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Qiaamp dna mini and blood mini kit

Manufactured by Qiagen
Sourced in Germany, United States

The QIAamp DNA Mini and Blood Mini kits are laboratory equipment designed for the rapid and efficient extraction of DNA from a variety of sample types, including whole blood, buffy coat, plasma, serum, and cultured cells. The kits utilize a silica-based membrane technology to capture and purify DNA, providing high-quality DNA suitable for use in downstream applications such as PCR, sequencing, and other molecular biology techniques.

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49 protocols using qiaamp dna mini and blood mini kit

1

DNA Extraction from Frozen Blood

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Frozen blood samples were allowed to thaw and used for DNA extraction by QIAamp DNA Mini and Blood Mini kit (QIAGEN GmbH Germany, Düsseldorf, Germany) (Catalog no. 51104, 51106, 51304, 51306) according to the manufacturer's protocol.
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2

Genomic DNA Extraction from PBMCs

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Peripheral blood mononuclear cells (PBMCs) were isolated from 5 ml of venous ethylenediaminetetraacetic acid (EDTA)-blood by Histopaque®-1077 (Sigma-Aldrich, United States) gradient centrifugation (1.077 g/mL). Genomic DNA was extracted from 1 × 106 PBMCs using QIAamp® DNA Mini and Blood Mini Kit (Qiagen, Germany) or from buccal swabs using Invisorb® Spin Tissue Mini Kit (Stratec molecular, Germany), according to the manufacturer’s instructions.
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3

Cloning and Site-Directed Mutagenesis of IL-8 Promoter

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Genomic DNA was extracted from cultured NHAs using a QIAampDNA mini and blood mini kit (Qiagen, Hilden, Germany). A 1.3kb promoter region of IL-8 was amplified using the primers KR9 (F-5’-ctggcctaactggccggtacGGTGTCCTTGGATAAAGAG-3’) and KR10 (R-5’-gaggccagatcttgatatccTACCAAAGCATCAAGAATAG-3’) and inserted into KpnI and XhoI linearized pGL4.12 vector via Gibson Assembly (New England Biolabs, Ipswich, MA). The following PCR conditions were used: initial denaturation at 95 °C for 10 min; followed by 35 cycles of denaturation at 95 °C for 30 sec, annealing at 60 °C for 30 sec, and extension at 72 °C for 1.5 min and a final extension at 72 °C for 10 min using the Q5 hot start Taq polymerase. Recombinant plasmid was subjected to restriction digestion with SfiI and sequencing to confirm the presence of a single copy of insert in proper orientation. This wild type IL-8 plasmid (p576) was subjected to site-directed mutagenesis using the Q5 site-directed mutagenesis kit (New England Biolabs) with primers, (F-5’-TTTAAAGATCctgGAAAACTTTCGTCATACTC-3’ and R-5’-ATAATTTAATTTTAATATACATTTAAAATACTG-3’) to obtain the substitution plasmid at the TCF/LEF binding site (p594). This plasmid was sequenced from both directions to confirm proper substitution.
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4

DNA Isolation, Fragmentation, and Sequencing

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DNA was isolated from the CSF/serum/plasma samples using QIAamp DNA Mini and Blood Mini Kit (Qiagen, Germany) and from tissue samples by Allprep DNA/RNA mini kit (Qiagen, Germany), and was quantified on Nanodrop 1000 spectrophotometer (Thermo Scientific, USA). DNA was fragmented using Ion Shear Plus Reagents Kit (Life technologies, USA) and purified using Agencourt Ampure XP DNA reagent. The fragmented DNA was ligated with Barcode adapters. Adaptor-DNA constructs were purified, size selected, and amplified via PCR as per the manufacturer’s instructions. Quantification and size distribution analysis was carried out on High sensitivity DNA chip kit on Agilent Bioanalyzer 2100. Emulsion PCR and sequencing of the DNA libraries were carried out on 316/318 chips as per the manufacturer’s instructions.
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5

Genomic DNA Extraction and Genotyping

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Genomic DNA was extracted from peripheral blood lymphocytes and NPC tissues using the QIAamp DNA Mini and Blood Mini Kit (Qiagen Inc., Valencia, CA, USA). The concentrations and purity of DNA were measured using NanoDrop TM 1000 spectrophotometer. Genotype of the candidate SNP was determined by Sequenom MassARRAY iPLEX (Sequenom, Inc., San Diego, CA, USA). The call rate threshold was at least 95%.
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6

Blood DNA Extraction Protocol

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2.0 ml of fresh whole blood were collected from each study subject and were stored in EDTA tubes for preservation purposes. Cold chain (4°C) was maintained throughout the entire journey from hospitals to the laboratory in the university where the samples were processed. Genomic DNA was extracted from the blood samples using QIAamp® DNA Mini and Blood Mini kit (QIAgen, USA). The extracted DNA was stored at -80°C until further usage. The extracted DNA was quantified using nanophotometer and the absorbance was measured at wavelengths of 260nm and 280nm.
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7

Quantifying Mitochondrial DNA in Plasma

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The mtDNA and nuclear DNA (nDNA) from cultivated HEK293 cells was extracted and purified using nDNA and mtDNA isolation kits (K280-50, BioVision, USA), according to the standard instructions. Plasma DNA from patients was prepared using the QIAamp DNA Mini and Blood Mini kit (Qiagen). The primers used for qPCR are presented in Table 2. We performed RT-qPCR using human mtDNA isolated from patients as templates and obtained amplification curves. The relative quantitation of mtDNA in human plasma was normalized to the absolute copy number of Hbb gene after amplification. RT-qPCR was performed using the QuantStudio 5 (Applied Biosystems, USA) system with a SYBR Premix Ex Taq II kit (TaKaRa).
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8

Genomic Analysis of Frozen Tumor Biopsies

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A Cryostat microtome was used to make 30-µm slides of fresh frozen tissue (n = 45). Slides from tumour were stained routinely with haematoxylin/eosin and tumour content was verified by microscopy. DNA was purified from 10 to 25 mg tissue using QIAamp DNA Mini and Blood Mini kit (Qiagen) as recommended by the manufacturer (Supplementary material). Sequencing libraries were prepared from 20 to 24 ng DNA harvested from fresh frozen primary biopsies, as described above, using the AVENIO Tumour Tissue Analysis Kit paired with the AVENIO Tumour Surveillance Kit (both from Roche) as recommended by the manufacturer, with minor alterations (Supplementary material). Detection threshold was 5% for single nucleotide variants.
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9

Genomic DNA Extraction and SNP Genotyping of Chios Sheep

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Total genomic DNA was extracted from blood samples of 600 Chios female sheep (milking ewes) from three farms in Northern Greece, according to the standard protocol of the QIAamp DNA Mini and Blood Mini kit (QIAGEN, USA), following the manufacturer’s recommendations with minor modifications. DNA samples were quantified using a Nanodrop spectrophotometer and stored at − 20 °C until use. Subsequently, DNA samples were oven-dried and 500 ng per sample were transferred to 96-well plates. All DNA samples were genotyped with the OvineSNP50 Genotyping BeadChip that contains 54,124 single nucleotide polymorphisms (SNPs) (Illumina, Inc., U.S.) and was developed in collaboration with the International Sheep Genomics Consortium [25 ] which included 23 Chios sheep.
Quality control of genotypes was performed by setting sample and marker call rate thresholds at 90% using the PLINK 1.07 software [26 (link)]. In addition, all SNPs on the sex chromosomes were removed resulting in a final dataset of 538 individuals and 51,124 SNPs spread across the 26 ovine autosomes. SNP positions were assigned according to the Oar_v4.0 sheep genome assembly [27 ].
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10

Whole Genome Genotyping and Imputation

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Genomic DNA was extracted from blood using the QIAamp DNA mini and blood mini kit (Qiagen, 51104). 200 ng of gDNA was used for input for the SNP array (Infinium Omni2.5-8 v1.4 Kit) and genotyping was performed according to the manufacturer’s instructions. We discarded 3 samples that showed the genotyping call rate below 95% (see Supplementary Table 6 for details). We used the 1000 Genomes Phase III integrated variant set (Data availability) as the reference haplotype data and performed whole genome imputation by using the Beagle software (version 4.0; https://faculty.washington.edu/browning/beagle/b4_0.html). We converted the genome coordinate from GRCh37 to GRCh38 using CrossMap (version 0.5.2; http://crossmap.sourceforge.net/).
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