search

hkimlab-PE / PE_SupplementaryCode

Supplementary Code for Kim et al. Nature Biotechnology 2020
MIT License
6 stars 4 forks source link

How is main figure 1b generated? #5

Closed YichaoOU closed 3 years ago

YichaoOU commented 3 years ago

Hello,

I can't seem to find the data for the 36 pairs of pegRNAs and target sequences? Are they from Supplementary Table 3? Then I checked the gRNAs (removing the first G), they do not match the gRNAs used in Anzalone et al 2019?

Thanks, Yichao

hkimlab-PE commented 3 years ago

Dear Yi Chao,

Thank you for your interest in our work!

The datasets of 36 pegRNAs were obtained from Fig4c~e of Anzalone et al

  1. You can find the sequence information and raw NGS data in Supplementary table and SRA (PRJNA565979), respectively.

I hope it may help,

Best regards, Hui Kwon Kim

2021년 4월 28일 (수) 오전 5:22, Yichao Li @.***>님이 작성:

Hello,

I can't seem to find the data for the 36 pairs of pegRNAs and target sequences? Are they from Supplementary Table 3? Then I checked the gRNAs (removing the first G), they do not match the gRNAs used in Anzalone et al 2019?

Thanks, Yichao

— You are receiving this because you are subscribed to this thread. Reply to this email directly, view it on GitHub https://github.com/hkimlab-PE/PE_SupplementaryCode/issues/5, or unsubscribe https://github.com/notifications/unsubscribe-auth/AEKYVJ2EZO4XTLZJ6MMZWP3TK4MGZANCNFSM43VWJCCA .

-- Hui Kwon Kim, PhD Assistant Professor Department of Integrative Biotechnology, Sungkyunkwan University Life Science and Tech 2, Room 62206 2066 Seobu-ro, Jangan-gu, Suwon-si, Gyeonggi-do 16419, South Korea Tel: +82-31-290-7864, +82-10-7243-6839 Email: @., @.

YichaoOU commented 3 years ago

Hi Hui Kwon,

Thanks! Fig4c-e have the 3 gRNAs like below:

RNF2 TCATCTTAGTCATTACCTG
RUNX1 CATTTTCAGGAGGAAGCGA
VEGFA ATGTCTGCAGGCCAGATGA

I can't find these gRNAs in your Supplementary Table 3 or 4. Do I miss anything?

Thanks, Yichao

YichaoOU commented 3 years ago

Hello,

I'm wondering if you had a chance to look at the issue?

Thanks, Yichao

hkimlab-PE commented 3 years ago

Dear Dr. Yichao,

Thank you for your reminder!

The results of Anzalone et al. 2019 were not attached in our Supplementary tables. This excel file contains reanalyzed result from the paper. I hope it may help,

Re-analyzed data.zip

Thanks, Hui Kwon

YichaoOU commented 3 years ago

Thank you so much!