA profiling in DLBCL prognosis

Check if the same lab product or an alternative is used in the 5 most similar protocols
After obtaining the samples, RNA purification from formalin-fixed paraffin-embedded tissue sections was performed with RecoverAllTM Total Nucleic Acid Isolation Kit (ThermoFisher Scientific, Madrid, Spain). Later, miRNA screening was performed using GeneChip™ miRNA 4.0 microarrays (ThermoFisher Scientific, Madrid, Spain), which included 6631 miRNA-related probes (2578 mature miRNAs, 2025 pre-miRNAs, 1996 Human snoRNA, CDBox RNA, and other non-coding RNAs).
Subsequently, bioinformatic analysis of the miRNAs with differential expression was conducted in a discovery group including two cohorts (patients with durable complete remission (CR) versus refractory or early relapsing (RR) patients). Differentially expression miRNAs were validated in the entire series using quantitative RT-PCR with Sybr Green probes (EPIK miRNA Select Lo-ROX kit). The relevance of these miRNAs as predictors of EFS and OS as well as their relationship with standard prognostic factors in DLBCL were also determined.
Bento L., Vögler O., Sas-Barbeito A., Muncunill J., Ros T., Martínez J., Quintero-Duarte A., Ramos R., Asensio V.J., Fernández-Rodríguez C., Salar A., Navarro A., del Campo R., Ibarra J., Alemany R, & Gutiérrez A. (2022). Screening for Prognostic microRNAs Associated with Treatment Failure in Diffuse Large B Cell Lymphoma. Cancers, 14(4), 1065.
+ Open protocol
+ Expand
5

Profiling miRNA Expression in Tissues

Check if the same lab product or an alternative is used in the 5 most similar protocols
For microarray analysis, 200 ng RNA was polyadenylated and labeled using the FlashTag™ Biotin HSR RNA Labeling kit (Thermo Fisher Scientific, Aaltham, MA, USA) and then treated with DNA ligase. The labeled RNA was hybridized to GeneChip miRNA 4.0 microarrays (Thermo Fisher Scientific) at 48 °C for 16 h, followed by washing and staining with a streptavidin–PE solution. Stained arrays were scanned using the GeneChip™ Scanner 3000 7G System (Thermo Fisher Scientific). Array data were generated using GeneSpring (version 14.9.1, Agilent Technologies). miRNA expression was examined according to the following criteria: p < 0.05 with adjusted Benjamini–Hochberg/FDR correction and fold change in expression >1.5 compared with expression in normal glands using the paired t‐test.
Ito Y., Osakabe M., Niinuma T., Uesugi N., Sugimoto R., Yanagawa N., Otsuka K., Sasaki A., Matsumoto T., Suzuki H, & Sugai T. (2022). Genome‐wide analysis of mRNA and microRNA expression in colorectal cancer and adjacent normal mucosa. The Journal of Pathology: Clinical Research, 8(4), 313-326.
+ 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!