Table 1 Datasets from the Affymetrix Mouse Genome 430 2.0 Array used in the different transcriptomics analyses.

From: Computational analysis of single-cell transcriptomics data elucidates the stabilization of Oct4 expression in the E3.25 mouse preimplantation embryo

Cellular stage

Number samples

Database

Database ID

Data type

Reference

Metaphase II oocyte

1-cell stage

2-cell stage

4-cell stage

8-cell stage

E3.0 morula

3

3

3

3

3

3

GEO

GSE41358

Bulk

Cao et al.53

E3.25 blastocysts(a)

E3.5 PE & EPI(a)

E4.5 PE & EPI(a)

E3.25 FGF4-KO(a)

E3.5 FGF4-KO(a)

E4.5 FGF4-KO(a)

36

22

8

17

8

10

Array

Express

E-MTAB-1681

Single cell

Ohnishi et al.3

8-cell stage (E2.5)

4

GEO

GSE41925

Bulk

Choi et al.54

E3.5 ICM

20

GEO

GSE4309

Single cell

Kurimoto et al.9

2-cell stage (E1.5)

4- to 8-cell stage (E2.5)

2

2

GEO

GSE7309

Bulk

Maekawa et al.55

Prestreak (PS)

Early/mid bud (E/MB)

8

8

GEO

GSE11128

Single cell

Kurimoto et al.56

Trophoblast stem cells

6

GEO

GSE47719

Bulk

Kubaczka et al.11

ESCs

665

GEO

(b)*

(b)*

(b)*

  1. aThe staging of the embryos selected for single cell transcriptomics analysis was calculated as the average total number of cells counted in all the embryos of the same clutch, excluding samples with the maximum and minimum cell numbers.
  2. bCollection of ESCs (bulk and single cells) from different GSEs and authors.
Back to article page