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v1.2.0 - Data update (#40)
* Data update: adding CDK15 and updating HUNK * Update CHANGELOG * Updating version * Updating kinome information file * Updating README * Updating scored phosphoproteome * updating test files
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‎CHANGELOG.md

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# Changelog
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## Unreleased
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## [1.2.0] - 2025-04-15
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Added
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- Matrices (serine/threonine): CDK15
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Changed
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- Matrices (serine/threonine): HUNK
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- Replaced certain kinase "protein" names with more familiar and recognizable names for researchers:
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- p90RSK → RSK1
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- p70S6K1 → S6K1
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- p70S6K2 → S6K2
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- PRKD1 → PKD1
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- PRKD2 → PKD2
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- PRKD3 → PKD3
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- CRIK → CITRON
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- MEKK6 → ASK2
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- p90RSK → RSK1
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- p70S6K1 → S6K1
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- p70S6K2 → S6K2
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- PRKD1 → PKD1
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- PRKD2 → PKD2
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- PRKD3 → PKD3
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- CRIK → CITRON
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- MEKK6 → ASK2
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- MAP3K15 → ASK3
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- Upgraded dependencies
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## [1.1.1] - 2025-03-16
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- The Kinase Library Legacy version used in [Johnson et al. (2023)](https://doi.org/10.1038/s41586-022-05575-3) and [Yaron-Barir et al. (2024)](https://doi.org/10.1038/s41586-024-07407-y)
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- The Kinase Library Legacy version used in [Johnson et al. (2023)](https://doi.org/10.1038/s41586-022-05575-3) and [Yaron-Barir et al. (2024)](https://doi.org/10.1038/s41586-024-07407-y)

‎README.md

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<div>
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| Release | Date | New | Updated | Removed | Total Ser/Thr | Total Tyrosine | Total Non-Canonicals (Tyrosine) | Notes |
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| Release | Date | New | Updated | Removed | Total Ser/Thr | Total Tyrosine | Total Non-Canonicals (Tyrosine) | Notes |
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|:-------:|:----:|:---:|:-------:|:-------:|:-------------:|:--------------:|:-------------------------------:|:-----:|
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| **v1.2.0** | Apr 15, 2025 | CDK15 | HUNK | _None_ | 311 | 78 | 15 | |
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| **v1.1.0** | Feb 2, 2025 | CDKL2 | CK1D, GRK7, SRPK2 | _None_ | 310 | 78 | 15 | Fixed processing error for PDHK1 and PDHK4 |
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| **v1.0.0** | Dec 5, 2024 | ALK1, ALK7, TSSK3, TSSK4, ULK3, WNK2 | CAMKK2, CDK3, CDK5, CDK13, CHAK1, CLK3, GRK1, GRK4, GRK5, ICK, IKKA, LATS1, MEKK6, MLK3, MNK2, MST1, NIM1, PASK, PBK, PKN3, SKMLCK, SMG1, VRK2, WNK3 | _None_ | 309 | 78 | 15 | |
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| **v0.1.0** | Oct 30, 2024 | _None_ | _None_ | _None_ | 303 | 78 | 15 | Legacy version - data as described in papers |
@@ -65,5 +66,4 @@ Please cite the following papers when using this package:
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## License
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This package is distributed under the Creative Commons License. See `LICENSE` for more information.
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This package is distributed under the Creative Commons License. See `LICENSE` for more information.

‎src/kinase_library/__init__.py

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#%%
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__version__ = "1.1.1"
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__version__ = "1.2.0"
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#%% Loading scored phosphoproteome one time per session
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‎src/kinase_library/databases/kinase_data/kinome_information.tsv

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CDK12 CDK12 CDK12 ser_thr STK CMGC Q9NYV4 CDK12_HUMAN 4CXA ser_thr FALSE CDK12
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CDK13 CDK13 CDK13 ser_thr STK CMGC Q14004 CDK13_HUMAN 5EFQ ser_thr FALSE CDK13
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CDK14 CDK14 CDK14 ser_thr STK CMGC O94921 CDK14_HUMAN nan ser_thr FALSE CDK14
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CDK15 CDK15 CDK15 ser_thr STK CMGC Q96Q40 CDK15_HUMAN nan ser_thr FALSE CDK15
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CDK16 CDK16 CDK16 ser_thr STK CMGC Q00536 CDK16_HUMAN 3MTL ser_thr FALSE CDK16
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CDK17 CDK17 CDK17 ser_thr STK CMGC Q00537 CDK17_HUMAN nan ser_thr FALSE CDK17
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CDK18 CDK18 CDK18 ser_thr STK CMGC Q07002 CDK18_HUMAN nan ser_thr FALSE CDK18

‎src/kinase_library/databases/matrices/ser_thr/densitometry/CDK15_densitometry.txt

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‎src/kinase_library/databases/matrices/ser_thr/densitometry/HUNK_densitometry.txt

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‎src/kinase_library/databases/matrices/ser_thr/log2/CDK15.tsv

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P G A C S T V I L M F Y W H K R Q N D E s t y
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-5 -0.1564 -0.1924 -0.0462 0.033 -0.0462 -0.0462 -0.4482 0.1947 0.0844 -0.018 -0.5645 -0.532 0.0814 0.6558 1.0053 0.1056 -0.3602 0.1845 -0.4458 -0.7379 -0.0522 -0.0522 -0.5431
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1 3.1048 0.472 -1.3916 -0.8323 -1.0676 -1.0676 -1.2772 -1.2497 -1.4484 -1.0023 -1.3064 -1.0676 -0.9028 -0.9069 -0.6003 -0.4004 -0.8046 -1.1032 -2.0346 -1.8311 -0.3921 -0.3921 -0.4552
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2 -0.6707 -0.7304 -0.6579 0.0 -0.2198 -0.2198 -0.1735 -0.2198 -0.1937 -0.1058 -0.9081 -0.761 -0.4429 0.3915 1.3935 1.5216 -0.0562 0.0765 -1.0429 -1.2652 0.2438 0.2438 -0.8566
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3 0.0326 -0.2457 -0.3289 -0.0123 0.0326 0.0326 -0.5353 -0.5262 0.5064 0.345 -0.122 -0.1801 0.2905 0.2067 0.4141 0.5655 0.0358 0.1436 -0.5449 -1.1318 -0.1002 -0.1002 -0.0884
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4 -0.2692 0.2704 -0.6929 -0.5687 -0.2692 -0.2692 -0.4926 -0.291 -0.2481 -0.1202 -0.3568 -0.4252 -0.2885 0.1751 0.8858 1.5752 -0.1898 -0.0004 -1.0096 -1.3916 -0.4838 -0.4838 -1.2548

‎src/kinase_library/databases/matrices/ser_thr/log2/HUNK.tsv

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P G A C S T V I L M F Y W H K R Q N D E s t y
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9-
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10-
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7+
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9+
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10+
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‎src/kinase_library/databases/matrices/ser_thr/norm/CDK15.tsv

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1+
P G A C S T V I L M F Y W H K R Q N D E s t y
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