Transfer data¶
Here, we’ll show how to transfer data from another instance into the current instance.
!lamin init --storage ./test-transfer --schema bionty
Show code cell output
💡 connected lamindb: anonymous/test-transfer
import lamindb as ln
ln.settings.transform.stem_uid = "ITeOtm7bhtdq"
ln.settings.transform.version = "1"
ln.track()
Show code cell output
💡 connected lamindb: anonymous/test-transfer
💡 notebook imports: lamindb==0.72.1
💡 saved: Transform(uid='ITeOtm7bhtdq5zKv', version='1', name='Transfer data', key='transfer', type='notebook', created_by_id=1, updated_at='2024-05-25 15:25:32 UTC')
💡 saved: Run(uid='UgJjwUTClVtI1VvlqyMt', transform_id=1, created_by_id=1)
Run(uid='UgJjwUTClVtI1VvlqyMt', started_at='2024-05-25 15:25:32 UTC', is_consecutive=True, transform_id=1, created_by_id=1)
All artifacts in the laminlabs/cellxgene clone of CZ CELLxGENE (for more info, see cellxgene):
artifacts = ln.Artifact.using("laminlabs/cellxgene")
artifacts.df().head()
Show code cell output
| uid | version | description | key | suffix | accessor | size | hash | hash_type | n_objects | n_observations | visibility | key_is_virtual | storage_id | transform_id | run_id | created_by_id | updated_at | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| id | ||||||||||||||||||
| 1717 | 6GM0siRkIUISUwpFb54A | 2023-07-25 | Pla_HDBR9518710 | cell-census/2023-07-25/h5ads/ff12e239-9292-4d2... | .h5ad | AnnData | 21993955 | PFgOHr86dGrEOrPELpKvrQ-3 | md5-n | None | 1216.0 | 1 | False | 2 | 11.0 | 16.0 | 1 | 2024-01-24 07:05:41.771446+00:00 |
| 1613 | qnlBU5a6OR46Zkku1gEl | 2023-07-25 | WS_PLA_S9101764 | cell-census/2023-07-25/h5ads/dfe8e072-94a7-415... | .h5ad | AnnData | 39725919 | -2OE3CsXIxegNGOQO7cJVw-5 | md5-n | None | 3568.0 | 1 | False | 2 | 11.0 | 16.0 | 1 | 2024-01-24 07:05:43.770581+00:00 |
| 1497 | w6UNsyZp0eTrl3Uz15Wl | 2023-07-25 | WS_PLA_S9101769 | cell-census/2023-07-25/h5ads/c1568274-2af2-4cd... | .h5ad | AnnData | 34328778 | oaxWjROHsHneVVf7VgcoaA-5 | md5-n | None | 3130.0 | 1 | False | 2 | 11.0 | 16.0 | 1 | 2024-01-24 07:05:45.247888+00:00 |
| 1434 | txst3MWWFtvPGcYOR145 | 2023-07-25 | primary_trophoblast_organoid | cell-census/2023-07-25/h5ads/ab326369-b63c-48d... | .h5ad | AnnData | 530799215 | 2i7cuX3r562-mfIK8GYAyA-64 | md5-n | None | 26853.0 | 1 | False | 2 | 11.0 | 16.0 | 1 | 2024-01-24 07:05:45.699596+00:00 |
| 979 | Vd2uGOTQOwleGdFRlEOp | 2023-07-25 | Heart - A single-cell transcriptomic atlas cha... | cell-census/2023-07-25/h5ads/1fe63353-9e75-482... | .h5ad | AnnData | 148387585 | 4keMLCOrr6OP70fPvE0TIQ-18 | md5-n | None | 8613.0 | 1 | False | 2 | 11.0 | 16.0 | 1 | 2024-01-24 07:15:09.559452+00:00 |
Query or search the queryset:
artifact = artifacts.filter(description__icontains="tabula sapiens").first()
artifact
Show code cell output
Artifact(uid='7JWPBDDaO3v4bsarcj50', version='2023-07-25', description='Tabula Sapiens - Salivary_Gland', key='cell-census/2023-07-25/h5ads/f01bdd17-4902-40f5-86e3-240d66dd2587.h5ad', suffix='.h5ad', accessor='AnnData', size=575121838, hash='4DpycNCrKc_Q_pEYmPXZRw-69', hash_type='md5-n', n_observations=27199, visibility=1, key_is_virtual=False, created_by_id=1, storage_id=2, transform_id=11, run_id=16, updated_at='2024-01-24 07:05:50 UTC')
Save the artifact to the default instance:
artifact.save()
Show code cell output
💡 returning existing Organism(uid='1dpCL6Td') on default database
❗ now recursing through parents: this only happens once, but is much slower than bulk saving
💡 returning existing Tissue(uid='704PM5QF') on default database
💡 returning existing Tissue(uid='3mCb7TBl') on default database
❗ now recursing through parents: this only happens once, but is much slower than bulk saving
💡 returning existing CellType(uid='28V22coI') on default database
💡 returning existing CellType(uid='1xjnFaa2') on default database
💡 returning existing CellType(uid='4PSMdO3I') on default database
💡 returning existing CellType(uid='puGNwNrs') on default database
💡 returning existing CellType(uid='6cbuZBUM') on default database
💡 returning existing CellType(uid='6Q3j6SOp') on default database
💡 returning existing CellType(uid='6ujMwy7s') on default database
💡 returning existing CellType(uid='7Crr32HI') on default database
💡 returning existing CellType(uid='6dzoXJ3Y') on default database
💡 returning existing CellType(uid='6rfrjhvo') on default database
💡 returning existing CellType(uid='ryEtgi1y') on default database
💡 returning existing CellType(uid='1V5wVqK5') on default database
💡 returning existing CellType(uid='22LvKd01') on default database
💡 returning existing CellType(uid='zQ4dyjEs') on default database
💡 returning existing CellType(uid='2cUPBtY8') on default database
💡 returning existing CellType(uid='6IC9NGJE') on default database
💡 returning existing CellType(uid='2nPA0h4F') on default database
💡 returning existing CellType(uid='7Ql7OzRU') on default database
💡 returning existing CellType(uid='3jdCg7zi') on default database
💡 returning existing CellType(uid='1J6s4gSi') on default database
💡 returning existing CellType(uid='3el7r2gM') on default database
💡 returning existing CellType(uid='531hEapj') on default database
💡 returning existing CellType(uid='4pk08hOx') on default database
💡 returning existing CellType(uid='3muVF5Bn') on default database
❗ did not create Disease record for 1 non-validated ontology_id: 'PATO:0000461'
❗ did not create Phenotype records for 2 non-validated ontology_ids: 'PATO:0000384', 'PATO:0000383'
❗ now recursing through parents: this only happens once, but is much slower than bulk saving
💡 returning existing ExperimentalFactor(uid='1cdYMnKh') on default database
💡 returning existing ExperimentalFactor(uid='4FDIH9Sv') on default database
❗ now recursing through parents: this only happens once, but is much slower than bulk saving
💡 returning existing DevelopmentalStage(uid='2zxrb1Pu') on default database
💡 returning existing DevelopmentalStage(uid='5q64GXx1') on default database
❗ now recursing through parents: this only happens once, but is much slower than bulk saving
💡 returning existing Ethnicity(uid='15mGvAtW') on default database
Artifact(uid='7JWPBDDaO3v4bsarcj50', version='2023-07-25', description='Tabula Sapiens - Salivary_Gland', key='cell-census/2023-07-25/h5ads/f01bdd17-4902-40f5-86e3-240d66dd2587.h5ad', suffix='.h5ad', accessor='AnnData', size=575121838, hash='4DpycNCrKc_Q_pEYmPXZRw-69', hash_type='md5-n', n_observations=27199, visibility=1, key_is_virtual=False, created_by_id=1, storage_id=2, transform_id=1, run_id=1, updated_at='2024-05-25 15:25:34 UTC')
All features & labels have been transferred, the data itself is still on CZ’s S3:
artifact.describe()
Show code cell output
Artifact(uid='7JWPBDDaO3v4bsarcj50', version='2023-07-25', description='Tabula Sapiens - Salivary_Gland', key='cell-census/2023-07-25/h5ads/f01bdd17-4902-40f5-86e3-240d66dd2587.h5ad', suffix='.h5ad', accessor='AnnData', size=575121838, hash='4DpycNCrKc_Q_pEYmPXZRw-69', hash_type='md5-n', n_observations=27199, visibility=1, key_is_virtual=False, updated_at='2024-05-25 15:25:34 UTC')
Provenance
.created_by = 'anonymous'
.storage = 's3://cellxgene-data-public'
.transform = 'Transfer data'
.run = '2024-05-25 15:25:32 UTC'
Labels
.organisms = 'human'
.tissues = 'sublingual gland', 'parotid gland'
.cell_types = 'monocyte', 'myoepithelial cell', 'CD4-positive, alpha-beta T cell', 'endothelial cell of lymphatic vessel', 'duct epithelial cell', 'endothelial cell of hepatic sinusoid', 'pericyte', 'adventitial cell', 'basal cell', 'neutrophil'
.diseases = 'normal'
.phenotypes = 'male', 'female'
.experimental_factors = 'Smart-seq2', '10x 3' v3'
.developmental_stages = '59-year-old human stage', '69-year-old human stage'
.ethnicities = 'European'
.ulabels = 'TSP14', 'TSP7', 'cell', 'tissue'
Features
'donor_id' = 'TSP14', 'TSP7'
'suspension_type' = 'cell'
'tissue_type' = 'tissue'
Feature sets
'obs' = 'assay', 'cell_type', 'development_stage', 'disease', 'donor_id', 'self_reported_ethnicity', 'sex', 'tissue', 'organism', 'tissue_type', 'suspension_type'
'var' = 'RNF145', 'RNU4ATAC2P', 'LINC01847', 'ADRA1B', 'GAPDHP40', 'TTC1', 'FAM200C', 'None', 'LINC02159', 'GABRA1', 'LINC01202', 'CCNG1', 'HMMR', 'RN7SKP60', 'RPL21P59'
The database is populated correspondingly.
ln.view()
Show code cell output
****************
* module: core *
****************
Artifact
| uid | version | description | key | suffix | accessor | size | hash | hash_type | n_objects | n_observations | visibility | key_is_virtual | storage_id | transform_id | run_id | created_by_id | updated_at | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| id | ||||||||||||||||||
| 1 | 7JWPBDDaO3v4bsarcj50 | 2023-07-25 | Tabula Sapiens - Salivary_Gland | cell-census/2023-07-25/h5ads/f01bdd17-4902-40f... | .h5ad | AnnData | 575121838 | 4DpycNCrKc_Q_pEYmPXZRw-69 | md5-n | None | 27199 | 1 | False | 2 | 1 | 1 | 1 | 2024-05-25 15:25:34.578549+00:00 |
Feature
| uid | name | dtype | unit | description | synonyms | run_id | created_by_id | updated_at | |
|---|---|---|---|---|---|---|---|---|---|
| id | |||||||||
| 11 | 9s20Imh64bYU | suspension_type | cat[ULabel] | None | MUST be 'cell', 'nucleus', or 'na' | None | 1 | 1 | 2024-05-25 15:25:34.930441+00:00 |
| 10 | 69RQ1pVPEo3o | tissue_type | cat[ULabel] | None | MUST be 'tissue', 'organoid', or 'cell culture' | None | 1 | 1 | 2024-05-25 15:25:34.930317+00:00 |
| 9 | wCbvLeKe2rv8 | organism | cat[bionty.Organism] | None | None | None | 1 | 1 | 2024-05-25 15:25:34.930193+00:00 |
| 8 | MB1hKtGaQiqV | tissue | cat[bionty.Tissue] | None | None | None | 1 | 1 | 2024-05-25 15:25:34.930069+00:00 |
| 7 | Xcti9JkM9uvG | sex | cat[bionty.Phenotype] | None | None | None | 1 | 1 | 2024-05-25 15:25:34.929944+00:00 |
| 6 | DbVAV4BaQXAh | self_reported_ethnicity | cat[bionty.Ethnicity] | None | None | None | 1 | 1 | 2024-05-25 15:25:34.929821+00:00 |
| 5 | xbMGSIMHV67J | donor_id | cat[ULabel] | None | None | None | 1 | 1 | 2024-05-25 15:25:34.929697+00:00 |
FeatureSet
| uid | name | n | dtype | registry | hash | run_id | created_by_id | |
|---|---|---|---|---|---|---|---|---|
| id | ||||||||
| 1 | VDzy5A1JdsCE3hxsU2TT | None | 11 | None | Feature | FqF5x0w1rGBjZBGzh-Qr | 1 | 1 |
| 2 | G0zGHAaW2podIpvscSAb | None | 58604 | number | bionty.Gene | vGM2j-OZYfQ4-9KsK75K | 1 | 1 |
Run
| uid | started_at | finished_at | is_consecutive | reference | reference_type | transform_id | report_id | environment_id | created_by_id | |
|---|---|---|---|---|---|---|---|---|---|---|
| id | ||||||||||
| 1 | UgJjwUTClVtI1VvlqyMt | 2024-05-25 15:25:32.030280+00:00 | None | True | None | None | 1 | None | None | 1 |
Storage
| uid | root | description | type | region | instance_uid | run_id | created_by_id | updated_at | |
|---|---|---|---|---|---|---|---|---|---|
| id | |||||||||
| 2 | oIYGbD74 | s3://cellxgene-data-public | None | s3 | us-west-2 | None | 1.0 | 1 | 2024-05-25 15:25:34.576239+00:00 |
| 1 | p1aZOA3Bjv0c | /home/runner/work/lamindb/lamindb/docs/test-tr... | None | local | None | 1FHu5eE0uxm4 | NaN | 1 | 2024-05-25 15:25:29.852616+00:00 |
Transform
| uid | version | name | key | description | type | reference | reference_type | latest_report_id | source_code_id | created_by_id | updated_at | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|
| id | ||||||||||||
| 1 | ITeOtm7bhtdq5zKv | 1 | Transfer data | transfer | None | notebook | None | None | None | None | 1 | 2024-05-25 15:25:32.023966+00:00 |
ULabel
| uid | name | description | reference | reference_type | run_id | created_by_id | updated_at | |
|---|---|---|---|---|---|---|---|---|
| id | ||||||||
| 4 | orwn0HKG | tissue | None | None | None | 1 | 1 | 2024-05-25 15:27:17.431915+00:00 |
| 3 | WzKPMCXX | cell | None | None | None | 1 | 1 | 2024-05-25 15:27:17.265179+00:00 |
| 2 | 1s9HrDbk | TSP7 | None | None | None | 1 | 1 | 2024-05-25 15:27:17.098100+00:00 |
| 1 | HVoqm0bp | TSP14 | None | None | None | 1 | 1 | 2024-05-25 15:27:16.931077+00:00 |
User
| uid | handle | name | updated_at | |
|---|---|---|---|---|
| id | ||||
| 1 | 00000000 | anonymous | None | 2024-05-25 15:25:29.847453+00:00 |
******************
* module: bionty *
******************
CellType
| uid | name | ontology_id | abbr | synonyms | description | public_source_id | run_id | created_by_id | updated_at | |
|---|---|---|---|---|---|---|---|---|---|---|
| id | ||||||||||
| 77 | 1uUQwGAL | endo-epithelial cell | CL:0002076 | None | None | An Epithelial Cell Derived From Endoderm. | 29 | 1 | 1 | 2024-05-25 15:27:03.729755+00:00 |
| 76 | 6o2T6eYX | epithelial cell of alimentary canal | CL:0002251 | None | None | An Epithelial Cell Of The Musculomembranous Di... | 29 | 1 | 1 | 2024-05-25 15:27:03.262108+00:00 |
| 75 | 4cUGHo42 | exocrine cell | CL:0000152 | None | None | A Cell Of An Exocrine Gland; I.E. A Gland That... | 29 | 1 | 1 | 2024-05-25 15:27:03.261958+00:00 |
| 74 | 4eEkKmdU | secretory cell | CL:0000151 | None | None | A Cell That Specializes In Controlled Release ... | 29 | 1 | 1 | 2024-05-25 15:27:02.652125+00:00 |
| 73 | 7glBbUDw | protein secreting cell | CL:0000154 | None | None | None | 29 | 1 | 1 | 2024-05-25 15:27:02.076034+00:00 |
| 72 | 41jKWil4 | glandular epithelial cell | CL:0000150 | None | None | A Specialized Epithelial Cell That Is Capable ... | 29 | 1 | 1 | 2024-05-25 15:27:02.075850+00:00 |
| 71 | dcsPbfKc | salivary gland glandular cell | CL:1001596 | None | None | Glandular Cell Of Salivary Gland. Example: Ser... | 29 | 1 | 1 | 2024-05-25 15:27:01.623636+00:00 |
DevelopmentalStage
| uid | name | ontology_id | abbr | synonyms | description | public_source_id | run_id | created_by_id | updated_at | |
|---|---|---|---|---|---|---|---|---|---|---|
| id | ||||||||||
| 3 | 7k1A0zkT | human life cycle stage | HsapDv:0000000 | None | developmental stage | A Spatiotemporal Region Encompassing Some Part... | 70 | 1 | 1 | 2024-05-25 15:27:15.109295+00:00 |
| 2 | 5q64GXx1 | 69-year-old human stage | HsapDv:0000163 | None | None | Adult Stage That Refers To An Adult Who Is Ove... | 70 | 1 | 1 | 2024-05-25 15:27:14.519393+00:00 |
| 1 | 2zxrb1Pu | 59-year-old human stage | HsapDv:0000153 | None | None | Middle Aged Stage That Refers To An Adult Who ... | 70 | 1 | 1 | 2024-05-25 15:27:14.519239+00:00 |
Disease
| uid | name | ontology_id | abbr | synonyms | description | public_source_id | run_id | created_by_id | updated_at | |
|---|---|---|---|---|---|---|---|---|---|---|
| id | ||||||||||
| 1 | 6IZiH6X8 | normal | PATO:0000461 | None | None | A Quality Inhering In A Bearer By Virtue Of Th... | 63 | 1 | 1 | 2024-05-25 15:27:07.850027+00:00 |
Ethnicity
| uid | name | ontology_id | abbr | synonyms | description | public_source_id | run_id | created_by_id | updated_at | |
|---|---|---|---|---|---|---|---|---|---|---|
| id | ||||||||||
| 2 | 6Tnv21Sw | ancestry category | HANCESTRO:0004 | None | ancestral group | Population Category Defined Using Ancestry Inf... | 72 | 1 | 1 | 2024-05-25 15:27:16.492560+00:00 |
| 1 | 15mGvAtW | European | HANCESTRO:0005 | None | Caucasian|white | Includes Individuals Who Either Self-Report Or... | 72 | 1 | 1 | 2024-05-25 15:27:15.926255+00:00 |
ExperimentalFactor
| uid | name | ontology_id | abbr | synonyms | description | molecule | instrument | measurement | public_source_id | run_id | created_by_id | updated_at | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| id | |||||||||||||
| 9 | 6JvKxplX | 10x technology | EFO:0008995 | None | 10x single cell library construction|10x Genomics | 10X Is A "Synthetic Long-Read" Technology And ... | None | None | None | 51 | 1 | 1 | 2024-05-25 15:27:13.579064+00:00 |
| 8 | 1SAR2Y26 | 10x transcription profiling | EFO:0030080 | None | None | The 10X-Based Single-Cell Technology That Sequ... | None | None | None | 51 | 1 | 1 | 2024-05-25 15:27:13.083299+00:00 |
| 7 | 2kXleO7C | 10x 3' transcription profiling | EFO:0030003 | None | None | 10X 3' Transcription Profiling Is The 10X-Base... | None | None | None | 51 | 1 | 1 | 2024-05-25 15:27:12.455710+00:00 |
| 6 | 1wLRxESw | assay by molecule | EFO:0002772 | None | None | None | None | None | None | 51 | 1 | 1 | 2024-05-25 15:27:11.951426+00:00 |
| 5 | 5q5okCXl | single cell library construction | EFO:0010183 | None | single cell library preparation|single-cell li... | A Library Preparation Process That Starts From... | None | None | None | 51 | 1 | 1 | 2024-05-25 15:27:11.327593+00:00 |
| 4 | 789nVHwo | RNA assay | EFO:0001457 | None | None | An Assay With Input Rna | RNA assay | None | None | 51 | 1 | 1 | 2024-05-25 15:27:10.689961+00:00 |
| 3 | 1x8VaVN0 | Smart-like | EFO:0010184 | None | None | Library Construction Method Using The Smart (S... | None | None | None | 51 | 1 | 1 | 2024-05-25 15:27:10.689778+00:00 |
Gene
| uid | symbol | stable_id | ensembl_gene_id | ncbi_gene_ids | biotype | description | synonyms | organism_id | public_source_id | run_id | created_by_id | updated_at | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| id | |||||||||||||
| 58604 | 70hEAyHdv2mf | None | None | ENSG00000272085 | lncRNA | novel transcript | 1 | 13 | 1 | 1 | 2024-05-25 15:26:26.599285+00:00 | ||
| 58603 | 7fhcZHrnbaY1 | None | None | ENSG00000253424 | lncRNA | novel transcript | 1 | 13 | 1 | 1 | 2024-05-25 15:26:26.599118+00:00 | ||
| 58602 | 2QvvJOfXjXPd | None | None | ENSG00000253449 | lncRNA | novel transcript | 1 | 13 | 1 | 1 | 2024-05-25 15:26:26.598952+00:00 | ||
| 58601 | 6e9f3nDhfRWs | None | None | ENSG00000253673 | lncRNA | novel transcript | 1 | 13 | 1 | 1 | 2024-05-25 15:26:26.598783+00:00 | ||
| 58600 | 4ylvxaM60dXB | None | None | ENSG00000253792 | lncRNA | novel transcript | 1 | 13 | 1 | 1 | 2024-05-25 15:26:26.598616+00:00 | ||
| 58599 | 1gpu6hQGoHVj | None | None | ENSG00000213414 | processed_pseudogene | cell division cycle 37 homolog (S. cerevisiae)... | 1 | 13 | 1 | 1 | 2024-05-25 15:26:26.598449+00:00 | ||
| 58598 | Z3GXFaLKPXSm | RNU2-48P | None | ENSG00000222626 | snRNA | RNA, U2 small nuclear 48, pseudogene [Source:H... | 1 | 13 | 1 | 1 | 2024-05-25 15:26:26.598281+00:00 |
Organism
| uid | name | ontology_id | scientific_name | public_source_id | run_id | created_by_id | updated_at | |
|---|---|---|---|---|---|---|---|---|
| id | ||||||||
| 1 | 1dpCL6Td | human | NCBITaxon:9606 | Homo sapiens | 10 | 1 | 1 | 2024-05-25 15:25:40.616895+00:00 |
Phenotype
| uid | name | ontology_id | abbr | synonyms | description | public_source_id | run_id | created_by_id | updated_at | |
|---|---|---|---|---|---|---|---|---|---|---|
| id | ||||||||||
| 2 | 3OV8JZsS | female | PATO:0000383 | None | None | A Biological Sex Quality Inhering In An Indivi... | 63 | 1 | 1 | 2024-05-25 15:27:09.292311+00:00 |
| 1 | kniZxLLf | male | PATO:0000384 | None | None | A Biological Sex Quality Inhering In An Indivi... | 63 | 1 | 1 | 2024-05-25 15:27:09.206964+00:00 |
PublicSource
| uid | entity | organism | currently_used | source | source_name | version | url | md5 | source_website | run_id | created_by_id | updated_at | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| id | |||||||||||||
| 73 | 5JnV | BioSample | all | True | ncbi | NCBI BioSample attributes | 2023-09 | s3://bionty-assets/df_all__ncbi__2023-09__BioS... | 918db9bd1734b97c596c67d9654a4126 | https://www.ncbi.nlm.nih.gov/biosample/docs/at... | None | 1 | 2024-05-25 15:25:29.959100+00:00 |
| 72 | 3Tlc | Ethnicity | human | True | hancestro | Human Ancestry Ontology | 3.0 | https://github.com/EBISPOT/hancestro/raw/3.0/h... | 76dd9efda9c2abd4bc32fc57c0b755dd | https://github.com/EBISPOT/hancestro | None | 1 | 2024-05-25 15:25:29.958935+00:00 |
| 71 | 16tR | DevelopmentalStage | mouse | True | mmusdv | Mouse Developmental Stages | 2020-03-10 | http://aber-owl.net/media/ontologies/MMUSDV/9/... | 5bef72395d853c7f65450e6c2a1fc653 | https://github.com/obophenotype/developmental-... | None | 1 | 2024-05-25 15:25:29.955641+00:00 |
| 70 | 7CRn | DevelopmentalStage | human | True | hsapdv | Human Developmental Stages | 2020-03-10 | http://aber-owl.net/media/ontologies/HSAPDV/11... | 52181d59df84578ed69214a5cb614036 | https://github.com/obophenotype/developmental-... | None | 1 | 2024-05-25 15:25:29.955491+00:00 |
| 69 | 3TI0 | Drug | all | False | dron | Drug Ontology | 2023-03-10 | https://data.bioontology.org/ontologies/DRON/s... | 75e86011158fae76bb46d96662a33ba3 | https://bioportal.bioontology.org/ontologies/DRON | None | 1 | 2024-05-25 15:25:29.955342+00:00 |
| 68 | 5alK | Drug | all | True | dron | Drug Ontology | 2024-03-02 | https://data.bioontology.org/ontologies/DRON/s... | 84138459de4f65034e979f4e46783747 | https://bioportal.bioontology.org/ontologies/DRON | None | 1 | 2024-05-25 15:25:29.955193+00:00 |
| 67 | 3rm9 | BFXPipeline | all | True | lamin | Bioinformatics Pipeline | 1.0.0 | s3://bionty-assets/bfxpipelines.json | a7eff57a256994692fba46e0199ffc94 | https://lamin.ai | None | 1 | 2024-05-25 15:25:29.955044+00:00 |
Tissue
| uid | name | ontology_id | abbr | synonyms | description | public_source_id | run_id | created_by_id | updated_at | |
|---|---|---|---|---|---|---|---|---|---|---|
| id | ||||||||||
| 17 | 7SvOepT5 | buccal salivary gland | UBERON:0012102 | None | None | A Salivary Gland That Is Part Of A Cheek. | 34 | 1 | 1 | 2024-05-25 15:26:42.450694+00:00 |
| 16 | 6TiLnvMv | serous gland | UBERON:0000409 | None | None | A Gland In Which The Principal Secretory Cells... | 34 | 1 | 1 | 2024-05-25 15:26:42.450544+00:00 |
| 15 | 2rlm5wUr | anatomical entity | UBERON:0001062 | None | None | Biological Entity That Is Either An Individual... | 34 | 1 | 1 | 2024-05-25 15:26:41.877519+00:00 |
| 14 | N039zety | material anatomical entity | UBERON:0000465 | None | None | Anatomical Entity That Has Mass. | 34 | 1 | 1 | 2024-05-25 15:26:41.279855+00:00 |
| 13 | 5SGM2iq3 | anatomical structure | UBERON:0000061 | None | biological structure|connected biological stru... | Material Anatomical Entity That Is A Single Co... | 34 | 1 | 1 | 2024-05-25 15:26:40.787287+00:00 |
| 12 | 4o2HviGe | multicellular anatomical structure | UBERON:0010000 | None | multicellular structure | An Anatomical Structure That Has More Than One... | 34 | 1 | 1 | 2024-05-25 15:26:40.165307+00:00 |
| 11 | 7HJIkVT2 | organ | UBERON:0000062 | None | None | Anatomical Structure That Performs A Specific ... | 34 | 1 | 1 | 2024-05-25 15:26:39.665112+00:00 |
Show code cell content
# clean up test instance
!lamin delete --force test-transfer
!rm -r test-transfer
❗ calling anonymously, will miss private instances
💡 deleting instance anonymous/test-transfer
rm: cannot remove 'test-transfer': No such file or directory