MICS-Lab/novae-human-0
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name
stringlengths 9
67
| n_cells
int64 0
1.36M
| n_spots
int64 0
617k
| n_genes
int64 0
33.5k
| n_proteins
int64 0
63
| technology
stringclasses 5
values | tissue
stringclasses 18
values | species
stringclasses 3
values |
|---|---|---|---|---|---|---|---|
Xenium_V1_Human_Colon_Cancer_P1_CRC_Add_on_FFPE_outs
| 307,762 | 0 | 422 | 0 |
xenium
|
colon
|
human
|
Xenium_V1_Human_Colon_Cancer_P2_CRC_Add_on_FFPE_outs
| 340,837 | 0 | 422 | 0 |
xenium
|
colon
|
human
|
HumanBreastCancerPatient1_region_0
| 713,121 | 0 | 500 | 0 |
merscope
|
breast
|
human
|
Xenium_V1_FFPE_Human_Breast_IDC_With_Addon_outs
| 576,963 | 0 | 380 | 0 |
xenium
|
breast
|
human
|
Xenium_V1_FFPE_TgCRND8_2_5_months_outs
| 53,913 | 0 | 346 | 0 |
xenium
|
brain
|
mouse
|
Xenium_V1_FFPE_TgCRND8_5_7_months_outs
| 58,682 | 0 | 347 | 0 |
xenium
|
brain
|
mouse
|
Xenium_V1_FFPE_TgCRND8_17_9_months_outs
| 62,268 | 0 | 347 | 0 |
xenium
|
brain
|
mouse
|
Xenium_V1_FFPE_wildtype_5_7_months_outs
| 58,685 | 0 | 347 | 0 |
xenium
|
brain
|
mouse
|
Xenium_V1_FFPE_wildtype_2_5_months_outs
| 58,231 | 0 | 347 | 0 |
xenium
|
brain
|
mouse
|
Xenium_V1_FFPE_wildtype_13_4_months_outs
| 59,935 | 0 | 347 | 0 |
xenium
|
brain
|
mouse
|
slide_0_0
| 282,694 | 0 | 200 | 0 | null |
v2
|
toy
|
slide_0_1
| 282,693 | 0 | 200 | 0 | null |
v2
|
toy
|
slide_0_2
| 282,692 | 0 | 200 | 0 | null |
v2
|
toy
|
slide_0_3
| 282,691 | 0 | 200 | 0 | null |
v2
|
toy
|
slide_0_4
| 282,690 | 0 | 200 | 0 | null |
v2
|
toy
|
10H064210813H0208914_down
| 140,139 | 0 | 0 | 63 |
cosmx
|
head_and_neck
|
human
|
10H064210813H0208914_up
| 112,155 | 0 | 0 | 63 |
cosmx
|
head_and_neck
|
human
|
14H007030716H0216858_down
| 98,220 | 0 | 0 | 63 |
cosmx
|
head_and_neck
|
human
|
14H007030716H0216858_up
| 126,341 | 0 | 0 | 63 |
cosmx
|
head_and_neck
|
human
|
13H079750314H0227010_down
| 140,368 | 0 | 0 | 63 |
cosmx
|
head_and_neck
|
human
|
14H042050615H0377937_down
| 50,300 | 0 | 0 | 63 |
cosmx
|
head_and_neck
|
human
|
13H079750314H0227010_up
| 191,141 | 0 | 0 | 63 |
cosmx
|
head_and_neck
|
human
|
14H042050615H0377937_up
| 64,347 | 0 | 0 | 63 |
cosmx
|
head_and_neck
|
human
|
Visium_HD_Human_Lung_Cancer_Fixed_Frozen
| 0 | 617,107 | 18,085 | 0 |
visium_hd
|
lung
|
human
|
DLPFC_151675
| 0 | 3,592 | 33,538 | 0 |
visium
|
brain
|
human
|
DLPFC_151673
| 0 | 3,639 | 33,538 | 0 |
visium
|
brain
|
human
|
DLPFC_151674
| 0 | 3,673 | 33,538 | 0 |
visium
|
brain
|
human
|
Xenium_V1_mouse_pup_outs
| 1,355,849 | 0 | 379 | 0 |
xenium
|
whole_mouse
|
mouse
|
Xenium_V1_mFemur_formic_acid_24hrdecal_section_outs
| 253,560 | 0 | 477 | 0 |
xenium
|
femur
|
mouse
|
Xenium_Preview_Human_Non_diseased_Lung_With_Add_on_FFPE_outs
| 295,883 | 0 | 392 | 0 |
xenium
|
lung
|
human
|
Xenium_V1_humanLung_Cancer_FFPE_outs
| 162,254 | 0 | 377 | 0 |
xenium
|
lung
|
human
|
Xenium_V1_Human_Ovarian_Cancer_Addon_FFPE_outs
| 247,636 | 0 | 480 | 0 |
xenium
|
ovarian
|
human
|
Xenium_V1_Human_Lung_Cancer_Addon_FFPE_outs
| 161,000 | 0 | 480 | 0 |
xenium
|
lung
|
human
|
Xenium_V1_Human_Ductal_Adenocarcinoma_FFPE_outs
| 235,099 | 0 | 380 | 0 |
xenium
|
pancreas
|
human
|
Xenium_V1_FFPE_Human_Breast_ILC_With_Addon_outs
| 365,604 | 0 | 379 | 0 |
xenium
|
breast
|
human
|
Xenium_V1_mFemur_EDTA_3daydecal_section_outs
| 348,141 | 0 | 476 | 0 |
xenium
|
femur
|
mouse
|
HumanUterineCancerPatient2-ROCostain_region_0
| 758,506 | 0 | 500 | 0 |
merscope
|
uterine
|
human
|
Xeniumranger_V1_hSkin_Melanoma_Add_on_FFPE_outs
| 87,499 | 0 | 382 | 0 |
xenium
|
skin
|
human
|
Xenium_V1_hColon_Non_diseased_Add_on_FFPE_outs
| 275,822 | 0 | 425 | 0 |
xenium
|
colon
|
human
|
Xenium_V1_hSkin_nondiseased_section_1_FFPE_outs
| 68,476 | 0 | 376 | 0 |
xenium
|
skin
|
human
|
HumanOvarianCancerPatient2Slice2_region_0
| 71,381 | 0 | 500 | 0 |
merscope
|
ovarian
|
human
|
HumanOvarianCancerPatient1_region_0
| 358,485 | 0 | 500 | 0 |
merscope
|
ovarian
|
human
|
Xenium_V1_Human_Colon_Cancer_P5_CRC_Add_on_FFPE_outs
| 275,998 | 0 | 422 | 0 |
xenium
|
colon
|
human
|
Xenium_V1_FFPE_Human_Brain_Healthy_With_Addon_outs
| 24,406 | 0 | 313 | 0 |
xenium
|
brain
|
human
|
Xenium_Preview_Human_Lung_Cancer_With_Add_on_2_FFPE_outs
| 531,165 | 0 | 392 | 0 |
xenium
|
lung
|
human
|
HumanLungCancerPatient2_region_0
| 836,739 | 0 | 500 | 0 |
merscope
|
lung
|
human
|
HumanLiverCancerPatient1_region_0
| 568,355 | 0 | 500 | 0 |
merscope
|
liver
|
human
|
HumanLiverCancerPatient2_region_0
| 598,141 | 0 | 500 | 0 |
merscope
|
liver
|
human
|
Xenium_V1_hPancreas_Cancer_Add_on_FFPE_outs
| 190,965 | 0 | 474 | 0 |
xenium
|
pancreas
|
human
|
HumanMelanomaPatient2_region_0
| 207,869 | 0 | 500 | 0 |
merscope
|
skin
|
human
|
Xenium_V1_FFPE_Human_Breast_IDC_outs
| 574,852 | 0 | 280 | 0 |
xenium
|
breast
|
human
|
HumanUterineCancerPatient2-RACostain_region_0
| 741,749 | 0 | 500 | 0 |
merscope
|
uterine
|
human
|
Xenium_V1_hSkin_Melanoma_Base_FFPE_outs
| 106,980 | 0 | 282 | 0 |
xenium
|
skin
|
human
|
Xenium_V1_hLung_cancer_section_outs
| 150,365 | 0 | 377 | 0 |
xenium
|
lung
|
human
|
Xenium_V1_hBoneMarrow_acute_lymphoid_leukemia_section_outs
| 225,906 | 0 | 477 | 0 |
xenium
|
bone_marrow
|
human
|
Xenium_V1_human_Pancreas_FFPE_outs
| 140,702 | 0 | 377 | 0 |
xenium
|
pancreas
|
human
|
Xenium_V1_hLiver_nondiseased_section_FFPE_outs
| 239,271 | 0 | 377 | 0 |
xenium
|
liver
|
human
|
cosmx_normal_liver
| 340,706 | 0 | 1,197 | 0 |
cosmx
|
liver
|
human
|
Xenium_V1_FFPE_Human_Breast_IDC_Big_2_outs
| 885,523 | 0 | 280 | 0 |
xenium
|
breast
|
human
|
Xenium_V1_FF_Mouse_Brain_MultiSection_2_outs
| 154,654 | 0 | 248 | 0 |
xenium
|
brain
|
mouse
|
HumanMelanomaPatient1_region_0
| 468,138 | 0 | 500 | 0 |
merscope
|
skin
|
human
|
HumanProstateCancerPatient2_region_0
| 993,825 | 0 | 500 | 0 |
merscope
|
prostate
|
human
|
Xenium_V1_hLiver_cancer_section_FFPE_outs
| 162,628 | 0 | 473 | 0 |
xenium
|
liver
|
human
|
Xenium_V1_mFemur_EDTA_PFA_3daydecal_section_outs
| 247,876 | 0 | 474 | 0 |
xenium
|
femur
|
mouse
|
HumanUterineCancerPatient1_region_0
| 843,285 | 0 | 500 | 0 |
merscope
|
uterine
|
human
|
Xenium_V1_FF_Mouse_Brain_MultiSection_3_outs
| 158,047 | 0 | 248 | 0 |
xenium
|
brain
|
mouse
|
Xenium_V1_hColon_Cancer_Add_on_FFPE_outs
| 587,115 | 0 | 425 | 0 |
xenium
|
colon
|
human
|
Xenium_Prime_Human_Lymph_Node_Reactive_FFPE_outs
| 708,983 | 0 | 4,622 | 0 |
xenium
|
lymph_node
|
human
|
Xenium_V1_hColon_Non_diseased_Base_FFPE_outs
| 270,984 | 0 | 325 | 0 |
xenium
|
colon
|
human
|
Xenium_V1_hKidney_nondiseased_section_outs
| 97,560 | 0 | 377 | 0 |
xenium
|
kidney
|
human
|
Xenium_V1_Human_Brain_GBM_FFPE_outs
| 816,769 | 0 | 480 | 0 |
xenium
|
brain
|
human
|
HumanProstateCancerPatient1_region_0
| 721,668 | 0 | 500 | 0 |
merscope
|
prostate
|
human
|
Xenium_V1_FFPE_Human_Breast_ILC_outs
| 356,746 | 0 | 280 | 0 |
xenium
|
breast
|
human
|
HumanLungCancerPatient1_region_0
| 353,762 | 0 | 500 | 0 |
merscope
|
lung
|
human
|
Xenium_V1_Human_Colorectal_Cancer_Addon_FFPE_outs
| 388,175 | 0 | 480 | 0 |
xenium
|
colon
|
human
|
Xenium_Prime_Human_Skin_FFPE_outs
| 112,551 | 0 | 4,705 | 0 |
xenium
|
skin
|
human
|
Xenium_V1_FFPE_Human_Brain_Glioblastoma_With_Addon_outs
| 40,887 | 0 | 318 | 0 |
xenium
|
brain
|
human
|
HumanOvarianCancerPatient2Slice1_region_0
| 254,347 | 0 | 500 | 0 |
merscope
|
ovarian
|
human
|
cosmx_pancreas
| 48,944 | 0 | 21,569 | 0 |
cosmx
|
pancreas
|
human
|
Xenium_Prime_Mouse_Brain_Coronal_FF_outs
| 63,173 | 0 | 4,593 | 0 |
xenium
|
brain
|
mouse
|
Xenium_V1_hColon_Cancer_Base_FFPE_outs
| 647,524 | 0 | 325 | 0 |
xenium
|
colon
|
human
|
cosmx_cancer_liver
| 463,972 | 0 | 1,197 | 0 |
cosmx
|
liver
|
human
|
HumanColonCancerPatient2_region_0
| 817,588 | 0 | 500 | 0 |
merscope
|
colon
|
human
|
Xenium_V1_hKidney_cancer_section_outs
| 56,510 | 0 | 377 | 0 |
xenium
|
kidney
|
human
|
Xenium_V1_hLymphNode_nondiseased_section_outs
| 377,985 | 0 | 377 | 0 |
xenium
|
lymph_node
|
human
|
Xenium_V1_hTonsil_follicular_lymphoid_hyperplasia_section_FFPE_outs
| 864,388 | 0 | 377 | 0 |
xenium
|
tonsil
|
human
|
Xenium_V1_mouse_Colon_FF_outs
| 219,797 | 0 | 378 | 0 |
xenium
|
colon
|
mouse
|
Xenium_V1_FF_Mouse_Brain_MultiSection_1_outs
| 162,033 | 0 | 248 | 0 |
xenium
|
brain
|
mouse
|
Xenium_V1_FFPE_Human_Brain_Alzheimers_With_Addon_outs
| 44,955 | 0 | 352 | 0 |
xenium
|
brain
|
human
|
Xenium_Prime_Human_Prostate_FFPE_outs
| 193,000 | 0 | 5,002 | 0 |
xenium
|
prostate
|
human
|
Xenium_V1_hTonsil_reactive_follicular_hyperplasia_section_FFPE_outs
| 1,349,620 | 0 | 377 | 0 |
xenium
|
tonsil
|
human
|
HumanOvarianCancerPatient2Slice3_region_0
| 212,425 | 0 | 500 | 0 |
merscope
|
ovarian
|
human
|
Xenium_V1_hPancreas_nondiseased_section_outs
| 103,901 | 0 | 377 | 0 |
xenium
|
pancreas
|
human
|
HumanColonCancerPatient1_region_0
| 677,451 | 0 | 500 | 0 |
merscope
|
colon
|
human
|
Xenium_V1_FFPE_Human_Breast_IDC_Big_1_outs
| 892,966 | 0 | 280 | 0 |
xenium
|
breast
|
human
|
Full novae dataset, including:
- All the spatial transcriptomics samples used to train Novae
- Protein samples used in the article
- Some Visium and Visium HD samples
- Synthetic data samples
You can download this dataset from the API, see novae.load_dataset
See here the list of available models trained on this dataset.
Note that Novae was trained on the image-based spatial transcriptomics samples. This means that it was not trained on the Visium/VisiumHD samples and the spatial proteomics samples.
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Models trained or fine-tuned on MICS-Lab/novae