Results of KIT and platelet-derived growth factor (PDGFR) gene mutation analyses were available for 12 tumors. Formalin-fixed paraffin-embedded (FFPE) tumor tissue samples were taken before imatinib treatment and genomic DNA was extracted from the tumor sample using the OMEGA Bio-Tek Inc.E.Z.N.A FFPE DNA Kit (Norcross, GA, USA). Polymerase chain reaction amplification and mutational analyses of KIT exon 11 were performed initially and in samples negative for KIT exon 11 mutations subsequent amplification with primers specific for KIT exons 9, 13, and 17 was performed. When no KIT mutations were identified, additional mutational analyses were conducted for exons 12 and 18 of the PDGFR gene.
Ezna ffpe dna kit
Manufactured by Omega Bio-Tek
Sourced in United States
The EZNA FFPE DNA Kit is designed for the extraction of genomic DNA from formalin-fixed, paraffin-embedded (FFPE) tissue samples. The kit utilizes a specialized protocol to effectively isolate DNA from challenging FFPE samples.
Automatically generated - may contain errors
Lab products found in correlation
Ae buffer, by Qiagen (2 mentions)
Gentra puregene kit, by Qiagen (2 mentions)
Dna blood mini kit, by Qiagen (2 mentions)
Nanodrop 2000c, by Thermo Fisher Scientific (2 mentions)
Cpgenome dna modification kit, by Epigentek (1 mentions)
Nebnext ffpe dna repair mix, by New England Biolabs (1 mentions)
Qubit dsdna high sensitivity assay kit, by Thermo Fisher Scientific (1 mentions)
Qiacube robot, by Qiagen (1 mentions)
Qiaamp dna mini kit, by Qiagen (1 mentions)
Quan it picogreen dsdna assay, by Thermo Fisher Scientific (1 mentions)
Ez 96 dna methylation kit, by Zymo Research (1 mentions)
Rnase a, by Qiagen (1 mentions)
8 protocols using ezna ffpe dna kit
1
KIT and PDGFR Mutation Analysis
2
Rapid Autopsy Tissue Extraction Protocol
3
Bisulfite Treatment of FFPE DNA
Check if the same lab product or an alternative is used in the 5 most similar protocols
+ Expand
Genomic DNA of 47 patient samples and 16 reactive lymph nodes were extracted using the E.Z.N.A® FFPE DNA kit (Omega Bio-Tek). DNA (200 ng) in a volume of 1–5 µl was subjected to treatment with sodium bisulfite using a CpGenome DNA modification kit (Epigentek). The reaction system and reaction conditions of MSP were the same as the experimental cell lines.
4
DNA Extraction from Tumor Samples
Check if the same lab product or an alternative is used in the 5 most similar protocols
+ Expand
DNA was isolated using either Gentra Puregene kit (Qiagen) from fresh or snap-frozen tumor tissues and cell line pellets or with DNA Blood Mini Kit (Qiagen) from patients’ blood samples. DNA was dissolved in Buffer AE (Qiagen) and stored at +4°C. A single tumor sample was isolated from formalin-fixed paraffin-embedded tissue using E.Z.N.A. FFPE DNA Kit (Omega Bio-tek).
5
FFPE DNA Extraction and Bisulfite Treatment
Check if the same lab product or an alternative is used in the 5 most similar protocols
+ Expand
Genomic DNA from tissues was extracted using the E.Z.N.A® FFPE DNA kit (Omega Bio-tek, Inc., Norcross, GA, USA). DNA concentration measurements and bisulfite treatment were performed as previously described (28 (link)).
6
DNA Extraction from Crustacean Tissues
Check if the same lab product or an alternative is used in the 5 most similar protocols
+ Expand
DNA was extracted from Necora puber and Irish amphipod tissue using the QIAamp DNA Mini Kit (Qiagen) with a Qiagen QIAcube robot according to the manufacturer's protocol, and from amphipods from sites in southern England and sample set GANN using a phenol:chloroform protocol as in Urrutia et al. (2019) (link). Sample sets TB and DOM are reported in Pickup & Ironside (2018) .
DNA was extracted from sections of wax-embedded tissues of Cancer pagurus infected with P. canceri using the EZNA FFPE DNA Kit (Omega Biotek). Following extraction, DNA was quantified using a Qubit High Sensitivity dsDNA assay kit (Life Technologies), before extracted DNA (5 ng) was repaired using the NEBNext FFPE DNA Repair Mix (New England Biolabs).
DNA was extracted from sections of wax-embedded tissues of Cancer pagurus infected with P. canceri using the EZNA FFPE DNA Kit (Omega Biotek). Following extraction, DNA was quantified using a Qubit High Sensitivity dsDNA assay kit (Life Technologies), before extracted DNA (5 ng) was repaired using the NEBNext FFPE DNA Repair Mix (New England Biolabs).
7
Comprehensive DNA Extraction from Diverse Samples
Check if the same lab product or an alternative is used in the 5 most similar protocols
+ Expand
DNA was isolated either using Gentra Puregene kit (Qiagen) from fresh or snap-frozen tumor tissues and cell line pellets or with DNA Blood Mini Kit (Qiagen) from patients' blood samples. DNA was dissolved in Buffer AE (Qiagen) and stored at +4°C. One single tumor sample was isolated from formalin-fixed paraffin-embedded tissue using E.Z.N.A. FFPE DNA Kit (Omega Bio-tek).
8
Genomic DNA Isolation from Leukocytes and FFPE Tissue
Check if the same lab product or an alternative is used in the 5 most similar protocols
+ Expand
Genomic DNA was isolated from fresh-frozen (FF) leukocytes (n = 90) and paired breast cancer human paraffin embedded (FFPE) tissue blocks (n = 8).
Genomic DNA was isolated from FF leukocytes by using the MasturePureTM DNA purification kit (Epicentre Biotechnologies, Madison, WI, USA), while paraffin samples (FFPE) (10 sections of 14 μm) were processed using the E.Z.N.A. FFPE DNA kit (Omega Bio-Tek), with a xylene wash to remove the paraffin. For each sample of tumor tissue, subsequent sections were stained with hematoxylin and eosin for histologic confirmation of the presence (>50%) of tumor cells (10 (link)). The obtained DNA was treated with RNase A for 1 h at 45°C (Qiagen, Hilden, Germany). All DNA samples were quantified using the fluorometric method (Quan-iT PicoGreen DsDNA Assay, Life Technologies) and were assessed for purity using a NanoDrop 2000c (Thermo Fisher Scientific) with 260/280 and 260/230 ratio measurements. High-quality DNA samples (500 ng of FF and 300 ng of FFPE) obtained were selected for bisulfite conversion using the EZ-96 DNA Methylation kit (Zymo Research Corp.) following the manufacturer's recommendations.
Genomic DNA was isolated from FF leukocytes by using the MasturePureTM DNA purification kit (Epicentre Biotechnologies, Madison, WI, USA), while paraffin samples (FFPE) (10 sections of 14 μm) were processed using the E.Z.N.A. FFPE DNA kit (Omega Bio-Tek), with a xylene wash to remove the paraffin. For each sample of tumor tissue, subsequent sections were stained with hematoxylin and eosin for histologic confirmation of the presence (>50%) of tumor cells (10 (link)). The obtained DNA was treated with RNase A for 1 h at 45°C (Qiagen, Hilden, Germany). All DNA samples were quantified using the fluorometric method (Quan-iT PicoGreen DsDNA Assay, Life Technologies) and were assessed for purity using a NanoDrop 2000c (Thermo Fisher Scientific) with 260/280 and 260/230 ratio measurements. High-quality DNA samples (500 ng of FF and 300 ng of FFPE) obtained were selected for bisulfite conversion using the EZ-96 DNA Methylation kit (Zymo Research Corp.) following the manufacturer's recommendations.
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
Revolutionizing how scientists
search and build protocols!