Improve Research Reproducibility A Bio-protocol resource
Concise Method
tooltip

qPCR validation of RNA-seq and ATAC-seq data

AS Ayako Suzuki
KO Keiichi Onodera
KM Ken Matsui
MS Masahide Seki
HE Hiroyasu Esumi
TS Tomoyoshi Soga
SS Sumio Sugano
TK Takashi Kohno
YS Yutaka Suzuki
KT Katsuya Tsuchihara
request Request a Protocol
ask Ask a question
Favorite

For the cDNAs that were used in the high-throughput RNA-seq analysis, qPCR validation was performed using THUNDERBIRD SYBR qPCR Mix (QPS-201, TOYOBO). We performed one assay for each measurement. The detailed procedure is shown in the Supplementary Methods. The primer sequences are listed in Supplementary Table S6.

We also performed qPCR analyses of the five promoters and eight enhancers for the validation of the high-throughput ATAC-seq data. We performed one qPCR assay for each measurement. The ATAC DNAs, which were subjected to sequence analysis, were used. The detailed procedure is shown in the Supplementary Methods. The primer sequences are listed in Supplementary Table S7.

Copyright and License information: The Author(s) ©2019
Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/.

Do you have any questions about this protocol?

Post your question to gather feedback from the community. We will also invite the authors of this article to respond.

post Post a Question
0 Q&A