Online-only Table 1 Summary of data sets included in the collection.
ID | treatments | doses | time_points | n_samples | min_replicates | max_replicates | organism | biological_system | biological_system_specification | type | class | citation | doi | platform | technology | link_to_entry_page | files_provided |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
GSE112780 | control, crocidolite, MWCNT | 10 ug, 120 ug, 1 ug, 40 ug, 80 ug | 12mo, 1mo, 6mo | 139 | 5 | 9 | Mus musculus | Lung | Whole organ | In vivo | I | Snyder-Talkington et al. 201649 | 10.1080/15287394.2016.1159635 | Affymetrix | DNA microarray | https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE112780 | GSE112780_metadata.txt, GSE112780_Filtered_DEG.xlsx, GSE112780_Unfiltered_DEG.xlsx, Normalized_Expression_Matrix_GSE112780.txt |
GSE29042 | control, MWCNT | 10 ug, 20 ug, 40 ug, 80 ug | 1d, 28d, 56d, 7d | 160 | 8 | 8 | Mus musculus | Lung | Whole organ | In vivo | I | Dymacek & Guo, 201150 | 10.1109/BIBM.2011.76 | Agilent | DNA microarray | GSE29042_metadata.txt, Corrected_Expression_Matrix_GSE29042.txt, GSE29042_Filtered_DEG.xlsx, GSE29042_Unfiltered_DEG.xlsx, Normalized_Expression_Matrix_GSE29042.txt | |
GSE35193 | Carbon black (Printex90), control | 162 ug, 18 ug, 54 ug | 1d, 28d, 3d | 67 | 5 | 6 | Mus musculus | Lung | Whole organ | In vivo | I | Bourdon et al. 201251 | 10.1093/toxsci/kfs119 | Agilent | DNA microarray | GSE35193_metadata.txt, Corrected_Expression_Matrix_GSE35193.txt, GSE35193_Filtered_DEG.xlsx, GSE35193_Unfiltered_DEG.xlsx, Normalized_Expression_Matrix_GSE35193.txt | |
GSE41041 | control, nanoTiO2 | 162 ug, 18 ug, 54 ug | 1d, 28d, 3d | 65 | 5 | 6 | Mus musculus | Lung | Whole organ | In vivo | I | Husain et al. 201352 | 10.1016/j.taap.2013.03.018 | Agilent | DNA microarray | GSE41041_metadata.txt, Corrected_Expression_Matrix_GSE41041.txt, GSE41041_Filtered_DEG.xlsx, GSE41041_Unfiltered_DEG.xlsx, Normalized_Expression_Matrix_GSE41041.txt | |
GSE42066 | control, MWCNT, TiO2 nanobelt | 100 ug/ml, 10 ug/ml | 1h, 24h | 30 | 3 | 3 | Homo sapiens | Caco-2/HT29-MTX | Intestine epithelial cells | In vitro | I | Tilton et al. 201453 | 10.3109/17435390.2013.803624 | Affymetrix | DNA microarray | GSE42066_metadata.txt, GSE42066_Filtered_DEG.xlsx, GSE42066_Unfiltered_DEG.xlsx, Normalized_Expression_Matrix_GSE42066.txt | |
GSE42067 | control, MWCNT, TiO2 nanobelt | 100 ug/ml, 10 ug/ml | 1h, 24h | 30 | 3 | 3 | Homo sapiens | SAE | Primary small airway epithelial cells | In vitro | I | Tilton et al. 201453 | 10.3109/17435390.2013.803624 | Affymetrix | DNA microarray | GSE42067_metadata.txt, Corrected_Expression_Matrix_GSE42067.txt, GSE42067_Filtered_DEG.xlsx, GSE42067_Unfiltered_DEG.xlsx, Normalized_Expression_Matrix_GSE42067.txt | |
GSE42068 | control, MWCNT, TiO2 nanobelt | 100 ug/ml, 10 ug/ml | 1h, 24h | 30 | 3 | 3 | Homo sapiens | THP-1 | Macrophage-like (PMA-differentiated) | In vitro | I | Tilton et al. 201453 | 10.3109/17435390.2013.803624 | Affymetrix | DNA microarray | GSE42068_metadata.txt, Corrected_Expression_Matrix_GSE42068.txt, GSE42068_Filtered_DEG.xlsx, GSE42068_Unfiltered_DEG.xlsx, Normalized_Expression_Matrix_GSE42068.txt | |
GSE51186 | control, Eudragit RL, GSNO, GSNO-loaded Eudragit RL | 200 ug/mL, 50 ug/mL, 50 uM | 24h, 4h | 34 | 3 | 5 | Homo sapiens | THP-1 | Monocyte | In vitro | I | Ronzani et al. 201454 | 10.1093/jac/dku122 | Agilent | DNA microarray | GSE51186_metadata.txt, GSE51186_Filtered_DEG.xlsx, GSE51186_Unfiltered_DEG.xlsx, Normalized_Expression_Matrix_GSE51186.txt | |
GSE55286 | control, MWCNT (NM-401), MWCNT (NRCWE-26) | 162 ug, 18 ug, 54 ug | 1d, 28d, 3d | 139 | 5 | 12 | Mus musculus | Lung | Whole organ | In vivo | I | Poulsen et al. 201555 | 10.1016/j.taap.2014.12.011 | Agilent | DNA microarray | GSE55286_metadata.txt, Corrected_Expression_Matrix_GSE55286.txt, GSE55286_Filtered_DEG.xlsx, GSE55286_Unfiltered_DEG.xlsx, Normalized_Expression_Matrix_GSE55286.txt | |
GSE55349 | Au40, Au5, control, control_Au40, control_Au5 | 100 uM, 300 uM | 24h, 72h | 42 | 3 | 3 | Homo sapiens | Caco-2 | Intestine epithelial cells | In vitro | I | Bajak et al. 201556 | 10.1016/j.toxlet.2014.12.008 | Agilent | DNA microarray | GSE55349_metadata.txt, Corrected_Expression_Matrix_GSE55349.txt, GSE55349_Filtered_DEG.xlsx, GSE55349_Unfiltered_DEG.xlsx, Normalized_Expression_Matrix_GSE55349.txt | |
GSE60797 | control, Indoor-nanoTiO2 (sanding dust), Indoor-R (sanding dust) | 162 ug, 486 ug, 54 ug | 1d, 28d | 70 | 4 | 6 | Mus musculus | Lung | Whole organ | In vivo | I | Halappanavar et al. 201457 | 10.1002/em.21936 | Agilent | DNA microarray | GSE60797_metadata.txt, Corrected_Expression_Matrix_GSE60797.txt, GSE60797_Filtered_DEG.xlsx, GSE60797_Unfiltered_DEG.xlsx, Normalized_Expression_Matrix_GSE60797.txt | |
GSE60798 | control, nanoTiO2 (NRCWE-001), nanoTiO2 (NRCWE-002) | 162 ug, 18 ug, 54 ug | 1d, 28d | 69 | 4 | 5 | Mus musculus | Lung | Whole organ | In vivo | I | Halappanavar et al. 201457 | 10.1002/em.21936 | Agilent | DNA microarray | GSE60798_metadata.txt, Corrected_Expression_Matrix_GSE60798.txt, GSE60798_Filtered_DEG.xlsx, GSE60798_Unfiltered_DEG.xlsx, Normalized_Expression_Matrix_GSE60798.txt | |
GSE60799 | control, nanoTiO2 (NRCWE-025), nanoTiO2 (NRCWE-030) | 162 ug, 18 ug, 54 ug | 1d, 28d | 69 | 4 | 5 | Mus musculus | Lung | Whole organ | In vivo | I | Halappanavar et al. 201457 | 10.1002/em.21936 | Agilent | DNA microarray | GSE60799_metadata.txt, Corrected_Expression_Matrix_GSE60799.txt, GSE60799_Filtered_DEG.xlsx, GSE60799_Unfiltered_DEG.xlsx, Normalized_Expression_Matrix_GSE60799.txt | |
GSE60800 | control, nanoTiO2 (NRCWE-032), nanoTiO2 (NRCWE-033) | 162 ug, 18 ug, 54 ug | 1d, 28d | 70 | 4 | 6 | Mus musculus | Lung | Whole organ | In vivo | I | Halappanavar et al. 201457 | 10.1002/em.21936 | Agilent | DNA microarray | GSE60800_metadata.txt, Corrected_Expression_Matrix_GSE60800.txt, GSE60800_Filtered_DEG.xlsx, GSE60800_Unfiltered_DEG.xlsx, Normalized_Expression_Matrix_GSE60800.txt | |
GSE63552 | control, crocidolite, glass wool, MWCNT (Mitsui7) | 0.25 ug/cm2, 2 ug/cm2 | 12h, 1h, 24h, 48h, 4h, 6h | 123 | 2 | 3 | Homo sapiens | BEAS-2B | Bronchial epithelial cells | In vitro | I | Nymark et al. 201558 | 10.3109/17435390.2015.1017022 | Affymetrix | DNA microarray | GSE63552_metadata.txt, GSE63552_Filtered_DEG.xlsx, GSE63552_Unfiltered_DEG.xlsx, Normalized_Expression_Matrix_GSE63552.txt | |
GSE63806 | control, nanoSiO2 | 0.1 ug/cm2, 1.5 ug/cm2, 1 ug/cm2, 3 ug/cm2, 6 ug/cm2 | 24h, 72h | 38 | 3 | 11 | Homo sapiens | A549 | Alveolar basal epithelial cells | In vitro | I | Pisani et al. 201559 | 10.1186/s12864-015-1521-5 | Agilent | DNA microarray | GSE63806_metadata.txt, Corrected_Expression_Matrix_GSE63806.txt, GSE63806_Filtered_DEG.xlsx, GSE63806_Unfiltered_DEG.xlsx, Normalized_Expression_Matrix_GSE63806.txt | |
GSE81564 | control, nanoTiO2 (anatase) | 162 ug, 486 ug, 54 ug | 1d, 28d | 37 | 4 | 5 | Mus musculus | Lung | Whole organ | In vivo | I | Rahman et al. 201760 | 10.1093/mutage/gew048 | Agilent | DNA microarray | GSE81564_metadata.txt, Corrected_Expression_Matrix_GSE81564.txt, GSE81564_Filtered_DEG.xlsx, GSE81564_Unfiltered_DEG.xlsx, Normalized_Expression_Matrix_GSE81564.txt | |
GSE81565 | control, nanoTiO2 (rutile hydrophilic) | 162 ug, 486 ug, 54 ug | 1d, 28d | 39 | 4 | 5 | Mus musculus | Lung | Whole organ | In vivo | I | Rahman et al. 201760 | 10.1093/mutage/gew048 | Agilent | DNA microarray | GSE81565_metadata.txt, Corrected_Expression_Matrix_GSE81565.txt, GSE81565_Filtered_DEG.xlsx, GSE81565_Unfiltered_DEG.xlsx, Normalized_Expression_Matrix_GSE81565.txt | |
GSE81566 | control, nanoTiO2 (rutile hydrophobic) | 162 ug, 486 ug, 54 ug | 1d, 28d | 37 | 4 | 5 | Mus musculus | Lung | Whole organ | In vivo | I | Rahman et al. 201760 | 10.1093/mutage/gew048 | Agilent | DNA microarray | GSE81566_metadata.txt, Corrected_Expression_Matrix_GSE81566.txt, GSE81566_Filtered_DEG.xlsx, GSE81566_Unfiltered_DEG.xlsx, Normalized_Expression_Matrix_GSE81566.txt | |
GSE81567 | control, nanoTiO2 (rutile/anatase mix) | 162 ug, 486 ug, 54 ug | 1d, 28d | 40 | 5 | 5 | Mus musculus | Lung | Whole organ | In vivo | I | Rahman et al. 201760 | 10.1093/mutage/gew048 | Agilent | DNA microarray | GSE81567_metadata.txt, Corrected_Expression_Matrix_GSE81567.txt, GSE81567_Filtered_DEG.xlsx, GSE81567_Unfiltered_DEG.xlsx, Normalized_Expression_Matrix_GSE81567.txt | |
GSE81568 | control, nanoTiO2 (anatase) | 162 ug, 486 ug, 54 ug | 1d, 28d | 40 | 5 | 5 | Mus musculus | Lung | Whole organ | In vivo | I | Rahman et al. 201760 | 10.1093/mutage/gew048 | Agilent | DNA microarray | GSE81568_metadata.txt, Corrected_Expression_Matrix_GSE81568.txt, GSE81568_Filtered_DEG.xlsx, GSE81568_Unfiltered_DEG.xlsx, Normalized_Expression_Matrix_GSE81568.txt | |
GSE81569 | control, nanoTiO2 (anatase) | 162 ug, 486 ug, 54 ug | 1d, 28d | 40 | 5 | 5 | Mus musculus | Lung | Whole organ | In vivo | I | Rahman et al. 201760 | 10.1093/mutage/gew048 | Agilent | DNA microarray | GSE81569_metadata.txt, Corrected_Expression_Matrix_GSE81569.txt, GSE81569_Filtered_DEG.xlsx, GSE81569_Unfiltered_DEG.xlsx, Normalized_Expression_Matrix_GSE81569.txt | |
GSE98236 | control, M-MP-Silica NP (DMPC), M-MP-Silica NP (PEG), M-MP-Silica NP (Pristine) | 1.6 ug/cm2, 16 ug/cm2, 80 ug/cm2 | 24h, 48h | 68 | 3 | 7 | Homo sapiens | HepaRG | Hepatocyte-like | In vitro | I | Pisani et al. 201761 | 10.1080/17435390.2017.1378749 | Agilent | DNA microarray | GSE98236_metadata.txt, GSE98236_Filtered_DEG.xlsx, GSE98236_Unfiltered_DEG.xlsx, Normalized_Expression_Matrix_GSE98236.txt | |
GSE122197 | control_OVA, control_PBS, CuO_COOH_OVA, CuO_COOH_PBS, CuO_NH3_OVA, CuO_NH3_PBS, CuO_OVA, CuO_PBS, CuO_PEG_OVA, CuO_PEG_PBS | 10 ug/day/4d, 2.5 ug/day/4d, 40 ug/day/4d | 24h post exposure | 89 | 3 | 8 | Mus musculus | Lung (OVA/Alum sensitized) | Whole organ | In vivo | II | Ilves et al. 201962 | 10.1186/s12989-019-0309-1 | Agilent | DNA microarray | https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE122197 | GSE122197_metadata.txt, Corrected_Expression_Matrix_GSE122197.txt, GSE122197_Filtered_DEG.xlsx, GSE122197_Unfiltered_DEG.xlsx, Normalized_Expression_Matrix_GSE122197.txt |
GSE127773 | control, CuO, CuO_COOH | 120 mg/m3, 128 mg/m3, 23 mg/m3, 32 mg/m3, 470 mg/m3, 495 mg/m3 | 24h | 64 | 3 | 10 | Homo sapiens | Bronchial epithelium | MucilAirTM | In vitro | II | Kooter et al. 201963 | 10.1021/acsnano.9b01823 | Agilent | DNA microarray | https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE127773 | GSE127773_metadata.txt, Corrected_Expression_Matrix_GSE127773.txt, GSE127773_Filtered_DEG.xlsx, GSE127773_Unfiltered_DEG.xlsx, Normalized_Expression_Matrix_GSE127773.txt |
GSE117056 | CeO2_Alfa_Aesar, CeO2_Nano_Amor, control, TiO2_Acros, TiO2_Degussa, TiO2_Mknano | 0.3 ug/ml, 30 ug/ml, 3 ug/ml | 3d | 120 | 4 | 15 | Homo sapiens | HepG2 | Hepatocyte-like | In vitro | II | Thai et al. 201664 | No publication | Illumina | DNA microarray | https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE117056 | GSE117056_metadata.txt, Corrected_Expression_Matrix_GSE117056.txt, GSE117056_Filtered_DEG.xlsx, GSE117056_Unfiltered_DEG.xlsx, Normalized_Expression_Matrix_GSE117056.txt |
GSE30200 | control, Silica | 100 ug/ml, 200 ug/ml, 400 ug/ml | 6h | 20 | 5 | 5 | Homo sapiens | A549 | Alveolar basal epithelial cells | In vitro | II | Sellamuthu et al. 201165 | 10.3109/08958378.2011.625995 | Illumina | DNA microarray | GSE30200_metadata.txt, Corrected_Expression_Matrix_GSE30200.txt, GSE30200_Filtered_DEG.xlsx, GSE30200_Unfiltered_DEG.xlsx, Normalized_Expression_Matrix_GSE30200.txt | |
GSE46998 | control, MWCNT | 162 ug, 18 ug, 54 ug | 24h | 22 | 5 | 6 | Mus musculus | Lung | Whole organ | In vivo | II | Søs Poulsen et al. 201366 | 10.1371/journal.pone.0080452 | Agilent | DNA microarray | GSE46998_metadata.txt, Corrected_Expression_Matrix_GSE46998.txt, GSE46998_Filtered_DEG.xlsx, GSE46998_Unfiltered_DEG.xlsx, Normalized_Expression_Matrix_GSE46998.txt | |
GSE46999 | control, MWCNT | 100 ug, 12.5 ug, 25 ug | 24h | 22 | 5 | 6 | Mus musculus | FE1 | Lung epithelial cells | In vitro | II | Søs Poulsen et al. 201366 | 10.1371/journal.pone.0080452 | Agilent | DNA microarray | GSE46999_metadata.txt, Corrected_Expression_Matrix_GSE46999.txt, GSE46999_Filtered_DEG.xlsx, GSE46999_Unfiltered_DEG.xlsx, Normalized_Expression_Matrix_GSE46999.txt | |
GSE62253 | AgNO3, control, NanoAg | 0.5 ug/ml, 2.5 ug/ml, 25 ug/ml | 24h | 12 | 3 | 3 | Homo sapiens | Caco-2 | Intestine epithelial cells | In vitro | II | Böhmert et al. 201567 | 10.3109/17435390.2014.980760 | Affymetrix | DNA microarray | GSE62253_metadata.txt, GSE62253_Filtered_DEG.xlsx, GSE62253_Unfiltered_DEG.xlsx, Normalized_Expression_Matrix_GSE62253.txt | |
GSE62769 | asbestos, control, Silica | 1.5e+07 um2/cm2, 7.5e+07 um2/cm2 | 24h | 12 | 3 | 3 | Homo sapiens | Primary human bronchial epithelial cells | Primary human bronchial epithelial cells | In vitro | II | Perkins et al. 201568 | 10.1093/hmg/ddu551 | Affymetrix | DNA microarray | GSE62769_metadata.txt, Corrected_Expression_Matrix_GSE62769.txt, GSE62769_Filtered_DEG.xlsx, GSE62769_Unfiltered_DEG.xlsx, Normalized_Expression_Matrix_GSE62769.txt | |
GSE75429 | control, MWCNT (Mitsui7), MWCNT (NM-401) | 128 ug, 42.7 ug | 56d | 26 | 5 | 6 | Mus musculus | Lung | Whole organ | In vivo | II | Rahman et al. 201769 | 10.1016/j.mrgentox.2017.08.005 | Agilent | DNA microarray | GSE75429_metadata.txt, Corrected_Expression_Matrix_GSE75429.txt, GSE75429_Filtered_DEG.xlsx, GSE75429_Unfiltered_DEG.xlsx, Normalized_Expression_Matrix_GSE75429.txt | |
GSE16727 | CoCl2, control, WC, WC-Co | 30 ug/ml, 33 ug/ml, 51 uM | 3hours, 72hours | 40 | 5 | 5 | Homo sapiens | HaCaT | Keratinocytes | In vitro | III | Busch et al. 201070 | 10.1186/1471-2164-11-65 | Agilent | DNA microarray | GSE16727_metadata.txt, Corrected_Expression_Matrix_GSE16727.txt, GSE16727_Filtered_DEG.xlsx, GSE16727_Unfiltered_DEG.xlsx, Normalized_Expression_Matrix_GSE16727.txt | |
GSE39330_donor | control, ZnO | 10 ug/ml | 24h, 6h | 32 | 3 | 7 | Homo sapiens | HMDM, MDDC | Human monocyte derived macrophages, human monocyte derived dendritic cells | In vitro | III | Tuomela et al. 201371 | 10.1371/journal.pone.0068415. | Affymetrix | DNA microarray | GSE39330_donor_metadata.txt, GSE39330_donor_Filtered_DEG.xlsx, GSE39330_donor_Unfiltered_DEG.xlsx, Normalized_Expression_Matrix_GSE39330_donor.txt | |
GSE39330_jurkat | control, diethylene_glycol_ZnO, folic_acid_ZnO, mandelic_acid_ZnO, mercaptopropyl_trimethoxysilane_ZnO, methoxyl_ZnO, ZnO | 100 ug/ml, 10 ug/ml, 25 ug/ml, 50 ug/ml | 24h, 6h | 39 | 3 | 6 | Homo sapiens | Jurkat | T lymphocyte | In vitro | III | Tuomela et al. 201371 | 10.1371/journal.pone.0068415. | Affymetrix | DNA microarray | GSE39330_jurkat_metadata.txt, Corrected_Expression_Matrix_GSE39330_jurkat.txt, GSE39330_jurkat_Filtered_DEG.xlsx, GSE39330_jurkat_Unfiltered_DEG.xlsx, Normalized_Expression_Matrix_GSE39330_jurkat.txt | |
GSE43515 | Carbon black, Carbon black_IL13, control, control_IL13, MWCNT, MWCNT_IL13 | 10 ug/cm2 | 24h, 48h, 4h | 54 | 3 | 3 | Homo sapiens | 16lu | Lung fibroblast | In vitro | III | Martin et al. 201372 | No publication | Affymetrix | DNA microarray | GSE43515_metadata.txt, Corrected_Expression_Matrix_GSE43515.txt, GSE43515_Filtered_DEG.xlsx, GSE43515_Unfiltered_DEG.xlsx, Normalized_Expression_Matrix_GSE43515.txt | |
GSE45322 | control, ZnO_HP1, ZnO_MAX, ZnO_Nanosun, ZnO_ZCOTE | 25 ug/ml | 2h, 6h | 40 | 4 | 4 | Homo sapiens | hONS | human olfactory neurosphere derived cells | In vitro | III | Osmond-McLeod et al. 201373 | 10.1186/1743-8977-10-54 | Affymetrix | DNA microarray | GSE45322_metadata.txt, Corrected_Expression_Matrix_GSE45322.txt, GSE45322_Filtered_DEG.xlsx, GSE45322_Unfiltered_DEG.xlsx, Normalized_Expression_Matrix_GSE45322.txt | |
GSE51417 | control, SPIO | 365 ug | 0h, 168h, 24h, 48h, 6h, 96h | 58 | 4 | 5 | Mus musculus | Lung | Whole organ | In vivo | III | Teeguarden et al. 201474 | 10.1186/s12989-014-0046-4 | Affymetrix | DNA microarray | GSE51417_metadata.txt, Corrected_Expression_Matrix_GSE51417.txt, GSE51417_Filtered_DEG.xlsx, GSE51417_Unfiltered_DEG.xlsx, Normalized_Expression_Matrix_GSE51417.txt | |
GSE51421 | control, PLGA | 500 ug/ml | 24h, 7d | 12 | 3 | 3 | Homo sapiens | CD34 | Hematopoietic stem cells (CD34+ fraction of umbilical cord blood mononuclear cells) | In vitro | III | Aday et al. 201475 | 10.1039/C4RA04041D | Agilent | DNA microarray | GSE51421_metadata.txt, GSE51421_Filtered_DEG.xlsx, GSE51421_Unfiltered_DEG.xlsx, Normalized_Expression_Matrix_GSE51421.txt | |
GSE53700 | control, control_SM30, SiO2_AS30, SiO2_SM30 | 0.03 mg/ml | 22h, 3h | 18 | 3 | 3 | Homo sapiens | A549 | Alveolar basal epithelial cells | In vitro | III | Fede et al. 201476 | 10.3390/ijerph110908867 | Agilent | DNA microarray | GSE53700_metadata.txt, Corrected_Expression_Matrix_GSE53700.txt, GSE53700_Filtered_DEG.xlsx, GSE53700_Unfiltered_DEG.xlsx, Normalized_Expression_Matrix_GSE53700.txt | |
GSE56324 | control, nanoTiO2 | 162 ug | 1d, 28d | 22 | 5 | 6 | Mus musculus | heart | Whole organ | In vivo | III | Husain et al. 201577 | 10.3109/17435390.2014.996192 | Agilent | DNA microarray | GSE56324_metadata.txt, Corrected_Expression_Matrix_GSE56324.txt, GSE56324_Unfiltered_DEG.xlsx, Normalized_Expression_Matrix_GSE56324.txt | |
GSE56325 | control, nanoTiO2 | 162 ug | 1d, 28d | 21 | 4 | 6 | Mus musculus | liver | Whole organ | In vivo | III | Husain et al. 201577 | 10.3109/17435390.2014.996192 | Agilent | DNA microarray | GSE56325_metadata.txt, Corrected_Expression_Matrix_GSE56325.txt, GSE56325_Unfiltered_DEG.xlsx, Normalized_Expression_Matrix_GSE56325.txt | |
GSE61366 | control_NCRWE-026, control_NM-401, MWCNT (NCRWE-026), MWCNT (NM-401) | 162 ug | 1d, 28d, 3d | 60 | 5 | 5 | Mus musculus | liver | Whole organ | In vivo | III | Poulsen et al. 201578 | 10.1016/j.taap.2015.01.011 | Agilent | DNA microarray | GSE61366_metadata.txt, Corrected_Expression_Matrix_GSE61366.txt, GSE61366_Filtered_DEG.xlsx, GSE61366_Unfiltered_DEG.xlsx, Normalized_Expression_Matrix_GSE61366.txt | |
GSE68036 | Carbon black (Printex90), control | 162 ug | 14d, 1d, 2d, 3d, 3h, 42d, 4d, 5d | 76 | 4 | 5 | Mus musculus | Lung | Whole organ | In vivo | III | Husain et al. 201579 | 10.1016/j.taap.2015.11.003 | Agilent | DNA microarray | GSE68036_metadata.txt, Corrected_Expression_Matrix_GSE68036.txt, GSE68036_Filtered_DEG.xlsx, GSE68036_Unfiltered_DEG.xlsx, Normalized_Expression_Matrix_GSE68036.txt | |
GSE84982_Caco2 | 110nm_AgNPs, 20nm_AgNPs, 30nm_AgNPs, 60nm_AgNPs, AgNO3, control | 1.5 ug/ml, 25 ug/ml | 24h, 6h | 36 | 3 | 3 | Homo sapiens | Caco-2 | Intestine epithelial cells | In vitro | III | van der Zande et al. 201680 | 10.1080/17435390.2016.1225132 | Illumina | DNA microarray | GSE84982_Caco2_metadata.txt, Corrected_Expression_Matrix_GSE84982_Caco2.txt, GSE84982_Caco2_Filtered_DEG.xlsx, GSE84982_Caco2_Unfiltered_DEG.xlsx, Normalized_Expression_Matrix_GSE84982_Caco2.txt | |
GSE84982_MCF7 | 110nm_AgNPs, 20nm_AgNPs, 30nm_AgNPs, 60nm_AgNPs, AgNO3, control | 1.5 ug/ml, 25 ug/ml | 24h, 6h | 37 | 3 | 4 | Homo sapiens | MCF-7 | Mammary gland epitelial cells | In vitro | III | van der Zande et al. 201680 | 10.1080/17435390.2016.1225132 | Illumina | DNA microarray | GSE84982_MCF7_metadata.txt, Corrected_Expression_Matrix_GSE84982_MCF7.txt, GSE84982_MCF7_Filtered_DEG.xlsx, GSE84982_MCF7_Unfiltered_DEG.xlsx, Normalized_Expression_Matrix_GSE84982_MCF7.txt | |
GSE92899 | control, Fullerene, Graphite, MWCNT (Baytube), MWCNT (SES), rCNT, tCNT | 100 ug/ml | 24h, 6h | 47 | 3 | 6 | Homo sapiens | THP-1 | Macrophage-like (PMA-differentiated) | In vitro | III | Kinaret et al. 201781 | 10.1021/acsnano.6b08650 | Agilent | DNA microarray | GSE92899_metadata.txt, Corrected_Expression_Matrix_GSE92899.txt, GSE92899_Filtered_DEG.xlsx, GSE92899_Unfiltered_DEG.xlsx, Normalized_Expression_Matrix_GSE92899.txt | |
GSE88786 | control, Fe3O4_TiO2_NP | 20 ug/ml | 2h, 4h | 20 | 5 | 5 | Homo sapiens | HeLa | Cervix, epithelial | In vitro | III | Lastra et al. 201982 | 10.33218/prnano2(4).190802.1 | Illumina | DNA microarray | GSE88786_metadata.txt, Corrected_Expression_Matrix_GSE88786.txt, GSE88786_Filtered_DEG.xlsx, GSE88786_Unfiltered_DEG.xlsx, Normalized_Expression_Matrix_GSE88786.txt | |
EMTAB6396_A549 | Carbon black, control, Fullerene, Graphite nanofibers, MWCNT (Bayer), MWCNT (Cheaptubes), MWCNT (Mitsui), MWCNT (SES), MWCNT (Sigma), SWCNT (SES), SWCNT (Sigma) | 10 ug/ml | 48h | 32 | 2 | 3 | Homo sapiens | A549 | Alveolar basal epithelial cells | In vitro | IV | Scala & Kinaret et al. 201883 | 10.1016/j.impact.2018.05.003 | Agilent | DNA microarray | EMTAB6396_A549_metadata.txt, Corrected_Expression_Matrix_EMTAB6396_A549.txt, EMTAB6396_A549_Filtered_DEG.xlsx, EMTAB6396_A549_Unfiltered_DEG.xlsx, Normalized_Expression_Matrix_EMTAB6396_A549.txt | |
EMTAB6396_Beas2B | Carbon black, control, Fullerene, Graphite nanofibers, MWCNT (Bayer), MWCNT (Cheaptubes), MWCNT (Mitsui), MWCNT (SES), MWCNT (Sigma), SWCNT (SES), SWCNT (Sigma) | 10 ug/ml | 48h | 32 | 2 | 3 | Homo sapiens | BEAS-2B | Bronchial epithelial cells | In vitro | IV | Scala & Kinaret et al. 201883 | 10.1016/j.impact.2018.05.003 | Agilent | DNA microarray | EMTAB6396_Beas2B_metadata.txt, Corrected_Expression_Matrix_EMTAB6396_Beas2B.txt, EMTAB6396_Beas2B_Filtered_DEG.xlsx, EMTAB6396_Beas2B_Unfiltered_DEG.xlsx, Normalized_Expression_Matrix_EMTAB6396_Beas2B.txt | |
EMTAB6396_MRC9 | Carbon black, control, Fullerene, Graphite nanofibers, MWCNT (Bayer), MWCNT (Cheaptubes), MWCNT (Mitsui), MWCNT (SES), SWCNT (SES), MWCNT (Sigma), SWCNT (Sigma) | 10 ug/ml | 48h | 32 | 2 | 3 | Homo sapiens | MRC9 | Lung fibroblast | In vitro | IV | Scala & Kinaret et al. 201883 | 10.1016/j.impact.2018.05.003 | Agilent | DNA microarray | EMTAB6396_MRC9_metadata.txt, Corrected_Expression_Matrix_EMTAB6396_MRC9.txt, EMTAB6396_MRC9_Filtered_DEG.xlsx, EMTAB6396_MRC9_Unfiltered_DEG.xlsx, Normalized_Expression_Matrix_EMTAB6396_MRC9.txt | |
EMTAB6396_THP1 | Carbon black, control, Fullerene, Graphite nanofibers, MWCNT (Bayer), MWCNT (Cheaptubes), MWCNT (Mitsui), MWCNT (SES), MWCNT (Sigma), SWCNT (SES), SWCNT (Sigma) | 10 ug/ml | 48h | 32 | 2 | 3 | Homo sapiens | THP-1 | Macrophage-like (PMA-differentiated) | In vitro | IV | Scala & Kinaret et al. 201883 | 10.1016/j.impact.2018.05.003 | Agilent | DNA microarray | EMTAB6396_THP1_metadata.txt, Corrected_Expression_Matrix_EMTAB6396_THP1.txt, EMTAB6396_THP1_Filtered_DEG.xlsx, EMTAB6396_THP1_Unfiltered_DEG.xlsx, Normalized_Expression_Matrix_EMTAB6396_THP1.txt | |
GSE100500 | control, MWCNT | 100 ug | 60d | 12 | 6 | 6 | Mus musculus | Alveolar macrophage | Primary murine alveolar macrophage | In vivo | IV | Mohan et al. 201884 | 10.1152/ajplung.00289.2017 | Illumina | DNA microarray | https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE100500 | GSE100500_metadata.txt, Corrected_Expression_Matrix_GSE100500.txt, GSE100500_Filtered_DEG.xlsx, GSE100500_Unfiltered_DEG.xlsx, Normalized_Expression_Matrix_GSE100500.txt |
GSE103101 | AgNPs_100nm, AgNPs_5nm, control | 50 LD | 6h | 9 | 3 | 3 | Homo sapiens | EA.hy926 | Somatic cell hybrid, endothelial | In vitro | IV | Jang & Choi 201785 | No publication | Affymetrix | DNA microarray | https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE103101 | GSE103101_metadata.txt, GSE103101_Filtered_DEG.xlsx, GSE103101_Unfiltered_DEG.xlsx, Normalized_Expression_Matrix_GSE103101.txt |
GSE113088 | control, control_saline, nanoSiO2 | 150 uM | 0h, 4h | 9 | 3 | 3 | Homo sapiens | PBMC | Peripheral blood mononuclear cells | In vitro | IV | Vis et al. 201886 | 10.1021/acsnano.8b03363 | Affymetrix | DNA microarray | https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE113088 | GSE113088_metadata.txt, GSE113088_Filtered_DEG.xlsx, GSE113088_Unfiltered_DEG.xlsx, Normalized_Expression_Matrix_GSE113088.txt |
GSE14452 | Ag2CO3, AgNPs, AgNPs_cysteine, control, PS | 1.3 mg/l, 1 mg/l | 24h | 15 | 3 | 3 | Homo sapiens | HepG2 | Hepatocyte-like | In vitro | IV | Kawata et al. 200987 | 10.1021/es900754q | Affymetrix | DNA microarray | GSE14452_metadata.txt, GSE14452_Filtered_DEG.xlsx, GSE14452_Unfiltered_DEG.xlsx, Normalized_Expression_Matrix_GSE14452.txt | |
GSE17676 | flat_titanium (control), TiO2 nanotubes (100nm), TiO2 nanotubes (30nm) | NA | 24h | 12 | 4 | 4 | Homo sapiens | HAEC | Primary human aortic endothelial cells | In vitro | IV | Peng et al. 201088 | 10.1021/nl903043z | Agilent | DNA microarray | GSE17676_metadata.txt, Corrected_Expression_Matrix_GSE17676.txt, GSE17676_Filtered_DEG.xlsx, GSE17676_Unfiltered_DEG.xlsx, Normalized_Expression_Matrix_GSE17676.txt | |
GSE19487_liver | control, nanoTiO2 | 40 mg/m3 | 5d | 15 | 7 | 8 | Mus musculus | liver | Whole organ | In vivo | IV | Halappanavar et al. 201189 | 10.1002/em.20639 | Agilent | DNA microarray | GSE19487_liver_metadata.txt, Corrected_Expression_Matrix_GSE19487_liver.txt, GSE19487_liver_Unfiltered_DEG.xlsx, Normalized_Expression_Matrix_GSE19487_liver.txt | |
GSE19487_lung | control, nanoTiO2 | 40 mg/m3 | 5d | 13 | 6 | 7 | Mus musculus | Lung | Whole organ | In vivo | IV | Halappanavar et al. 201189 | 10.1002/em.20639 | Agilent | DNA microarray | GSE19487_lung_metadata.txt, GSE19487_lung_Filtered_DEG.xlsx, GSE19487_lung_Unfiltered_DEG.xlsx, Normalized_Expression_Matrix_GSE19487_lung.txt | |
GSE20692 | Ag_ions, AgNPs, control | 0.2 mg/l | 24h | 9 | 3 | 3 | Homo sapiens | Jurkat | T lymphocyte | In vitro | IV | Eom et al. 201490 | 10.1016/j.toxlet.2014.05.019. | Illumina | DNA microarray | GSE20692_metadata.txt, Corrected_Expression_Matrix_GSE20692.txt, GSE20692_Filtered_DEG.xlsx, GSE20692_Unfiltered_DEG.xlsx, Normalized_Expression_Matrix_GSE20692.txt | |
GSE27212 | control_polyornithine, MWCNT | NA | 8days | 6 | 3 | 3 | Rattus norvegicus | Spinal cord dissociated cultures | Dissociated spinal neurons | In vitro | IV | Fabbro et al. 201391 | 10.1371/journal.pone.0073621 | Affymetrix | DNA microarray | GSE27212_metadata.txt, GSE27212_Unfiltered_DEG.xlsx, Normalized_Expression_Matrix_GSE27212.txt | |
GSE29110 | control, Silica | 6.2 mg/m3 | 28week | 6 | 3 | 3 | Rattus norvegicus | Lung | Whole organ | In vivo | IV | Langley et al. 201192 | 10.1080/15287394.2011.595669 | Affymetrix | DNA microarray | GSE29110_metadata.txt, GSE29110_Filtered_DEG.xlsx, GSE29110_Unfiltered_DEG.xlsx, Normalized_Expression_Matrix_GSE29110.txt | |
GSE30178 | control, Silica | 15 mg/m3 | 0week | 20 | 8 | 12 | Rattus norvegicus | Lung | Whole organ | In vivo | IV | Sellamuthu et al. 201165 | 10.3109/08958378.2011.625995 | Illumina | DNA microarray | GSE30178_metadata.txt, Corrected_Expression_Matrix_GSE30178.txt, GSE30178_Filtered_DEG.xlsx, GSE30178_Unfiltered_DEG.xlsx, Normalized_Expression_Matrix_GSE30178.txt | |
GSE30180 | control, Silica | 800 ug/ml | 6h | 10 | 5 | 5 | Homo sapiens | A549 | Alveolar basal epithelial cells | In vitro | IV | Sellamuthu et al. 201165 | 10.3109/08958378.2011.625995 | Illumina | DNA microarray | GSE30180_metadata.txt, GSE30180_Filtered_DEG.xlsx, GSE30180_Unfiltered_DEG.xlsx, Normalized_Expression_Matrix_GSE30180.txt | |
GSE30213 | control, Silica | 50 ug/ml | 6h | 9 | 4 | 5 | Homo sapiens | A549 | Alveolar basal epithelial cells | In vitro | IV | Sellamuthu et al. 201165 | 10.3109/08958378.2011.625995 | Illumina | DNA microarray | GSE30213_metadata.txt, Corrected_Expression_Matrix_GSE30213.txt, GSE30213_Filtered_DEG.xlsx, GSE30213_Unfiltered_DEG.xlsx, Normalized_Expression_Matrix_GSE30213.txt | |
GSE30214 | control, Silica | 200 ug/ml | 2h | 8 | 3 | 5 | Homo sapiens | A549 | Alveolar basal epithelial cells | In vitro | IV | Sellamuthu et al. 201165 | 10.3109/08958378.2011.625995 | Illumina | DNA microarray | GSE30214_metadata.txt, Corrected_Expression_Matrix_GSE30214.txt, GSE30214_Filtered_DEG.xlsx, GSE30214_Unfiltered_DEG.xlsx, Normalized_Expression_Matrix_GSE30214.txt | |
GSE30215 | control, Silica | 200 ug/ml | 24h | 9 | 4 | 5 | Homo sapiens | A549 | Alveolar basal epithelial cells | In vitro | IV | Sellamuthu et al. 201165 | 10.3109/08958378.2011.625995 | Illumina | DNA microarray | GSE30215_metadata.txt, GSE30215_Filtered_DEG.xlsx, GSE30215_Unfiltered_DEG.xlsx, Normalized_Expression_Matrix_GSE30215.txt | |
GSE44294 | control, LPS, SiO2, SiO2_LPS, SPIO, SPIO_LPS | 10 ng/ml, 25 mg/ml | 4h | 18 | 3 | 3 | Mus musculus | BMM | Bone-marrow derived macrophages | In vitro | IV | Kodali et al. 201393 | 10.1021/nn402145t | Affymetrix | DNA microarray | GSE44294_metadata.txt, GSE44294_Filtered_DEG.xlsx, GSE44294_Unfiltered_DEG.xlsx, Normalized_Expression_Matrix_GSE44294.txt | |
GSE45598 | control, Eudragit_RS | 25 ug/ml | 24h | 6 | 3 | 3 | Homo sapiens | HMEC_50perc_confluence | Human mammary epithelial cells, 50% confluency | In vitro | IV | Hussien et al. 201394 | 10.1002/phy2.27 | Agilent | DNA microarray | GSE45598_metadata.txt, GSE45598_Unfiltered_DEG.xlsx, Normalized_Expression_Matrix_GSE45598.txt | |
GSE4567 | control, UFP | 100 ug/ml | 4h | 8 | 4 | 4 | Homo sapiens | HPAEC | Human pulmonary artery endothelial cells | In vitro | IV | Karoly et al. 200795 | 10.1289/ehp.9556 | Affymetrix | DNA microarray | GSE4567_metadata.txt, Corrected_Expression_Matrix_GSE4567.txt, GSE4567_Filtered_DEG.xlsx, GSE4567_Unfiltered_DEG.xlsx, Normalized_Expression_Matrix_GSE4567.txt | |
GSE45868 | control, Eudragit_RS | 25 ug/ml | 24h | 6 | 3 | 3 | Homo sapiens | HMEC_90perc_confluence | Human mammary epithelial cells, 90% confluency | In vitro | IV | Hussien et al. 201394 | 10.1002/phy2.27 | Agilent | DNA microarray | GSE45868_metadata.txt, GSE45868_Filtered_DEG.xlsx, GSE45868_Unfiltered_DEG.xlsx, Normalized_Expression_Matrix_GSE45868.txt | |
GSE48087 | Ag10_Citrate, Ag10_PVP, Ag75_Citrate, Ag75_PVP, control_Citrate, control_HBSS | 0.5 ppm | 18h | 24 | 4 | 4 | Rattus norvegicus | N24 | Rat dopaminergic neurons | In vitro | IV | Chorley et al. 201496 | 10.1016/j.neuro.2014.08.010 | Illumina | DNA microarray | GSE48087_metadata.txt, Corrected_Expression_Matrix_GSE48087.txt, GSE48087_Filtered_DEG.xlsx, GSE48087_Unfiltered_DEG.xlsx, Normalized_Expression_Matrix_GSE48087.txt | |
GSE50176 | control, rCNT, tCNT | 18 mg/m3, 7.2 mg/m3 | 0h, 24h | 18 | 2 | 4 | Mus musculus | Lung | Whole organ | In vivo | IV | Rydman et al. 201497 | 10.1186/s12989-014-0048-2 | Agilent | DNA microarray | GSE50176_metadata.txt, Corrected_Expression_Matrix_GSE50176.txt, GSE50176_Filtered_DEG.xlsx, GSE50176_Unfiltered_DEG.xlsx, Normalized_Expression_Matrix_GSE50176.txt | |
GSE51636 | control, Long_asbestos_fibres, Long_carbon_nanotubes, Short_asbestos_fibres, Short_carbon_nanotubes | 25 ng, 5 ng | 12weeks | 20 | 4 | 4 | Mus musculus | Diaphragm | Whole organ | In vivo | IV | Chernova et al. 201798 | 10.1016/j.cub.2017.09.007 | Agilent | DNA microarray | GSE51636_metadata.txt, GSE51636_Filtered_DEG.xlsx, GSE51636_Unfiltered_DEG.xlsx, Normalized_Expression_Matrix_GSE51636.txt | |
GSE51661 | control, PLGA | 500 ug/ml | 24h | 6 | 3 | 3 | Homo sapiens | HUVEC | Human umbilical vein endothelial cells | In vitro | IV | Aday et al. 201475 | 10.1039/C4RA04041D | Agilent | DNA microarray | GSE51661_metadata.txt, GSE51661_Filtered_DEG.xlsx, GSE51661_Unfiltered_DEG.xlsx, Normalized_Expression_Matrix_GSE51661.txt | |
GSE7010 | Chapel_hill_coarse, Chapel_hill_fine, Chapel_hill_UFP, control | 250 ug/ml | 6h | 12 | 3 | 3 | Homo sapiens | PAEC | Primary airway epithelial cells | In vitro | IV | Huang et al. 201199 | 10.1080/15287394.2010.516238 | Affymetrix | DNA microarray | GSE7010_metadata.txt, Corrected_Expression_Matrix_GSE7010.txt, GSE7010_Filtered_DEG.xlsx, GSE7010_Unfiltered_DEG.xlsx, Normalized_Expression_Matrix_GSE7010.txt | |
GSE79766 | Ag_ions, AgNPs, control | 5 ug/ml | 24h | 9 | 3 | 3 | Mus musculus | mESC | Mouse embryonic stem cells | In vitro | IV | Gao et al. 2017100 | 10.1186/s12951-017-0265-6 | Affymetrix | DNA microarray | GSE79766_metadata.txt, GSE79766_Filtered_DEG.xlsx, GSE79766_Unfiltered_DEG.xlsx, Normalized_Expression_Matrix_GSE79766.txt | |
GSE82062 | control, nanoSiO2 | 5 ug/ml | 40passage | 6 | 3 | 3 | Homo sapiens | BEAS-2B | Bronchial epithelial cells | In vitro | IV | Guo et al. 2017101 | 10.1080/17435390.2017.1403658 | Affymetrix | DNA microarray | GSE82062_metadata.txt, GSE82062_Filtered_DEG.xlsx, GSE82062_Unfiltered_DEG.xlsx, Normalized_Expression_Matrix_GSE82062.txt | |
GSE85711 | control_aspiration, control_inhalation, rCNT_aspiration, rCNT_inhalation | 10 ug, 7.2 mg/m3 | 24h | 15 | 3 | 4 | Mus musculus | Lung | Whole organ | In vivo | IV | Kinaret et al. 2017102 | 10.1021/acsnano.6b05652 | Agilent | DNA microarray | GSE85711_metadata.txt, Corrected_Expression_Matrix_GSE85711.txt, GSE85711_Filtered_DEG.xlsx, GSE85711_Unfiltered_DEG.xlsx, Normalized_Expression_Matrix_GSE85711.txt | |
GSE92563 | control, TiO2 (E171) | 5 mg/kgbw/day | 14d, 21d, 2d, 7d | 32 | 4 | 4 | Mus musculus | colon | Whole organ | In vivo | IV | Proquin et al. 2018103 | 10.1016/j.dib.2017.11.067 | Agilent | DNA microarray | GSE92563_metadata.txt, GSE92563_Filtered_DEG.xlsx, GSE92563_Unfiltered_DEG.xlsx, Normalized_Expression_Matrix_GSE92563.txt | |
GSE92900 | control, Fullerene, Graphite, MWCNT (Baytube), MWCNT (SES), rCNT, tCNT | 10 ug | 24h | 24 | 3 | 4 | Mus musculus | Lung | Whole organ | In vivo | IV | Kinaret et al. 201781 | 10.1021/acsnano.6b08650 | Agilent | DNA microarray | GSE92900_metadata.txt, Corrected_Expression_Matrix_GSE92900.txt, GSE92900_Filtered_DEG.xlsx, GSE92900_Unfiltered_DEG.xlsx, Normalized_Expression_Matrix_GSE92900.txt | |
GSE92987 | AuNPs, AuNPs-HDM2, control | 50 uM | 24h | 9 | 3 | 3 | Homo sapiens | Y79 | Retinoblastoma | In vitro | IV | Kalmodia et al. 2017104 | 10.1016/j.omtn.2017.10.012 | Affymetrix | DNA microarray | GSE92987_metadata.txt, GSE92987_Filtered_DEG.xlsx, GSE92987_Unfiltered_DEG.xlsx, Normalized_Expression_Matrix_GSE92987.txt | |
GSE96720 | control, Graphene quantum dots (GQD) | 50 ug/ml | 24h | 6 | 3 | 3 | Homo sapiens | HET1A | Esophagus, epithelial | In vitro | IV | Li et al. 2018105 | 10.1093/toxsci/kfy090 | Agilent | DNA microarray | GSE96720_metadata.txt, GSE96720_Filtered_DEG.xlsx, GSE96720_Unfiltered_DEG.xlsx, Normalized_Expression_Matrix_GSE96720.txt | |
GSE99929_Jurkat | control, GO, GONH2 | 50 ug/ml | 24h | 9 | 3 | 3 | Homo sapiens | Jurkat | T lymphocyte | In vitro | IV | Orecchioni et al. 2017106 | 10.1038/s41467-017-01015-3 | Illumina | DNA microarray | GSE99929_Jurkat_metadata.txt, GSE99929_Jurkat_Filtered_DEG.xlsx, GSE99929_Jurkat_Unfiltered_DEG.xlsx, Normalized_Expression_Matrix_GSE99929_Jurkat.txt | |
GSE99929_THP1 | control, GO, GONH2 | 50 ug/ml | 24h | 9 | 3 | 3 | Homo sapiens | THP-1 | Monocyte | In vitro | IV | Orecchioni et al. 2017106 | 10.1038/s41467-017-01015-3 | Illumina | DNA microarray | GSE99929_THP1_metadata.txt, GSE99929_THP1_Filtered_DEG.xlsx, GSE99929_THP1_Unfiltered_DEG.xlsx, Normalized_Expression_Matrix_GSE99929_THP1.txt | |
GSE155027 | Ag2S, Control, Li-doped Ag2S | 160 ug/ml, 320 ug/ml | 24h | 15 | 3 | 3 | Homo sapiens | HaCaT | Keratinocytes | In vitro | II | Kang et al. 2020107 | 10.1038/s41598-020-70415-1 | Illumina NovaSeq 6000 | RNA-Seq | https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE155027 | GSE155027_Filtered_DEG.xlsx, GSE155027_metadata.txt, GSE155027_Unfiltered_DEG.xlsx, Normalized_Count_Matrix_GSE155027.txt |
GSE143717 | AgNPs_branched_polyethylenimine, AgNPs_Citrate, AgNPs_polyethylene_glycol, Control | 1.2 ug/ml | 6h, 12h, 24h | 32 | 2 | 3 | Homo sapiens | HepG2 | Hepatocyte-like | In vitro | III | House et al. 2020108 | 10.1002/smll.202000299 | Illumina HiSeq 2500 | RNA-Seq | https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE143717 | GSE143717_Filtered_DEG.xlsx, GSE143717_metadata.txt, GSE143717_Unfiltered_DEG.xlsx, Normalized_Count_Matrix_GSE143717.txt |
GSE101992 | Control, Silica NPs (MSN_PEG500), Silica NPs (MSN500), Silica NPs (Stober50), Silica NPs (Stober500) | 111.8 ug/ml, 13.1 ug/ml, 16.8 ug/ml, 84 ug/ml | 4h | 15 | 3 | 3 | Mus musculus | RAW264.7 | Macrophage-like | In vitro | IV | Yazdimamaghani et al. 2020109 | 10.1016/j.nano.2017.11.021 | Illumina HiSeq 2000 | RNA-Seq | https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE101992 | GSE101992_Filtered_DEG.xlsx, GSE101992_metadata.txt, GSE101992_Unfiltered_DEG.xlsx, Normalized_Count_Matrix_GSE101992.txt |
GSE125742_HBMSC | Control, Hydroxyapatite | 1 ug/ml | 24h | 7 | 3 | 4 | Homo sapiens | HBMSC | Human bone marrow derived stem cells | In vitro | IV | Wu et al. 2019110 | 10.1016/j.biomaterials.2019.03.019 | HiSeq X Ten | RNA-Seq | https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE125742 | GSE125742_HBMSC_Filtered_DEG.xlsx, GSE125742_HBMSC_metadata.txt, GSE125742_HBMSC_Unfiltered_DEG.xlsx, Normalized_Count_Matrix_GSE125742_HBMSC.txt |
GSE125742_HUVEC | Control, Hydroxyapatite | 1 ug/ml | 24h | 6 | 3 | 3 | Homo sapiens | HUVEC | Human primary umbilical vein endothelial cells | In vitro | IV | Wu et al. 2019110 | 10.1016/j.biomaterials.2019.03.019 | HiSeq X Ten | RNA-Seq | https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE125742 | GSE125742_HUVEC_metadata.txt, GSE125742_HUVEC_Unfiltered_DEG.xlsx, Normalized_Count_Matrix_GSE125742_HUVEC.txt |
GSE125742_mouse_bone | Control, Hydroxyapatite | 20 mg/kgbw | 24h | 5 | 2 | 3 | Mus musculus | Bone | Whole organ | In vivo | IV | Wu et al. 2019110 | 10.1016/j.biomaterials.2019.03.019 | HiSeq X Ten | RNA-Seq | https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE125742 | GSE125742_mouse_bone_Filtered_DEG.xlsx, GSE125742_mouse_bone_metadata.txt, GSE125742_mouse_bone_Unfiltered_DEG.xlsx, Normalized_Count_Matrix_GSE125742_mouse_bone.txt |
GSE125742_mouse_heart | Control, Hydroxyapatite | 20 mg/kgbw | 24h | 6 | 3 | 3 | Mus musculus | Heart | Whole organ | In vivo | IV | Wu et al. 2019110 | 10.1016/j.biomaterials.2019.03.019 | HiSeq X Ten | RNA-Seq | https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE125742 | GSE125742_mouse_heart_metadata.txt, GSE125742_mouse_heart_Unfiltered_DEG.xlsx, Normalized_Count_Matrix_GSE125742_mouse_heart.txt |
GSE125742_mouse_kidney | Control, Hydroxyapatite | 20 mg/kgbw | 24h | 6 | 3 | 3 | Mus musculus | Kidney | Whole organ | In vivo | IV | Wu et al. 2019110 | 10.1016/j.biomaterials.2019.03.019 | HiSeq X Ten | RNA-Seq | https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE125742 | GSE125742_mouse_kidney_metadata.txt, GSE125742_mouse_kidney_Unfiltered_DEG.xlsx, Normalized_Count_Matrix_GSE125742_mouse_kidney.txt |
GSE125742_mouse_liver | Control, Hydroxyapatite | 20 mg/kgbw | 24h | 6 | 3 | 3 | Mus musculus | Liver | Whole organ | In vivo | IV | Wu et al. 2019110 | 10.1016/j.biomaterials.2019.03.019 | HiSeq X Ten | RNA-Seq | https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE125742 | GSE125742_mouse_liver_metadata.txt, GSE125742_mouse_liver_Unfiltered_DEG.xlsx, Normalized_Count_Matrix_GSE125742_mouse_liver.txt |
GSE125742_mouse_muscle | Control, Hydroxyapatite | 20 mg/kgbw | 24h | 5 | 2 | 3 | Mus musculus | Muscle | Whole organ | In vivo | IV | Wu et al. 2019110 | 10.1016/j.biomaterials.2019.03.019 | HiSeq X Ten | RNA-Seq | https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE125742 | GSE125742_mouse_muscle_Filtered_DEG.xlsx, GSE125742_mouse_muscle_metadata.txt, GSE125742_mouse_muscle_Unfiltered_DEG.xlsx, Normalized_Count_Matrix_GSE125742_mouse_muscle.txt |
GSE125742_mouse_MuscleStemCell | Control, Hydroxyapatite | 1 ug/ml | 24h | 6 | 3 | 3 | Mus musculus | Muscle stem cell | Skeletal muscle derived stem cells | In vitro | IV | Wu et al. 2019110 | 10.1016/j.biomaterials.2019.03.019 | HiSeq X Ten | RNA-Seq | https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE125742 | GSE125742_mouse_MuscleStemCell_metadata.txt, GSE125742_mouse_MuscleStemCell_Unfiltered_DEG.xlsx, Normalized_Count_Matrix_GSE125742_mouse_MuscleStemCell.txt |
GSE125742_mouse_PBMC | Control, Hydroxyapatite | 20 mg/kgbw | 24h | 5 | 2 | 3 | Mus musculus | PBMC | Periferal bloon mononuclear cells | In vivo | IV | Wu et al. 2019110 | 10.1016/j.biomaterials.2019.03.019 | HiSeq X Ten | RNA-Seq | https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE125742 | GSE125742_Mouse_PBMC_metadata.txt, GSE125742_mouse_PBMC_Unfiltered_DEG.xlsx, Normalized_Count_Matrix_GSE125742_mouse_PBMC.txt |
GSE125742_mouse_spleen | Control, Hydroxyapatite | 20 mg/kgbw | 24h | 6 | 3 | 3 | Mus musculus | Spleen | Whole organ | In vivo | IV | Wu et al. 2019110 | 10.1016/j.biomaterials.2019.03.019 | HiSeq X Ten | RNA-Seq | https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE125742 | GSE125742_mouse_spleen_Filtered_DEG.xlsx, GSE125742_Mouse_spleen_metadata.txt, GSE125742_mouse_spleen_Unfiltered_DEG.xlsx, Normalized_Count_Matrix_GSE125742_mouse_spleen.txt |
GSE153419 | (GT)6 SWCNT, AAV, Carboxylated SWCNT, Control, Di-2-ANEQEQ, Di-BASC0, Di-BASC1, Di-BASC2, Fura-2, LPS | NA | 2h | 24 | 3 | 3 | Mus musculus | SIM-A9 | Microglial cell line | In vitro | IV | Yang & Landry 2020111 | No publication | Illumina NovaSeq 6000 | RNA-Seq | https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE153419 | GSE153419_Filtered_DEG.xlsx, GSE153419_metadata.txt, GSE153419_Unfiltered_DEG.xlsx, Normalized_Count_Matrix_GSE153419.txt |
GSE86339_C57Bl6 | Control, MWCNT | 4 mg/kgbw | 28d | 6 | 3 | 3 | Mus musculus | lung (C57Bl/6) | Whole organ | In vivo | IV | Frank et al. 2017112 | 10.1016/j.taap.2017.04.019 | Illumina HiSeq 1000 | RNA-Seq | GSE86339_C57Bl6_Filtered_DEG.xlsx, GSE86339_C57Bl6_metadata.txt, GSE86339_C57Bl6_Unfiltered_DEG.xlsx, Normalized_Count_Matrix_GSE86339_C57Bl6.txt | |
GSE86339_DBA2 | Control, MWCNT | 4 mg/kgbw | 28d | 6 | 3 | 3 | Mus musculus | lung (DBA/2) | Whole organ | In vivo | IV | Frank et al. 2017112 | 10.1016/j.taap.2017.04.019 | Illumina HiSeq 1000 | RNA-Seq | GSE86339_DBA2_Filtered_DEG.xlsx, GSE86339_DBA2_metadata.txt, GSE86339_DBA2_Unfiltered_DEG.xlsx, Normalized_Count_Matrix_GSE86339_DBA2.txt |
