Data

Load various kinase-relatd datasets

Setup

from katlas.data import *

Kinase Dataset

We will go through how to load kinase information data and phosphorylation sites data.

Datasets used in this study can be accessed through Data

---

source

Data

 Data ()

A class for fetching various datasets.

You can change it to local path if you want:

Data.DATASET_DIR=Path('katlas_dataset')

---

source

Data.download

 Data.download (download_dir=None, force=False, verbose=True)

Download dataset zip and extract them in tmp folder if dataset_dir is not given.

	Type	Default	Details
download_dir	NoneType	None	dest directory of downloaded folder
force	bool	False	if force, will overwrite the current dataset folder
verbose	bool	True	print existing dataset folder

For the first time download or to update data folder:

Data.download(force=True)

# Data.download(force=True)

♻️ Removing existing folder: /tmp/katlas_dataset
⬇️ Downloading katlas_dataset.zip ...

Downloading...
From (original): https://drive.google.com/uc?id=17wIl0DbdoHV036Z3xgaT_0H3LlM_W47l
From (redirected): https://drive.google.com/uc?id=17wIl0DbdoHV036Z3xgaT_0H3LlM_W47l&confirm=t&uuid=5e68ddb0-1d7a-4bd2-8416-849aa0776813
To: /home/sky1ove/git/katlas/nbs/katlas_datasets.zip
100%|████████████████████████████████████████████████████████████████████| 211M/211M [00:07<00:00, 26.4MB/s]

📂 Extracting to /tmp/katlas_dataset ...
🧹 Removing zip file: katlas_datasets.zip
✅ Done! Extracted dataset is at: /tmp/katlas_dataset

---

source

Data.read_file

 Data.read_file (rel_path)

*Load a CSV or Parquet file from the local dataset folder.

Automatically infers file type from the filename extension. Renames ‘Unnamed: 0’ column to ‘kinase’ if present.*

Data.read_file('kinase_info.csv')

	kinase	ID_coral	uniprot	gene	modi_group	group	family	subfamily_coral	subfamily	in_pspa_st	in_pspa_tyr	in_pspa	in_cddm	kd_ID	active_D1_D2	active_kd_ID	pspa_ID	pseudo	pspa_category_small	pspa_category_big	cddm_big	cddm_small	length	human_uniprot_sequence	kinasecom_domain	nucleus	cytosol	cytoskeleton	plasma membrane	mitochondrion	Golgi apparatus	endoplasmic reticulum	vesicle	centrosome	aggresome	main_location
0	AAK1	AAK1	Q2M2I8	AAK1	Other	Other	NAK	NaN	NAK	1	0	1	0	Q2M2I8_AAK1_HUMAN_KD1	1.0	Q2M2I8_AAK1_HUMAN_KD1	AAK1	0	Nak	Nak	NaN	NaN	961	MKKFFDSRREQGGSGLGSGSSGGGGSTSGLGSGYIGRVFGIGRQQV...	VTVDEVLAEGGFAIVFLVRTSNGMKCALKRMFVNNEHDLQVCKREI...	NaN	NaN	NaN	NaN	NaN	NaN	NaN	NaN	NaN	NaN	NaN
1	AATK	LMR1	Q6ZMQ8	AATK	TK	TK	Lmr	NaN	Lmr	0	0	0	0	Q6ZMQ8_LMTK1_HUMAN_KD1	1.0	Q6ZMQ8_LMTK1_HUMAN_KD1	NaN	0	NaN	NaN	NaN	NaN	1374	MSSSFFNPSFAFSSHFDPDGAPLSELSWPSSLAVVAVSFSGLFAVI...	LLYLKEIGRGWFGKVFLGEVNSGISSAQVVVKELQASASVQEQMQF...	NaN	NaN	NaN	NaN	NaN	NaN	NaN	NaN	NaN	NaN	NaN
...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...
521	ZAK	ZAK	Q9NYL2	MAP3K20	TKL	TKL	MLK	ZAK	ZAK	1	0	1	1	Q9NYL2_M3K20_HUMAN_KD1	1.0	Q9NYL2_M3K20_HUMAN_KD1	ZAK	0	Map3k	Map3k	2.0	9.0	800	MSSLGASFVQIKFDDLQFFENCGGGSFGSVYRAKWISQDKEVAVKK...	LQFFENCGGGSFGSVYRAKWISQDKEVAVKKLLKIEKEAEILSVLS...	5.0	5.0	NaN	NaN	NaN	NaN	NaN	NaN	NaN	NaN	nucleus
522	ZAP70	ZAP70	P43403	ZAP70	TK	TK	Syk	NaN	Syk	0	1	1	1	P43403_ZAP70_HUMAN_KD1	1.0	P43403_ZAP70_HUMAN_KD1	ZAP70	0	Syk and fak	Syk and fak	1.0	3.0	619	MPDPAAHLPFFYGSISRAEAEEHLKLAGMADGLFLLRQCLRSLGGY...	LIADIELGCGNFGSVRQGVYRMRKKQIDVAIKVLKQGTEKADTEEM...	3.0	5.0	NaN	2.0	NaN	NaN	NaN	NaN	NaN	NaN	cytosol

523 rows × 36 columns

Kinase info

---

source

Data.get_kinase_info

 Data.get_kinase_info ()

Get information of 523 human kinases on kinome tree. Group, family, and subfamily classifications are sourced from Coral; full protein sequences are retrieved using UniProt IDs; kinase domain sequences are obtained from KinaseDomain.com; and cellular localization data is extracted from published literature.

Data.get_kinase_info()

	kinase	ID_coral	uniprot	gene	modi_group	group	family	subfamily_coral	subfamily	in_pspa_st	in_pspa_tyr	in_pspa	in_cddm	kd_ID	active_D1_D2	active_kd_ID	pspa_ID	pseudo	pspa_category_small	pspa_category_big	cddm_big	cddm_small	length	human_uniprot_sequence	kinasecom_domain	nucleus	cytosol	cytoskeleton	plasma membrane	mitochondrion	Golgi apparatus	endoplasmic reticulum	vesicle	centrosome	aggresome	main_location
0	AAK1	AAK1	Q2M2I8	AAK1	Other	Other	NAK	NaN	NAK	1	0	1	0	Q2M2I8_AAK1_HUMAN_KD1	1.0	Q2M2I8_AAK1_HUMAN_KD1	AAK1	0	Nak	Nak	NaN	NaN	961	MKKFFDSRREQGGSGLGSGSSGGGGSTSGLGSGYIGRVFGIGRQQV...	VTVDEVLAEGGFAIVFLVRTSNGMKCALKRMFVNNEHDLQVCKREI...	NaN	NaN	NaN	NaN	NaN	NaN	NaN	NaN	NaN	NaN	NaN
1	AATK	LMR1	Q6ZMQ8	AATK	TK	TK	Lmr	NaN	Lmr	0	0	0	0	Q6ZMQ8_LMTK1_HUMAN_KD1	1.0	Q6ZMQ8_LMTK1_HUMAN_KD1	NaN	0	NaN	NaN	NaN	NaN	1374	MSSSFFNPSFAFSSHFDPDGAPLSELSWPSSLAVVAVSFSGLFAVI...	LLYLKEIGRGWFGKVFLGEVNSGISSAQVVVKELQASASVQEQMQF...	NaN	NaN	NaN	NaN	NaN	NaN	NaN	NaN	NaN	NaN	NaN
...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...
521	ZAK	ZAK	Q9NYL2	MAP3K20	TKL	TKL	MLK	ZAK	ZAK	1	0	1	1	Q9NYL2_M3K20_HUMAN_KD1	1.0	Q9NYL2_M3K20_HUMAN_KD1	ZAK	0	Map3k	Map3k	2.0	9.0	800	MSSLGASFVQIKFDDLQFFENCGGGSFGSVYRAKWISQDKEVAVKK...	LQFFENCGGGSFGSVYRAKWISQDKEVAVKKLLKIEKEAEILSVLS...	5.0	5.0	NaN	NaN	NaN	NaN	NaN	NaN	NaN	NaN	nucleus
522	ZAP70	ZAP70	P43403	ZAP70	TK	TK	Syk	NaN	Syk	0	1	1	1	P43403_ZAP70_HUMAN_KD1	1.0	P43403_ZAP70_HUMAN_KD1	ZAP70	0	Syk and fak	Syk and fak	1.0	3.0	619	MPDPAAHLPFFYGSISRAEAEEHLKLAGMADGLFLLRQCLRSLGGY...	LIADIELGCGNFGSVRQGVYRMRKKQIDVAIKVLKQGTEKADTEEM...	3.0	5.0	NaN	2.0	NaN	NaN	NaN	NaN	NaN	NaN	cytosol

523 rows × 36 columns

---

source

Data.get_kinase_uniprot

 Data.get_kinase_uniprot ()

Get information of 672 uniprot human kinases, which were retrieved from UniProt by filtering all human protein entries using the keyword ‘kinase’. It includes additional pseudokinases and lipid kinases.

Data.get_kinase_uniprot()

	Entry	Entry Name	Protein names	Gene Names	uniprot_keyword_kinase	on_tree	Organism	Keywords	Sequence
0	A2RU49	HYKK_HUMAN	Hydroxylysine kinase (5-hydroxy-L-lysine kinas...	HYKK AGPHD1	1	0	Homo sapiens (Human)	Alternative splicing;Cytoplasm;Kinase;Proteomi...	MSSGNYQQSEALSKPTFSEEQASALVESVFGLKVSKVRPLPSYDDQ...
1	A4D2B8	PM2P1_HUMAN	Putative postmeiotic segregation increased 2-l...	PMS2P1 PMS2L1 PMS2L13 PMS2L6 PMS2L8 PMS3 PMS8 ...	1	0	Homo sapiens (Human)	Alternative splicing;Kinase;Reference proteome...	MVTMCGGHRPENFLHQVLTEFGEELAGEGKSEVGGGAPRSYLQVAS...
...	...	...	...	...	...	...	...	...	...
670	Q8NCB2	CAMKV_HUMAN	CaM kinase-like vesicle-associated protein	CAMKV	0	1	Homo sapiens (Human)	Alternative splicing;Calmodulin-binding;Cell m...	MPFGCVTLGDKKNYNQPSEVTDRYDLGQVIKTEEFCEIFRAKDKTT...
671	Q8IV63	VRK3_HUMAN	Serine/threonine-protein kinase VRK3 (EC 2.7.1...	VRK3	0	1	Homo sapiens (Human)	3D-structure;Alternative splicing;Cytoplasm;Nu...	MISFCPDCGKSIQAAFKFCPYCGNSLPVEEHVGSQTFVNPHVSSFQ...

672 rows × 9 columns

---

source

Data.get_kd_uniprot

 Data.get_kd_uniprot ()

Kinase domains extracted from UniProt database.

Data.get_kd_uniprot()

	kd_ID	Uniprot	Entry Name	Protein names	Gene Names	Gene Names (primary)	Organism	kd_note	kd_evidence	kd_start	kd_end	kd_seq	Domain [FT]	Domain [CC]	Region	Motif	Protein families	Reactome	ComplexPortal	Subcellular location [CC]	Gene Ontology (biological process)	Tissue specificity	Interacts with	Subunit structure	Function [CC]	Activity regulation	full_seq	D1	D2	D3	N1	active_D1_D2
0	A0A075F7E9_LERK1_ORYSI_KD1	A0A075F7E9	LERK1_ORYSI	G-type lectin S-receptor-like serine/threonine...	LECRK1 LECRK OsI_14840	LECRK1	Oryza sativa subsp. indica (Rice)	Protein kinase	ECO:0000255|PROSITE-ProRule:PRU00159	523	797	AGFHEILGAGASGVVYKGQLEDELKTNIAVKTIHKLQPETEKEFMV...	DOMAIN 22..149; /note="Bulb-type lectin"; /evi...	None	None	None	Protein kinase superfamily, Ser/Thr protein ki...	None	None	SUBCELLULAR LOCATION: Membrane {ECO:0000255}; ...	defense response [GO:0006952]; response to oth...	TISSUE SPECIFICITY: Expressed in plumules, rad...	None	SUBUNIT: Interacts (via kinase domain) with AD...	FUNCTION: Involved in innate immunity. Require...	None	MVALLLFPMLLQLLSPTCAQTQKNITLGSTLAPQGPASSWLSPSGD...	1	1	1	1	1
1	A0A078BQP2_GCY25_CAEEL_KD1	A0A078BQP2	GCY25_CAEEL	Receptor-type guanylate cyclase gcy-25 (EC 4.6...	gcy-25 Y105C5B.2	gcy-25	Caenorhabditis elegans	Protein kinase	ECO:0000255|PROSITE-ProRule:PRU00159	464	749	RVSTISTARASYSSIFSGNVAEHAIVNKQKVSVKRHVQRRAITFSR...	DOMAIN 464..749; /note="Protein kinase"; /evid...	DOMAIN: The protein kinase domain is predicted...	None	None	Adenylyl cyclase class-4/guanylyl cyclase family	R-CEL-2514859;	None	SUBCELLULAR LOCATION: Cell membrane {ECO:00003...	cGMP biosynthetic process [GO:0006182]; intrac...	TISSUE SPECIFICITY: Expressed in AQR, PQR and ...	None	None	FUNCTION: Guanylate cyclase involved in the pr...	None	MLLLLLLLKISTFVDSFQIGHLEFENSNETRILEICMKNAGSWRDH...	0	0	1	0	0
...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...
5534	X5M5N0_WNK_CAEEL_KD1	X5M5N0	WNK_CAEEL	Serine/threonine-protein kinase WNK (EC 2.7.11...	wnk-1 C46C2.1	wnk-1	Caenorhabditis elegans	Protein kinase	ECO:0000255|PROSITE-ProRule:PRU00159	334	596	LKFDEELGRGSFKTVFRGLDTETGVAVAWCELQESKLNKTERQRFR...	DOMAIN 334..596; /note="Protein kinase"; /evid...	DOMAIN: Disordered regions undergo liquid-liqu...	None	None	Protein kinase superfamily, Ser/Thr protein ki...	None	None	SUBCELLULAR LOCATION: Cytoplasm {ECO:0000250|U...	cell volume homeostasis [GO:0006884]; cellular...	TISSUE SPECIFICITY: Expressed in pharynx, nerv...	G5EEN4	SUBUNIT: Interacts with gck-3 (via C-terminus)...	FUNCTION: Serine/threonine-protein kinase comp...	ACTIVITY REGULATION: Activated in response to ...	MPDSITNGGRPPAPPSSVSSTTASTTGNFGTRRRLVNRIKKVDELH...	1	1	1	1	1
5535	X5M8U1_GCY17_CAEEL_KD1	X5M8U1	GCY17_CAEEL	Receptor-type guanylate cyclase gcy-17 (EC 4.6...	gcy-17 W03F11.2	gcy-17	Caenorhabditis elegans	Protein kinase	ECO:0000255|PROSITE-ProRule:PRU00159	535	824	EASQRSFASGPSTSTKLTVESRTETTRFIFYIYQVRNNEVVAANKH...	DOMAIN 535..824; /note="Protein kinase"; /evid...	DOMAIN: The protein kinase domain is predicted...	None	None	Adenylyl cyclase class-4/guanylyl cyclase family	R-CEL-2514859;	None	SUBCELLULAR LOCATION: Cell membrane {ECO:00003...	cGMP biosynthetic process [GO:0006182]; intrac...	TISSUE SPECIFICITY: Expressed in PHA sensory n...	None	None	FUNCTION: Guanylate cyclase involved in the pr...	None	MLFLRLFIFTPFLILANCQARRTIKVGLLFVQNVSSLQVGIGYRTS...	0	1	1	0	0

5536 rows × 32 columns

PSPA data

---

get_pspa_tyr

 get_pspa_tyr ()

Get PSPA normalized data of tyrosine kinase.

Data.get_pspa_tyr()

	-5P	-5G	-5A	-5C	-5S	-5T	-5V	-5I	-5L	-5M	-5F	-5Y	-5W	-5H	-5K	-5R	-5Q	-5N	-5D	-5E	-5s	-5t	-5y	-4P	-4G	-4A	-4C	-4S	-4T	-4V	-4I	-4L	-4M	-4F	-4Y	-4W	-4H	-4K	-4R	-4Q	-4N	-4D	-4E	-4s	-4t	-4y	-3P	-3G	-3A	-3C	...	4A	4C	4S	4T	4V	4I	4L	4M	4F	4Y	4W	4H	4K	4R	4Q	4N	4D	4E	4s	4t	4y	5P	5G	5A	5C	5S	5T	5V	5I	5L	5M	5F	5Y	5W	5H	5K	5R	5Q	5N	5D	5E	5s	5t	5y	0S	0T	0Y	0s	0t	0y
kinase
ABL1	0.0668	0.0689	0.0646	0.0520	0.0564	0.0539	0.0485	0.0448	0.0520	0.0536	0.0454	0.0454	0.0283	0.0597	0.0600	0.0662	0.0594	0.0606	0.0575	0.0535	0.0507	0.0507	0.0658	0.0680	0.0758	0.0687	0.0518	0.0478	0.0442	0.0561	0.0443	0.0547	0.0491	0.0390	0.0390	0.0345	0.0496	0.0485	0.0530	0.0655	0.0502	0.0667	0.0843	0.0618	0.0618	0.0925	0.0634	0.0642	0.0568	0.0527	...	0.0526	0.0584	0.0563	0.0522	0.0514	0.0429	0.0510	0.0664	0.0645	0.0645	0.0600	0.0647	0.0647	0.0757	0.0607	0.0499	0.0322	0.0342	0.0217	0.0217	0.0306	0.0769	0.0707	0.0624	0.0493	0.0591	0.0661	0.0553	0.0378	0.0548	0.0603	0.0392	0.0392	0.0413	0.0613	0.0652	0.0756	0.0526	0.0512	0.0362	0.0339	0.0254	0.0254	0.0337	0	0	1	0	0	1
TNK2	0.0679	0.0818	0.0627	0.0617	0.0529	0.0528	0.0419	0.0463	0.0437	0.0453	0.0539	0.0539	0.0598	0.0583	0.0624	0.0727	0.0537	0.0553	0.0451	0.0435	0.0430	0.0430	0.0555	0.0723	0.0682	0.0665	0.0567	0.0458	0.0423	0.0436	0.0426	0.0433	0.0495	0.0584	0.0584	0.0697	0.0556	0.0664	0.0757	0.0647	0.0532	0.0409	0.0413	0.0398	0.0398	0.0493	0.0755	0.0653	0.0572	0.0544	...	0.0580	0.0648	0.0670	0.0571	0.0470	0.0493	0.0412	0.0568	0.0516	0.0516	0.0499	0.0559	0.0430	0.0553	0.0485	0.0502	0.0416	0.0464	0.0452	0.0452	0.0533	0.0644	0.0599	0.0609	0.0629	0.0564	0.0634	0.0527	0.0502	0.0641	0.0539	0.0679	0.0679	0.0680	0.0499	0.0385	0.0302	0.0531	0.0465	0.0630	0.0572	0.0364	0.0364	0.0572	0	0	1	0	0	1
...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...
YES1	0.0677	0.0571	0.0537	0.0530	0.0527	0.0505	0.0435	0.0375	0.0400	0.0463	0.0478	0.0478	0.0419	0.0564	0.0681	0.0647	0.0610	0.0752	0.0748	0.0610	0.0652	0.0652	0.0668	0.0625	0.0695	0.0524	0.0530	0.0470	0.0404	0.0476	0.0416	0.0528	0.0529	0.0406	0.0406	0.0424	0.0566	0.0549	0.0561	0.0607	0.0559	0.0786	0.0875	0.0596	0.0596	0.0705	0.0564	0.0580	0.0456	0.0572	...	0.0464	0.0747	0.0521	0.0561	0.0468	0.0452	0.0481	0.0716	0.0689	0.0689	0.0619	0.0623	0.0587	0.0757	0.0652	0.0499	0.0421	0.0492	0.0371	0.0371	0.0467	0.0762	0.0532	0.0533	0.0610	0.0596	0.0558	0.0416	0.0375	0.0467	0.0518	0.0627	0.0627	0.0456	0.0593	0.0662	0.0840	0.0559	0.0604	0.0422	0.0482	0.0374	0.0374	0.0411	0	0	1	0	0	1
ZAP70	0.0602	0.0880	0.0623	0.0496	0.0471	0.0514	0.0465	0.0380	0.0307	0.0526	0.0479	0.0479	0.0347	0.0641	0.0471	0.0452	0.0492	0.0703	0.0870	0.0777	0.1622	0.1622	0.1208	0.0977	0.0792	0.0865	0.0556	0.0487	0.0367	0.0375	0.0312	0.0317	0.0344	0.0274	0.0274	0.0347	0.0474	0.0338	0.0380	0.0571	0.0457	0.0929	0.1392	0.1432	0.1432	0.1685	0.0588	0.0610	0.0537	0.0581	...	0.0491	0.0520	0.0583	0.0530	0.0504	0.0304	0.0424	0.0554	0.0393	0.0393	0.0539	0.0671	0.0562	0.0557	0.0712	0.0406	0.0597	0.0558	0.0440	0.0440	0.0318	0.1269	0.0904	0.0737	0.0457	0.0638	0.0692	0.0343	0.0235	0.0305	0.0461	0.0343	0.0343	0.0344	0.0484	0.0477	0.0290	0.0520	0.0537	0.0709	0.0710	0.0862	0.0862	0.0605	0	0	1	0	0	1

93 rows × 236 columns

---

get_pspa_st

 get_pspa_st ()

Get PSPA normalized data of serine/threonine kinase.

Data.get_pspa_st()

	-5P	-5G	-5A	-5C	-5S	-5T	-5V	-5I	-5L	-5M	-5F	-5Y	-5W	-5H	-5K	-5R	-5Q	-5N	-5D	-5E	-5s	-5t	-5y	-4P	-4G	-4A	-4C	-4S	-4T	-4V	-4I	-4L	-4M	-4F	-4Y	-4W	-4H	-4K	-4R	-4Q	-4N	-4D	-4E	-4s	-4t	-4y	-3P	-3G	-3A	-3C	...	3A	3C	3S	3T	3V	3I	3L	3M	3F	3Y	3W	3H	3K	3R	3Q	3N	3D	3E	3s	3t	3y	4P	4G	4A	4C	4S	4T	4V	4I	4L	4M	4F	4Y	4W	4H	4K	4R	4Q	4N	4D	4E	4s	4t	4y	0s	0t	0y	0S	0T	0Y
kinase
AAK1	0.0720	0.0245	0.0284	0.0456	0.0425	0.0425	0.0951	0.1554	0.0993	0.0864	0.0425	0.0952	0.0315	0.0331	0.0262	0.0956	0.0560	0.0275	0.0160	0.0153	0.0201	0.0201	0.0611	0.0534	0.0642	0.0706	0.0560	0.0619	0.0619	0.0619	0.0621	0.0742	0.0693	0.0520	0.0534	0.0403	0.0514	0.0809	0.0715	0.0627	0.0429	0.0332	0.0560	0.0332	0.0332	0.0339	0.1084	0.0512	0.1119	0.0655	...	0.0582	0.0742	0.0582	0.0582	0.0610	0.0388	0.0489	0.0437	0.0430	0.0533	0.0481	0.0674	0.0739	0.0901	0.0623	0.0735	0.0405	0.0371	0.0335	0.0335	0.0359	0.0628	0.0702	0.0646	0.0603	0.0560	0.0560	0.0422	0.0415	0.0461	0.0464	0.0523	0.0521	0.0826	0.0560	0.0831	0.0928	0.0635	0.0592	0.0389	0.0457	0.0251	0.0251	0.0270	0.1013	1.0	0.0	0.1013	1.0	0.0
ACVR2A	0.0415	0.0481	0.0584	0.0489	0.0578	0.0578	0.0598	0.0625	0.0596	0.0521	0.0600	0.0578	0.0803	0.0570	0.0510	0.0475	0.0430	0.0536	0.0888	0.0789	0.0783	0.0783	0.0760	0.0466	0.0549	0.0555	0.0551	0.0549	0.0549	0.0543	0.0526	0.0520	0.0576	0.0619	0.0586	0.0754	0.0551	0.0406	0.0457	0.0482	0.0501	0.1040	0.0869	0.0809	0.0809	0.0681	0.0502	0.0653	0.0537	0.0588	...	0.0529	0.0481	0.0590	0.0590	0.0567	0.0554	0.0612	0.0589	0.0644	0.0654	0.0635	0.0590	0.0462	0.0387	0.0499	0.0524	0.0622	0.0870	0.0519	0.0519	0.0815	0.0758	0.0544	0.0498	0.0517	0.0563	0.0563	0.0516	0.0563	0.0512	0.0662	0.0523	0.0579	0.0800	0.0573	0.0527	0.0491	0.0616	0.0556	0.0640	0.0640	0.0703	0.0703	0.0589	0.9833	1.0	0.0	0.9833	1.0	0.0
...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...
YSK4	0.0593	0.0728	0.0744	0.0734	0.0597	0.0597	0.0517	0.0400	0.0433	0.0512	0.0636	0.0600	0.0755	0.0664	0.0525	0.0597	0.0481	0.0616	0.0692	0.0508	0.0703	0.0703	0.0474	0.0622	0.0683	0.0618	0.0652	0.0618	0.0618	0.0477	0.0412	0.0519	0.0570	0.0610	0.0620	0.0714	0.0626	0.0491	0.0523	0.0551	0.0649	0.0671	0.0645	0.0663	0.0663	0.0534	0.0561	0.0683	0.0571	0.0636	...	0.0531	0.0545	0.0578	0.0578	0.0540	0.0436	0.0481	0.0473	0.0573	0.0578	0.0625	0.0645	0.0774	0.0697	0.0580	0.0720	0.0471	0.0450	0.0642	0.0642	0.0397	0.0790	0.0721	0.0573	0.0557	0.0573	0.0573	0.0445	0.0471	0.0481	0.0507	0.0461	0.0493	0.0539	0.0657	0.0814	0.0618	0.0741	0.0620	0.0585	0.0484	0.0634	0.0634	0.0389	0.7907	1.0	0.0	0.7907	1.0	0.0
ZAK	0.0604	0.0641	0.0659	0.0631	0.0597	0.0597	0.0454	0.0431	0.0477	0.0484	0.0544	0.0597	0.0673	0.0650	0.0815	0.0669	0.0538	0.0653	0.0591	0.0520	0.0716	0.0716	0.0611	0.0627	0.0682	0.0537	0.0621	0.0627	0.0627	0.0447	0.0423	0.0433	0.0500	0.0526	0.0564	0.0630	0.0663	0.0634	0.0653	0.0548	0.0701	0.0759	0.0673	0.0703	0.0703	0.0469	0.0723	0.0694	0.0593	0.0680	...	0.0489	0.0588	0.0582	0.0582	0.0579	0.0636	0.0630	0.0572	0.0652	0.0710	0.0738	0.0664	0.0851	0.0833	0.0527	0.0484	0.0281	0.0319	0.0459	0.0459	0.0423	0.0684	0.0623	0.0561	0.0519	0.0556	0.0556	0.0406	0.0429	0.0395	0.0481	0.0424	0.0526	0.0698	0.0672	0.1207	0.1012	0.0614	0.0556	0.0342	0.0370	0.0390	0.0390	0.0408	0.6135	1.0	0.0	0.6135	1.0	0.0

303 rows × 213 columns

---

get_pspa

 get_pspa ()

Get PSPA normalized data of serine/threonine and tyrosine kinases.

Data.get_pspa()

	-5P	-5G	-5A	-5C	-5S	-5T	-5V	-5I	-5L	-5M	-5F	-5Y	-5W	-5H	-5K	-5R	-5Q	-5N	-5D	-5E	-5s	-5t	-5y	-4P	-4G	-4A	-4C	-4S	-4T	-4V	-4I	-4L	-4M	-4F	-4Y	-4W	-4H	-4K	-4R	-4Q	-4N	-4D	-4E	-4s	-4t	-4y	-3P	-3G	-3A	-3C	...	4A	4C	4S	4T	4V	4I	4L	4M	4F	4Y	4W	4H	4K	4R	4Q	4N	4D	4E	4s	4t	4y	0s	0t	0y	0S	0T	0Y	5P	5G	5A	5C	5S	5T	5V	5I	5L	5M	5F	5Y	5W	5H	5K	5R	5Q	5N	5D	5E	5s	5t	5y
kinase
AAK1	0.0720	0.0245	0.0284	0.0456	0.0425	0.0425	0.0951	0.1554	0.0993	0.0864	0.0425	0.0952	0.0315	0.0331	0.0262	0.0956	0.0560	0.0275	0.0160	0.0153	0.0201	0.0201	0.0611	0.0534	0.0642	0.0706	0.0560	0.0619	0.0619	0.0619	0.0621	0.0742	0.0693	0.0520	0.0534	0.0403	0.0514	0.0809	0.0715	0.0627	0.0429	0.0332	0.0560	0.0332	0.0332	0.0339	0.1084	0.0512	0.1119	0.0655	...	0.0646	0.0603	0.0560	0.0560	0.0422	0.0415	0.0461	0.0464	0.0523	0.0521	0.0826	0.0560	0.0831	0.0928	0.0635	0.0592	0.0389	0.0457	0.0251	0.0251	0.0270	0.1013	1.0	0.0	0.1013	1.0	0.0	NaN	NaN	NaN	NaN	NaN	NaN	NaN	NaN	NaN	NaN	NaN	NaN	NaN	NaN	NaN	NaN	NaN	NaN	NaN	NaN	NaN	NaN	NaN
ACVR2A	0.0415	0.0481	0.0584	0.0489	0.0578	0.0578	0.0598	0.0625	0.0596	0.0521	0.0600	0.0578	0.0803	0.0570	0.0510	0.0475	0.0430	0.0536	0.0888	0.0789	0.0783	0.0783	0.0760	0.0466	0.0549	0.0555	0.0551	0.0549	0.0549	0.0543	0.0526	0.0520	0.0576	0.0619	0.0586	0.0754	0.0551	0.0406	0.0457	0.0482	0.0501	0.1040	0.0869	0.0809	0.0809	0.0681	0.0502	0.0653	0.0537	0.0588	...	0.0498	0.0517	0.0563	0.0563	0.0516	0.0563	0.0512	0.0662	0.0523	0.0579	0.0800	0.0573	0.0527	0.0491	0.0616	0.0556	0.0640	0.0640	0.0703	0.0703	0.0589	0.9833	1.0	0.0	0.9833	1.0	0.0	NaN	NaN	NaN	NaN	NaN	NaN	NaN	NaN	NaN	NaN	NaN	NaN	NaN	NaN	NaN	NaN	NaN	NaN	NaN	NaN	NaN	NaN	NaN
...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...
YES1	0.0677	0.0571	0.0537	0.0530	0.0527	0.0505	0.0435	0.0375	0.0400	0.0463	0.0478	0.0478	0.0419	0.0564	0.0681	0.0647	0.0610	0.0752	0.0748	0.0610	0.0652	0.0652	0.0668	0.0625	0.0695	0.0524	0.0530	0.0470	0.0404	0.0476	0.0416	0.0528	0.0529	0.0406	0.0406	0.0424	0.0566	0.0549	0.0561	0.0607	0.0559	0.0786	0.0875	0.0596	0.0596	0.0705	0.0564	0.0580	0.0456	0.0572	...	0.0464	0.0747	0.0521	0.0561	0.0468	0.0452	0.0481	0.0716	0.0689	0.0689	0.0619	0.0623	0.0587	0.0757	0.0652	0.0499	0.0421	0.0492	0.0371	0.0371	0.0467	0.0000	0.0	1.0	0.0000	0.0	1.0	0.0762	0.0532	0.0533	0.0610	0.0596	0.0558	0.0416	0.0375	0.0467	0.0518	0.0627	0.0627	0.0456	0.0593	0.0662	0.084	0.0559	0.0604	0.0422	0.0482	0.0374	0.0374	0.0411
ZAP70	0.0602	0.0880	0.0623	0.0496	0.0471	0.0514	0.0465	0.0380	0.0307	0.0526	0.0479	0.0479	0.0347	0.0641	0.0471	0.0452	0.0492	0.0703	0.0870	0.0777	0.1622	0.1622	0.1208	0.0977	0.0792	0.0865	0.0556	0.0487	0.0367	0.0375	0.0312	0.0317	0.0344	0.0274	0.0274	0.0347	0.0474	0.0338	0.0380	0.0571	0.0457	0.0929	0.1392	0.1432	0.1432	0.1685	0.0588	0.0610	0.0537	0.0581	...	0.0491	0.0520	0.0583	0.0530	0.0504	0.0304	0.0424	0.0554	0.0393	0.0393	0.0539	0.0671	0.0562	0.0557	0.0712	0.0406	0.0597	0.0558	0.0440	0.0440	0.0318	0.0000	0.0	1.0	0.0000	0.0	1.0	0.1269	0.0904	0.0737	0.0457	0.0638	0.0692	0.0343	0.0235	0.0305	0.0461	0.0343	0.0343	0.0344	0.0484	0.0477	0.029	0.0520	0.0537	0.0709	0.0710	0.0862	0.0862	0.0605

396 rows × 236 columns

---

get_pspa_scale

 get_pspa_scale ()

Get PSPA (-5 to +4) scaled data from PSPA normalized data. Each position (including both pS/pT and pS=pT) are normalized to 1.

Data.get_pspa_scale()

	-5P	-5G	-5A	-5C	-5S	-5T	-5V	-5I	-5L	-5M	-5F	-5Y	-5W	-5H	-5K	-5R	-5Q	-5N	-5D	-5E	-5s	-5t	-5y	-4P	-4G	-4A	-4C	-4S	-4T	-4V	-4I	-4L	-4M	-4F	-4Y	-4W	-4H	-4K	-4R	-4Q	-4N	-4D	-4E	-4s	-4t	-4y	-3P	-3G	-3A	-3C	...	2E	2s	2t	2y	3P	3G	3A	3C	3S	3T	3V	3I	3L	3M	3F	3Y	3W	3H	3K	3R	3Q	3N	3D	3E	3s	3t	3y	4P	4G	4A	4C	4S	4T	4V	4I	4L	4M	4F	4Y	4W	4H	4K	4R	4Q	4N	4D	4E	4s	4t	4y
kinase
AAK1	0.05845	0.01989	0.02305	0.03702	0.03450	0.03450	0.07720	0.12615	0.08061	0.07014	0.03450	0.07728	0.02557	0.02687	0.02127	0.07760	0.04546	0.02232	0.01299	0.01242	0.01632	0.01632	0.04960	0.04172	0.05015	0.05515	0.04375	0.04836	0.04836	0.04836	0.04851	0.05796	0.05414	0.04062	0.04172	0.03148	0.04015	0.06320	0.05586	0.04898	0.03351	0.02594	0.04375	0.02594	0.02594	0.02648	0.08610	0.04067	0.08888	0.05203	...	0.04025	0.03142	0.03142	0.03149	0.05264	0.07135	0.04499	0.05735	0.04499	0.04499	0.04715	0.02999	0.03780	0.03378	0.03324	0.04120	0.03718	0.05210	0.05712	0.06965	0.04816	0.05681	0.03131	0.02868	0.02589	0.02589	0.02775	0.05026	0.05618	0.05170	0.04826	0.04482	0.04482	0.03377	0.03321	0.03689	0.03713	0.04186	0.04170	0.06611	0.04482	0.06651	0.07427	0.05082	0.04738	0.03113	0.03657	0.02009	0.02009	0.02161
ACVR2A	0.02971	0.03443	0.04180	0.03500	0.04137	0.04137	0.04281	0.04474	0.04266	0.03729	0.04295	0.04137	0.05748	0.04080	0.03651	0.03400	0.03078	0.03837	0.06356	0.05648	0.05605	0.05605	0.05440	0.03341	0.03936	0.03979	0.03950	0.03936	0.03936	0.03893	0.03771	0.03728	0.04130	0.04438	0.04201	0.05406	0.03950	0.02911	0.03276	0.03456	0.03592	0.07456	0.06230	0.05800	0.05800	0.04882	0.03345	0.04351	0.03578	0.03918	...	0.04447	0.04786	0.04786	0.03799	0.04958	0.04381	0.03914	0.03559	0.04366	0.04366	0.04196	0.04099	0.04529	0.04358	0.04765	0.04839	0.04699	0.04366	0.03419	0.02864	0.03692	0.03877	0.04603	0.06438	0.03840	0.03840	0.06031	0.05559	0.03989	0.03652	0.03791	0.04129	0.04129	0.03784	0.04129	0.03755	0.04855	0.03835	0.04246	0.05867	0.04202	0.03865	0.03601	0.04517	0.04077	0.04693	0.04693	0.05155	0.05155	0.04319
...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...
YES1	0.05216	0.04399	0.04137	0.04084	0.04060	0.03891	0.03352	0.02889	0.03082	0.03567	0.03683	0.03683	0.03228	0.04345	0.05247	0.04985	0.04700	0.05794	0.05763	0.04700	0.05023	0.05023	0.05147	0.04870	0.05416	0.04083	0.04130	0.03662	0.03148	0.03709	0.03242	0.04114	0.04122	0.03164	0.03164	0.03304	0.04411	0.04278	0.04372	0.04730	0.04356	0.06125	0.06818	0.04644	0.04644	0.05494	0.04363	0.04486	0.03527	0.04425	...	0.05324	0.05535	0.05535	0.05174	0.02228	0.02870	0.02669	0.03458	0.02886	0.03899	0.05880	0.06545	0.06259	0.04333	0.12155	0.12155	0.07172	0.04309	0.02375	0.03923	0.02576	0.02824	0.02120	0.02352	0.02135	0.02135	0.02739	0.03449	0.04429	0.03670	0.05908	0.04121	0.04437	0.03702	0.03575	0.03804	0.05663	0.05450	0.05450	0.04896	0.04928	0.04643	0.05988	0.05157	0.03947	0.03330	0.03891	0.02934	0.02934	0.03694
ZAP70	0.03902	0.05704	0.04038	0.03215	0.03053	0.03332	0.03014	0.02463	0.01990	0.03410	0.03105	0.03105	0.02249	0.04155	0.03053	0.02930	0.03189	0.04557	0.05639	0.05037	0.10514	0.10514	0.07830	0.06354	0.05151	0.05625	0.03616	0.03167	0.02387	0.02439	0.02029	0.02062	0.02237	0.01782	0.01782	0.02257	0.03083	0.02198	0.02471	0.03713	0.02972	0.06041	0.09052	0.09313	0.09313	0.10958	0.03211	0.03331	0.02933	0.03173	...	0.04035	0.08151	0.08151	0.09746	0.12355	0.03982	0.04552	0.04723	0.05148	0.03701	0.07326	0.05267	0.04518	0.09377	0.04374	0.04374	0.07471	0.04476	0.01838	0.02042	0.02961	0.02357	0.02051	0.01293	0.01719	0.01719	0.02374	0.08125	0.05210	0.04054	0.04294	0.04814	0.04376	0.04162	0.02510	0.03501	0.04574	0.03245	0.03245	0.04450	0.05540	0.04640	0.04599	0.05879	0.03352	0.04929	0.04607	0.03633	0.03633	0.02626

396 rows × 230 columns

---

get_pspa_st_pct

 get_pspa_st_pct ()

Get PSPA reference score to calculate percentile for serine/threonine kinases.

Data.get_pspa_st_pct()

kinase	AAK1	ACVR2A	ACVR2B	AKT1	AKT2	AKT3	ALK2	ALK4	ALPHAK3	AMPKA1	AMPKA2	ANKRD3	ASK1	ATM	ATR	AURA	AURB	AURC	BCKDK	BIKE	BMPR1A	BMPR1B	BMPR2	BRAF	BRSK1	BRSK2	BUB1	CAMK1A	CAMK1B	CAMK1D	CAMK1G	CAMK2A	CAMK2B	CAMK2D	CAMK2G	CAMK4	CAMKK1	CAMKK2	CAMLCK	CDC7	CDK1	CDK10	CDK12	CDK13	CDK14	CDK16	CDK17	CDK18	CDK19	CDK2	...	RIPK1	RIPK2	RIPK3	ROCK1	ROCK2	RSK2	RSK3	RSK4	SBK	SGK1	SGK3	SIK	SKMLCK	SLK	SMG1	SMMLCK	SNRK	SRPK1	SRPK2	SRPK3	SSTK	STK33	STLK3	TAK1	TAO1	TAO2	TAO3	TBK1	TGFBR1	TGFBR2	TLK1	TLK2	TNIK	TSSK1	TSSK2	TTBK1	TTBK2	TTK	ULK1	ULK2	VRK1	VRK2	WNK1	WNK3	WNK4	YANK2	YANK3	YSK1	YSK4	ZAK
0	-10.960	-0.581	0.329	-3.891	-3.591	-5.312	0.814	-0.559	-0.933	-2.607	-3.167	-0.764	-6.366	2.533	0.010	-1.164	-4.296	-4.302	1.695	-7.684	1.713	1.965	0.183	0.018	-0.379	-3.219	-9.801	-3.750	0.149	-0.610	-2.746	4.377	4.940	0.902	2.957	-2.297	-3.196	-3.469	-1.716	-0.232	-1.378	-9.497	-5.727	-4.521	-8.698	-7.186	-5.666	-5.802	-4.029	-4.039	...	-3.605	-5.763	-5.047	-6.065	-4.406	-1.298	-3.001	-0.837	-2.256	-3.190	-3.763	-0.262	-0.226	-3.190	-1.971	-3.519	-4.495	-3.007	-2.348	-3.560	-4.580	-6.610	-6.038	-1.211	-4.498	-2.911	0.463	-1.287	0.680	-3.707	1.479	3.406	-3.950	-2.172	-2.109	-7.773	-4.765	-5.262	-3.549	-2.822	-4.682	-2.854	-1.669	-1.527	-2.965	-2.877	-1.792	-6.283	-1.715	-3.204
1	-6.788	-0.166	0.307	-5.886	-4.786	-6.576	1.561	-0.865	-3.399	-3.261	-3.464	-4.366	-7.176	0.019	-0.697	-1.581	-4.628	-4.533	-1.092	-5.161	1.202	1.525	-0.386	-3.377	-1.858	-3.819	-5.141	-5.537	-1.294	-3.311	-5.862	-0.315	0.517	-0.535	0.877	-3.692	-1.182	-1.239	-1.285	2.578	-4.304	-7.431	-4.146	-3.498	-6.062	-5.981	-5.925	-5.136	-4.122	-3.122	...	-2.358	-5.160	-3.075	-7.793	-6.160	-1.518	-2.279	-2.877	-2.437	-5.513	-6.566	-4.297	-0.846	-7.367	1.751	-4.481	-5.585	-4.549	-5.719	-5.101	-2.420	-6.698	-8.190	-4.619	-8.130	-4.908	-5.247	-1.650	1.537	-4.228	-5.881	-4.427	-7.145	-2.825	-0.935	-4.638	-3.624	-9.189	-4.698	-3.656	-5.670	-2.817	-4.071	-3.394	-5.097	-1.874	-1.480	-8.709	-3.708	-6.093
...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...
89782	-3.753	1.451	1.883	-5.583	-5.253	-7.164	1.226	-0.399	3.341	-5.932	-7.009	-1.346	-1.257	-1.930	-1.086	-5.300	-6.268	-6.415	-6.027	-2.674	2.403	3.097	0.315	0.331	-8.989	-9.727	-0.962	-6.574	-2.149	-5.753	-6.502	-3.379	-3.798	-4.577	-2.381	-5.040	-0.197	-0.772	-1.802	-0.784	-1.720	-6.366	-3.784	-2.870	-4.482	-2.392	-2.803	-2.889	-3.985	-2.087	...	-5.479	-5.107	-5.028	-4.316	-3.410	-4.957	-5.244	-5.152	-5.324	-5.636	-5.262	-5.684	-3.825	-1.824	-3.824	-4.159	-6.882	-4.014	-4.454	-3.755	-8.207	-5.581	-2.655	1.240	-2.303	-0.338	0.146	-3.978	0.138	-3.302	-3.075	-1.497	-1.209	-6.844	-5.322	-4.496	-2.852	-1.356	-3.828	-3.049	-1.930	-1.420	-5.949	-4.854	-5.401	-1.853	-2.068	-2.824	-0.340	-1.326
89783	-1.540	-2.180	-2.014	-2.416	-0.592	-1.364	-3.320	-0.826	-4.438	-1.393	-2.058	-2.101	-2.838	-3.597	-0.664	-4.098	-1.564	-2.006	-5.130	-2.428	-3.192	-2.013	-0.868	-2.795	-5.958	-6.211	-0.309	-1.495	0.020	-1.378	-1.652	-2.380	-3.275	-3.026	-2.647	-1.958	-5.024	-3.868	0.578	-2.915	-3.348	-4.227	-5.020	-5.209	-1.570	-2.480	-2.677	-2.574	-5.737	-5.213	...	-1.942	-6.158	-0.930	-1.559	-0.154	0.361	-0.754	-0.276	-3.035	-1.083	-0.965	-3.652	1.355	-0.824	-3.360	-0.030	-5.503	-2.102	-4.456	-3.284	-2.001	-3.563	-4.212	-4.696	-4.132	-2.436	-2.292	-3.454	-2.188	-2.436	-2.339	-1.988	-1.042	-0.358	-0.074	-2.837	-1.059	0.434	-5.814	-4.250	-1.979	-0.661	-2.586	-4.076	-2.832	-0.575	-0.859	-2.415	-2.999	-2.550

89784 rows × 303 columns

---

get_pspa_tyr_pct

 get_pspa_tyr_pct ()

Get PSPA reference score to calculate percentile for tyrosine kinases.

Data.get_pspa_tyr_pct()

kinase	ABL1	TNK2	ALK	ABL2	AXL	BLK	BMPR2_TYR	PTK6	BTK	CSF1R	CSK	MATK	DDR1	DDR2	EGFR	EPHA1	EPHA2	EPHA3	EPHA4	EPHA5	EPHA6	EPHA7	EPHA8	EPHB1	EPHB2	EPHB3	EPHB4	BMX	PTK2	FER	FES	FGFR1	FGFR2	FGFR3	FGFR4	FGR	FLT3	FRK	FYN	HCK	ERBB2	ERBB4	IGF1R	INSR	INSRR	ITK	JAK1	JAK2	JAK3	KIT	LCK	LIMK1_TYR	LIMK2_TYR	LTK	LYN	MERTK	MET	MAP2K4_TYR	MAP2K6_TYR	MAP2K7_TYR	MST1R	MUSK	PKMYT1_TYR	NEK10_TYR	PDGFRA	PDGFRB	PDHK1_TYR	PDHK3_TYR	PDHK4_TYR	PINK1_TYR	PTK2B	RET	ROS1	SRC	SRMS	SYK	TEC	TESK1_TYR	TEK	TNK1	TNNI3K_TYR	NTRK1	NTRK2	NTRK3	TXK	TYK2	TYRO3	FLT1	KDR	FLT4	WEE1_TYR	YES1	ZAP70
0	-0.709617	-3.624831	-2.136338	-0.022776	-0.737589	2.345905	0.504821	2.417165	-0.121611	-1.205218	1.576014	1.917812	-2.449589	-3.806540	1.005984	-2.925415	-0.609664	-1.256237	0.491093	0.494654	-1.348782	-1.938472	0.221994	-0.805070	1.130282	0.111910	-0.253774	0.221683	2.233854	2.295975	-0.025152	-1.738376	-0.986921	-0.375908	1.631896	2.154664	-1.214864	-1.185009	6.124421	1.940066	-1.020647	-0.292182	0.761946	-0.992736	-0.599703	0.298515	-4.146873	-2.339013	-2.479359	-1.082389	1.758755	-3.027934	-3.701494	-0.480120	1.346726	1.124192	-1.205155	-0.094138	1.031112	-0.287930	-2.589829	-3.379800	-1.341062	-3.607123	-4.385381	-1.978546	1.390759	0.259191	0.378106	-0.094980	0.908537	-0.618981	-2.562691	4.377146	1.855049	2.017083	-0.572871	-2.295149	-2.833113	-3.811383	-6.262204	0.683287	-0.626250	-0.368491	1.187208	-1.601712	-1.143748	-0.891566	-1.888643	-1.758264	-1.610344	4.545175	0.280174
1	0.986158	-1.645273	-1.183920	0.553010	-1.098784	-1.245678	-0.276461	-0.156496	-1.322652	-0.684989	0.447463	0.054841	-0.295641	-2.374194	0.261968	-0.444003	0.620075	-0.918899	-0.266802	-1.466189	0.181707	-0.884474	-0.829816	-1.039152	-1.332577	-1.553626	-1.557679	-1.041167	-1.465569	-0.573358	-1.402839	-1.119166	-0.006615	-0.690700	0.057757	-1.329587	-0.752020	-1.421231	-1.119607	-0.361730	-0.067540	-1.488971	-1.959423	-1.198227	-1.250944	-1.559043	-1.742221	-0.297813	-0.737524	0.101179	-0.785122	-0.803239	-0.227134	-0.226996	-1.061925	-0.749321	-0.324825	0.101380	-0.753605	-0.186826	-0.078232	-1.533730	-0.949200	1.335091	-0.953302	-1.471499	-0.039170	0.376709	-0.653393	-0.690604	-0.187336	0.372630	-1.753648	-0.822064	0.291210	-1.380433	-0.652058	-0.974885	-2.822036	-1.223497	-2.903235	-0.909811	-1.158577	-0.777541	-0.385554	-0.624216	-0.737089	-0.315447	-1.293708	-1.182827	-1.891533	-0.456570	-2.465316
...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...
7313	0.737694	-0.477689	-0.646850	0.928066	0.187149	-1.000041	-0.283551	-3.053869	-0.750475	0.132043	0.069439	0.778468	-0.572751	-0.877774	0.279656	-1.905299	-2.542936	-0.629488	-1.433432	-1.319311	-0.959149	-1.904233	-1.836303	-0.665941	-0.500875	-1.140260	-0.324883	-0.138589	-1.634647	-1.463951	-2.856428	1.338733	1.308337	1.210296	0.236992	-1.117447	0.508686	-1.152320	-0.680328	-1.311162	-1.278938	-0.529947	-0.707274	-0.296606	0.170371	-0.406315	0.053109	-0.184986	1.285550	-1.175831	-0.657466	-0.059045	-0.307151	-0.027580	-1.925899	0.415170	0.535199	-0.446664	0.591918	0.316993	0.457042	0.960955	-1.222173	0.783990	-0.043431	1.226039	0.035492	0.102904	0.600526	0.732808	-1.478030	1.261671	0.460373	-1.074805	-1.293450	-1.402257	-0.780591	-0.107376	-0.479018	1.326369	-1.912418	-0.017800	0.585871	-0.122134	-1.275022	-0.020350	0.483620	-0.060204	1.378042	0.573273	-2.383657	-0.246005	1.174693
7314	2.115113	0.153795	0.356357	1.846239	-0.856035	-0.422296	-0.985140	0.554181	0.381133	-1.666383	-0.728353	-0.254733	-0.999583	0.117162	-1.622541	-1.882815	-3.830351	-1.601071	-1.750483	-2.748548	-0.900263	-1.661417	-2.349142	-0.825704	-1.211989	-1.668258	-0.242232	0.727625	-2.099673	0.240011	-0.659603	-1.569382	-1.979445	-2.605414	-1.726131	0.175403	-2.030979	-0.537023	-0.303194	-0.134410	-1.497615	-2.364148	-3.279693	-1.919277	-2.157962	0.598978	-0.792918	-0.965011	-1.728287	-1.616595	-0.084054	-0.968384	-0.373329	-0.234884	-1.088861	-1.129566	-0.358743	0.154190	-0.787745	-0.482053	-1.581810	-1.865008	-0.707663	-0.049274	-1.190498	-1.403224	-0.849104	-0.212996	-0.159123	-0.885066	0.447393	-0.121666	-0.543588	0.170109	0.044321	-1.576300	1.325049	-1.122959	-2.962076	-0.786136	-1.090242	-1.402034	-1.365117	-1.670434	1.684176	-0.508297	-0.304215	-2.045909	-1.629804	-2.227050	-2.294855	0.428825	-1.789086

7315 rows × 93 columns

---

get_num_dict

 get_num_dict ()

Get a dictionary mapping kinase to number of random amino acids in PSPA.

list(Data.get_num_dict().items())[:5]

[('SYK', 18), ('PTK2', 18), ('ZAP70', 18), ('ERBB2', 18), ('CSK', 18)]

CDDM data

---

source

Data.get_ks_unique

 Data.get_ks_unique ()

Get kinase substrate dataset with unique sub site ID.

Data.get_ks_unique()

	sub_site	num_kin	bin	sub_genes	site_seq	source_combine	acceptor	O00141_SGK1	O00238_BMPR1B	O00311_CDC7	O00329_PIK3CD	O00418_EEF2K	O00443_PIK3C2A	O00444_PLK4	O00506_STK25	O14578_CIT	O14730_RIOK3	O14733_MAP2K7	O14757_CHEK1	O14874_BCKDK	O14920_IKBKB	O14936_CASK	O14965_AURKA	O14976_GAK	O15021_MAST4	O15075_DCLK1	O15111_CHUK	O15146_MUSK	O15264_MAPK13	O15530_PDPK1	O43283_MAP3K13	O43293_DAPK3	O43318_MAP3K7	O43353_RIPK2	O43683_BUB1	O43781_DYRK3	O60285_NUAK1	O60331_PIP5K1C	O60566_BUB1B	O60674_JAK2	O60885_BRD4	O75116_ROCK2	O75385_ULK1	O75460_ERN1	O75582_RPS6KA5	O75676_RPS6KA4	O75716_STK16	O75914_PAK3	O76039_CDKL5	O94768_STK17B	...	Q9HBY8_SGK2	Q9HC98_NEK6	Q9HCP0_CSNK1G1	Q9NQU5_PAK6	Q9NR20_DYRK4	Q9NRA0_SPHK2	Q9NRM7_LATS2	Q9NSY1_BMP2K	Q9NWZ3_IRAK4	Q9NYA1_SPHK1	Q9NYL2_MAP3K20	Q9NYV4_CDK12	Q9NYY3_PLK2	Q9NZJ5_EIF2AK3	Q9P0L2_MARK1	Q9P1W9_PIM2	Q9P286_PAK5	Q9P289_STK26	Q9P2K8_EIF2AK4	Q9UBE8_NLK	Q9UBS0_RPS6KB2	Q9UEE5_STK17A	Q9UEW8_STK39	Q9UF33_EPHA6	Q9UHD2_TBK1	Q9UIG0_BAZ1B	Q9UIK4_DAPK2	Q9UK32_RPS6KA6	Q9UKE5_TNIK	Q9UKI8_TLK1	Q9UL54_TAOK2	Q9UM73_ALK	Q9UPE1_SRPK3	Q9UPZ9_CILK1	Q9UQ07_MOK	Q9UQ88_CDK11A	Q9UQB9_AURKC	Q9UQM7_CAMK2A	Q9Y243_AKT3	Q9Y2H1_STK38L	Q9Y2K2_SIK3	Q9Y2U5_MAP3K2	Q9Y3S1_WNK2	Q9Y463_DYRK1B	Q9Y4K4_MAP4K5	Q9Y572_RIPK3	Q9Y5S2_CDC42BPB	Q9Y6E0_STK24	Q9Y6M4_CSNK1G3	Q9Y6R4_MAP3K4
0	A0A2R8Y4L2_S158	1	1	HNRNPA1L3 HNRNPA1P48	TDRGSGKKRGFAFVTFDDHDsVDKIVIQKYHTVNGHNCEVR	Sugiyama	S	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	...	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
1	A0A2R8Y4L2_S22	3	2~10	HNRNPA1L3 HNRNPA1P48	SKSEsPKEPEQLRKLFIGGLsFEtTDESLRSHFEQWGTLTD	Sugiyama	S	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	...	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...
29809	Q9Y6Y9_Y131	1	1	LY96 ESOP1 MD2	ETVNTTISFSFKGIKFSKGKyKCVVEAISGSPEEMLFCLEF	Non-Sugiyama	Y	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	...	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
29810	Q9Y6Y9_Y22	1	1	LY96 ESOP1 MD2	LPFLFFSTLFSSIFTEAQKQyWVCNSSDASISYTYCDKMQY	Non-Sugiyama	Y	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	...	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0

29811 rows × 462 columns

---

source

Data.get_ks_dataset

 Data.get_ks_dataset (add_kinase_info=True)

Get kinase–substrate dataset collected from public resources, with the option of enriching with kinase info.

Data.get_ks_dataset()

	kin_sub_site	kinase_uniprot	substrate_uniprot	site	source	substrate_genes	substrate_phosphoseq	position	site_seq	sub_site	substrate_sequence	kinase_on_tree	kinase_genes	kinase_group	kinase_family	kinase_subfamily	kinase_pspa_big	kinase_pspa_small	kinase_coral_ID	kinase_protein	num_kin
0	O00141_A4FU28_S140	O00141	A4FU28	S140	Sugiyama	CTAGE9	MEEPGATPQPYLGLVLEELGRVVAALPESMRPDENPYGFPSELVVC...	140	AAAEEARSLEATCEKLSRsNsELEDEILCLEKDLKEEKSKH	A4FU28_S140	MEEPGATPQPYLGLVLEELGRVVAALPESMRPDENPYGFPSELVVC...	1	SGK1 SGK	AGC	SGK	SGK	Basophilic	Akt/rock	SGK1	SGK1	22
1	O00141_O00141_S252	O00141	O00141	S252	Sugiyama	SGK1 SGK	MTVKTEAAKGTLTYSRMRGMVAILIAFMKQRRMGLNDFIQKIANNS...	252	SQGHIVLTDFGLCKENIEHNsTtstFCGtPEyLAPEVLHKQ	O00141_S252	MTVKTEAAKGTLTYSRMRGMVAILIAFMKQRRMGLNDFIQKIANNS...	1	SGK1 SGK	AGC	SGK	SGK	Basophilic	Akt/rock	SGK1	SGK1	1
...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...
187064	Q9Y6R4_Q9Y6R4_T1494	Q9Y6R4	Q9Y6R4	T1494	SIGNOR|EPSD|PSP	MAP3K4 KIAA0213 MAPKKK4 MEKK4 MTK1	MREAAAALVPPPAFAVTPAAAMEEPPPPPPPPPPPPEPETESEPEC...	1494	SGLIKLGDFGCSVKLKNNAQtMPGEVNSTLGTAAYMAPEVI	Q9Y6R4_T1494	MREAAAALVPPPAFAVTPAAAMEEPPPPPPPPPPPPEPETESEPEC...	1	MAP3K4 KIAA0213 MAPKKK4 MEKK4 MTK1	STE	STE11	STE11	NaN	NaN	MAP3K4	MAP3K4	1
187065	Q9Y6R4_Q9Y6R4_Y1328	Q9Y6R4	Q9Y6R4	Y1328	Sugiyama	MAP3K4 KIAA0213 MAPKKK4 MEKK4 MTK1	MREAAAALVPPPAFAVTPAAAMEEPPPPPPPPPPPPEPETESEPEC...	1328	RYREMRRKNIIGQVCDtPKSyDNVMHVGLRKVTFKWQRGNK	Q9Y6R4_Y1328	MREAAAALVPPPAFAVTPAAAMEEPPPPPPPPPPPPEPETESEPEC...	1	MAP3K4 KIAA0213 MAPKKK4 MEKK4 MTK1	STE	STE11	STE11	NaN	NaN	MAP3K4	MAP3K4	1

187066 rows × 21 columns

---

get_ks_background

 get_ks_background ()

Get kinase substrate dataset with unique sub site ID.

Data.get_ks_background()

	-20P	-20G	-20A	-20C	-20S	-20T	-20V	-20I	-20L	-20M	-20F	-20Y	-20W	-20H	-20K	-20R	-20Q	-20N	-20D	-20E	-20s	-20t	-20y	-19P	-19G	-19A	-19C	-19S	-19T	-19V	-19I	-19L	-19M	-19F	-19Y	-19W	-19H	-19K	-19R	-19Q	-19N	-19D	-19E	-19s	-19t	-19y	-18P	-18G	-18A	-18C	...	18E	18s	18t	18y	19P	19G	19A	19C	19S	19T	19V	19I	19L	19M	19F	19Y	19W	19H	19K	19R	19Q	19N	19D	19E	19s	19t	19y	20P	20G	20A	20C	20S	20T	20V	20I	20L	20M	20F	20Y	20W	20H	20K	20R	20Q	20N	20D	20E	20s	20t	20y
index
ks_S	0.074296	0.068105	0.075925	0.014664	0.053246	0.038517	0.051290	0.040342	0.078989	0.020269	0.028806	0.016228	0.008081	0.023266	0.068952	0.056765	0.046728	0.036301	0.053506	0.082573	0.041645	0.015511	0.005996	0.067780	0.069925	0.072069	0.012867	0.056343	0.036392	0.049454	0.038472	0.084546	0.022550	0.025994	0.017611	0.008773	0.020665	0.066220	0.065181	0.048739	0.038991	0.052963	0.079218	0.042566	0.016246	0.006434	0.065772	0.069725	0.072771	0.012960	...	0.082005	0.043003	0.014401	0.006134	0.068513	0.069249	0.073398	0.012980	0.056336	0.037803	0.050114	0.035996	0.080222	0.018801	0.030510	0.014720	0.009635	0.023752	0.071056	0.061087	0.046434	0.037535	0.053258	0.082363	0.044627	0.015656	0.005955	0.070061	0.067710	0.072412	0.015181	0.053469	0.036676	0.058910	0.037885	0.084906	0.018338	0.030093	0.017935	0.007926	0.021294	0.070330	0.059313	0.044200	0.036273	0.054880	0.077316	0.043461	0.014980	0.006449
ks_T	0.061634	0.065896	0.074266	0.016436	0.043829	0.034394	0.059656	0.040177	0.089484	0.024806	0.033024	0.019175	0.010501	0.020088	0.072896	0.056460	0.042764	0.035002	0.065287	0.076548	0.028915	0.018566	0.010196	0.060989	0.072395	0.072395	0.013840	0.046388	0.036502	0.062662	0.040913	0.081217	0.024183	0.031787	0.016730	0.007452	0.019468	0.080152	0.059468	0.044715	0.034981	0.055057	0.083498	0.033916	0.015665	0.005627	0.063562	0.070692	0.069326	0.015777	...	0.086112	0.037420	0.017222	0.011116	0.059683	0.067222	0.073033	0.012879	0.044605	0.034867	0.054343	0.043191	0.082142	0.017905	0.031255	0.018847	0.009267	0.021988	0.076174	0.065023	0.040364	0.043349	0.063295	0.081200	0.030470	0.019632	0.009267	0.063397	0.067497	0.066393	0.015140	0.047784	0.031698	0.053304	0.046838	0.080902	0.019871	0.035483	0.020659	0.010093	0.022394	0.075067	0.060558	0.045261	0.038007	0.058666	0.076644	0.035483	0.019871	0.008989
...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...
human_ST_upper	0.082791	0.066656	0.072951	0.012749	0.111414	0.054709	0.049589	0.032810	0.080030	0.019268	0.025079	0.019063	0.007013	0.022010	0.067710	0.062114	0.047611	0.033510	0.052219	0.080702	0.000000	0.000000	0.000000	0.082364	0.066437	0.073391	0.012502	0.112851	0.054252	0.050835	0.031845	0.078539	0.019614	0.024361	0.017966	0.006609	0.022350	0.067405	0.063942	0.048713	0.033838	0.051655	0.080531	0.000000	0.000000	0.000000	0.083261	0.066199	0.074920	0.013477	...	0.081781	0.000000	0.000000	0.000000	0.081470	0.068046	0.070355	0.013078	0.113824	0.056426	0.049966	0.031747	0.078665	0.016032	0.025418	0.018332	0.006834	0.021884	0.066924	0.063147	0.048788	0.034962	0.052911	0.081189	0.000000	0.000000	0.000000	0.082942	0.067364	0.070982	0.012747	0.114370	0.054382	0.050436	0.032196	0.080711	0.016468	0.026638	0.018652	0.007058	0.021877	0.067252	0.064102	0.047521	0.032946	0.051795	0.079558	0.000000	0.000000	0.000000
human_STY_upper	0.082206	0.066688	0.072961	0.012965	0.110244	0.054656	0.049733	0.033379	0.080515	0.019334	0.025206	0.020031	0.007049	0.022131	0.067141	0.062035	0.047677	0.033640	0.052120	0.080289	0.000000	0.000000	0.000000	0.081832	0.066727	0.073458	0.012827	0.111061	0.053752	0.050734	0.032307	0.078615	0.019802	0.024967	0.018880	0.006679	0.022410	0.067327	0.063718	0.048352	0.034185	0.051743	0.080624	0.000000	0.000000	0.000000	0.082377	0.066193	0.074272	0.013311	...	0.081579	0.000000	0.000000	0.000000	0.080805	0.067923	0.070240	0.013196	0.112567	0.056073	0.050258	0.032331	0.079073	0.016362	0.025728	0.019064	0.006917	0.021705	0.066891	0.062991	0.048728	0.035155	0.052847	0.081146	0.000000	0.000000	0.000000	0.082350	0.067688	0.070582	0.012733	0.112743	0.054403	0.050360	0.032901	0.080631	0.016863	0.026965	0.019844	0.007094	0.021870	0.067153	0.063812	0.047677	0.032840	0.052027	0.079465	0.000000	0.000000	0.000000

20 rows × 943 columns

---

get_cddm

 get_cddm ()

Get the CDDM dataset.

Data.get_cddm()

	-20P	-20G	-20A	-20C	-20S	-20T	-20V	-20I	-20L	-20M	-20F	-20Y	-20W	-20H	-20K	-20R	-20Q	-20N	-20D	-20E	-20s	-20t	-20y	-19P	-19G	-19A	-19C	-19S	-19T	-19V	-19I	-19L	-19M	-19F	-19Y	-19W	-19H	-19K	-19R	-19Q	-19N	-19D	-19E	-19s	-19t	-19y	-18P	-18G	-18A	-18C	...	18E	18s	18t	18y	19P	19G	19A	19C	19S	19T	19V	19I	19L	19M	19F	19Y	19W	19H	19K	19R	19Q	19N	19D	19E	19s	19t	19y	20P	20G	20A	20C	20S	20T	20V	20I	20L	20M	20F	20Y	20W	20H	20K	20R	20Q	20N	20D	20E	20s	20t	20y
SRC	0.054538	0.081380	0.060077	0.012356	0.036216	0.032382	0.055816	0.052407	0.083511	0.023434	0.031530	0.023008	0.005965	0.018747	0.082659	0.058372	0.051555	0.039625	0.059651	0.071155	0.022582	0.020452	0.022582	0.048428	0.075616	0.085387	0.017417	0.035684	0.029737	0.056500	0.052676	0.079864	0.024214	0.032285	0.019966	0.011895	0.019541	0.081563	0.061597	0.044605	0.036534	0.064146	0.071793	0.025064	0.012744	0.012744	0.054968	0.069345	0.066808	0.015222	...	0.080938	0.030075	0.011057	0.010615	0.052375	0.071460	0.064359	0.017754	0.047048	0.035508	0.052375	0.050599	0.091434	0.024856	0.041278	0.015535	0.011096	0.015979	0.064802	0.066134	0.047048	0.035508	0.062583	0.074123	0.028407	0.011540	0.018198	0.05830	0.085447	0.064976	0.012906	0.041834	0.039163	0.043169	0.050734	0.074766	0.032488	0.040053	0.018692	0.008456	0.013351	0.076992	0.060970	0.037383	0.036938	0.052960	0.086337	0.025367	0.015576	0.023142
EPHA3	0.044276	0.088013	0.065335	0.008639	0.037797	0.036717	0.072354	0.048596	0.075594	0.026998	0.031317	0.022678	0.011339	0.021598	0.084233	0.059395	0.046436	0.036177	0.059935	0.064255	0.023758	0.018898	0.015659	0.047875	0.064551	0.087144	0.016138	0.031737	0.039806	0.051103	0.046799	0.080151	0.026358	0.035503	0.015600	0.010221	0.023669	0.090909	0.060785	0.042496	0.033889	0.067240	0.079613	0.020979	0.011296	0.016138	0.047696	0.060557	0.057878	0.018221	...	0.076362	0.039304	0.017967	0.006738	0.050197	0.070502	0.067682	0.020305	0.029329	0.039481	0.053017	0.049069	0.095319	0.027637	0.038917	0.016920	0.011280	0.016920	0.071066	0.061478	0.039481	0.037225	0.062606	0.083474	0.029893	0.011844	0.016356	0.04918	0.084228	0.064443	0.017524	0.031656	0.038440	0.047484	0.062747	0.070661	0.031656	0.042962	0.017524	0.007914	0.014132	0.083098	0.059356	0.031091	0.033917	0.056529	0.100622	0.025438	0.013567	0.015828
...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...
MAST2	0.046512	0.116279	0.069767	0.000000	0.023256	0.069767	0.069767	0.000000	0.046512	0.046512	0.023256	0.000000	0.000000	0.162791	0.023256	0.023256	0.023256	0.000000	0.046512	0.139535	0.023256	0.023256	0.023256	0.023256	0.162791	0.093023	0.000000	0.046512	0.046512	0.023256	0.046512	0.093023	0.000000	0.046512	0.046512	0.000000	0.093023	0.023256	0.046512	0.023256	0.000000	0.046512	0.116279	0.023256	0.000000	0.000000	0.023256	0.023256	0.093023	0.000000	...	0.146341	0.000000	0.000000	0.000000	0.000000	0.048780	0.121951	0.024390	0.073171	0.048780	0.048780	0.024390	0.073171	0.000000	0.146341	0.000000	0.000000	0.000000	0.097561	0.048780	0.000000	0.048780	0.073171	0.073171	0.048780	0.000000	0.000000	0.00000	0.024390	0.048780	0.024390	0.024390	0.097561	0.170732	0.024390	0.048780	0.048780	0.024390	0.000000	0.073171	0.000000	0.048780	0.219512	0.000000	0.048780	0.024390	0.024390	0.024390	0.000000	0.000000
BRAF	0.095238	0.071429	0.047619	0.000000	0.095238	0.047619	0.071429	0.000000	0.095238	0.047619	0.000000	0.000000	0.000000	0.023810	0.023810	0.071429	0.023810	0.023810	0.095238	0.095238	0.047619	0.000000	0.023810	0.071429	0.047619	0.023810	0.000000	0.000000	0.047619	0.000000	0.071429	0.047619	0.000000	0.023810	0.071429	0.000000	0.023810	0.095238	0.071429	0.000000	0.071429	0.023810	0.166667	0.119048	0.023810	0.000000	0.047619	0.071429	0.071429	0.000000	...	0.025000	0.025000	0.025000	0.000000	0.025000	0.075000	0.025000	0.000000	0.125000	0.050000	0.050000	0.025000	0.050000	0.050000	0.000000	0.025000	0.000000	0.000000	0.075000	0.100000	0.025000	0.050000	0.050000	0.050000	0.100000	0.050000	0.000000	0.02500	0.075000	0.100000	0.000000	0.075000	0.100000	0.100000	0.050000	0.050000	0.000000	0.000000	0.000000	0.025000	0.000000	0.075000	0.075000	0.025000	0.025000	0.075000	0.075000	0.050000	0.000000	0.000000

328 rows × 943 columns

---

get_cddm_upper

 get_cddm_upper ()

Get the CDDM dataset of all uppercase sequence.

Data.get_cddm_upper()

	-20P	-20G	-20A	-20C	-20S	-20T	-20V	-20I	-20L	-20M	-20F	-20Y	-20W	-20H	-20K	-20R	-20Q	-20N	-20D	-20E	-20s	-20t	-20y	-19P	-19G	-19A	-19C	-19S	-19T	-19V	-19I	-19L	-19M	-19F	-19Y	-19W	-19H	-19K	-19R	-19Q	-19N	-19D	-19E	-19s	-19t	-19y	-18P	-18G	-18A	-18C	...	18E	18s	18t	18y	19P	19G	19A	19C	19S	19T	19V	19I	19L	19M	19F	19Y	19W	19H	19K	19R	19Q	19N	19D	19E	19s	19t	19y	20P	20G	20A	20C	20S	20T	20V	20I	20L	20M	20F	20Y	20W	20H	20K	20R	20Q	20N	20D	20E	20s	20t	20y
SRC	0.054538	0.081380	0.060077	0.012356	0.058798	0.052833	0.055816	0.052407	0.083511	0.023434	0.031530	0.045590	0.005965	0.018747	0.082659	0.058372	0.051555	0.039625	0.059651	0.071155	0.0	0.0	0.0	0.048428	0.075616	0.085387	0.017417	0.060748	0.042481	0.056500	0.052676	0.079864	0.024214	0.032285	0.032710	0.011895	0.019541	0.081563	0.061597	0.044605	0.036534	0.064146	0.071793	0.0	0.0	0.0	0.054968	0.069345	0.066808	0.015222	...	0.080938	0.0	0.0	0.0	0.052375	0.071460	0.064359	0.017754	0.075455	0.047048	0.052375	0.050599	0.091434	0.024856	0.041278	0.033733	0.011096	0.015979	0.064802	0.066134	0.047048	0.035508	0.062583	0.074123	0.0	0.0	0.0	0.05830	0.085447	0.064976	0.012906	0.067201	0.054740	0.043169	0.050734	0.074766	0.032488	0.040053	0.041834	0.008456	0.013351	0.076992	0.060970	0.037383	0.036938	0.052960	0.086337	0.0	0.0	0.0
EPHA3	0.044276	0.088013	0.065335	0.008639	0.061555	0.055616	0.072354	0.048596	0.075594	0.026998	0.031317	0.038337	0.011339	0.021598	0.084233	0.059395	0.046436	0.036177	0.059935	0.064255	0.0	0.0	0.0	0.047875	0.064551	0.087144	0.016138	0.052717	0.051103	0.051103	0.046799	0.080151	0.026358	0.035503	0.031737	0.010221	0.023669	0.090909	0.060785	0.042496	0.033889	0.067240	0.079613	0.0	0.0	0.0	0.047696	0.060557	0.057878	0.018221	...	0.076362	0.0	0.0	0.0	0.050197	0.070502	0.067682	0.020305	0.059222	0.051325	0.053017	0.049069	0.095319	0.027637	0.038917	0.033277	0.011280	0.016920	0.071066	0.061478	0.039481	0.037225	0.062606	0.083474	0.0	0.0	0.0	0.04918	0.084228	0.064443	0.017524	0.057094	0.052007	0.047484	0.062747	0.070661	0.031656	0.042962	0.033352	0.007914	0.014132	0.083098	0.059356	0.031091	0.033917	0.056529	0.100622	0.0	0.0	0.0
...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...
MAST2	0.046512	0.116279	0.069767	0.000000	0.046512	0.093023	0.069767	0.000000	0.046512	0.046512	0.023256	0.023256	0.000000	0.162791	0.023256	0.023256	0.023256	0.000000	0.046512	0.139535	0.0	0.0	0.0	0.023256	0.162791	0.093023	0.000000	0.069767	0.046512	0.023256	0.046512	0.093023	0.000000	0.046512	0.046512	0.000000	0.093023	0.023256	0.046512	0.023256	0.000000	0.046512	0.116279	0.0	0.0	0.0	0.023256	0.023256	0.093023	0.000000	...	0.146341	0.0	0.0	0.0	0.000000	0.048780	0.121951	0.024390	0.121951	0.048780	0.048780	0.024390	0.073171	0.000000	0.146341	0.000000	0.000000	0.000000	0.097561	0.048780	0.000000	0.048780	0.073171	0.073171	0.0	0.0	0.0	0.00000	0.024390	0.048780	0.024390	0.048780	0.097561	0.170732	0.024390	0.048780	0.048780	0.024390	0.000000	0.073171	0.000000	0.048780	0.219512	0.000000	0.048780	0.024390	0.024390	0.0	0.0	0.0
BRAF	0.095238	0.071429	0.047619	0.000000	0.142857	0.047619	0.071429	0.000000	0.095238	0.047619	0.000000	0.023810	0.000000	0.023810	0.023810	0.071429	0.023810	0.023810	0.095238	0.095238	0.0	0.0	0.0	0.071429	0.047619	0.023810	0.000000	0.119048	0.071429	0.000000	0.071429	0.047619	0.000000	0.023810	0.071429	0.000000	0.023810	0.095238	0.071429	0.000000	0.071429	0.023810	0.166667	0.0	0.0	0.0	0.047619	0.071429	0.071429	0.000000	...	0.025000	0.0	0.0	0.0	0.025000	0.075000	0.025000	0.000000	0.225000	0.100000	0.050000	0.025000	0.050000	0.050000	0.000000	0.025000	0.000000	0.000000	0.075000	0.100000	0.025000	0.050000	0.050000	0.050000	0.0	0.0	0.0	0.02500	0.075000	0.100000	0.000000	0.125000	0.100000	0.100000	0.050000	0.050000	0.000000	0.000000	0.000000	0.025000	0.000000	0.075000	0.075000	0.025000	0.025000	0.075000	0.075000	0.0	0.0	0.0

328 rows × 943 columns

---

get_cddm_LO

 get_cddm_LO ()

Get CDDM Log-odds data with ‘STY’ background.

Data.get_cddm_LO()

	-20P	-20G	-20A	-20C	-20S	-20T	-20V	-20I	-20L	-20M	-20F	-20Y	-20W	-20H	-20K	-20R	-20Q	-20N	-20D	-20E	-20s	-20t	-20y	-19P	-19G	-19A	-19C	-19S	-19T	-19V	-19I	-19L	-19M	-19F	-19Y	-19W	-19H	-19K	-19R	-19Q	-19N	-19D	-19E	-19s	-19t	-19y	-18P	-18G	-18A	-18C	...	18E	18s	18t	18y	19P	19G	19A	19C	19S	19T	19V	19I	19L	19M	19F	19Y	19W	19H	19K	19R	19Q	19N	19D	19E	19s	19t	19y	20P	20G	20A	20C	20S	20T	20V	20I	20L	20M	20F	20Y	20W	20H	20K	20R	20Q	20N	20D	20E	20s	20t	20y
SRC	-0.298965	0.245926	-0.306472	-0.315249	-0.436393	-0.216885	0.039840	0.331979	0.006587	0.074104	0.026464	0.300781	-0.484863	-0.234235	0.238737	0.035866	0.173786	0.112172	0.062717	-0.187118	-0.598455	0.418275	1.228850	-0.394990	0.116437	0.241674	0.270796	-0.536063	-0.295952	0.089650	0.359646	-0.082026	0.078067	0.157708	0.196729	0.443758	-0.096374	0.191619	-0.036922	-0.065461	-0.093194	0.198348	-0.149715	-0.521873	-0.217518	0.779107	-0.209860	0.005564	-0.061876	0.087346	...	-0.024870	-0.295180	-0.362786	0.382054	-0.265140	0.085462	-0.135241	0.341197	-0.144617	-0.081201	-0.016493	0.302052	0.137508	0.404226	0.299088	-0.066971	0.165626	-0.468907	-0.152143	0.097919	0.055576	-0.162821	0.125989	-0.139554	-0.371114	-0.369706	1.148641	-0.219858	0.305918	-0.086212	-0.217325	-0.300629	0.133833	-0.379744	0.266731	-0.143992	0.691717	0.259364	-0.031653	-0.018293	-0.661728	0.104673	0.041005	-0.236473	-0.001987	-0.082064	0.136414	-0.538512	0.006337	1.268341
EPHA3	-0.599679	0.358959	-0.185427	-0.831496	-0.374767	-0.035616	0.414240	0.223052	-0.137106	0.278334	0.016725	0.279945	0.441832	-0.030005	0.265960	0.060927	0.022921	-0.019164	0.069583	-0.334271	-0.525210	0.304329	0.700644	-0.411559	-0.111818	0.271060	0.160722	-0.705150	0.124806	-0.055189	0.188981	-0.076858	0.200475	0.294762	-0.159291	0.224919	0.180083	0.348124	-0.056065	-0.135338	-0.201591	0.266315	-0.000554	-0.778526	-0.391503	1.119694	-0.414603	-0.189918	-0.268878	0.346775	...	-0.108833	0.090914	0.337630	-0.273672	-0.326395	0.065984	-0.062604	0.534849	-0.826443	0.071809	0.001107	0.257761	0.197541	0.557236	0.214109	0.056291	0.189352	-0.386287	-0.019033	-0.007411	-0.197407	-0.094701	0.126509	0.031850	-0.297539	-0.332173	0.994725	-0.465271	0.285190	-0.098081	0.223956	-0.702797	0.106930	-0.242274	0.573323	-0.225459	0.654314	0.360504	-0.124708	-0.113799	-0.579696	0.214783	0.002284	-0.502364	-0.125070	0.012040	0.357301	-0.534483	-0.192918	0.720322
...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...
MAST2	-0.528628	0.760762	-0.090724	-20.552054	-1.075446	0.890487	0.361717	-21.989358	-0.837785	1.063081	-0.412652	-20.832929	-19.671043	2.884025	-1.590838	-1.291829	-0.974740	-21.805810	-0.296229	0.784477	-0.556038	0.603650	1.271267	-1.453246	1.222693	0.365256	-20.461283	-0.153747	0.349399	-1.190998	0.180083	0.138019	-21.129349	0.684414	1.416774	-19.738124	2.154697	-1.618709	-0.442197	-1.005072	-21.893985	-0.265423	0.545967	-0.629882	-20.498936	-19.502311	-1.450868	-1.570628	0.415703	-20.450380	...	0.829586	-21.815323	-20.439323	-19.635590	-22.585576	-0.465375	0.786858	0.799349	0.492504	0.376951	-0.119057	-0.750758	-0.183951	-20.840923	2.124971	-20.634048	-19.916025	-21.076626	0.438112	-0.341170	-22.110138	0.295330	0.351480	-0.158216	0.408965	-20.507940	-19.646705	-22.694922	-1.502811	-0.499805	0.700926	-1.078985	1.450633	1.603930	-0.789927	-0.760077	1.278125	-0.456257	-20.865612	3.094973	-21.010260	-0.553723	1.889130	-22.070431	0.399205	-1.200649	-1.687266	-0.595170	-20.564588	-19.873740
BRAF	0.505319	0.057744	-0.641739	-20.552054	0.958501	0.339472	0.395665	-21.989358	0.196162	1.097028	-21.561812	-20.832929	-19.671043	0.110618	-1.556891	0.327081	-0.940792	-0.622702	0.737718	0.233462	0.477909	-20.545511	1.305214	0.165663	-0.550715	-1.600796	-20.461283	-22.302907	0.383346	-22.340159	0.798993	-0.828033	-21.129349	-0.281638	2.035683	-19.738124	0.188645	0.415238	0.176712	-22.154233	0.874085	-1.231475	1.065341	1.725993	0.684172	-19.502311	-0.416921	0.048281	0.034613	-20.450380	...	-1.719752	-0.561825	0.814174	-19.635590	-1.332079	0.155211	-1.499446	-20.418525	1.265094	0.412575	-0.083433	-0.715134	-0.733289	1.412574	-21.677864	0.619449	-19.916025	-21.076626	0.058698	0.694454	-0.856641	0.330954	-0.197858	-0.707554	1.444589	1.745557	-19.646705	-1.441424	0.117775	0.535819	-20.516947	0.541601	1.486257	0.832199	0.245697	-0.724453	-20.939748	-21.674130	-20.865612	1.545635	-21.010260	0.066864	0.339792	-0.816934	-0.565170	0.419937	-0.066680	0.440454	-20.564588	-19.873740

328 rows × 943 columns

---

get_cddm_LO_upper

 get_cddm_LO_upper ()

Get CDDM Log-odds data of all-uppercase sequence with ‘STY’ background.

Data.get_cddm_LO_upper()

	-20P	-20G	-20A	-20C	-20S	-20T	-20V	-20I	-20L	-20M	-20F	-20Y	-20W	-20H	-20K	-20R	-20Q	-20N	-20D	-20E	-20s	-20t	-20y	-19P	-19G	-19A	-19C	-19S	-19T	-19V	-19I	-19L	-19M	-19F	-19Y	-19W	-19H	-19K	-19R	-19Q	-19N	-19D	-19E	-19s	-19t	-19y	-18P	-18G	-18A	-18C	...	18E	18s	18t	18y	19P	19G	19A	19C	19S	19T	19V	19I	19L	19M	19F	19Y	19W	19H	19K	19R	19Q	19N	19D	19E	19s	19t	19y	20P	20G	20A	20C	20S	20T	20V	20I	20L	20M	20F	20Y	20W	20H	20K	20R	20Q	20N	20D	20E	20s	20t	20y
SRC	-0.298965	0.245926	-0.306472	-0.315249	-0.500805	-0.002884	0.039840	0.331979	0.006587	0.074104	0.026464	0.687254	-0.484863	-0.234235	0.238737	0.035866	0.173786	0.112172	0.062717	-0.187118	0.0	0.0	0.0	-0.394990	0.116437	0.241674	0.270796	-0.530225	-0.272866	0.089650	0.359646	-0.082026	0.078067	0.157708	0.396654	0.443758	-0.096374	0.191619	-0.036922	-0.065461	-0.093194	0.198348	-0.149715	0.0	0.0	0.0	-0.209860	0.005564	-0.061876	0.087346	...	-0.024870	0.0	0.0	0.0	-0.265140	0.085462	-0.135241	0.341197	-0.234110	-0.157485	-0.016493	0.302052	0.137508	0.404226	0.299088	0.462480	0.165626	-0.468907	-0.152143	0.097919	0.055576	-0.162821	0.125989	-0.139554	0.0	0.0	0.0	-0.219858	0.305918	-0.086212	-0.217325	-0.395092	0.096392	-0.379744	0.266731	-0.143992	0.691717	0.259364	0.542941	-0.018293	-0.661728	0.104673	0.041005	-0.236473	-0.001987	-0.082064	0.136414	0.0	0.0	0.0
EPHA3	-0.599679	0.358959	-0.185427	-0.831496	-0.434706	0.071154	0.414240	0.223052	-0.137106	0.278334	0.016725	0.437268	0.441832	-0.030005	0.265960	0.060927	0.022921	-0.019164	0.069583	-0.334271	0.0	0.0	0.0	-0.411559	-0.111818	0.271060	0.160722	-0.734799	-0.006279	-0.055189	0.188981	-0.076858	0.200475	0.294762	0.353099	0.224919	0.180083	0.348124	-0.056065	-0.135338	-0.201591	0.266315	-0.000554	0.0	0.0	0.0	-0.414603	-0.189918	-0.268878	0.346775	...	-0.108833	0.0	0.0	0.0	-0.326395	0.065984	-0.062604	0.534849	-0.583601	-0.031956	0.001107	0.257761	0.197541	0.557236	0.214109	0.442850	0.189352	-0.386287	-0.019033	-0.007411	-0.197407	-0.094701	0.126509	0.031850	0.0	0.0	0.0	-0.465271	0.285190	-0.098081	0.223956	-0.630220	0.022506	-0.242274	0.573323	-0.225459	0.654314	0.360504	0.216062	-0.113799	-0.579696	0.214783	0.002284	-0.502364	-0.125070	0.012040	0.357301	0.0	0.0	0.0
...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...
MAST2	-0.528628	0.760762	-0.090724	-20.552054	-0.838992	0.813257	0.361717	-21.989358	-0.837785	1.063081	-0.412652	-0.283875	-19.671043	2.884025	-1.590838	-1.291829	-0.974740	-21.805810	-0.296229	0.784477	0.0	0.0	0.0	-1.453246	1.222693	0.365256	-20.461283	-0.330500	-0.142089	-1.190998	0.180083	0.138019	-21.129349	0.684414	0.904502	-19.738124	2.154697	-1.618709	-0.442197	-1.005072	-21.893985	-0.265423	0.545967	0.0	0.0	0.0	-1.450868	-1.570628	0.415703	-20.450380	...	0.829586	0.0	0.0	0.0	-22.585576	-0.465375	0.786858	0.799349	0.458506	-0.105326	-0.119057	-0.750758	-0.183951	-20.840923	2.124971	-21.223241	-19.916025	-21.076626	0.438112	-0.341170	-22.110138	0.295330	0.351480	-0.158216	0.0	0.0	0.0	-22.694922	-1.502811	-0.499805	0.700926	-0.857265	0.930110	1.603930	-0.789927	-0.760077	1.278125	-0.456257	-21.453288	3.094973	-21.010260	-0.553723	1.889130	-22.070431	0.399205	-1.200649	-1.687266	0.0	0.0	0.0
BRAF	0.505319	0.057744	-0.641739	-20.552054	0.779918	-0.152796	0.395665	-21.989358	0.196162	1.097028	-21.561812	-0.249928	-19.671043	0.110618	-1.556891	0.327081	-0.940792	-0.622702	0.737718	0.233462	0.0	0.0	0.0	0.165663	-0.550715	-1.600796	-20.461283	0.440412	0.476821	-22.340159	0.798993	-0.828033	-21.129349	-0.281638	1.523411	-19.738124	0.188645	0.415238	0.176712	-22.154233	0.874085	-1.231475	1.065341	0.0	0.0	0.0	-0.416921	0.048281	0.034613	-20.450380	...	-1.719752	0.0	0.0	0.0	-1.332079	0.155211	-1.499446	-20.418525	1.342127	0.930298	-0.083433	-0.715134	-0.733289	1.412574	-21.677864	0.030256	-19.916025	-21.076626	0.058698	0.694454	-0.856641	0.330954	-0.197858	-0.707554	0.0	0.0	0.0	-1.441424	0.117775	0.535819	-20.516947	0.500287	0.965734	0.832199	0.245697	-0.724453	-20.939748	-21.674130	-21.453288	1.545635	-21.010260	0.066864	0.339792	-0.816934	-0.565170	0.419937	-0.066680	0.0	0.0	0.0

328 rows × 943 columns

Amino acid

---

source

Data.get_aa_info

 Data.get_aa_info ()

Get amino acid information.

Data.get_aa_info()

	Name	SMILES	MW	pKa1	pKb2	pKx3	pl4	H	VSC	P1	P2	SASA	NCISC	phospho
aa
A	Alanine	C[C@@H](C(=O)O)N	89.10	2.34	9.69	NaN	6.00	0.62	27.5	8.1	0.046	1.181	0.007187	0
C	Cysteine	C([C@@H](C(=O)O)N)S	121.16	1.96	10.28	8.18	5.07	0.29	44.6	5.5	0.128	1.461	-0.036610	0
...	...	...	...	...	...	...	...	...	...	...	...	...	...	...
Kac	Acetyllysine	CC(=O)NCCCC[C@H](N)C(=O)O	188.23	NaN	NaN	NaN	NaN	NaN	NaN	NaN	NaN	NaN	NaN	0
Kme3	Trimethyllysine	C[N+](C)(C)CCCC[C@H](N)C(=O)O	189.28	NaN	NaN	NaN	NaN	NaN	NaN	NaN	NaN	NaN	NaN	0

25 rows × 14 columns

---

source

Data.get_aa_rdkit

 Data.get_aa_rdkit ()

Get RDKit representations of amino acids.

Data.get_aa_rdkit()

	MaxAbsEStateIndex	MinAbsEStateIndex	MinEStateIndex	qed	MolWt	MinPartialCharge	MaxAbsPartialCharge	FpDensityMorgan1	FpDensityMorgan2	FpDensityMorgan3	BCUT2D_MWHI	BCUT2D_MWLOW	BCUT2D_CHGHI	BCUT2D_CHGLO	BCUT2D_LOGPHI	BCUT2D_LOGPLOW	BCUT2D_MRLOW	AvgIpc	BalabanJ	BertzCT	Chi0n	Chi0v	Chi1	Chi1v	Chi2n	Chi2v	Chi3n	Chi3v	Chi4n	Chi4v	HallKierAlpha	Ipc	Kappa1	Kappa2	Kappa3	PEOE_VSA1	PEOE_VSA10	PEOE_VSA11	PEOE_VSA12	PEOE_VSA14	PEOE_VSA2	PEOE_VSA3	PEOE_VSA4	PEOE_VSA6	PEOE_VSA7	PEOE_VSA8	PEOE_VSA9	SMR_VSA1	SMR_VSA10	SMR_VSA3	...	SlogP_VSA2	SlogP_VSA3	SlogP_VSA4	SlogP_VSA5	SlogP_VSA8	TPSA	EState_VSA1	EState_VSA10	EState_VSA2	EState_VSA3	EState_VSA4	EState_VSA5	EState_VSA6	EState_VSA7	EState_VSA8	EState_VSA9	VSA_EState10	VSA_EState2	VSA_EState3	VSA_EState4	VSA_EState5	VSA_EState6	VSA_EState7	VSA_EState8	VSA_EState9	FractionCSP3	NHOHCount	NOCount	NumAliphaticHeterocycles	NumAromaticCarbocycles	NumAromaticHeterocycles	NumAromaticRings	NumHAcceptors	NumHDonors	NumHeteroatoms	NumRotatableBonds	RingCount	MolLogP	fr_Al_COO	fr_Al_OH	fr_Ar_N	fr_C_O	fr_NH0	fr_NH1	fr_NH2	fr_SH	fr_imidazole	fr_priamide	fr_sulfide	fr_unbrch_alkane
aa
A	9.574074	0.731481	-0.962963	0.451352	89.094	-0.480094	0.480094	2.000000	2.166667	2.166667	16.367425	10.385341	1.990289	-1.897069	1.676610	-2.250004	-0.137563	1.360964	3.257586	59.813538	3.510162	3.510162	2.642734	1.627090	1.126913	1.126913	0.389528	0.389528	0.000000	0.000000	-0.57	13.609640	5.43	1.767634	1.721545	10.840195	6.041841	0.0	0.00000	5.969305	4.794537	0.0	0.000000	0.0	6.923737	0.000000	0.000000	9.901065	5.969305	0.000000	...	17.117674	4.794537	0.0	6.923737	0.0	63.32	12.011146	4.794537	0.000000	0.000000	0.000000	6.923737	0.0	0.0	0.000000	10.840195	0.000000	9.574074	7.865741	4.835648	-0.962963	-0.731481	0.000000	1.418981	0.000000	0.666667	3.0	3.0	0.0	0.0	0.0	0.0	2.0	2.0	3.0	1.0	0.0	-0.5818	1.0	0.0	0.0	1.0	0.0	0.0	1.0	0.0	0.0	0.0	0.0	0.0
C	9.756435	0.189815	-1.004630	0.424382	121.161	-0.480064	0.480064	2.000000	2.428571	2.428571	32.116867	10.376545	2.056705	-1.960761	1.795249	-2.309520	-0.137419	1.645711	3.343417	75.335159	3.664483	4.558910	3.180739	2.406671	1.127305	1.492453	0.513894	0.907286	0.078093	0.234278	-0.22	27.977093	6.78	2.872925	2.472042	10.840195	6.041841	0.0	0.00000	5.969305	4.794537	0.0	12.628789	0.0	0.000000	5.752854	0.000000	9.901065	18.598094	0.000000	...	22.870527	4.794537	0.0	0.000000	0.0	63.32	12.011146	4.794537	5.752854	0.000000	0.000000	0.000000	0.0	0.0	12.628789	10.840195	3.649043	9.756435	8.008102	4.939815	-0.814815	-0.816358	0.000000	0.000000	0.000000	0.666667	3.0	3.0	0.0	0.0	0.0	0.0	3.0	3.0	4.0	2.0	0.0	-0.6719	1.0	0.0	0.0	1.0	0.0	0.0	1.0	1.0	0.0	0.0	0.0	0.0
...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...
Kac	10.419084	0.067099	-0.972660	0.499039	188.227	-0.480086	0.480086	1.461538	2.076923	2.538462	16.367568	10.120530	2.091144	-2.051830	1.973906	-2.297932	-0.138286	2.022803	3.255326	182.227953	7.746838	7.746838	6.036581	4.265665	2.923476	2.923476	1.633048	1.633048	0.877145	0.877145	-1.10	519.860388	11.90	6.419740	7.266972	16.156983	6.041841	0.0	5.90718	5.969305	9.589074	0.0	0.000000	0.0	19.262465	13.468494	0.000000	14.695602	11.876485	5.316789	...	29.569610	9.589074	0.0	26.186202	0.0	92.42	12.011146	9.589074	5.907180	19.386400	6.420822	6.923737	0.0	0.0	5.316789	10.840195	0.000000	20.695587	11.053315	5.271623	-1.039759	-0.780252	1.933755	2.032398	0.000000	0.750000	4.0	5.0	0.0	0.0	0.0	0.0	3.0	3.0	5.0	6.0	0.0	-0.2953	1.0	0.0	0.0	2.0	0.0	1.0	1.0	0.0	0.0	0.0	0.0	2.0
Kme3	10.361469	0.578704	-0.897918	0.465620	189.279	-0.480086	0.480086	1.384615	1.923077	2.307692	16.367548	10.113915	2.114811	-2.232682	2.021932	-2.354302	-0.870130	1.951693	3.414940	163.487862	8.785803	8.785803	5.827186	4.615856	4.454444	4.454444	1.911260	1.911260	1.073871	1.073871	-0.61	396.193584	12.39	5.191317	7.741185	15.323226	6.041841	0.0	0.00000	5.969305	4.794537	0.0	0.000000	0.0	19.262465	0.000000	27.687772	14.384095	5.969305	0.000000	...	49.288477	4.794537	0.0	19.262465	0.0	63.32	12.011146	4.794537	0.000000	6.420822	23.869431	0.000000	0.0	0.0	21.143016	10.840195	0.000000	10.361469	8.512288	5.361669	-0.897918	-0.687529	2.502778	1.061844	6.366441	0.888889	3.0	4.0	0.0	0.0	0.0	0.0	2.0	2.0	4.0	6.0	0.0	0.2748	1.0	0.0	0.0	1.0	1.0	0.0	1.0	0.0	0.0	0.0	0.0	1.0

25 rows × 106 columns

---

source

Data.get_aa_morgan

 Data.get_aa_morgan ()

Get Morgan fingerprint representations of amino acids.

Data.get_aa_morgan()

	morgan_1	morgan_11	morgan_24	morgan_27	morgan_70	morgan_74	morgan_79	morgan_80	morgan_82	morgan_116	morgan_118	morgan_119	morgan_132	morgan_140	morgan_172	morgan_192	morgan_197	morgan_210	morgan_222	morgan_227	morgan_229	morgan_245	morgan_280	morgan_283	morgan_294	morgan_295	morgan_305	morgan_310	morgan_319	morgan_321	morgan_322	morgan_328	morgan_362	morgan_364	morgan_376	morgan_378	morgan_394	morgan_412	morgan_414	morgan_425	morgan_429	morgan_473	morgan_482	morgan_486	morgan_545	morgan_550	morgan_553	morgan_575	morgan_592	morgan_623	...	morgan_1431	morgan_1451	morgan_1452	morgan_1456	morgan_1459	morgan_1507	morgan_1517	morgan_1544	morgan_1558	morgan_1564	morgan_1573	morgan_1595	morgan_1602	morgan_1607	morgan_1633	morgan_1644	morgan_1685	morgan_1693	morgan_1716	morgan_1719	morgan_1736	morgan_1737	morgan_1750	morgan_1751	morgan_1752	morgan_1754	morgan_1758	morgan_1773	morgan_1778	morgan_1783	morgan_1785	morgan_1791	morgan_1819	morgan_1838	morgan_1840	morgan_1844	morgan_1847	morgan_1849	morgan_1873	morgan_1876	morgan_1879	morgan_1882	morgan_1898	morgan_1911	morgan_1912	morgan_1926	morgan_1937	morgan_1942	morgan_1946	morgan_1970
aa
A	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	...	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0
C	1	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	...	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	1	0	0	0	0
...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...
Kac	1	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	1	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	...	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	1	0	0	0	0	0	0
Kme3	1	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	1	1	0	0	0	0	0	0	1	0	0	0	0	...	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0

25 rows × 168 columns

Phosphoproteomics

---

source

Data.get_cptac_ensembl_site

 Data.get_cptac_ensembl_site ()

Get CPTAC dataset with unique EnsemblProteinID+site.

Data.get_cptac_ensembl_site()

	gene	site	site_seq	protein	gene_name	gene_site	protein_site
0	ENSG00000003056.8	S267	DDQLGEESEERDDHL	ENSP00000000412.3	M6PR	M6PR_S267	ENSP00000000412_S267
1	ENSG00000003056.8	S267	DDQLGEESEERDDHL	ENSP00000440488.2	M6PR	M6PR_S267	ENSP00000440488_S267
...	...	...	...	...	...	...	...
488584	ENSG00000143631.11	S648	ASRNHHGSAQEQSRD	ENSP00000357789.1	FLG	FLG_S648	ENSP00000357789_S648
488585	ENSG00000143520.6	S2310	DTTRHGHSGYGQSTQ	ENSP00000373370.4	FLG2	FLG2_S2310	ENSP00000373370_S2310

488586 rows × 7 columns

---

source

Data.get_cptac_unique_site

 Data.get_cptac_unique_site ()

Get CPTAC dataset with unique site sequences.

Data.get_cptac_unique_site()

	site_seq	gene_site	num_site	acceptor
0	AAAAAAASFPWSAFG	ZBTB7A_S182	1	S
1	AAAAAAASGAAGGGG	INTS3_S16	1	S
...	...	...	...	...
125474	______MYPAGPPAG	TIGD5_Y2	1	Y
125475	_______SPASLPLA	RFLNB_S1	1	S

125476 rows × 4 columns

---

source

Data.get_cptac_gene_site

 Data.get_cptac_gene_site ()

Get CPTAC dataset with unique Gene+site.

Data.get_cptac_gene_site()

	gene	site	site_seq	protein	gene_name	gene_site	protein_site
0	ENSG00000003056.8	S267	DDQLGEESEERDDHL	ENSP00000000412.3	M6PR	M6PR_S267	ENSP00000000412_S267
1	ENSG00000048028.11	S1053	PPTIRPNSPYDLCSR	ENSP00000003302.4	USP28	USP28_S1053	ENSP00000003302_S1053
...	...	...	...	...	...	...	...
126223	ENSG00000143631.11	S648	ASRNHHGSAQEQSRD	ENSP00000357789.1	FLG	FLG_S648	ENSP00000357789_S648
126224	ENSG00000143520.6	S2310	DTTRHGHSGYGQSTQ	ENSP00000373370.4	FLG2	FLG2_S2310	ENSP00000373370_S2310

126225 rows × 7 columns

---

source

Data.get_psp_human_site

 Data.get_psp_human_site ()

Get PhosphoSitePlus human dataset (Gene+site).

Data.get_psp_human_site()

	gene	protein	uniprot	site	gene_site	SITE_GRP_ID	species	site_seq	LT_LIT	MS_LIT	MS_CST	CST_CAT#	Ambiguous_Site
0	YWHAB	14-3-3 beta	P31946	T2	YWHAB_T2	15718712	human	______MtMDksELV	NaN	3.0	1.0	None	0
1	YWHAB	14-3-3 beta	P31946	S6	YWHAB_S6	15718709	human	__MtMDksELVQkAk	NaN	8.0	NaN	None	0
...	...	...	...	...	...	...	...	...	...	...	...	...	...
240009	ZZZ3	ZZZ3	Q8IYH5	S677	ZZZ3_S677	23077721	human	yPPEEVEsRRWQKIA	NaN	NaN	1.0	None	0
240010	ZZZ3	ZZZ3	Q8IYH5	S777	ZZZ3_S777	41455930	human	NTAVEDAsDDESIPI	NaN	2.0	NaN	None	0

240011 rows × 13 columns

---

source

Data.get_ochoa_site

 Data.get_ochoa_site ()

Get phosphoproteomics dataset from Ochoa et al.

Data.get_ochoa_site()

	uniprot	position	residue	is_disopred	disopred_score	log10_hotspot_pval_min	isHotspot	uniprot_position	functional_score	current_uniprot	name	gene	Sequence	is_valid	site_seq	gene_site
0	A0A075B6Q4	24	S	1.0	0.91	6.839384	1.0	A0A075B6Q4_24	0.149257	A0A075B6Q4	A0A075B6Q4_HUMAN	None	MDIQKSENEDDSEWEDVDDEKGDSNDDYDSAGLLSDEDCMSVPGKT...	True	VDDEKGDSNDDYDSA	A0A075B6Q4_S24
1	A0A075B6Q4	35	S	1.0	0.87	9.192622	0.0	A0A075B6Q4_35	0.136966	A0A075B6Q4	A0A075B6Q4_HUMAN	None	MDIQKSENEDDSEWEDVDDEKGDSNDDYDSAGLLSDEDCMSVPGKT...	True	YDSAGLLSDEDCMSV	A0A075B6Q4_S35
...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...
112279	V9GYY5	134	T	1.0	0.83	2.055830	0.0	V9GYY5_134	0.187417	V9GYY5	V9GYY5_HUMAN	None	KRDGDDRRPRLVLSFDEEKRREYLTGFHKRKVERKKAAIEEIKQRL...	True	SEEEASSTEKPTKAL	V9GYY5_T134
112280	V9GYY5	138	T	1.0	0.82	0.726611	0.0	V9GYY5_138	0.121025	V9GYY5	V9GYY5_HUMAN	None	KRDGDDRRPRLVLSFDEEKRREYLTGFHKRKVERKKAAIEEIKQRL...	True	ASSTEKPTKALPRKS	V9GYY5_T138

112281 rows × 16 columns

---

source

Data.get_combine_site_psp_ochoa

 Data.get_combine_site_psp_ochoa ()

Get the combined dataset from Ochoa and PhosphoSitePlus.

Data.get_combine_site_psp_ochoa()

	uniprot	gene	site	site_seq	source	AM_pathogenicity	CDDM_upper	CDDM_max_score
0	A0A024R4G9	C19orf48	S20	ITGSRLLSMVPGPAR	psp	NaN	PRKX,AKT1,PKG1,P90RSK,HIPK4,AKT3,HIPK1,PKACB,H...	2.407041
1	A0A075B6Q4	None	S24	VDDEKGDSNDDYDSA	ochoa	NaN	CK2A2,CK2A1,GRK7,GRK5,CK1G1,CK1A,IKKA,CK1G2,CA...	2.295654
...	...	...	...	...	...	...	...	...
121417	V9GYY5	None	T134	SEEEASSTEKPTKAL	ochoa	NaN	ASK1,PERK,EEF2K,MAP2K4,MEKK2,MST1,BMPR1B,OSR1,...	1.832532
121418	V9GYY5	None	T138	ASSTEKPTKALPRKS	ochoa	NaN	ASK1,MEK2,MPSK1,TNIK,PBK,MST2,MINK,NEK4,LKB1,MEK5	1.807565

121419 rows × 8 columns

---

source

Data.get_combine_site_phosphorylated

 Data.get_combine_site_phosphorylated ()

Get the combined phosphorylated dataset from Ochoa and PhosphoSitePlus.

Data.get_combine_site_phosphorylated()

	uniprot	gene	site	site_seq	source	AM_pathogenicity	CDDM	PSPA	CDDM_max_score	PSPA_max_score
0	A0A024R4G9	C19orf48	S20	ITGSRLLsMVPGPAR	psp	NaN	PRKX,PKG1,AKT1,AKT3,HIPK4,P90RSK,PKACB,PKACA,P...	MAPKAPK5,AKT1,RSK3,P70S6K,MAPKAPK3,AKT2,DYRK1A...	2.339278	3.726109
1	A0A075B6Q4	None	S24	VDDEKGDsNDDYDSA	ochoa	NaN	CK2A2,CK2A1,GRK7,GRK5,CK1G1,IKKA,CAMK1D,MARK2,...	CAMK2B,CK2A2,CAMK2A,CK2A1,GRK7,TLK2,FAM20C,CAM...	2.253027	4.940056
...	...	...	...	...	...	...	...	...	...	...
120102	V9GYY5	None	T134	sEEEAsstEKPtKAL	ochoa	NaN	PERK,ASK1,EEF2K,MST1,BMPR1B,PBK,MEKK2,OSR1,MST...	CK1G2,GSK3A,ALPHAK3,GRK1,GRK7,GSK3B,BMPR1B,BMP...	1.723089	7.009429
120103	V9GYY5	None	T138	AsstEKPtKALPRKS	ochoa	NaN	ASK1,PBK,TNIK,MPSK1,MINK,MST2,NEK4,MEK2,MST1,BUB1	CK1G3,CK1G2,CK1A2,CK1D,CK1A,GRK3,PASK,GRK2,CK1...	1.651888	4.350109

120104 rows × 10 columns

---

get_human_site

 get_human_site ()

Get the combined phosphorylated dataset from Ochoa and PhosphoSitePlus (20-length version).

Data.get_human_site()

	substrate_uniprot	substrate_genes	site	source	AM_pathogenicity	substrate_sequence	substrate_species	sub_site	substrate_phosphoseq	position	site_seq
0	A0A024R4G9	C19orf48 MGC13170 hCG_2008493	S20	psp	NaN	MTVLEAVLEIQAITGSRLLSMVPGPARPPGSCWDPTQCTRTWLLSH...	Homo sapiens (Human)	A0A024R4G9_S20	MTVLEAVLEIQAITGSRLLsMVPGPARPPGSCWDPTQCTRTWLLSH...	20	_MTVLEAVLEIQAITGSRLLsMVPGPARPPGSCWDPTQCTR
1	A0A075B6Q4	None	S24	ochoa	NaN	MDIQKSENEDDSEWEDVDDEKGDSNDDYDSAGLLSDEDCMSVPGKT...	Homo sapiens (Human)	A0A075B6Q4_S24	MDIQKSENEDDSEWEDVDDEKGDsNDDYDSAGLLsDEDCMSVPGKT...	24	QKSENEDDSEWEDVDDEKGDsNDDYDSAGLLsDEDCMSVPG
...	...	...	...	...	...	...	...	...	...	...	...
121330	V9GYY5	None	T134	ochoa	NaN	KRDGDDRRPRLVLSFDEEKRREYLTGFHKRKVERKKAAIEEIKQRL...	Homo sapiens (Human)	V9GYY5_T134	KRDGDDRRPRLVLSFDEEKRREYLTGFHKRKVERKKAAIEEIKQRL...	134	LGLtPPEGGAGDRsEEEAsstEKPtKALPRKSRDPLLSQRI
121331	V9GYY5	None	T138	ochoa	NaN	KRDGDDRRPRLVLSFDEEKRREYLTGFHKRKVERKKAAIEEIKQRL...	Homo sapiens (Human)	V9GYY5_T138	KRDGDDRRPRLVLSFDEEKRREYLTGFHKRKVERKKAAIEEIKQRL...	138	PPEGGAGDRsEEEAsstEKPtKALPRKSRDPLLSQRISSLT

119955 rows × 11 columns

Reactome

---

get_reactome_pathway_lo

 get_reactome_pathway_lo ()

Get lowest reactome pathways with Uniprot ID as identifier.

Data.get_reactome_pathway_lo()

	uniprot	reactome_id	pathway	type	species
0	A0A023GPK8	R-DME-373753	Nephrin family interactions	IEA	Drosophila melanogaster
1	A0A023GRW3	R-DME-72163	mRNA Splicing - Major Pathway	IEA	Drosophila melanogaster
...	...	...	...	...	...
306903	Z4YHD9	R-BTA-9734091	Drug-mediated inhibition of MET activation	IEA	Bos taurus
306904	Z4YJC3	R-GGA-983168	Antigen processing: Ubiquitination & Proteasom...	IEA	Gallus gallus

306905 rows × 5 columns

---

get_reactome_pathway

 get_reactome_pathway ()

Get all level reactome pathways with Uniprot ID as identifier.

The data is from from Reactome/Download_data: https://reactome.org/download-data

Download UniProt to All pathways under Identifier mapping files

For type, there are IEA (Inferred from Electronic Annotation) and TAS (Traceable Author Statement, higher confidence)

Data.get_reactome_pathway()

	uniprot	reactome_id	pathway	type	species
0	A0A023GPK8	R-DME-1500931	Cell-Cell communication	IEA	Drosophila melanogaster
1	A0A023GPK8	R-DME-373753	Nephrin family interactions	IEA	Drosophila melanogaster
...	...	...	...	...	...
888430	Z4YJC3	R-GGA-983168	Antigen processing: Ubiquitination & Proteasom...	IEA	Gallus gallus
888431	Z4YJC3	R-GGA-983169	Class I MHC mediated antigen processing & pres...	IEA	Gallus gallus

888432 rows × 5 columns

CPTAC

---

source

CPTAC

 CPTAC ()

A class for fetching CPTAC phosphoproteomics data.

---

source

CPTAC.list_cancer

 CPTAC.list_cancer ()

List available CPTAC cancer type

CPTAC.list_cancer()

['HNSCC', 'GBM', 'COAD', 'CCRCC', 'LSCC', 'BRCA', 'UCEC', 'LUAD', 'PDAC', 'OV']

---

source

CPTAC.get_id

 CPTAC.get_id (cancer_type:str, is_Tumor:bool=True, is_KB:bool=False)

Get CPTAC phosphorylation sites information given a cancer type

	Type	Default	Details
cancer_type	str
is_Tumor	bool	True	tumor tissue or normal
is_KB	bool	False	whether it is for LinkedOmicsKB or LinkedOmics

Use CPTAC.get_id() to load CPTAC phosphorylation site information. Fold change of various conditions can be acquired through LinkedOmics or LinkedOmicsKB. Use is_KB to indicate whether the phosphorylation site information is for LinkedOmics or LinkedOmicsKB.

# normal tissue
CPTAC.get_id('CCRCC',is_KB=True, is_Tumor=False)

# tumor
CPTAC.get_id('CCRCC',is_KB=True, is_Tumor=True)

End