Dna extract all reagents kit

Manufactured by Thermo Fisher Scientific

Sourced in United States

The DNA Extract All Reagents Kit is a comprehensive solution for the extraction and purification of DNA from a variety of sample types. The kit includes all the necessary reagents and buffers required for the DNA extraction process. The core function of the kit is to efficiently isolate high-quality genomic DNA for downstream applications, such as PCR, sequencing, and other molecular biology techniques.

Automatically generated - may contain errors

Lab products found in correlation

19 protocols using dna extract all reagents kit

Genotyping of Tbl1xr1 Mutant Mice

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

F0 and F1 samples were genotyped by qPCR and sequencing. F2 offspring and subsequence generations were genotyped by qPCR. Mouse ear DNA was extracted using the DNA Extract All Reagents Kit (Thermo Fisher Scientific) and stored at −20°C until use. Samples were genotyped using qPCR with a FAM-labeled TaqMan assay (LGC, Biosearch Technologies, 5 μm probe, 15 μm each primer) designed to detect either the WT Tbl1xr1 allele or the mutant Tbl1xr1 allele, run in multiplex with a VIC-labeled internal control Dot1L (Thermo Fisher Scientific, 5 μm probe, 20 μm each primer), TaqMan GTXpress Master Mix (Thermo Fisher Scientific) and 1:10 dilution of DNA Extract All Reagents Kit preparation.

Hu Y., Lauffer P., Stewart M., Codner G., Mayerl S., Heuer H., Ng L., Forrest D., van Trotsenburg P., Jongejan A., Fliers E., Hennekam R, & Boelen A. (2022). An animal model for Pierpont syndrome: a mouse bearing the Tbl1xr1Y446C/Y446C mutation. Human Molecular Genetics, 31(17), 2951-2963.

+ Open protocol

+ Expand

Genome Editing Analysis in Erythroid Cells

Cited 1 time

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

Genome editing was analyzed in HUDEP-2 cells at days 0 and 9 of erythroid differentiation and in CB and adult mobilized HSPC-derived erythroid cells at days 6 and 14 of erythroid differentiation, respectively. Genomic DNA was extracted from control and edited cells using the PureLink Genomic DNA Mini Kit (Life Technologies), Quick-DNA/RNA Miniprep (ZYMO Research), or DNA Extract All Reagents Kit (Thermo Fisher Scientific) following the manufacturer’s instructions. To evaluate NHEJ efficiency at gRNA target sites, we performed PCR followed by Sanger sequencing and TIDE analysis (tracking of InDels by decomposition) (49 (link)) or ICE CRISPR Analysis Tool (Synthego) (Table 2) (50 (link)).
Digital droplet PCR was performed using EvaGreen mix (Bio-Rad) to quantify the frequency of the 4.9-kb deletion. Short (~1 min) elongation time allowed the PCR amplification of the genomic region harboring the deletion. Control primers annealing to a genomic region on the same chromosome (chr 11) were used as DNA loading control (Table 3).

Weber L., Frati G., Felix T., Hardouin G., Casini A., Wollenschlaeger C., Meneghini V., Masson C., De Cian A., Chalumeau A., Mavilio F., Amendola M., Andre-Schmutz I., Cereseto A., El Nemer W., Concordet J.P., Giovannangeli C., Cavazzana M, & Miccio A. (2020). Editing a γ-globin repressor binding site restores fetal hemoglobin synthesis and corrects the sickle cell disease phenotype. Science Advances, 6(7), eaay9392.

+ Open protocol

+ Expand

Genetic Factors Influencing Alcohol Metabolism

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

Patients were requested to provide information such as height, body weight, medical history, smoking status, alcohol consumption, and intake of any NSAID prior to the J-FAPP Study IV. The smoking habits were categorized into two groups (yes: currently smoking, no: never and formerly smoking). Alcohol drinking habits were categorized into two groups (regularly drinking: ≥3 times per week, nonregularly drinking: otherwise).
Venous blood was collected in a heparinized vacuum blood collection tube and blotted onto a Whatman FTA card (FTA elute microcard, GE Healthcare UK Limited). Genomic DNA was extracted by using DNA Extract All Reagents Kit (Thermo Fisher Scientific) from the 2 mm punched out FTA sample. TaqMan SNP Assays used in this study were purchased from Thermo Fisher Scientific (ADH1B, rs1229984, C_2688467_20, ALDH2, rs671, C_11703892_10). Genotypes of ADH1B and ALDH2 were examined on Step One Plus Real-Time PCR systems (Applied Biosystems).

Mure K., Ishikawa H., Mutoh M., Horinaka M., Otani T., Suzuki S., Wakabayashi K, & Sakai T. (2022). Efficacy of Low-Dose Aspirin in Colorectal Cancer Risk Prevention is Dependent on ADH1B and ALDH2 Genotype in Japanese Familial Adenomatous Polyposis Patients. Cancer Research Communications, 2(6), 483-488.

+ Open protocol

+ Expand

Determining Viral Copy Number in Erythroid Cells

Cited 1 time

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

At day 13 of erythroid differentiation, or 14 days after plating HSPCs in the methylcellulose medium, DNA was extracted from transduced cells using the ReliaPrep Blood gDNA Miniprep System (Promega, Madison, WI, USA) or the DNA Extract All Reagents Kit (Thermo Fisher Scientific, Waltham, MA, USA). VCN per diploid genome was determined by duplex TaqMan qPCR (Applied Biosystems, Foster City, CA, USA), as previously described.³⁴ (link) We used primers and probes specific for (1) the viral ψ (PSI) packaging signal (HIV-1-PSI FOR 5′-CAGGACTCGGCTTGCTGAAG-3′, HIV-1-PSI REV 5′-TCCCCCGCTTAATACTGACG-3′, HIV-1-PSI PROBE 5′-CGCACGGCAAGAGGCGAGG-3′) and (2) the human albumin gene (ALB) as an internal reference standard (ALB FOR 5′-GCTGTCATCTCTTGTGGGCTGT-3′, ALB REV 5′-ACTCATGGGAGCTGCTGGTTC-3′, ALB PROBE 5′-CCTGTCATGCCCACACAAATCTCTCC-3′). Standard curves were obtained by serial dilutions of a plasmid containing one copy of ψ and ALB sequences. The number of PSI and ALB copies in test samples was extrapolated from the standard curves.

Weber L., Poletti V., Magrin E., Antoniani C., Martin S., Bayard C., Sadek H., Felix T., Meneghini V., Antoniou M.N., El-Nemer W., Mavilio F., Cavazzana M., Andre-Schmutz I, & Miccio A. (2018). An Optimized Lentiviral Vector Efficiently Corrects the Human Sickle Cell Disease Phenotype. Molecular Therapy. Methods & Clinical Development, 10, 268-280.

+ Open protocol

+ Expand

Blood DNA Extraction and Genotyping

Cited 1 time

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

DNA was extracted from 2uL of whole blood using the DNA Extract All Reagents Kit (ThermoFisher). Genotyping of rs678849 was performed on an ABI 7900 Thermocycler using a Taqman SNP Genotyping Assay (ThermoFisher) as previously described ^{34 (link)}.

Crist* R.C., Phillips K.A., Furnari M.A., Moran L.M., Doyle G.A., McNicholas L.F., Cornish J.W., Kampman K.M., Preston K.L, & Berrettini W.H. (2018). Replication of the pharmacogenetic effect of rs678849 on buprenorphine efficacy in African-Americans with opioid use disorder. The pharmacogenomics journal, 19(3), 260-268.

+ Open protocol

+ Expand

Blood DNA Extraction and Genotyping

Cited 1 time

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

+ Open protocol

+ Expand

Quantifying Erythroid Colony Composition

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

Erythroid colonies were plucked individually under a microscope. Each colony was washed in PBS (∼300 × g for 10 min) and resuspended in 100 μL of HPLC-grade water. A total of 20 μL was used for VCN assessment by qPCR, and 80 μL was used for hemoglobin analysis by IE-HPLC. Genomic DNA was column purified using the DNA Extract All Reagents Kit (Thermo Fisher, Waltham, MA, USA).

Brendel C., Negre O., Rothe M., Guda S., Parsons G., Harris C., McGuinness M., Abriss D., Tsytsykova A., Klatt D., Bentler M., Pellin D., Christiansen L., Schambach A., Manis J., Trebeden-Negre H., Bonner M., Esrick E., Veres G., Armant M, & Williams D.A. (2020). Preclinical Evaluation of a Novel Lentiviral Vector Driving Lineage-Specific BCL11A Knockdown for Sickle Cell Gene Therapy. Molecular Therapy. Methods & Clinical Development, 17, 589-600.

+ Open protocol

+ Expand

Genomic DNA Extraction from Ear Clips

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

Genomic DNA from F₀ and F₁ animals was extracted from ear clip biopsies using the DNA Extract All Reagents Kit (Applied Biosystems) according to the manufacturer’s instructions. The crude lysate was stored at − 20 °C.

Codner G.F., Mianné J., Caulder A., Loeffler J., Fell R., King R., Allan A.J., Mackenzie M., Pike F.J., McCabe C.V., Christou S., Joynson S., Hutchison M., Stewart M.E., Kumar S., Simon M.M., Agius L., Anstee Q.M., Volynski K.E., Kullmann D.M., Wells S, & Teboul L. (2018). Application of long single-stranded DNA donors in genome editing: generation and validation of mouse mutants. BMC Biology, 16, 70.

+ Open protocol

+ Expand

Genetic Factors in Liver Fat Content

Cited 2 times

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

Genomic DNA was extracted from venous blood (2.0 μl) from each participant using a DNA Extract All Reagents kit (Applied Biosystems, Yokohama, Japan), according to the manufacturer's instructions. After extraction, the genomic DNA was immediately stored at −30°. Genotyping was performed for patatin-like phospholipase domain-containing 3 (PNPLA3: rs738409) and microsomal triacylglyceride-transfer protein (MTP: rs180084), using an ABI prism 7300 (Applied Biosystems, Yokohama, Japan). PNPLA3 and MTP expression has previously been shown to be strongly associated with liver fat content (14 (link)–16 (link)). In brief, 5 μl GTXpress Master Mix (Applied Biosystems, Yokohama, Japan), 0.5 μl SNP-specific TaqMan genotyping assay mix (Applied Biosystems, Yokohama, Japan), 2.5 μl nuclease-free H₂O, and a 2.0 μl DNA solution were added per well. The denaturation began at 95°C for 20 s, with 40 cycles of incubation at 95°C for 15 s then annealing and extension at 60°C for 1 min. The allele frequencies of SNP genotypes were tested for the Hardy-Weinberg equilibrium.

Nirengi S., Fujibayashi M., Furuno S., Uchibe A., Kawase Y., Sukino S., Kawaguchi Y., Minato S., Kotani K, & Sakane N. (2018). Nonalcoholic Fatty Liver Disease in University Rugby Football Players. Frontiers in Endocrinology, 9, 341.

+ Open protocol

+ Expand

Genomic DNA Extraction and Genotyping

Cited 1 time

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

Genomic DNA was extracted from ear clip biopsies using the DNA Extract All Reagents Kit (Applied Biosystems) according to the manufacturer's instructions. Genotyping primers for SR-PCR assays were chosen to be at least 200 bp away from the sequences targeted by sgRNA, depending on available sequences for design. PCR assays were optimised and performed as previously described (27 (link)). The PCR products were purified employing a QIAquick Gel Extraction Kit (Qiagen) and sent for Sanger sequencing.

Owens D.D., Caulder A., Frontera V., Harman J.R., Allan A.J., Bucakci A., Greder L., Codner G.F., Hublitz P., McHugh P.J., Teboul L, & de Bruijn M.F. (2019). Microhomologies are prevalent at Cas9-induced larger deletions. Nucleic Acids Research, 47(14), 7402-7417.

+ 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!