Interpretation for increase of counts of non-zero values in single cell ATAC-seq samples ?
0
0
Entering edit mode
19 months ago
Alexander ▴ 220

105942 cells and 228942 DNA regions for ATAC peaks. Cells were sequenced at days 2,3,4,7.

Let us count number of non-zero elements for each cell. And make a plot of it.

We see some clear patterns of day dependence.

Question: What is the interpretation of counts for non-zero elements per cell for ATAC-seq data ? Such quantity (or its change) has some biological meaning or purely technical ?

For more information see discussion: https://www.kaggle.com/competitions/open-problems-multimodal/discussion/353629 and notebook: https://www.kaggle.com/code/alexandervc/mmscel-atac-seq-eda02-sums-counts-day-dependence

PS Data are from the Kaggle/NearIPS2022 ongoing competition: https://www.kaggle.com/competitions/open-problems-multimodal

enter image description here

ATAC-seq scRNA-seq • 308 views
ADD COMMENT

Login before adding your answer.

Traffic: 1507 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6