How does search work?¶
Show code cell content
from laminci.db import setup_local_test_postgres
pgurl = setup_local_test_postgres()
!lamin init --name benchmark_search --db {pgurl} --schema bionty --storage ./benchmark_search
• Created Postgres test instance: 'postgresql://postgres:[email protected]:5432/pgtest'
It runs in docker container 'pgtest'
→ connected lamindb: testuser1/benchmark_search
Here we show how to perform text search on Record and evaluate some search queries for the bionty.CellType ontology.
import lamindb as ln
import bionty as bt
SEARCH_QUERIES_EXACT = (
"t cell",
"stem cell",
"b cell",
"regulatory B cell",
"Be2 cell",
"adipocyte",
)
SEARCH_QUERIES_CONTAINS = ("t cel", "t-cel", "neural", "kidney", "kidne")
TOP_N = 20
bt.CellType.import_source()
→ connected lamindb: testuser1/benchmark_search
ln.ULabel(name="cat[*_*]").save()
ULabel(uid='Vw5tlCAj', name='cat[*_*]', created_by_id=1, created_at=2024-12-20 15:05:48 UTC)
Search the registry¶
for query in SEARCH_QUERIES_EXACT:
print("Query:", query)
qs = bt.CellType.search(query)
display(qs.df())
assert query.lower() == qs[0].name.lower()
Show code cell output
Query: t cell
| uid | name | ontology_id | abbr | synonyms | description | source_id | run_id | created_at | created_by_id | |
|---|---|---|---|---|---|---|---|---|---|---|
| id | ||||||||||
| 83 | 22LvKd01 | T cell | CL:0000084 | None | T lymphocyte|T-lymphocyte|T-cell | A Type Of Lymphocyte Whose Defining Characteri... | 32 | None | 2024-12-20 15:05:47.988563+00:00 | 1 |
| 1479 | 2OTzqBTM | mature T cell | CL:0002419 | None | CD3e-positive T cell|mature T-cell | A T Cell That Expresses A T Cell Receptor Comp... | 32 | None | 2024-12-20 15:05:48.060502+00:00 | 1 |
| 898 | 2qIhoZK4 | CD8-positive, CD25-positive, alpha-beta regula... | CL:0000919 | None | CD8-positive, CD25-positive, alpha-beta regula... | A Cd8-Positive Alpha Beta-Positive T Cell With... | 32 | None | 2024-12-20 15:05:48.030511+00:00 | 1 |
| 909 | 5FzW4l9l | CD4-negative, CD8-negative type I NK T cell se... | CL:0000930 | None | CD4-negative, CD8-negative type I NKT cell sec... | A Mature Nk T Cell That Secretes Interleukin-4... | 32 | None | 2024-12-20 15:05:48.031081+00:00 | 1 |
| 912 | 7UFMOmjH | type II NK T cell secreting interleukin-4 | CL:0000933 | None | type II NKT cell secreting interleukin-4|type ... | A Type Ii Nk T Cell That Has Been Recently Act... | 32 | None | 2024-12-20 15:05:48.031234+00:00 | 1 |
| 1017 | 5yjQPSaM | CD8-positive, CXCR3-positive, alpha-beta regul... | CL:0001041 | None | CD8-positive, CXCR3-positive, Treg|CD8-positiv... | A Cd8-Positive Alpha-Beta-Positive T Cell With... | 32 | None | 2024-12-20 15:05:48.036632+00:00 | 1 |
| 908 | 2pwBnFT3 | CD4-negative, CD8-negative type I NK T cell se... | CL:0000929 | None | CD4-negative, CD8-negative type I NK T-cell se... | A Mature Nk T Cell That Secretes Interferon-Ga... | 32 | None | 2024-12-20 15:05:48.031030+00:00 | 1 |
| 892 | 1zkEPMSu | effector memory CD8-positive, alpha-beta T cell | CL:0000913 | None | effector CD8-positive, alpha-beta memory T-lym... | Cd8-Positive, Alpha-Beta Memory T Cell With Th... | 32 | None | 2024-12-20 15:05:48.030206+00:00 | 1 |
| 899 | ut1VvtNT | CD8-positive, CD28-negative, alpha-beta regula... | CL:0000920 | None | CD8-positive, CD28-negative Treg|CD8+CD28- T c... | Cd8-Positive, Alpha-Beta Positive Regulatory T... | 32 | None | 2024-12-20 15:05:48.030562+00:00 | 1 |
| 900 | 5zF2I6dJ | type I NK T cell | CL:0000921 | None | type I NK T-lymphocyte|type I NKT cell|classic... | An Alpha-Beta T Cell Expressing Nk Cell Marker... | 32 | None | 2024-12-20 15:05:48.030614+00:00 | 1 |
| 911 | rdl67uwf | type II NK T cell secreting interferon-gamma | CL:0000932 | None | type II NK T-lymphocyte secreting interferon-g... | A Type Ii Nk T Cell That Has Been Recently Act... | 32 | None | 2024-12-20 15:05:48.031183+00:00 | 1 |
| 777 | 1xUOm7V2 | CD8-positive, alpha-beta regulatory T cell | CL:0000795 | None | CD8-positive Treg|CD8-positive, alpha-beta Tre... | A Cd8-Positive, Alpha-Beta T Cell That Regulat... | 32 | None | 2024-12-20 15:05:48.024310+00:00 | 1 |
| 906 | hjbsTsgP | CD4-positive type I NK T cell secreting interl... | CL:0000927 | None | CD4-positive type I NK T cell secreting IL-4|C... | A Mature Nk T Cell That Predominantly Secretes... | 32 | None | 2024-12-20 15:05:48.030928+00:00 | 1 |
| 905 | 3oNvdpFX | CD4-positive type I NK T cell secreting interf... | CL:0000926 | None | CD4-positive type I NK T lymphocyte secreting ... | A Mature Nk T Cell That Secretes Interferon-Ga... | 32 | None | 2024-12-20 15:05:48.030877+00:00 | 1 |
| 794 | 3muVF5Bn | mature NK T cell | CL:0000814 | None | mature NK T lymphocyte|mature NK T-lymphocyte|... | A Mature Alpha-Beta T Cell Of A Distinct Linea... | 32 | None | 2024-12-20 15:05:48.025182+00:00 | 1 |
| 883 | 3jz6b7gZ | central memory CD4-positive, alpha-beta T cell | CL:0000904 | None | central CD4-positive, alpha-beta memory T-lymp... | Cd4-Positive, Alpha-Beta Memory T Cell With Th... | 32 | None | 2024-12-20 15:05:48.029748+00:00 | 1 |
| 884 | 4ZpcwVPJ | effector memory CD4-positive, alpha-beta T cell | CL:0000905 | None | effector memory CD4-positive, alpha-beta T lym... | Cd4-Positive, Alpha-Beta Memory T Cell With Th... | 32 | None | 2024-12-20 15:05:48.029799+00:00 | 1 |
| 886 | 7SLcmrYh | central memory CD8-positive, alpha-beta T cell | CL:0000907 | None | central CD8-positive, alpha-beta memory T-lymp... | Cd8-Positive, Alpha-Beta Memory T Cell With Th... | 32 | None | 2024-12-20 15:05:48.029900+00:00 | 1 |
| 780 | 1HuNn2EP | gamma-delta T cell | CL:0000798 | None | gammadelta T cell|gamma-delta T-cell|gamma-del... | A T Cell That Expresses A Gamma-Delta T Cell R... | 32 | None | 2024-12-20 15:05:48.024463+00:00 | 1 |
| 1962 | 78mumrXE | small intestine Peyer's patch T cell | CL:0009023 | None | T cell of Peyer's patch of small intestine|T c... | A T Cell Which Resides In The Peyer'S Patch Of... | 32 | None | 2024-12-20 15:05:48.085385+00:00 | 1 |
Query: stem cell
| uid | name | ontology_id | abbr | synonyms | description | source_id | run_id | created_at | created_by_id | |
|---|---|---|---|---|---|---|---|---|---|---|
| id | ||||||||||
| 35 | jxDD8ajD | stem cell | CL:0000034 | None | animal stem cell | A Relatively Undifferentiated Cell That Retain... | 32 | None | 2024-12-20 15:05:47.986113+00:00 | 1 |
| 2918 | 1XMMVlhK | mesenchymal stem cell of orbital adipose tissue | CL:4040004 | None | Orbital ASCs|orbital adipose-derived mesenchym... | Any Mesenchymal Stem Cell Of Adipose Tissue Th... | 32 | None | 2024-12-20 15:05:48.135083+00:00 | 1 |
| 1099 | 2WPBsduL | short term hematopoietic stem cell | CL:0002033 | None | ST stem cell|ST-HSC | A Hematopoietic Stem Cell Capable Of Rapid Rep... | 32 | None | 2024-12-20 15:05:48.040844+00:00 | 1 |
| 1956 | 5S7LEcUj | intestinal crypt stem cell of small intestine | CL:0009017 | None | stem cell of small intestine crypt of Lieberkuhn | An Intestinal Stem Cell That Is Located In The... | 32 | None | 2024-12-20 15:05:48.085081+00:00 | 1 |
| 2316 | 1n840sKH | stem cell of epidermis | CL:1000428 | None | epidermal stem cell | A Somatic Stem Cell That Is Part Of The Epider... | 32 | None | 2024-12-20 15:05:48.104049+00:00 | 1 |
| 2608 | 5r4LUZpd | mesenchymal stem cell of abdominal adipose tissue | CL:2000080 | None | mesenchymal stem cell of abdominal adipose | Any Mesenchymal Stem Cell Of Adipose Tissue Th... | 32 | None | 2024-12-20 15:05:48.119065+00:00 | 1 |
| 1955 | 66xlGEYm | intestinal crypt stem cell of large intestine | CL:0009016 | None | stem cell of large intestine crypt of Lieberkuhn | An Intestinal Stem Cell That Is Located In The... | 32 | None | 2024-12-20 15:05:48.085030+00:00 | 1 |
| 1628 | tgRXGHjW | mesenchymal stem cell of adipose tissue | CL:0002570 | None | mesenchymal stem cell of adipose | A Mesenchymal Stem Cell Of Adipose Tissue. | 32 | None | 2024-12-20 15:05:48.068139+00:00 | 1 |
| 1003 | 5NOO2SHF | CD34-positive, CD38-negative hematopoietic ste... | CL:0001024 | None | CD133-positive hematopoietic stem cell | Cd133-Positive Hematopoietic Stem Cell Is A He... | 32 | None | 2024-12-20 15:05:48.035919+00:00 | 1 |
| 48 | 5AU7hMOa | multi fate stem cell | CL:0000048 | None | multi-fate stem cell|multipotent cell|multifat... | A Stem Cell That Can Give Rise To Multiple Lin... | 32 | None | 2024-12-20 15:05:47.986780+00:00 | 1 |
| 52 | 6Z8jsYOX | totipotent stem cell | CL:0000052 | None | totipotential stem cell | A Stem Cell From Which All Cells Of The Body C... | 32 | None | 2024-12-20 15:05:47.986982+00:00 | 1 |
| 2000 | 1J46d5xB | intestinal crypt stem cell of anorectum | CL:0009061 | None | anorectum intestinal crypt stem cell | An Intestinal Crypt Stem Cell That Is Located ... | 32 | None | 2024-12-20 15:05:48.087333+00:00 | 1 |
| 38 | 2U8xapxu | hematopoietic stem cell | CL:0000037 | None | blood forming stem cell|hemopoietic stem cell | A Stem Cell From Which All Cells Of The Lympho... | 32 | None | 2024-12-20 15:05:47.986265+00:00 | 1 |
| 1100 | fQaazBGV | long term hematopoietic stem cell | CL:0002034 | None | LT stem cell|LT-HSC | A Hematopoietic Stem Cell With Long Term Self ... | 32 | None | 2024-12-20 15:05:48.040894+00:00 | 1 |
| 1967 | 5aMQ7VXC | intestinal crypt stem cell of appendix | CL:0009028 | None | intestinal crypt stem cell of vermiform append... | An Intestinal Crypt Stem Cell That Is Located ... | 32 | None | 2024-12-20 15:05:48.085638+00:00 | 1 |
| 987 | 1yjJyVS8 | Kit and Sca1-positive hematopoietic stem cell | CL:0001008 | None | LSK stem cell|Sca1-positive hematopoietic stem... | A Hematopoietic Stem Cell That Has Plasma Memb... | 32 | None | 2024-12-20 15:05:48.035096+00:00 | 1 |
| 15 | 3dsBAMM1 | germ line stem cell | CL:0000014 | None | germline stem cell | A Stem Cell That Is The Precursor Of Gametes. | 32 | None | 2024-12-20 15:05:47.985089+00:00 | 1 |
| 1596 | 4cuSaXq3 | amnion mesenchymal stem cell | CL:0002537 | None | amniotic membrane stem cell | A Mesenchymal Stem Cell Of The Amnion Membrane. | 32 | None | 2024-12-20 15:05:48.066500+00:00 | 1 |
| 36 | 58RHatFb | single fate stem cell | CL:0000035 | None | unipotent stem cell|unipotential stem cell | A Stem Cell That Self-Renews As Well As Give R... | 32 | None | 2024-12-20 15:05:47.986163+00:00 | 1 |
| 1257 | 3sriqGUG | hepatic stem cell | CL:0002195 | None | None | A Stem Cell That Can Give Rise To The Cells Of... | 32 | None | 2024-12-20 15:05:48.048965+00:00 | 1 |
Query: b cell
| uid | name | ontology_id | abbr | synonyms | description | source_id | run_id | created_at | created_by_id | |
|---|---|---|---|---|---|---|---|---|---|---|
| id | ||||||||||
| 231 | ryEtgi1y | B cell | CL:0000236 | None | B lymphocyte|B-cell|B-lymphocyte | A Lymphocyte Of B Lineage That Is Capable Of B... | 32 | None | 2024-12-20 15:05:47.996135+00:00 | 1 |
| 938 | 7JU5AZLF | T2 B cell | CL:0000959 | None | T2 B lymphocyte|T2 B-cell|transitional stage 2... | A Transitional Stage B Cell That Has The Pheno... | 32 | None | 2024-12-20 15:05:48.032565+00:00 | 1 |
| 949 | 3tAsGFFs | unswitched memory B cell | CL:0000970 | None | unswitched memory B lymphocyte|unswitched memo... | An Unswitched Memory B Cell Is A Memory B Cell... | 32 | None | 2024-12-20 15:05:48.033132+00:00 | 1 |
| 950 | 5QR8GcfH | IgM memory B cell | CL:0000971 | None | memory IgM B cell|memory IgM B-lymphocyte|IgM ... | An Igm Memory B Cell Is An Unswitched Memory B... | 32 | None | 2024-12-20 15:05:48.033183+00:00 | 1 |
| 927 | vUMLrFZL | IgE memory B cell | CL:0000948 | None | IgE memory B lymphocyte|IgE memory B-cell|memo... | A Class Switched Memory B Cell That Expresses ... | 32 | None | 2024-12-20 15:05:48.032006+00:00 | 1 |
| 937 | 3YZGNlzS | T1 B cell | CL:0000958 | None | T1 B lymphocyte|T1 B-cell|T1 B-lymphocyte|tran... | A Transitional Stage B Cell That Migrates From... | 32 | None | 2024-12-20 15:05:48.032514+00:00 | 1 |
| 952 | 6T4HiL2K | IgA memory B cell | CL:0000973 | None | IgA memory B lymphocyte|IgA memory B-cell|memo... | A Class Switched Memory B Cell That Expresses ... | 32 | None | 2024-12-20 15:05:48.033285+00:00 | 1 |
| 943 | 5C2KpHBh | Bm2' B cell | CL:0000964 | None | Bm2' B lymphocyte|Bm2' B-cell|Bm2-prime B cell... | A Germinal Center B Cell That Founds A Germina... | 32 | None | 2024-12-20 15:05:48.032828+00:00 | 1 |
| 798 | 75GaqGOI | transitional stage B cell | CL:0000818 | None | transitional B cell|transitional stage B-cell|... | An Immature B Cell Of An Intermediate Stage Be... | 32 | None | 2024-12-20 15:05:48.025385+00:00 | 1 |
| 823 | 2EhFTUoZ | follicular B cell | CL:0000843 | None | follicular B lymphocyte|Fo B-cell|Fo B cell|fo... | A Resting Mature B Cell That Has The Phenotype... | 32 | None | 2024-12-20 15:05:48.026661+00:00 | 1 |
| 801 | 26E9jKKt | B-1b B cell | CL:0000821 | None | B1b B-lymphocyte|B-1b B-lymphocyte|B1b B cell|... | A B-1 B Cell That Has The Phenotype Cd5-Negati... | 32 | None | 2024-12-20 15:05:48.025537+00:00 | 1 |
| 825 | 2rco39P1 | marginal zone B cell of spleen | CL:0000845 | None | B cell of marginal zone of spleen|marginal zon... | A Mature B Cell That Is Located In The Margina... | 32 | None | 2024-12-20 15:05:48.026772+00:00 | 1 |
| 800 | 3fXg2Aru | B-1a B cell | CL:0000820 | None | B1a B lymphocyte|B-1a B-lymphocyte|B1a B-cell|... | A B-1 B Cell That Has The Phenotype Cd5-Positive. | 32 | None | 2024-12-20 15:05:48.025486+00:00 | 1 |
| 799 | 3VMOKHg2 | B-1 B cell | CL:0000819 | None | B1 B-cell|B-1 B-lymphocyte|B-1 B-cell|B1 cell|... | A B Cell Of Distinct Lineage And Surface Marke... | 32 | None | 2024-12-20 15:05:48.025436+00:00 | 1 |
| 958 | 74TtdefA | IgG memory B cell | CL:0000979 | None | IgG memory B-lymphocyte|memory IgG B-cell|memo... | An Igg Memory B Cell Is A Class Switched Memor... | 32 | None | 2024-12-20 15:05:48.033590+00:00 | 1 |
| 824 | 4IowPafD | germinal center B cell | CL:0000844 | None | GC B-lymphocyte|germinal center B-cell|GC B ce... | A Rapidly Cycling Mature B Cell That Has Disti... | 32 | None | 2024-12-20 15:05:48.026721+00:00 | 1 |
| 802 | 1jrUVVsT | B-2 B cell | CL:0000822 | None | B2 B lymphocyte|B-2 B-cell|B2 B-lymphocyte|B-2... | A Conventional B Cell Subject To Antigenic Sti... | 32 | None | 2024-12-20 15:05:48.025588+00:00 | 1 |
| 939 | 6wMDn1pw | T3 B cell | CL:0000960 | None | T3 B-lymphocyte|T3 B-cell|T3 B lymphocyte|An1 ... | A Transitional Stage B Cell That Expresses Sur... | 32 | None | 2024-12-20 15:05:48.032616+00:00 | 1 |
| 796 | 6VBn74jE | immature B cell | CL:0000816 | None | immature B lymphocyte|immature B-cell|immature... | An Immature B Cell Is A B Cell That Has The Ph... | 32 | None | 2024-12-20 15:05:48.025284+00:00 | 1 |
| 960 | 6gGCcUx5 | double negative memory B cell | CL:0000981 | None | dn memory B-lymphocyte|dn memory B cell|dn mem... | A Memory B Cell With The Phenotype Igd-Negativ... | 32 | None | 2024-12-20 15:05:48.033692+00:00 | 1 |
Query: regulatory B cell
| uid | name | ontology_id | abbr | synonyms | description | source_id | run_id | created_at | created_by_id | |
|---|---|---|---|---|---|---|---|---|---|---|
| id | ||||||||||
| 948 | 5b0DoJIx | regulatory B cell | CL:0000969 | None | B(reg)|regulatory B lymphocyte|B10 cell|regula... | A Mature B Cell That Has The Phenotype Cd1D-Po... | 32 | None | 2024-12-20 15:05:48.033081+00:00 | 1 |
Query: Be2 cell
| uid | name | ontology_id | abbr | synonyms | description | source_id | run_id | created_at | created_by_id | |
|---|---|---|---|---|---|---|---|---|---|---|
| id | ||||||||||
| 923 | 7Hxc3PWU | Be2 cell | CL:0000944 | None | B effector 2 cell | A Be Cell That Facilitates Development Of T-He... | 32 | None | 2024-12-20 15:05:48.031804+00:00 | 1 |
Query: adipocyte
| uid | name | ontology_id | abbr | synonyms | description | source_id | run_id | created_at | created_by_id | |
|---|---|---|---|---|---|---|---|---|---|---|
| id | ||||||||||
| 135 | wdLgwUXo | adipocyte | CL:0000136 | None | fat cell|adipose cell | A Fat-Storing Cell Found Mostly In The Abdomin... | 32 | None | 2024-12-20 15:05:47.991236+00:00 | 1 |
| 1672 | 5ikCt2mr | adipocyte of omentum tissue | CL:0002615 | None | omental fat cell|omental adipocyte | An Adipocyte That Is Part Of Omentum Tissue. | 32 | None | 2024-12-20 15:05:48.070391+00:00 | 1 |
| 1673 | 5IngQdBq | perirenal adipocyte | CL:0002616 | None | perirenal fat cell|perirenal adipocyte cell | An Adipocyte Of Perirenal Fat Tissue. | 32 | None | 2024-12-20 15:05:48.070442+00:00 | 1 |
| 1674 | 4ruvHG7A | adipocyte of breast | CL:0002617 | None | breast adipocyte|fat cell of breast | An Adipocyte That Is Part Of The Breast. | 32 | None | 2024-12-20 15:05:48.070493+00:00 | 1 |
| 2219 | 6GvX8eJQ | epicardial adipocyte | CL:1000309 | None | epicardial fat cell|adipocyte of epicardial fat | An Adipocyte That Is Part Of The Epicardial Fat. | 32 | None | 2024-12-20 15:05:48.099063+00:00 | 1 |
| 1046 | 3ccnEzNw | beige adipocyte | CL:0001070 | None | brite cell|beige/brite adipocyte|brite fat cel... | An Adipocyte That Is Beige In Color, Thermogen... | 32 | None | 2024-12-20 15:05:48.038125+00:00 | 1 |
| 2221 | 3zeirA0G | adipocyte of epicardial fat of left ventricle | CL:1000311 | None | epicardial fat cell of left ventricle|epicardi... | An Adipocyte That Is Part Of The Epicardial Fa... | 32 | None | 2024-12-20 15:05:48.099164+00:00 | 1 |
| 2220 | 5KdaaofT | adipocyte of epicardial fat of right ventricle | CL:1000310 | None | epicardial adipocyte of right ventricle|epicar... | An Adipocyte That Is Part Of The Epicardial Fa... | 32 | None | 2024-12-20 15:05:48.099113+00:00 | 1 |
| 1580 | 17EZdnrz | subcutaneous adipocyte | CL:0002521 | None | subcutaneous fat cell | An Adipocyte That Is Part Of Subcutaneous Adip... | 32 | None | 2024-12-20 15:05:48.065676+00:00 | 1 |
| 439 | 34sV4lgF | white adipocyte | CL:0000448 | None | white adipose cell | An Adipocyte With Light Coloration And Few Mit... | 32 | None | 2024-12-20 15:05:48.006746+00:00 | 1 |
| 1393 | 12Qj99kX | neural crest derived adipocyte | CL:0002333 | None | None | An Adipocyte Derived From A Neural Crest Cell. | 32 | None | 2024-12-20 15:05:48.055974+00:00 | 1 |
| 1395 | 8dEt6lpw | brown preadipocyte | CL:0002335 | None | None | A Preadipocyte That Is Capable Of Differentiat... | 32 | None | 2024-12-20 15:05:48.056077+00:00 | 1 |
| 2505 | 6bv1KRQr | obsolete breast adipocyte | CL:1001583 | None | None | Obsolete: Adipocytes Found In The Subcutaneous... | 32 | None | 2024-12-20 15:05:48.113772+00:00 | 1 |
| 440 | 1tWDTF2O | brown adipocyte | CL:0000449 | None | brown adipose cell|brown fat cell | A Cell From The Thermogenic Form Of Adipose Ti... | 32 | None | 2024-12-20 15:05:48.006796+00:00 | 1 |
| 1638 | 2ulPN3Ro | preadipocyte of the breast | CL:0002580 | None | None | A Preadipocyte That Is Part Of The Breast. | 32 | None | 2024-12-20 15:05:48.068646+00:00 | 1 |
| 1636 | 1f8VN83l | mesenteric preadipocyte | CL:0002578 | None | None | A Preadipocyte Found In Mesenteric Tissue. | 32 | None | 2024-12-20 15:05:48.068545+00:00 | 1 |
| 1637 | 4PFgXW99 | omentum preadipocyte | CL:0002579 | None | None | A Preadipocyte That Is Part Of An Omentum. | 32 | None | 2024-12-20 15:05:48.068596+00:00 | 1 |
| 1639 | 4jbSQ8Df | perirenal preadipocyte | CL:0002581 | None | None | A Preadipocyte That Is Part Of A Perirenal Fat... | 32 | None | 2024-12-20 15:05:48.068705+00:00 | 1 |
| 1640 | 3WK2FeBD | visceral preadipocyte | CL:0002582 | None | None | A Preadipocyte That Is Part Of Visceral Tissue. | 32 | None | 2024-12-20 15:05:48.068756+00:00 | 1 |
| 1641 | 2Bn2LN0B | subcutaneous preadipocyte | CL:0002583 | None | None | A Preadipocyte That Is Part Of Subcutaneous Ti... | 32 | None | 2024-12-20 15:05:48.068807+00:00 | 1 |
for query in SEARCH_QUERIES_CONTAINS:
print("Query:", query)
qs = bt.CellType.search(query)
display(qs.df())
top_record = qs[0]
query = query.lower()
assert query in top_record.name.lower() or query in top_record.synonyms.lower()
Show code cell output
Query: t cel
| uid | name | ontology_id | abbr | synonyms | description | source_id | run_id | created_at | created_by_id | |
|---|---|---|---|---|---|---|---|---|---|---|
| id | ||||||||||
| 83 | 22LvKd01 | T cell | CL:0000084 | None | T lymphocyte|T-lymphocyte|T-cell | A Type Of Lymphocyte Whose Defining Characteri... | 32 | None | 2024-12-20 15:05:47.988563+00:00 | 1 |
| 1479 | 2OTzqBTM | mature T cell | CL:0002419 | None | CD3e-positive T cell|mature T-cell | A T Cell That Expresses A T Cell Receptor Comp... | 32 | None | 2024-12-20 15:05:48.060502+00:00 | 1 |
| 908 | 2pwBnFT3 | CD4-negative, CD8-negative type I NK T cell se... | CL:0000929 | None | CD4-negative, CD8-negative type I NK T-cell se... | A Mature Nk T Cell That Secretes Interferon-Ga... | 32 | None | 2024-12-20 15:05:48.031030+00:00 | 1 |
| 900 | 5zF2I6dJ | type I NK T cell | CL:0000921 | None | type I NK T-lymphocyte|type I NKT cell|classic... | An Alpha-Beta T Cell Expressing Nk Cell Marker... | 32 | None | 2024-12-20 15:05:48.030614+00:00 | 1 |
| 906 | hjbsTsgP | CD4-positive type I NK T cell secreting interl... | CL:0000927 | None | CD4-positive type I NK T cell secreting IL-4|C... | A Mature Nk T Cell That Predominantly Secretes... | 32 | None | 2024-12-20 15:05:48.030928+00:00 | 1 |
| 1017 | 5yjQPSaM | CD8-positive, CXCR3-positive, alpha-beta regul... | CL:0001041 | None | CD8-positive, CXCR3-positive, Treg|CD8-positiv... | A Cd8-Positive Alpha-Beta-Positive T Cell With... | 32 | None | 2024-12-20 15:05:48.036632+00:00 | 1 |
| 909 | 5FzW4l9l | CD4-negative, CD8-negative type I NK T cell se... | CL:0000930 | None | CD4-negative, CD8-negative type I NKT cell sec... | A Mature Nk T Cell That Secretes Interleukin-4... | 32 | None | 2024-12-20 15:05:48.031081+00:00 | 1 |
| 892 | 1zkEPMSu | effector memory CD8-positive, alpha-beta T cell | CL:0000913 | None | effector CD8-positive, alpha-beta memory T-lym... | Cd8-Positive, Alpha-Beta Memory T Cell With Th... | 32 | None | 2024-12-20 15:05:48.030206+00:00 | 1 |
| 899 | ut1VvtNT | CD8-positive, CD28-negative, alpha-beta regula... | CL:0000920 | None | CD8-positive, CD28-negative Treg|CD8+CD28- T c... | Cd8-Positive, Alpha-Beta Positive Regulatory T... | 32 | None | 2024-12-20 15:05:48.030562+00:00 | 1 |
| 777 | 1xUOm7V2 | CD8-positive, alpha-beta regulatory T cell | CL:0000795 | None | CD8-positive Treg|CD8-positive, alpha-beta Tre... | A Cd8-Positive, Alpha-Beta T Cell That Regulat... | 32 | None | 2024-12-20 15:05:48.024310+00:00 | 1 |
| 911 | rdl67uwf | type II NK T cell secreting interferon-gamma | CL:0000932 | None | type II NK T-lymphocyte secreting interferon-g... | A Type Ii Nk T Cell That Has Been Recently Act... | 32 | None | 2024-12-20 15:05:48.031183+00:00 | 1 |
| 780 | 1HuNn2EP | gamma-delta T cell | CL:0000798 | None | gammadelta T cell|gamma-delta T-cell|gamma-del... | A T Cell That Expresses A Gamma-Delta T Cell R... | 32 | None | 2024-12-20 15:05:48.024463+00:00 | 1 |
| 905 | 3oNvdpFX | CD4-positive type I NK T cell secreting interf... | CL:0000926 | None | CD4-positive type I NK T lymphocyte secreting ... | A Mature Nk T Cell That Secretes Interferon-Ga... | 32 | None | 2024-12-20 15:05:48.030877+00:00 | 1 |
| 912 | 7UFMOmjH | type II NK T cell secreting interleukin-4 | CL:0000933 | None | type II NKT cell secreting interleukin-4|type ... | A Type Ii Nk T Cell That Has Been Recently Act... | 32 | None | 2024-12-20 15:05:48.031234+00:00 | 1 |
| 794 | 3muVF5Bn | mature NK T cell | CL:0000814 | None | mature NK T lymphocyte|mature NK T-lymphocyte|... | A Mature Alpha-Beta T Cell Of A Distinct Linea... | 32 | None | 2024-12-20 15:05:48.025182+00:00 | 1 |
| 883 | 3jz6b7gZ | central memory CD4-positive, alpha-beta T cell | CL:0000904 | None | central CD4-positive, alpha-beta memory T-lymp... | Cd4-Positive, Alpha-Beta Memory T Cell With Th... | 32 | None | 2024-12-20 15:05:48.029748+00:00 | 1 |
| 884 | 4ZpcwVPJ | effector memory CD4-positive, alpha-beta T cell | CL:0000905 | None | effector memory CD4-positive, alpha-beta T lym... | Cd4-Positive, Alpha-Beta Memory T Cell With Th... | 32 | None | 2024-12-20 15:05:48.029799+00:00 | 1 |
| 886 | 7SLcmrYh | central memory CD8-positive, alpha-beta T cell | CL:0000907 | None | central CD8-positive, alpha-beta memory T-lymp... | Cd8-Positive, Alpha-Beta Memory T Cell With Th... | 32 | None | 2024-12-20 15:05:48.029900+00:00 | 1 |
| 898 | 2qIhoZK4 | CD8-positive, CD25-positive, alpha-beta regula... | CL:0000919 | None | CD8-positive, CD25-positive, alpha-beta regula... | A Cd8-Positive Alpha Beta-Positive T Cell With... | 32 | None | 2024-12-20 15:05:48.030511+00:00 | 1 |
| 1962 | 78mumrXE | small intestine Peyer's patch T cell | CL:0009023 | None | T cell of Peyer's patch of small intestine|T c... | A T Cell Which Resides In The Peyer'S Patch Of... | 32 | None | 2024-12-20 15:05:48.085385+00:00 | 1 |
Query: t-cel
| uid | name | ontology_id | abbr | synonyms | description | source_id | run_id | created_at | created_by_id | |
|---|---|---|---|---|---|---|---|---|---|---|
| id | ||||||||||
| 83 | 22LvKd01 | T cell | CL:0000084 | None | T lymphocyte|T-lymphocyte|T-cell | A Type Of Lymphocyte Whose Defining Characteri... | 32 | None | 2024-12-20 15:05:47.988563+00:00 | 1 |
| 893 | 7CdLN14l | immature NK T cell | CL:0000914 | None | immature NK T-lymphocyte|immature NK T lymphoc... | An Immature Alpha-Beta T-Cell That Express Egr... | 32 | None | 2024-12-20 15:05:48.030257+00:00 | 1 |
| 472 | 53tIhlSK | mucosal type mast cell | CL:0000485 | None | MCT|T mast cells|MC(T) | Mast Cell Subtype That Contains Only The Serin... | 32 | None | 2024-12-20 15:05:48.008426+00:00 | 1 |
| 532 | 5ytbq1dA | T-helper 1 cell | CL:0000545 | None | Th1 T lymphocyte|Th1 T cell|Th1 T-cell|T(H)-1 ... | A Cd4-Positive, Alpha-Beta T Cell That Has The... | 32 | None | 2024-12-20 15:05:48.011501+00:00 | 1 |
| 533 | 2UjVV0Nv | T-helper 2 cell | CL:0000546 | None | T helper cells type 2|Th2 T lymphocyte|T(H)-2 ... | A Cd4-Positive, Alpha-Beta T Cell That Has The... | 32 | None | 2024-12-20 15:05:48.011552+00:00 | 1 |
| 597 | 15VPL6kO | eosinophil progenitor cell | CL:0000611 | None | None | Any Granulocytopoietic Cell That Has Part Some... | 32 | None | 2024-12-20 15:05:48.014835+00:00 | 1 |
| 611 | 6IC9NGJE | CD8-positive, alpha-beta T cell | CL:0000625 | None | CD8-positive, alpha-beta T lymphocyte|CD8-posi... | A T Cell Expressing An Alpha-Beta T Cell Recep... | 32 | None | 2024-12-20 15:05:48.015544+00:00 | 1 |
| 778 | aRVHACby | CD8-alpha-beta-positive, alpha-beta intraepith... | CL:0000796 | None | CD8-positive, alpha-beta intraepithelial T lym... | A Alpha-Beta Intraepithelial T Cell Found In T... | 32 | None | 2024-12-20 15:05:48.024361+00:00 | 1 |
| 771 | 6By01L04 | alpha-beta T cell | CL:0000789 | None | alpha-beta T lymphocyte|alpha-beta T-cell|alph... | A T Cell That Expresses An Alpha-Beta T Cell R... | 32 | None | 2024-12-20 15:05:48.024007+00:00 | 1 |
| 772 | 5lSF7sli | immature alpha-beta T cell | CL:0000790 | None | immature alpha-beta T-cell|immature alpha-beta... | An Alpha-Beta T Cell That Has An Immature Phen... | 32 | None | 2024-12-20 15:05:48.024058+00:00 | 1 |
| 773 | 4BEwsp1Q | mature alpha-beta T cell | CL:0000791 | None | mature alpha-beta T-cell|mature alpha-beta T-l... | A Alpha-Beta T Cell That Has A Mature Phenotype. | 32 | None | 2024-12-20 15:05:48.024108+00:00 | 1 |
| 774 | 6gNM3N49 | CD4-positive, CD25-positive, alpha-beta regula... | CL:0000792 | None | CD4-positive, CD25-positive, alpha-beta regula... | A Cd4-Positive, Cd25-Positive, Alpha-Beta T Ce... | 32 | None | 2024-12-20 15:05:48.024159+00:00 | 1 |
| 775 | wHU3gybJ | CD4-positive, alpha-beta intraepithelial T cell | CL:0000793 | None | CD4-positive, alpha-beta intraepithelial T-cel... | A Cd4-Positive, Alpha-Beta T Cell That Is Foun... | 32 | None | 2024-12-20 15:05:48.024209+00:00 | 1 |
| 776 | Mv6woHvO | CD8-positive, alpha-beta cytotoxic T cell | CL:0000794 | None | CD8-positive, alpha-beta cytotoxic T lymphocyt... | A Cd8-Positive, Alpha-Beta T Cell That Is Capa... | 32 | None | 2024-12-20 15:05:48.024260+00:00 | 1 |
| 777 | 1xUOm7V2 | CD8-positive, alpha-beta regulatory T cell | CL:0000795 | None | CD8-positive Treg|CD8-positive, alpha-beta Tre... | A Cd8-Positive, Alpha-Beta T Cell That Regulat... | 32 | None | 2024-12-20 15:05:48.024310+00:00 | 1 |
| 610 | 4PSMdO3I | CD4-positive, alpha-beta T cell | CL:0000624 | None | CD4-positive, alpha-beta T lymphocyte|CD4-posi... | A Mature Alpha-Beta T Cell That Expresses An A... | 32 | None | 2024-12-20 15:05:48.015494+00:00 | 1 |
| 779 | 5CyKE0bS | alpha-beta intraepithelial T cell | CL:0000797 | None | alpha-beta intraepithelial T-cell|alpha-beta i... | A Mature Alpha-Beta T Cell Of The Columnar Epi... | 32 | None | 2024-12-20 15:05:48.024412+00:00 | 1 |
| 780 | 1HuNn2EP | gamma-delta T cell | CL:0000798 | None | gammadelta T cell|gamma-delta T-cell|gamma-del... | A T Cell That Expresses A Gamma-Delta T Cell R... | 32 | None | 2024-12-20 15:05:48.024463+00:00 | 1 |
| 781 | 70lHcCNw | immature gamma-delta T cell | CL:0000799 | None | immature gamma-delta T lymphocyte|immature gam... | A Gamma-Delta T Cell That Has An Immature Phen... | 32 | None | 2024-12-20 15:05:48.024514+00:00 | 1 |
| 479 | 531hEapj | CD4-positive helper T cell | CL:0000492 | None | CD4-positive helper T-lymphocyte|CD4-positive ... | A Cd4-Positive, Alpha-Beta T Cell That Coopera... | 32 | None | 2024-12-20 15:05:48.008790+00:00 | 1 |
Query: neural
| uid | name | ontology_id | abbr | synonyms | description | source_id | run_id | created_at | created_by_id | |
|---|---|---|---|---|---|---|---|---|---|---|
| id | ||||||||||
| 6 | 2ANSKgCO | neural crest derived fibroblast | CL:0000005 | None | fibroblast neural crest derived | Any Fibroblast That Is Derived From The Neural... | 32 | None | 2024-12-20 15:05:47.984609+00:00 | 1 |
| 2601 | 6GETDXmI | migratory cardiac neural crest cell | CL:2000073 | None | cardiac neural crest cell | Any Migratory Neural Crest Cell That Is Part O... | 32 | None | 2024-12-20 15:05:48.118706+00:00 | 1 |
| 30 | 2K4t7Szl | neural crest derived neuron | CL:0000029 | None | neuron neural crest derived | Any Neuron That Develops From Some Migratory N... | 32 | None | 2024-12-20 15:05:47.985860+00:00 | 1 |
| 12 | 3YAM45TD | migratory trunk neural crest cell | CL:0000011 | None | None | Cell That Is Part Of The Migratory Trunk Neura... | 32 | None | 2024-12-20 15:05:47.984935+00:00 | 1 |
| 9 | uzxSEqax | migratory cranial neural crest cell | CL:0000008 | None | None | Cell That Is Part Of The Migratory Cranial Neu... | 32 | None | 2024-12-20 15:05:47.984781+00:00 | 1 |
| 28 | 3iHAmhkV | smooth muscle cell neural crest derived | CL:0000027 | None | None | A Smooth Muscle Cell Derived From The Neural C... | 32 | None | 2024-12-20 15:05:47.985758+00:00 | 1 |
| 2097 | 6whcJUgV | neural progenitor cell | CL:0011020 | None | None | An Undifferentiated Cell That Originates From ... | 32 | None | 2024-12-20 15:05:48.092329+00:00 | 1 |
| 1875 | vcVrFvwF | premigratory neural crest cell | CL:0007004 | None | None | Cell That Is Part Of The Neural Crest Region O... | 32 | None | 2024-12-20 15:05:48.080921+00:00 | 1 |
| 2094 | 2osXrTI3 | vagal neural crest cell | CL:0011017 | None | None | Cell That Is Part Of The Vagal Neural Crest Po... | 32 | None | 2024-12-20 15:05:48.092175+00:00 | 1 |
| 327 | 17PFT8np | migratory neural crest cell | CL:0000333 | None | None | A Cell Derived From The Specialized Ectoderm F... | 32 | None | 2024-12-20 15:05:48.001033+00:00 | 1 |
| 1393 | 12Qj99kX | neural crest derived adipocyte | CL:0002333 | None | None | An Adipocyte Derived From A Neural Crest Cell. | 32 | None | 2024-12-20 15:05:48.055974+00:00 | 1 |
| 1664 | 2Cgzp1mO | migratory enteric neural crest cell | CL:0002607 | None | None | A Neural Crest Cell That Gives Rise To Cells O... | 32 | None | 2024-12-20 15:05:48.069983+00:00 | 1 |
| 47 | 1Fbr1GYr | neural stem cell | CL:0000047 | None | neuronal stem cell|NSC | An Undifferentiated Neural Cell That Originate... | 32 | None | 2024-12-20 15:05:47.986729+00:00 | 1 |
| 1733 | 2700Dq8O | neural crest derived neuroblast | CL:0002676 | None | None | A Neuroblast Derived From A Neural Crest Cell. | 32 | None | 2024-12-20 15:05:48.073595+00:00 | 1 |
| 2089 | 1g7Tg3bV | neural crest cell | CL:0011012 | None | None | A Cell Of The Neural Crest. Neural Crest Cells... | 32 | None | 2024-12-20 15:05:48.091920+00:00 | 1 |
| 422 | 53iZrx0n | iridophore | CL:0000431 | None | None | A Pigment Cell Derived From The Neural Crest. ... | 32 | None | 2024-12-20 15:05:48.005879+00:00 | 1 |
| 421 | 2sWB95jz | xanthophore cell | CL:0000430 | None | None | A Pigment Cell Derived From The Neural Crest. ... | 32 | None | 2024-12-20 15:05:48.005828+00:00 | 1 |
| 332 | iHIaVIeB | glioblast (sensu Vertebrata) | CL:0000339 | None | spongioblast | An Early Neural Cell Developing From The Early... | 32 | None | 2024-12-20 15:05:48.001286+00:00 | 1 |
| 331 | 1MiaIeuD | neuroblast (sensu Nematoda and Protostomia) | CL:0000338 | None | None | A Neural Precursor Of The Central Nervous System. | 32 | None | 2024-12-20 15:05:48.001235+00:00 | 1 |
| 528 | 5a15kv4E | melanoblast | CL:0000541 | None | None | A Cell That Originates From The Neural Crest A... | 32 | None | 2024-12-20 15:05:48.011299+00:00 | 1 |
Query: kidney
| uid | name | ontology_id | abbr | synonyms | description | source_id | run_id | created_at | created_by_id | |
|---|---|---|---|---|---|---|---|---|---|---|
| id | ||||||||||
| 2384 | 6L22Q8yk | kidney cortex tubule cell | CL:1000615 | None | None | Any Kidney Tubule Cell That Is Part Of Some Re... | 32 | None | 2024-12-20 15:05:48.107542+00:00 | 1 |
| 2397 | 6d672m5q | kidney resident dendritic cell | CL:1000699 | None | None | A Resident-Dendritic Cell That Is Part Of A Ki... | 32 | None | 2024-12-20 15:05:48.108213+00:00 | 1 |
| 2368 | 4xMzxsTK | kidney interstitial cell | CL:1000500 | None | None | A Cell That Is Part Of Kidney Interstitium. | 32 | None | 2024-12-20 15:05:48.106726+00:00 | 1 |
| 2382 | 40ZjMXYx | kidney nerve cell | CL:1000606 | None | None | Any Neuron That Has Its Soma Located In Some K... | 32 | None | 2024-12-20 15:05:48.107440+00:00 | 1 |
| 2385 | 5pWp8yD8 | kidney outer medulla cell | CL:1000616 | None | None | Any Kidney Medulla Cell That Is Part Of Some O... | 32 | None | 2024-12-20 15:05:48.107593+00:00 | 1 |
| 2396 | 3GTV51hu | kidney resident macrophage | CL:1000698 | None | None | A Tissue-Resident Macrophage That Is Part Of S... | 32 | None | 2024-12-20 15:05:48.108162+00:00 | 1 |
| 637 | 6Jre47Wq | podocyte | CL:0000653 | None | glomerular podocyte|renal podocyte|glomerular ... | A Specialized Kidney Epithelial Cell, Containe... | 32 | None | 2024-12-20 15:05:48.016877+00:00 | 1 |
| 2367 | 6uz6J9Iu | kidney cell | CL:1000497 | None | None | A Cell That Is Part Of A Kidney. | 32 | None | 2024-12-20 15:05:48.106667+00:00 | 1 |
| 2372 | aCd99zbB | kidney glomerular epithelial cell | CL:1000510 | None | None | Any Kidney Epithelial Cell That Is Part Of Som... | 32 | None | 2024-12-20 15:05:48.106929+00:00 | 1 |
| 2377 | 49gyr9eq | kidney papillary duct principal epithelial cell | CL:1000550 | None | None | Any Kidney Cell That Is Part Of Some Papillary... | 32 | None | 2024-12-20 15:05:48.107183+00:00 | 1 |
| 1577 | 33oeJRC2 | kidney epithelial cell | CL:0002518 | None | None | An Epithelial Cell Of The Kidney. | 32 | None | 2024-12-20 15:05:48.065523+00:00 | 1 |
| 634 | 2NbSmHfh | mesangial cell | CL:0000650 | None | kidney mesangial cell | A Cell Type That Encapsulates The Capillaries ... | 32 | None | 2024-12-20 15:05:48.016724+00:00 | 1 |
| 2386 | 29Q26GZo | kidney inner medulla cell | CL:1000617 | None | None | Any Kidney Medulla Cell That Is Part Of Some I... | 32 | None | 2024-12-20 15:05:48.107644+00:00 | 1 |
| 2391 | 6WI9ajDn | kidney interstitial fibroblast | CL:1000692 | None | None | A Fibroblast That Is Part Of An Interstitial C... | 32 | None | 2024-12-20 15:05:48.107907+00:00 | 1 |
| 1738 | 47edWu9P | kidney cortical cell | CL:0002681 | None | None | A Cell That Is Part Of A Cortex Of Kidney. | 32 | None | 2024-12-20 15:05:48.073860+00:00 | 1 |
| 1366 | 35I44SqG | epithelial cell of distal tubule | CL:0002305 | None | kidney distal tubule epithelial cell | An Epithelial Cell Of The Distal Convoluted Tu... | 32 | None | 2024-12-20 15:05:48.054586+00:00 | 1 |
| 1367 | dKh1IfTu | epithelial cell of proximal tubule | CL:0002306 | None | kidney proximal tubule epithelial cell | An Epithelial Cell Of The Proximal Tubule Of T... | 32 | None | 2024-12-20 15:05:48.054637+00:00 | 1 |
| 2165 | 5oNUNCyF | obsolete kidney collecting duct beta-intercala... | CL:0700009 | None | B-IC|kidney collecting duct intercalated cell ... | Obsolete. A Renal Beta-Intercalated Cell That ... | 32 | None | 2024-12-20 15:05:48.096289+00:00 | 1 |
| 632 | 10kkFFar | kidney granular cell | CL:0000648 | None | JG cell|renin secreting cell | A Smooth Muscle Cell That Synthesizes, Stores,... | 32 | None | 2024-12-20 15:05:48.016614+00:00 | 1 |
| 2398 | 5z2I0IY0 | kidney pelvis smooth muscle cell | CL:1000702 | None | None | Any Smooth Muscle Cell That Is Part Of Some Ki... | 32 | None | 2024-12-20 15:05:48.108264+00:00 | 1 |
Query: kidne
| uid | name | ontology_id | abbr | synonyms | description | source_id | run_id | created_at | created_by_id | |
|---|---|---|---|---|---|---|---|---|---|---|
| id | ||||||||||
| 2384 | 6L22Q8yk | kidney cortex tubule cell | CL:1000615 | None | None | Any Kidney Tubule Cell That Is Part Of Some Re... | 32 | None | 2024-12-20 15:05:48.107542+00:00 | 1 |
| 2397 | 6d672m5q | kidney resident dendritic cell | CL:1000699 | None | None | A Resident-Dendritic Cell That Is Part Of A Ki... | 32 | None | 2024-12-20 15:05:48.108213+00:00 | 1 |
| 2368 | 4xMzxsTK | kidney interstitial cell | CL:1000500 | None | None | A Cell That Is Part Of Kidney Interstitium. | 32 | None | 2024-12-20 15:05:48.106726+00:00 | 1 |
| 2382 | 40ZjMXYx | kidney nerve cell | CL:1000606 | None | None | Any Neuron That Has Its Soma Located In Some K... | 32 | None | 2024-12-20 15:05:48.107440+00:00 | 1 |
| 2385 | 5pWp8yD8 | kidney outer medulla cell | CL:1000616 | None | None | Any Kidney Medulla Cell That Is Part Of Some O... | 32 | None | 2024-12-20 15:05:48.107593+00:00 | 1 |
| 2396 | 3GTV51hu | kidney resident macrophage | CL:1000698 | None | None | A Tissue-Resident Macrophage That Is Part Of S... | 32 | None | 2024-12-20 15:05:48.108162+00:00 | 1 |
| 637 | 6Jre47Wq | podocyte | CL:0000653 | None | glomerular podocyte|renal podocyte|glomerular ... | A Specialized Kidney Epithelial Cell, Containe... | 32 | None | 2024-12-20 15:05:48.016877+00:00 | 1 |
| 2367 | 6uz6J9Iu | kidney cell | CL:1000497 | None | None | A Cell That Is Part Of A Kidney. | 32 | None | 2024-12-20 15:05:48.106667+00:00 | 1 |
| 2372 | aCd99zbB | kidney glomerular epithelial cell | CL:1000510 | None | None | Any Kidney Epithelial Cell That Is Part Of Som... | 32 | None | 2024-12-20 15:05:48.106929+00:00 | 1 |
| 2377 | 49gyr9eq | kidney papillary duct principal epithelial cell | CL:1000550 | None | None | Any Kidney Cell That Is Part Of Some Papillary... | 32 | None | 2024-12-20 15:05:48.107183+00:00 | 1 |
| 1577 | 33oeJRC2 | kidney epithelial cell | CL:0002518 | None | None | An Epithelial Cell Of The Kidney. | 32 | None | 2024-12-20 15:05:48.065523+00:00 | 1 |
| 634 | 2NbSmHfh | mesangial cell | CL:0000650 | None | kidney mesangial cell | A Cell Type That Encapsulates The Capillaries ... | 32 | None | 2024-12-20 15:05:48.016724+00:00 | 1 |
| 2386 | 29Q26GZo | kidney inner medulla cell | CL:1000617 | None | None | Any Kidney Medulla Cell That Is Part Of Some I... | 32 | None | 2024-12-20 15:05:48.107644+00:00 | 1 |
| 2391 | 6WI9ajDn | kidney interstitial fibroblast | CL:1000692 | None | None | A Fibroblast That Is Part Of An Interstitial C... | 32 | None | 2024-12-20 15:05:48.107907+00:00 | 1 |
| 1738 | 47edWu9P | kidney cortical cell | CL:0002681 | None | None | A Cell That Is Part Of A Cortex Of Kidney. | 32 | None | 2024-12-20 15:05:48.073860+00:00 | 1 |
| 1366 | 35I44SqG | epithelial cell of distal tubule | CL:0002305 | None | kidney distal tubule epithelial cell | An Epithelial Cell Of The Distal Convoluted Tu... | 32 | None | 2024-12-20 15:05:48.054586+00:00 | 1 |
| 1367 | dKh1IfTu | epithelial cell of proximal tubule | CL:0002306 | None | kidney proximal tubule epithelial cell | An Epithelial Cell Of The Proximal Tubule Of T... | 32 | None | 2024-12-20 15:05:48.054637+00:00 | 1 |
| 2165 | 5oNUNCyF | obsolete kidney collecting duct beta-intercala... | CL:0700009 | None | B-IC|kidney collecting duct intercalated cell ... | Obsolete. A Renal Beta-Intercalated Cell That ... | 32 | None | 2024-12-20 15:05:48.096289+00:00 | 1 |
| 632 | 10kkFFar | kidney granular cell | CL:0000648 | None | JG cell|renin secreting cell | A Smooth Muscle Cell That Synthesizes, Stores,... | 32 | None | 2024-12-20 15:05:48.016614+00:00 | 1 |
| 2398 | 5z2I0IY0 | kidney pelvis smooth muscle cell | CL:1000702 | None | None | Any Smooth Muscle Cell That Is Part Of Some Ki... | 32 | None | 2024-12-20 15:05:48.108264+00:00 | 1 |
Check escaping of special characters.
assert len(ln.ULabel.search("cat[")) == 1
assert len(ln.ULabel.search("*_*")) == 1
Search the public ontology¶
ct_public = bt.CellType.public()
df = ct_public.search("b cell", limit=20)
assert df.iloc[0]["name"] == "B cell"
df
Show code cell output
| name | definition | synonyms | parents | |
|---|---|---|---|---|
| ontology_id | ||||
| CL:0000236 | B cell | A Lymphocyte Of B Lineage That Is Capable Of B... | B lymphocyte|B-cell|B-lymphocyte | [CL:0000945] |
| CL:0000822 | B-2 B cell | A Conventional B Cell Subject To Antigenic Sti... | B2 B lymphocyte|B-2 B-cell|B2 B-lymphocyte|B-2... | [CL:0000785] |
| CL:0000843 | follicular B cell | A Resting Mature B Cell That Has The Phenotype... | follicular B lymphocyte|Fo B-cell|Fo B cell|fo... | [CL:0000822] |
| CL:0000844 | germinal center B cell | A Rapidly Cycling Mature B Cell That Has Disti... | GC B-lymphocyte|germinal center B-cell|GC B ce... | [CL:0000785] |
| CL:0000816 | immature B cell | An Immature B Cell Is A B Cell That Has The Ph... | immature B lymphocyte|immature B-cell|immature... | [CL:0001201] |
| CL:0000845 | marginal zone B cell of spleen | A Mature B Cell That Is Located In The Margina... | B cell of marginal zone of spleen|marginal zon... | [CL:2000074, CL:0000785] |
| CL:0000819 | B-1 B cell | A B Cell Of Distinct Lineage And Surface Marke... | B1 B-cell|B-1 B-lymphocyte|B-1 B-cell|B1 cell|... | [CL:0000785] |
| CL:0000820 | B-1a B cell | A B-1 B Cell That Has The Phenotype Cd5-Positive. | B1a B lymphocyte|B-1a B-lymphocyte|B1a B-cell|... | [CL:0000819] |
| CL:0000821 | B-1b B cell | A B-1 B Cell That Has The Phenotype Cd5-Negati... | B1b B-lymphocyte|B-1b B-lymphocyte|B1b B cell|... | [CL:0000819] |
| CL:0000818 | transitional stage B cell | An Immature B Cell Of An Intermediate Stage Be... | transitional B cell|transitional stage B-cell|... | [CL:0001201] |
| CL:0000958 | T1 B cell | A Transitional Stage B Cell That Migrates From... | T1 B lymphocyte|T1 B-cell|T1 B-lymphocyte|tran... | [CL:0000818] |
| CL:0000959 | T2 B cell | A Transitional Stage B Cell That Has The Pheno... | T2 B lymphocyte|T2 B-cell|transitional stage 2... | [CL:0000818] |
| CL:0000960 | T3 B cell | A Transitional Stage B Cell That Expresses Sur... | T3 B-lymphocyte|T3 B-cell|T3 B lymphocyte|An1 ... | [CL:0000818] |
| CL:0000948 | IgE memory B cell | A Class Switched Memory B Cell That Expresses ... | IgE memory B lymphocyte|IgE memory B-cell|memo... | [CL:0000972] |
| CL:0000971 | IgM memory B cell | An Igm Memory B Cell Is An Unswitched Memory B... | memory IgM B cell|memory IgM B-lymphocyte|IgM ... | [CL:0001053] |
| CL:0000970 | unswitched memory B cell | An Unswitched Memory B Cell Is A Memory B Cell... | unswitched memory B lymphocyte|unswitched memo... | [CL:0000787] |
| CL:0000979 | IgG memory B cell | An Igg Memory B Cell Is A Class Switched Memor... | IgG memory B-lymphocyte|memory IgG B-cell|memo... | [CL:0000972] |
| CL:0000964 | Bm2' B cell | A Germinal Center B Cell That Founds A Germina... | Bm2' B lymphocyte|Bm2' B-cell|Bm2-prime B cell... | [CL:0000844] |
| CL:0001053 | IgD-negative memory B cell | A Memory B Cell That Lacks Expression Of Surfa... | IgD- memory B cell | [CL:0000787] |
| CL:0000981 | double negative memory B cell | A Memory B Cell With The Phenotype Igd-Negativ... | dn memory B-lymphocyte|dn memory B cell|dn mem... | [CL:0001053] |
Show code cell content
!docker stop pgtest && docker rm pgtest
!lamin delete --force benchmark_search
pgtest
pgtest
! delete() does not yet affect your Postgres database at postgresql://postgres:[email protected]:5432/pgtest
• deleting instance testuser1/benchmark_search