CellType statistics

We want to learn how many cell types get added/removed between releases and what happens to deprecated terms.

import bionty_base as bt

✅ wrote new records from public sources.yaml to /home/zeth/.lamin/bionty/versions/sources_local.yaml!

if you see this message repeatedly, run: import bionty_base; bionty_base.reset_sources()

bt.display_available_sources().loc["CellType"]

	source	organism	version	url	md5	source_name	source_website
entity
CellType	cl	all	2024-02-13	http://purl.obolibrary.org/obo/cl/releases/202...		Cell Ontology	https://obophenotype.github.io/cell-ontology
CellType	cl	all	2023-08-24	http://purl.obolibrary.org/obo/cl/releases/202...	46e7dd89421f1255cf0191eca1548f73	Cell Ontology	https://obophenotype.github.io/cell-ontology
CellType	cl	all	2023-04-20	http://purl.obolibrary.org/obo/cl/releases/202...	58cdc1545f0d35e6fce76a65331b00fb	Cell Ontology	https://obophenotype.github.io/cell-ontology
CellType	cl	all	2023-02-15	http://purl.obolibrary.org/obo/cl/releases/202...	9331a6a029cb1863bd0584ab41508df7	Cell Ontology	https://obophenotype.github.io/cell-ontology
CellType	cl	all	2022-08-16	http://purl.obolibrary.org/obo/cl/releases/202...	d0655766574e63f3fe5ed56d3c030880	Cell Ontology	https://obophenotype.github.io/cell-ontology

ct_2023_04_20 = bt.CellType(version="2023-04-20")

ct_2023_08_24 = bt.CellType(version="2023-08-24")

ct_2024_02_13 = bt.CellType(version="2024-02-13")

len(set(ct_2023_08_24.df().index.values) - set(ct_2023_04_20.df().index.values))

32

len(set(ct_2024_02_13.df().index.values) - set(ct_2023_08_24.df().index.values))

24

ct_2023_04_20.df().loc["CL:0000073"]

name           barrier epithelial cell
definition                        None
synonyms                          None
parents       [CL:0000066, CL:0002371]
Name: CL:0000073, dtype: object

ct_2024_02_13.df().loc["CL:0000073"]

name          obsolete barrier epithelial cell
definition                                None
synonyms                                  None
parents                                    NaN
Name: CL:0000073, dtype: object