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Table 1 Datasets used for analysis with ChromTime

From: ChromTime: modeling spatio-temporal dynamics of chromatin marks

System

Chromatin marks

Species

Number of time points

Reference

Adipogenesis

H3K4me2

Mouse

4

[18]

H3K4me3

Human

  

H3K27ac

   

H3K4me1

   

H3K36me3

   

H3K27me3

   

Blood formation

H3K4me2

Mouse

5–7

[19]

H3K4me3

   

H3K27ac

   

H3K4me1

   

ATAC-seq

   

Blood formation

ATAC-seq

Human

5

[20]

Fetal brain development

DNase-seq

Human

3

[7]

Cardiac development

H3K4me3

Mouse

4

[23]

H3K27ac

   

H3K4me1

   

H3K27me3

   

H3K36me3

   

Pol2

   

Cardiac development

H3K4me3

Human

5

[22]

H3K27me3

   

H3K36me3

   

Embryogenesis

H3K4me3

Zebrafish

4

[28]

H3K27ac

   

H3K4me1

   

Macrophage differentiation

H3K4me3

Mouse

5

[21]

H3K9ac

   

H3K27ac

   

H3K27me3

   

Neural differentiation

H3K4me3

Human

5

[12]

H3K27ac

   

H3K27me3

   

H3K4me1

   

Stem cell reprogramming

H3K4me2

Human

4–6

[24]

H3K4me3

   

H3K27ac

   

H3K4me1

   

H3K27me3

   

H3K36me3

   

Stem cell reprogramming

H3K4me2

Mouse

4

[27]

H3K4me3

   

H3K9ac

   

H3K27ac

   

H3K27me3

   

H3K36me3

   

H3K4me1

   

H3K79me2

   

H3K9me3

   

ATAC-seq

   

Stem cell reprogramming

H3K4me3

Mouse

9

[25]

H3K27ac

   

H3K4me1

   

H3K27me3

   

Pol2

   

T-cell development

H3K4me2

Mouse

5

[17]

H3K(9,14)ac

   

H3K27me3

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