Oragene dna og 500 collection kit

Manufactured by DNA Genotek

Sourced in Canada

The Oragene DNA (OG-500) Collection Kit is a product designed for the collection and stabilization of DNA samples from saliva. The kit contains materials necessary for the collection and preservation of DNA samples, enabling their storage and transport.

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Lab products found in correlation

Humancore 12 custom beadchip, by Illumina (2 mentions) Humancore 24 custom beadchip, by Illumina (2 mentions) Endoscopy cytology brush, by Cook Medical (1 mentions) Nanodrop 2000 2000c spectrophotometer, by Thermo Fisher Scientific (1 mentions) Cfx real time pcr system, by Bio-Rad (1 mentions) Taqman snp genotyping assay, by Thermo Fisher Scientific (1 mentions)

Spelling variants of this product

Oragene kits (81 citations) Oragene collection kits (21 citations) Oragene DNA (19 citations) Oragene DNA OG-500 (15 citations) Oragene DNA Self-Collection Kit OG-500 (12 citations) Oragene OG-500 (9 citations) OG-500 (9 citations) Oragene OG-500 collection kit (3 citations)

8 protocols using oragene dna og 500 collection kit

Saliva-based Genomic DNA Extraction

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Saliva samples were collected using the Oragene DNA (OG-500) Collection Kit (DNA Genotek Inc., Ottawa, ON, Canada), followed by the extraction of genomic DNA according to the manufacturer’s instructions. Genotyping was performed using either of two Illumina (San Diego, CA, USA) platforms: the HumanCore-12+ Custom BeadChip or the HumanCore-24+ Custom BeadChip. Since these two platforms were designed to measure almost identical marker sets, we used 285,387 markers genotyped by both platforms. We excluded: (i) those estimated to have non-Japanese ancestry [22 (link),23 (link)], (ii) those with low call rates per subject (<0.95), (iii) those with a closely related subject (PI_HAT > 0.1875), (iv) those with inconsistent sex data between questionnaire and genotype, (v) SNP markers with low call rates per SNP (<0.95), (vi) values with significant deviation from the Hardy-Weinberg equilibrium (exact test p values < 1 × 10⁻⁶), and/or low minor allele frequencies (<0.01).

Fujihara K., Nogawa S., Saito K., Horikawa C., Takeda Y., Cho K., Ishiguro H., Kodama S., Nakagawa Y., Matsuzaka T., Shimano H, & Sone H. (2021). Carrot Consumption Frequency Associated with Reduced BMI and Obesity through the SNP Intermediary rs4445711. Nutrients, 13(10), 3478.

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Iris Texture Genotyping from Saliva

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A 2 ml saliva sample was taken from each participant using the Oragene+DNA (OG-500) collection kit (DNA Genotek, Canada). All participants were instructed not to eat, drink or smoke for at least 30 min prior to their appointment in order to ensure maximal sample purity. DNA was then isolated from each sample using the protocol provided by the manufacturer.
We selected four markers for genotyping that have either been directly associated with, or are purported to be associated with, iris texture in European populations [12 (link),23 (link)]. These include TRAF3IP1 rs3739070 (contraction furrows), SEMA3A rs10235789 (crypts), DSCR9 rs7277820 (Wolfflin nodules) and HERC1 rs11630290 (pigment spots).
All DNA samples were sent to LGC Genomics (USA) for genotyping. LGC Genomics uses a KASP-based genotyping method that combines allele-specific amplification with fluorescent resonance energy transfer technology. Twenty-nine samples were included as blind duplicates and 14 samples were included as blanks in order to check the quality of the genotyping results. The concordance rate for both blind duplicates and blanks was 100%.

Edwards M., Cha D., Krithika S., Johnson M, & Parra E.J. (2016). Analysis of iris surface features in populations of diverse ancestry. Royal Society Open Science, 3(1), 150424.

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Blood and Saliva Collection for DNA Extraction

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Fifty mL of blood was drawn by peripheral venipuncture into sterile vacutainer tubes coated in EDTA by a trained technician. Blood was processed on the day of collection according to previously published protocols [13 (link)]. Briefly, two blood tubes were used for DNA isolation, while all remaining blood was centrifuged and plasma was aliquoted and frozen at −80°C for future studies. For participants who refused venipuncture, or for whom technical difficulties prevented venipuncture, a saliva sample was obtained in an Oragene-DNA OG 500 collection kit (DNA Genotek, Ontario Canada) and incubated at 55°C for at least 2 h up to overnight to inactivate nucleases. DNA was extracted from 4 mL blood or 2 mL saliva solution in a semi-automated QuickGene 610 L using the DNA whole blood kit following the manufacturer’s protocol (Autogen, Holliston, MA).

Tropea T.F., Amari N., Han N., Rick J., Suh E., Akhtar R.S., Dahodwala N., Deik A., Gonzalez-Alegre P., Hurtig H., Siderowf A., Spindler M., Stern M., Thenganatt M.A., Weintraub D., Willis A.W., Van Deerlin V, & Chen-Plotkin A. (2021). Whole Clinic Research Enrollment in Parkinson’s Disease: The Molecular Integration in Neurological Diagnosis (MIND) Study. Journal of Parkinson's disease, 11(2), 757-765.

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Saliva Sampling for Genotyping

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An Oragene®•DNA (OG-500) Collection Kit (DNA Genotek, Ottawa, Ontario, Canada) was used for the collection, stabilization, and transportation of saliva samples. The samples were genotyped using two platforms: the Illumina HumanCore-12+ Custom BeadChip (Illumina, San Diego, CA, USA), which contains 302,073 markers; and the Illumina HumanCore-24+ Custom BeadChip, which contains 309,725 markers. For analysis in the present study, we used 296,675 SNPs that were present in both genotyping platforms.

Jia H., Nogawa S., Kawafune K., Hachiya T., Takahashi S., Igarashi M., Saito K, & Kato H. (2019). GWAS of habitual coffee consumption reveals a sex difference in the genetic effect of the 12q24 locus in the Japanese population. BMC Genetics, 20, 61.

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Comprehensive Oral and Esophageal Microbiome Sampling

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All subjects were fasting at the time of sample collection. Saliva was collected using the drool technique and stored in Oragene DNA OG-500 collection kits (DNA Genotek). The adherent oral microbiome was sampled using oral swabs (Epicentre Catch-All Sample collection swabs) by broadly sampling five distinct sites (right and left buccal lining, tongue dorsum, hard palate, and superior labial frenulum). At the beginning of the upper endoscopy, the scope channel was flushed with 20 mL sterile water. The esophageal squamous microbiome was sampled with two separate brushes (Endoscopy Cytology Brush, model G22174; Cook Medical), by passing the brush back and forth 10 times in each of four quadrants. This was similarly performed of areas with BE tissue (in BE patients) or gastric cardia (within 1 cm of the squamo-columnar junction) in controls). Brush tips were cut using sterile wire cutters and placed in sterile Eppendorf tubes. All samples were then stored at −80 °C.

Snider E.J., Compres G., Freedberg D.E., Giddins M.J., Khiabanian H., Lightdale C.J., Nobel Y.R., Toussaint N.C., Uhlemann A.C, & Abrams J.A. (2018). Barrett’s esophagus is associated with a distinct oral microbiome. Clinical and Translational Gastroenterology, 9(3), 135.

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Saliva DNA Genotyping for COMT SNP

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Two milliliters of whole expectorated saliva were collected from participants using Oragene^® DNA OG-500 collection kits (DNA Genotek Inc., Ottawa, Ontario, Canada). Genomic DNA was isolated from these samples according to the manufacturer’s instructions. Purified DNA was suspended in 100 μL of elution buffer (New England Biolabs, Inc, Ipswich, MA), and purified DNA was quantified by UV absorbance with a NanoDrop 2000/2000c Spectrophotometer (Thermo Scientific, Waltham, Massachusetts). Samples were then genotyped for rs4680 in the COMT gene. Genotyping of purified genomic DNA was performed utilizing Taqman^® Genotyping Assay Kits and reagents, according to the manufacturer’s protocol (Applied Biosystems/Thermo Fisher Scientific. Waltham, Massachusetts). Genotypes were determined using a CFX Real Time PCR system (BioRad). The SNP maintained Hardy-Weinberg equilibrium (p > 0.05). With consideration to the frequency of the minor allele in this sample, for the purposes of the analyses, participants with Met-Met and Met-Val genotypes were compared to those with a Val-Val genotype.

Voigts Key K., Estus S., Lennie T.A., Linares A.M, & Mudd-Martin G. (2022). Experiences of ethnic discrimination and COMT rs4680 polymorphism are associated with depressive symptoms in Latinx adults at risk for cardiovascular disease. Heart & lung : the journal of critical care, 55, 77-81.

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Saliva-Based Genotyping of COMT Val/Met

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After each subject completed behavioral testing, we collected a saliva sample using either an Oragene (OG-500) DNA Collection Kit (DNA Genotek Inc.) or a Norgen (RU35700) Saliva DNA Collection, Preservation, and Isolation Kit (Norgen Biotek Corp.). DNA was extracted from saliva, and genotyping was carried out using TaqMan® SNP Genotyping Assays according to the manufacturer’s protocol (Applied Biosystems, Inc.). The DNA samples were amplified with the Allelic Discrimination Protocol on an ABI 7900HT system and SDS software using rs4680 primer/probe sets for COMT Val^108/158Met. Previously analyzed DNA samples with established genotypes representing each possible COMT genotype (Val/Val, Val/Met, Met/Met) were also tested on all reaction plates as standards for quality control. All runs included negative controls without DNA template. Based on COMT gene standards we obtained 100% correct calls and ≥95% quality value. For quality control, genotyping was repeated on about 20% of the samples, resulting in 100% recall.

Ihne J.L., Gallagher N.M., Sullivan M., Callicott J.H, & Green A.E. (2015). Is less really more: Does a prefrontal efficiency genotype actually confer better performance when working memory becomes difficult?. Cortex; a journal devoted to the study of the nervous system and behavior, 74, 79-95.

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Genetic Predictors of tDCS Response

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A saliva or blood sample was collected from participants to allow isolation of DNA for genetic analysis of the BDNF Val66Met (rs6265) and the COMT Val108/158Met (rs4680) single nucleotide polymorphisms (SNPs) as possible predictors of response to tDCS.
In blood samples, DNA was isolated and purified from the buffy coat in blood samples collected in 9 ml EDTA tubes or for saliva using the Oragene OG-500 DNA collection Kit (DNA Genotek, Ottawa, Ontario, Canada). Genotyping was performed using Applied Biosystems (Mulgrave, VIC, Australia) TaqMan SNP assays designed for use with an ABI Prism 7900HT Fast Real Time quantitative PCR system for the BDNF Val66Met (Assay ID C__11592758_10) and the COMT Val108/158Met (Assay ID C__25746809_50) SNPs.
DNA concentration was quantified by nanodrop and all samples were diluted to 10 ng/μL for blood and 2.5 ng/μL for saliva. 10ng of genomic DNA from each blood and saliva sample was added into a 384-well plate with PCR solution using standard procedures and set into the ABI Prism 7900HT for PCR genotyping. All SNP genotyping results were then analysed with Sequence Detection Software version 2.3 (ABI, Life Technologies, Mulgrave, VIC, Australia).

Martin D.M., McClintock S.M., Aaronson S.T., Alonzo A., Husain M.M., Lisanby S.H., McDonald W.M., Mohan A., Nikolin S., O'Reardon J., Weickert C.S, & Loo C.K. (2018). Pre-treatment attentional processing speed and antidepressant response to transcranial direct current stimulation: Results from an international randomized controlled trial. Brain stimulation, 11(6).

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