Table 1.
Information on the sources and public access for the datasets analyzed in the paper
| Figures‡ | ||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Dataset | Population* | Laboratory† | Public repository | Accession number | 1a,c; 2a | 1b,d; 2b | 1e | 3 | 4a | 4b | 5a | 5b |
| Affymetrix Mouse Genome 430 2.0 data | ||||||||||||
| Spleen CD8 DCs (2) | MD/SCPK | GEO [95] | GSE9810 | X | X | X | X | X | ||||
| Spleen CD11b DCs (2) | MD/SCPK | GEO | GSE9810 | X | X | X | X | X | ||||
| Spleen pDCs (2) | MD/SCPK | GEO | GSE9810 | X | X | X | X | X | ||||
| Spleen NK cells (2) | MD/SCPK | GEO | GSE9810 | X | X | X | ||||||
| Spleen CD8 T cells (2) | MD/SCPK | GEO | GSE9810 | X | X | |||||||
| Spleen B cells (3) | MD/SCPK | GEO | GSE9810 | X | X | X | ||||||
| Spleen CD4 T cells (2) | AYR | GEO | GSM44979; GSM44982 | X | X | X | ||||||
| Spleen monocytes (3) | SB | NCI caArray [96] | NA | X | X | X | ||||||
| Spleen monocytes (2) | BP | GEO | GSM224733; GSM224735 | X | ||||||||
| Peritoneal MΦ (1) | SA | GEO | GSM218300 | X | ||||||||
| BM-MΦ (2) | RM | GEO | GSM177078; GSM177081 | X | ||||||||
| BM-MΦ (1) | CK | GEO | GSM232005 | X | ||||||||
| BM-DCs (2) | RM | GEO | GSM40053; GSM40056 | X | ||||||||
| BM-DCs (2) | MH | GEO | GSM101418; GSM101419 | X | ||||||||
| Affymetrix Mouse U74Av2 data | ||||||||||||
| Spleen CD4 T cells (3) | CB/DM | GEO | GSM66901; GSM66902; GSM66903 | X | ||||||||
| Spleen B2 cells (2) | CB/DM | GEO | GSM66913; GSM66914 | X | ||||||||
| Spleen B1 cells (2) | CB/DM | GEO | GSM66915; GSM66916 | X | ||||||||
| Spleen NK cells (2) | FT | EBI ArrayExpress [97] | E-MEXP-354 | X | ||||||||
| Spleen CD4 DCs (2) | CRES | GEO | GSM4697; GSM4707 | X | ||||||||
| Spleen CD8 DCs (2) | CRES | GEO | GSM4708; GSM4709 | X | ||||||||
| Spleen DN DCs (2) | CRES | GEO | GSM4710; GSM4711 | X | ||||||||
| Spleen IKDCs (2) | FH | GEO | GSM85329; GSM85330 | X | ||||||||
| Spleen cDCs (2) | FH | GEO | GSM85331; GSM85332 | X | ||||||||
| Spleen pDCs (2) | FH | GEO | GSM85333; GSM85334 | X | ||||||||
| Affymetrix Human Genome U133 Plus 2.0 data | ||||||||||||
| Blood monocytes (3) | FRS | Authors' webpage [86] | NA | X | X | X | X | |||||
| Blood CD4 T cells (3) | FRS | Authors' webpage | NA | X | X | X | ||||||
| Blood CD8 T cells (3) | FRS | Authors' webpage | NA | X | X | X | ||||||
| Blood B cells (3) | FRS | Authors' webpage | NA | X | X | X | ||||||
| Blood NK cells (3) | FRS | Authors' webpage | NA | X | X | X | ||||||
| Blood neutrophils (3) | FRS | Authors' webpage | NA | X | X | X | ||||||
| Blood pDCs (3) | CAKB | EBI ArrayExpress | E-TABM-34 | X | X | X | X | X | ||||
| Blood BDCA1 DCs (3) | CAKB | EBI ArrayExpress | E-TABM-34 | X | X | X | X | X | ||||
| Blood BDCA3 DCs (3) | CAKB | EBI ArrayExpress | E-TABM-34 | X | X | X | X | X | ||||
| Blood CD16 DCs (3) | CAKB | EBI ArrayExpress | E-TABM-34 | X | X | |||||||
| PBMC-derived MΦ (2) | SYH | GEO | GSM109788; GSM109789 | X | ||||||||
| Monocyte-derived MΦ | LZH | GEO | GSM213500 | X | ||||||||
| Monocyte-derived DCs (3) | MVD | GEO | GSM181931; GSM181933; GSM181971 | X | ||||||||
*The number of replicates is shown in parentheses. †MD/SCPK, M Dalod, S Chan, P Kastner; AYR, AY Rudensky; SB, S Bondada; BP, B Pulendran; SA, S Akira; RM, R Medzhitov; CK, C Kim; MH, M Hikida; CB/DM, C Benoist, D Mathis; FT, F Takei; CRES, C Reis e Sousa; FH, F Housseau; FRS, FR Sharp; CAKB, CAK Borrebaeck; SYH, S Yla-Herttuala; LZH, L Ziegler-Heitbrock; MVD, MV Dhodapkar. ‡Shown in the indicated figure in this study. BM-DC, mouse bone-marrow derived GM-CSF DCs; BM-MΦ, mouse bone marrow-derived M-CSF macrophages; monocyte-derived MΦ, monocyte-derived M-CSF macrophages; NA, not applicable; PBMC-derived MΦ, human peripheral blood mononuclear cell-derived M-CSF macrophages; peritoneal MΦ, peritoneal mouse macrophages.