Log In Sign up
The largest database of trusted experimental protocols

Nanodrop 8000

Manufactured by Qiagen
Visit Supplier

The Nanodrop 8000 is a microvolume spectrophotometer designed for the quantification and purity assessment of nucleic acid and protein samples. It provides accurate measurements of sample concentrations using only 0.5-2 microliters of sample.

Automatically generated - may contain errors

Lab products found in correlation

Hiseq 2500, by Illumina (2 mentions) Qiaamp dna blood maxi kit, by Qiagen (2 mentions) Quantstudio 7 real time pcr system, by Thermo Fisher Scientific (2 mentions) Rneasy plus mini kit, by Qiagen (2 mentions) Quantitect reverse transcription kit, by Qiagen (2 mentions) Rneasy lipid tissue mini kit, by Qiagen (2 mentions) High capacity rna to cdna kit, by Thermo Fisher Scientific (1 mentions) Dnase 1 treatment, by Roche (1 mentions) Rotor gene q, by Qiagen (1 mentions) Rneasy mini kit, by Qiagen (1 mentions) Faststart sybr green master, by Roche (1 mentions) Taqman rt reagent, by Thermo Fisher Scientific (1 mentions) Stepone system, by Thermo Fisher Scientific (1 mentions) Power sybr green pcr master mix, by Thermo Fisher Scientific (1 mentions) Mirneasy mini kit, by Qiagen (1 mentions)

6 protocols using nanodrop 8000

1

Quantitative Real-Time PCR Analysis of Gene Expression

Check if the same lab product or an alternative is used in the 5 most similar protocols
Total RNA was extracted with RNeasy mini kit (Qiagen) and quantified by using Nanodrop 8000. After DNase I treatment (Roche Diagnostics), 1 μg of RNA was reverse transcribed with High-Capacity RNA-to-cDNA™ Kit (Applied Biosystems) according to manufacturer’s instructions. Quantitative real-time PCR was carried out at 60 °C using FastStart SYBR Green Master (Roche Diagnostics) in a Rotorgene-Q (Qiagen). Primers were designed by using Primer3. Primer sequences are reported in Supplementary Table 4.
Pietrobono S., Anichini G., Sala C., Manetti F., Almada L.L., Pepe S., Carr R.M., Paradise B.D., Sarkaria J.N., Davila J.I., Tofani L., Battisti I., Arrigoni G., Ying L., Zhang C., Li H., Meves A., Fernandez-Zapico M.E, & Stecca B. (2020). ST3GAL1 is a target of the SOX2-GLI1 transcriptional complex and promotes melanoma metastasis through AXL. Nature Communications, 11, 5865.
+ Open protocol
+ Expand
2

Exome Sequencing of Genomic DNA

Check if the same lab product or an alternative is used in the 5 most similar protocols
Genomic DNA was isolated from peripheral blood, obtained following informed consent, using QIAamp DNA Blood Maxi Kit (Qiagen Germantown, MD), quantified using Nanodrop‐8000 and stored at −20°C. Agilent XT libraries were captured using Agilent All Exon V5 + UTR kit. Libraries were pooled, and Exome sequencing was performed on a 125 bp paired‐end run in Illumina's HiSeq2500 next‐generation high‐throughput sequencing system using v4 chemistry. Variants identified through exome sequencing were submitted to the NCBI ClinVar database (https://www.ncbi.nlm.nih.gov/clinvar/).
Jay K., Mitra A., Harding T., Matthes D, & Van Ness B. (2019). Identification of a de novo FOXP1 mutation and incidental discovery of inherited genetic variants contributing to a case of autism spectrum disorder and epilepsy. Molecular Genetics & Genomic Medicine, 7(7), e00751.
+ Open protocol
+ Expand
3

Brain RNA Isolation and qRT-PCR Analysis

Check if the same lab product or an alternative is used in the 5 most similar protocols
RNA isolation from the brain was performed following manufacturer’s instructions with the RNeasy Lipid Tissue Mini Kit (QIAGEN #74804), with approximately 50 mg of human brain tissue homogenized in 1 mL of QIAzol Lysis Reagent with a handheld homogenizer. Cells were lysed in 350mL RLT Plus Lysis Buffer and RNA was extracted using the QIAGEN RNeasy Plus Mini kit (QIAGEN #74136) following manufacturer’s instructions. RNA quantity was measured with the Nanodrop 8000 and cDNA was synthesized using 500ng to 1mg total RNA with the Quantitect Reverse Transcription Kit (QIAGEN #205313) according to manufacturer’s instructions. For qRT-PCR, samples were run in a 384-well plate in triplicate on the QuantStudio 7 Real-Time PCR system (Applied Biosystems) with 2 mL cDNA per well used with Fastlane master mix, H2O and Taqman probes in a total volume of 20 μL. Relative gene expression was normalized to the housekeeping gene Rpl37a, and determined using the ΔΔCT method.
Zelic M., Pontarelli F., Woodworth L., Zhu C., Mahan A., Ren Y., LaMorte M., Gruber R., Keane A., Loring P., Guo L., Xia T.H., Zhang B., Orning P., Lien E., Degterev A., Hammond T, & Ofengeim D. (2021). RIPK1 activation mediates neuroinflammation and disease progression in multiple sclerosis. Cell reports, 35(6), 109112.
+ Open protocol
+ Expand
4

Quantification of Gene Expression by qPCR

Check if the same lab product or an alternative is used in the 5 most similar protocols
Total RNA was extracted from samples (miRNeasy mini kit; Qiagen) and quantified by using Nanodrop 8000 and stored at −80 °C. 500 ng of RNA were reverse transcribed using Taqman RT reagents (Applied Biosystems) with random hexamers following manufacturer’s recommendations. Transcripts were quantified by real-time qPCR using Power SYBR Green PCR MasterMix (Applied Biosystems) in StepOne System (ABI). Primers were designed by using PrimerSelect. Some qPCR primers were purchased from Origene (Table S3). Cycle threshold values were normalized to those of the housekeeping genes GAPDH or HPRT1. The average for three biological replicates was plotted as relative transcript abundance.
Agrawal P., Fontanals-Cirera B., Sokolova E., Jacob S., Vaiana C.A., Argibay D., Davalos V., McDermott M., Nayak S., Darvishian F., Castillo M., Ueberheide B., Osman I., Fenyö D., Mahal L.K, & Hernando E. (2017). A systems biology approach identifies FUT8 as a driver of melanoma metastasis. Cancer cell, 31(6), 804-819.e7.
+ Open protocol
+ Expand
5

Brain RNA Isolation and qRT-PCR Analysis

Check if the same lab product or an alternative is used in the 5 most similar protocols
RNA isolation from the brain was performed following manufacturer’s instructions with the RNeasy Lipid Tissue Mini Kit (QIAGEN #74804), with approximately 50 mg of human brain tissue homogenized in 1 mL of QIAzol Lysis Reagent with a handheld homogenizer. Cells were lysed in 350mL RLT Plus Lysis Buffer and RNA was extracted using the QIAGEN RNeasy Plus Mini kit (QIAGEN #74136) following manufacturer’s instructions. RNA quantity was measured with the Nanodrop 8000 and cDNA was synthesized using 500ng to 1mg total RNA with the Quantitect Reverse Transcription Kit (QIAGEN #205313) according to manufacturer’s instructions. For qRT-PCR, samples were run in a 384-well plate in triplicate on the QuantStudio 7 Real-Time PCR system (Applied Biosystems) with 2 mL cDNA per well used with Fastlane master mix, H2O and Taqman probes in a total volume of 20 μL. Relative gene expression was normalized to the housekeeping gene Rpl37a, and determined using the ΔΔCT method.
Zelic M., Pontarelli F., Woodworth L., Zhu C., Mahan A., Ren Y., LaMorte M., Gruber R., Keane A., Loring P., Guo L., Xia T.H., Zhang B., Orning P., Lien E., Degterev A., Hammond T, & Ofengeim D. (2021). RIPK1 activation mediates neuroinflammation and disease progression in multiple sclerosis. Cell reports, 35(6), 109112.
+ Open protocol
+ Expand
6

Whole Exome Sequencing from Blood

Check if the same lab product or an alternative is used in the 5 most similar protocols
Genomic DNA was isolated from peripheral blood, obtained after informed consent, using QIAamp DNA Blood Maxi Kit (Qiagen Germantown, MD), quantitated using Nanodrop‐8000 and stored at −20°C. Agilent XT libraries were captured using Agilent All Exon V5+ UTR kit. Libraries were pooled and exome sequencing was performed on a 125 bp paired‐end run on Illumina's HiSeq2500 next‐generation high‐throughput sequencing system using v4 chemistry.
Mitra A.K., Dodge J., Van Ness J., Sokeye I, & Van Ness B. (2016). A de novo splice site mutation in EHMT1 resulting in Kleefstra syndrome with pharmacogenomics screening and behavior therapy for regressive behaviors. Molecular Genetics & Genomic Medicine, 5(2), 130-140.
+ 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!