Annotating pathway into mouse Single-Cell clusters¶

This tutorial shows how to use the descartes_rpa module with scanpy formated data outside of Descartes. Data from the Trajectory inference for hematopoiesis in mouse tutorial will be used.

In [1]:

import scanpy as sc

In [2]:

adata = sc.datasets.paul15()

WARNING: In Scanpy 0.*, this returned logarithmized data. Now it returns non-logarithmized data.
... storing 'paul15_clusters' as categorical
Trying to set attribute `.uns` of view, copying.

In [3]:

adata.X = adata.X.astype('float64')  # this is not required and results will be comparable without it

In [4]:

sc.pp.recipe_zheng17(adata)

In [5]:

sc.tl.pca(adata, svd_solver='arpack')

In [6]:

sc.pp.neighbors(adata, n_neighbors=4, n_pcs=20)

In [7]:

sc.tl.leiden(adata)

Since this dataset is from mouse (Mus musculus), we pass its species as input¶

In [8]:

from descartes_rpa import get_pathways_for_group

In [9]:

get_pathways_for_group(adata, groupby="paul15_clusters", species="Mus musculus")

/home/joao/miniconda3/envs/descartes-rpa/lib/python3.9/site-packages/scanpy/tools/_rank_genes_groups.py:419: RuntimeWarning: invalid value encountered in log2
  self.stats[group_name, 'logfoldchanges'] = np.log2(

We can look at the top 2 marker genes for each cluster¶

In [10]:

from descartes_rpa.pl import marker_genes

In [11]:

marker_genes(adata, n_genes=2)

WARNING: dendrogram data not found (using key=dendrogram_paul15_clusters). Running `sc.tl.dendrogram` with default parameters. For fine tuning it is recommended to run `sc.tl.dendrogram` independently.
WARNING: saving figure to file dotplot_marker_genes.pdf

Also, we can look at the shared pathways between clusters¶

In [12]:

from descartes_rpa.pl import shared_pathways

In [13]:

shared_pathways(adata, clusters=["9GMP", "1Ery", "17Neu", "4Ery"])

In [14]:

from descartes_rpa import get_shared

In [15]:

get_shared(adata, clusters=["1Ery", "4Ery"])

Out[15]:

	stId	name
0	R-HSA-9037628	Rhesus blood group biosynthesis
1	R-HSA-189445	Metabolism of porphyrins
2	R-HSA-917937	Iron uptake and transport
3	R-HSA-189451	Heme biosynthesis
4	R-HSA-1247673	Erythrocytes take up oxygen and release carbon...
5	R-HSA-1237044	Erythrocytes take up carbon dioxide and releas...
6	R-HSA-1480926	O2/CO2 exchange in erythrocytes
7	R-HSA-9711123	Cellular response to chemical stress
8	R-HSA-382551	Transport of small molecules
9	R-HSA-189483	Heme degradation
10	R-HSA-9707564	Cytoprotection by HMOX1
11	R-HSA-9033658	Blood group systems biosynthesis
12	R-HSA-8936459	RUNX1 regulates genes involved in megakaryocyt...
13	R-HSA-6798695	Neutrophil degranulation
14	R-HSA-432047	Passive transport by Aquaporins
15	R-HSA-2173782	Binding and Uptake of Ligands by Scavenger Rec...
16	R-HSA-3000480	Scavenging by Class A Receptors
17	R-HSA-1362409	Mitochondrial iron-sulfur cluster biogenesis
18	R-HSA-445717	Aquaporin-mediated transport
19	R-HSA-8964539	Glutamate and glutamine metabolism
20	R-HSA-432722	Golgi Associated Vesicle Biogenesis
21	R-HSA-432040	Vasopressin regulates renal water homeostasis ...
22	R-HSA-8878171	Transcriptional regulation by RUNX1
23	R-HSA-199992	trans-Golgi Network Vesicle Budding
24	R-HSA-3299685	Detoxification of Reactive Oxygen Species
25	R-HSA-2262752	Cellular responses to stress
26	R-HSA-71387	Metabolism of carbohydrates
27	R-HSA-1430728	Metabolism
28	R-HSA-8953897	Cellular responses to stimuli
29	R-HSA-8939236	RUNX1 regulates transcription of genes involve...
30	R-HSA-5628897	TP53 Regulates Metabolic Genes
31	R-HSA-212436	Generic Transcription Pathway
32	R-HSA-73857	RNA Polymerase II Transcription
33	R-HSA-983231	Factors involved in megakaryocyte development ...
34	R-HSA-168249	Innate Immune System
35	R-HSA-74160	Gene expression (Transcription)
36	R-HSA-71291	Metabolism of amino acids and derivatives
37	R-HSA-109582	Hemostasis
38	R-HSA-5653656	Vesicle-mediated transport
39	R-HSA-3700989	Transcriptional Regulation by TP53
40	R-HSA-168256	Immune System
41	R-HSA-449147	Signaling by Interleukins
42	R-HSA-199991	Membrane Trafficking
43	R-HSA-8953854	Metabolism of RNA
44	R-HSA-1280215	Cytokine Signaling in Immune system
45	R-HSA-556833	Metabolism of lipids
46	R-HSA-162582	Signal Transduction
47	R-HSA-392499	Metabolism of proteins

In [16]:

from descartes_rpa.pl import pathways

In [17]:

adata.uns["pathways"].keys()

Out[17]:

odict_keys(['7MEP', '15Mo', '3Ery', '4Ery', '2Ery', '17Neu', '14Mo', '13Baso', '8Mk', '9GMP', '10GMP', '16Neu', '5Ery', '1Ery', '6Ery', '19Lymph', '12Baso', '18Eos', '11DC'])

In [18]:

pathways(adata, "18Eos")

Out[18]:

	stId	dbId	name	species	llp	entities	reactions	inDisease
0	R-HSA-6798695	6798695	Neutrophil degranulation	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	True	{'resource': 'TOTAL', 'total': 480, 'found': 1...	{'resource': 'TOTAL', 'total': 10, 'found': 7,...	False
1	R-HSA-168256	168256	Immune System	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	False	{'resource': 'TOTAL', 'total': 2681, 'found': ...	{'resource': 'TOTAL', 'total': 1623, 'found': ...	False
2	R-HSA-168249	168249	Innate Immune System	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	False	{'resource': 'TOTAL', 'total': 1334, 'found': ...	{'resource': 'TOTAL', 'total': 710, 'found': 1...	False
3	R-HSA-8941413	8941413	Events associated with phagocytolytic activity...	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	True	{'resource': 'TOTAL', 'total': 19, 'found': 2,...	{'resource': 'TOTAL', 'total': 14, 'found': 5,...	False
4	R-HSA-381183	381183	ATF6 (ATF6-alpha) activates chaperone genes	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	True	{'resource': 'TOTAL', 'total': 15, 'found': 2,...	{'resource': 'TOTAL', 'total': 5, 'found': 1, ...	False
5	R-HSA-419408	419408	Lysosphingolipid and LPA receptors	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	True	{'resource': 'TOTAL', 'total': 19, 'found': 2,...	{'resource': 'TOTAL', 'total': 5, 'found': 1, ...	False
6	R-HSA-381033	381033	ATF6 (ATF6-alpha) activates chaperones	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	True	{'resource': 'TOTAL', 'total': 17, 'found': 2,...	{'resource': 'TOTAL', 'total': 10, 'found': 1,...	False
7	R-HSA-6803204	6803204	TP53 Regulates Transcription of Genes Involved...	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	True	{'resource': 'TOTAL', 'total': 33, 'found': 2,...	{'resource': 'TOTAL', 'total': 25, 'found': 2,...	False
8	R-HSA-114608	114608	Platelet degranulation	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	True	{'resource': 'TOTAL', 'total': 139, 'found': 3...	{'resource': 'TOTAL', 'total': 11, 'found': 3,...	False
9	R-HSA-76005	76005	Response to elevated platelet cytosolic Ca2+	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	True	{'resource': 'TOTAL', 'total': 146, 'found': 3...	{'resource': 'TOTAL', 'total': 14, 'found': 3,...	False
10	R-HSA-1474244	1474244	Extracellular matrix organization	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	True	{'resource': 'TOTAL', 'total': 329, 'found': 4...	{'resource': 'TOTAL', 'total': 319, 'found': 1...	False
11	R-HSA-8936459	8936459	RUNX1 regulates genes involved in megakaryocyt...	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	True	{'resource': 'TOTAL', 'total': 78, 'found': 2,...	{'resource': 'TOTAL', 'total': 33, 'found': 5,...	False
12	R-HSA-9616222	9616222	Transcriptional regulation of granulopoiesis	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	True	{'resource': 'TOTAL', 'total': 71, 'found': 2,...	{'resource': 'TOTAL', 'total': 27, 'found': 4,...	False
13	R-HSA-1222556	1222556	ROS and RNS production in phagocytes	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	True	{'resource': 'TOTAL', 'total': 82, 'found': 2,...	{'resource': 'TOTAL', 'total': 45, 'found': 5,...	False
14	R-HSA-3000178	3000178	ECM proteoglycans	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	True	{'resource': 'TOTAL', 'total': 79, 'found': 2,...	{'resource': 'TOTAL', 'total': 23, 'found': 2,...	False
15	R-HSA-5633008	5633008	TP53 Regulates Transcription of Cell Death Genes	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	False	{'resource': 'TOTAL', 'total': 83, 'found': 2,...	{'resource': 'TOTAL', 'total': 68, 'found': 2,...	False
16	R-HSA-8866423	8866423	VLDL assembly	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	True	{'resource': 'TOTAL', 'total': 9, 'found': 1, ...	{'resource': 'TOTAL', 'total': 5, 'found': 1, ...	False
17	R-HSA-3000484	3000484	Scavenging by Class F Receptors	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	True	{'resource': 'TOTAL', 'total': 16, 'found': 1,...	{'resource': 'TOTAL', 'total': 2, 'found': 2, ...	False
18	R-HSA-354194	354194	GRB2:SOS provides linkage to MAPK signaling fo...	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	True	{'resource': 'TOTAL', 'total': 20, 'found': 1,...	{'resource': 'TOTAL', 'total': 2, 'found': 2, ...	False
19	R-HSA-372708	372708	p130Cas linkage to MAPK signaling for integrins	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	True	{'resource': 'TOTAL', 'total': 22, 'found': 1,...	{'resource': 'TOTAL', 'total': 3, 'found': 3, ...	False
20	R-HSA-8957275	8957275	Post-translational protein phosphorylation	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	True	{'resource': 'TOTAL', 'total': 109, 'found': 2...	{'resource': 'TOTAL', 'total': 1, 'found': 1, ...	False
21	R-HSA-388844	388844	Receptor-type tyrosine-protein phosphatases	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	True	{'resource': 'TOTAL', 'total': 20, 'found': 1,...	{'resource': 'TOTAL', 'total': 6, 'found': 3, ...	False
22	R-HSA-8963888	8963888	Chylomicron assembly	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	True	{'resource': 'TOTAL', 'total': 14, 'found': 1,...	{'resource': 'TOTAL', 'total': 5, 'found': 2, ...	False
23	R-HSA-5627117	5627117	RHO GTPases Activate ROCKs	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	True	{'resource': 'TOTAL', 'total': 24, 'found': 1,...	{'resource': 'TOTAL', 'total': 7, 'found': 2, ...	False
24	R-HSA-3928663	3928663	EPHA-mediated growth cone collapse	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	True	{'resource': 'TOTAL', 'total': 33, 'found': 1,...	{'resource': 'TOTAL', 'total': 4, 'found': 1, ...	False
25	R-HSA-8853383	8853383	Lysosomal oligosaccharide catabolism	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	True	{'resource': 'TOTAL', 'total': 12, 'found': 1,...	{'resource': 'TOTAL', 'total': 5, 'found': 1, ...	False
26	R-HSA-5627123	5627123	RHO GTPases activate PAKs	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	True	{'resource': 'TOTAL', 'total': 27, 'found': 1,...	{'resource': 'TOTAL', 'total': 15, 'found': 3,...	False
27	R-HSA-76002	76002	Platelet activation, signaling and aggregation	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	False	{'resource': 'TOTAL', 'total': 291, 'found': 3...	{'resource': 'TOTAL', 'total': 116, 'found': 2...	False
28	R-HSA-5625900	5625900	RHO GTPases activate CIT	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	True	{'resource': 'TOTAL', 'total': 23, 'found': 1,...	{'resource': 'TOTAL', 'total': 6, 'found': 1, ...	False
29	R-HSA-8963898	8963898	Plasma lipoprotein assembly	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	False	{'resource': 'TOTAL', 'total': 30, 'found': 1,...	{'resource': 'TOTAL', 'total': 19, 'found': 3,...	False
30	R-HSA-416572	416572	Sema4D induced cell migration and growth-cone ...	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	True	{'resource': 'TOTAL', 'total': 24, 'found': 1,...	{'resource': 'TOTAL', 'total': 7, 'found': 1, ...	False
31	R-HSA-8849932	8849932	Synaptic adhesion-like molecules	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	True	{'resource': 'TOTAL', 'total': 23, 'found': 1,...	{'resource': 'TOTAL', 'total': 8, 'found': 1, ...	False
32	R-HSA-70921	70921	Histidine catabolism	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	True	{'resource': 'TOTAL', 'total': 30, 'found': 1,...	{'resource': 'TOTAL', 'total': 8, 'found': 1, ...	False
33	R-HSA-445144	445144	Signal transduction by L1	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	True	{'resource': 'TOTAL', 'total': 25, 'found': 1,...	{'resource': 'TOTAL', 'total': 11, 'found': 1,...	False
34	R-HSA-909733	909733	Interferon alpha/beta signaling	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	True	{'resource': 'TOTAL', 'total': 186, 'found': 2...	{'resource': 'TOTAL', 'total': 22, 'found': 2,...	False
35	R-HSA-9020933	9020933	Interleukin-23 signaling	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	True	{'resource': 'TOTAL', 'total': 11, 'found': 1,...	{'resource': 'TOTAL', 'total': 12, 'found': 1,...	False
36	R-HSA-2243919	2243919	Crosslinking of collagen fibrils	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	True	{'resource': 'TOTAL', 'total': 24, 'found': 1,...	{'resource': 'TOTAL', 'total': 13, 'found': 1,...	False
37	R-HSA-400685	400685	Sema4D in semaphorin signaling	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	False	{'resource': 'TOTAL', 'total': 30, 'found': 1,...	{'resource': 'TOTAL', 'total': 13, 'found': 1,...	False
38	R-HSA-381426	381426	Regulation of Insulin-like Growth Factor (IGF)...	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	True	{'resource': 'TOTAL', 'total': 127, 'found': 2...	{'resource': 'TOTAL', 'total': 14, 'found': 1,...	False
39	R-HSA-9034015	9034015	Signaling by NTRK3 (TRKC)	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	True	{'resource': 'TOTAL', 'total': 27, 'found': 1,...	{'resource': 'TOTAL', 'total': 19, 'found': 1,...	False
40	R-HSA-1474290	1474290	Collagen formation	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	False	{'resource': 'TOTAL', 'total': 104, 'found': 2...	{'resource': 'TOTAL', 'total': 77, 'found': 4,...	False
41	R-HSA-428157	428157	Sphingolipid metabolism	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	False	{'resource': 'TOTAL', 'total': 158, 'found': 2...	{'resource': 'TOTAL', 'total': 64, 'found': 3,...	False
42	R-HSA-381119	381119	Unfolded Protein Response (UPR)	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	False	{'resource': 'TOTAL', 'total': 155, 'found': 2...	{'resource': 'TOTAL', 'total': 94, 'found': 1,...	False
43	R-HSA-354192	354192	Integrin signaling	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	True	{'resource': 'TOTAL', 'total': 39, 'found': 1,...	{'resource': 'TOTAL', 'total': 24, 'found': 20...	False
44	R-HSA-76009	76009	Platelet Aggregation (Plug Formation)	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	True	{'resource': 'TOTAL', 'total': 53, 'found': 1,...	{'resource': 'TOTAL', 'total': 27, 'found': 20...	False
45	R-HSA-5674135	5674135	MAP2K and MAPK activation	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	True	{'resource': 'TOTAL', 'total': 49, 'found': 1,...	{'resource': 'TOTAL', 'total': 12, 'found': 8,...	False
46	R-HSA-445355	445355	Smooth Muscle Contraction	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	True	{'resource': 'TOTAL', 'total': 49, 'found': 1,...	{'resource': 'TOTAL', 'total': 11, 'found': 5,...	False
47	R-HSA-8873719	8873719	RAB geranylgeranylation	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	True	{'resource': 'TOTAL', 'total': 68, 'found': 1,...	{'resource': 'TOTAL', 'total': 5, 'found': 2, ...	False
48	R-HSA-901042	901042	Calnexin/calreticulin cycle	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	True	{'resource': 'TOTAL', 'total': 41, 'found': 1,...	{'resource': 'TOTAL', 'total': 13, 'found': 3,...	False
49	R-HSA-3000480	3000480	Scavenging by Class A Receptors	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	True	{'resource': 'TOTAL', 'total': 48, 'found': 1,...	{'resource': 'TOTAL', 'total': 10, 'found': 2,...	False
50	R-HSA-532668	532668	N-glycan trimming in the ER and Calnexin/Calre...	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	True	{'resource': 'TOTAL', 'total': 57, 'found': 1,...	{'resource': 'TOTAL', 'total': 18, 'found': 3,...	False
51	R-HSA-432722	432722	Golgi Associated Vesicle Biogenesis	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	True	{'resource': 'TOTAL', 'total': 61, 'found': 1,...	{'resource': 'TOTAL', 'total': 7, 'found': 1, ...	False
52	R-HSA-5358346	5358346	Hedgehog ligand biogenesis	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	True	{'resource': 'TOTAL', 'total': 72, 'found': 1,...	{'resource': 'TOTAL', 'total': 15, 'found': 2,...	False
53	R-HSA-5683826	5683826	Surfactant metabolism	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	True	{'resource': 'TOTAL', 'total': 52, 'found': 1,...	{'resource': 'TOTAL', 'total': 29, 'found': 2,...	False
54	R-HSA-913709	913709	O-linked glycosylation of mucins	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	True	{'resource': 'TOTAL', 'total': 73, 'found': 1,...	{'resource': 'TOTAL', 'total': 17, 'found': 1,...	False
55	R-HSA-2022090	2022090	Assembly of collagen fibrils and other multime...	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	True	{'resource': 'TOTAL', 'total': 67, 'found': 1,...	{'resource': 'TOTAL', 'total': 26, 'found': 1,...	False
56	R-HSA-8878171	8878171	Transcriptional regulation by RUNX1	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	False	{'resource': 'TOTAL', 'total': 261, 'found': 2...	{'resource': 'TOTAL', 'total': 132, 'found': 5...	False
57	R-HSA-3299685	3299685	Detoxification of Reactive Oxygen Species	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	True	{'resource': 'TOTAL', 'total': 65, 'found': 1,...	{'resource': 'TOTAL', 'total': 34, 'found': 1,...	False
58	R-HSA-373755	373755	Semaphorin interactions	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	False	{'resource': 'TOTAL', 'total': 70, 'found': 1,...	{'resource': 'TOTAL', 'total': 41, 'found': 1,...	False
59	R-HSA-1650814	1650814	Collagen biosynthesis and modifying enzymes	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	True	{'resource': 'TOTAL', 'total': 76, 'found': 1,...	{'resource': 'TOTAL', 'total': 51, 'found': 3,...	False
60	R-HSA-199992	199992	trans-Golgi Network Vesicle Budding	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	True	{'resource': 'TOTAL', 'total': 80, 'found': 1,...	{'resource': 'TOTAL', 'total': 19, 'found': 1,...	False
61	R-HSA-5625740	5625740	RHO GTPases activate PKNs	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	True	{'resource': 'TOTAL', 'total': 80, 'found': 1,...	{'resource': 'TOTAL', 'total': 20, 'found': 1,...	False
62	R-HSA-1660661	1660661	Sphingolipid de novo biosynthesis	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	True	{'resource': 'TOTAL', 'total': 80, 'found': 1,...	{'resource': 'TOTAL', 'total': 32, 'found': 1,...	False
63	R-HSA-9020591	9020591	Interleukin-12 signaling	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	True	{'resource': 'TOTAL', 'total': 84, 'found': 1,...	{'resource': 'TOTAL', 'total': 56, 'found': 2,...	False
64	R-HSA-216083	216083	Integrin cell surface interactions	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	True	{'resource': 'TOTAL', 'total': 86, 'found': 1,...	{'resource': 'TOTAL', 'total': 55, 'found': 4,...	False
65	R-HSA-1660662	1660662	Glycosphingolipid metabolism	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	True	{'resource': 'TOTAL', 'total': 86, 'found': 1,...	{'resource': 'TOTAL', 'total': 32, 'found': 2,...	False
66	R-HSA-6794362	6794362	Protein-protein interactions at synapses	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	False	{'resource': 'TOTAL', 'total': 93, 'found': 1,...	{'resource': 'TOTAL', 'total': 33, 'found': 4,...	False
67	R-HSA-447115	447115	Interleukin-12 family signaling	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	False	{'resource': 'TOTAL', 'total': 96, 'found': 1,...	{'resource': 'TOTAL', 'total': 114, 'found': 3...	False
68	R-HSA-174824	174824	Plasma lipoprotein assembly, remodeling, and c...	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	False	{'resource': 'TOTAL', 'total': 98, 'found': 1,...	{'resource': 'TOTAL', 'total': 84, 'found': 3,...	False
69	R-HSA-2682334	2682334	EPH-Ephrin signaling	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	True	{'resource': 'TOTAL', 'total': 101, 'found': 1...	{'resource': 'TOTAL', 'total': 56, 'found': 1,...	False
70	R-HSA-983170	983170	Antigen Presentation: Folding, assembly and pe...	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	True	{'resource': 'TOTAL', 'total': 102, 'found': 1...	{'resource': 'TOTAL', 'total': 16, 'found': 3,...	False
71	R-HSA-983695	983695	Antigen activates B Cell Receptor (BCR) leadin...	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	True	{'resource': 'TOTAL', 'total': 103, 'found': 1...	{'resource': 'TOTAL', 'total': 25, 'found': 2,...	False
72	R-HSA-1280218	1280218	Adaptive Immune System	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	False	{'resource': 'TOTAL', 'total': 1004, 'found': ...	{'resource': 'TOTAL', 'total': 264, 'found': 1...	False
73	R-HSA-913531	913531	Interferon Signaling	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	False	{'resource': 'TOTAL', 'total': 394, 'found': 2...	{'resource': 'TOTAL', 'total': 69, 'found': 2,...	False
74	R-HSA-6803157	6803157	Antimicrobial peptides	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	True	{'resource': 'TOTAL', 'total': 123, 'found': 1...	{'resource': 'TOTAL', 'total': 58, 'found': 1,...	False
75	R-HSA-373076	373076	Class A/1 (Rhodopsin-like receptors)	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	True	{'resource': 'TOTAL', 'total': 412, 'found': 2...	{'resource': 'TOTAL', 'total': 159, 'found': 1...	False
76	R-HSA-373760	373760	L1CAM interactions	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	True	{'resource': 'TOTAL', 'total': 130, 'found': 1...	{'resource': 'TOTAL', 'total': 54, 'found': 1,...	False
77	R-HSA-5173105	5173105	O-linked glycosylation	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	True	{'resource': 'TOTAL', 'total': 132, 'found': 1...	{'resource': 'TOTAL', 'total': 28, 'found': 1,...	False
78	R-HSA-2132295	2132295	MHC class II antigen presentation	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	True	{'resource': 'TOTAL', 'total': 148, 'found': 1...	{'resource': 'TOTAL', 'total': 26, 'found': 3,...	False
79	R-HSA-109582	109582	Hemostasis	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	False	{'resource': 'TOTAL', 'total': 801, 'found': 3...	{'resource': 'TOTAL', 'total': 334, 'found': 2...	False
80	R-HSA-166520	166520	Signaling by NTRKs	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	False	{'resource': 'TOTAL', 'total': 166, 'found': 1...	{'resource': 'TOTAL', 'total': 164, 'found': 1...	False
81	R-HSA-2173782	2173782	Binding and Uptake of Ligands by Scavenger Rec...	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	False	{'resource': 'TOTAL', 'total': 167, 'found': 1...	{'resource': 'TOTAL', 'total': 33, 'found': 4,...	False
82	R-HSA-3700989	3700989	Transcriptional Regulation by TP53	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	False	{'resource': 'TOTAL', 'total': 487, 'found': 2...	{'resource': 'TOTAL', 'total': 259, 'found': 2...	False
83	R-HSA-5358351	5358351	Signaling by Hedgehog	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	False	{'resource': 'TOTAL', 'total': 168, 'found': 1...	{'resource': 'TOTAL', 'total': 82, 'found': 2,...	False
84	R-HSA-1236974	1236974	ER-Phagosome pathway	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	True	{'resource': 'TOTAL', 'total': 173, 'found': 1...	{'resource': 'TOTAL', 'total': 10, 'found': 3,...	False
85	R-HSA-597592	597592	Post-translational protein modification	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	False	{'resource': 'TOTAL', 'total': 1598, 'found': ...	{'resource': 'TOTAL', 'total': 526, 'found': 7...	False
86	R-HSA-983705	983705	Signaling by the B Cell Receptor (BCR)	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	False	{'resource': 'TOTAL', 'total': 189, 'found': 1...	{'resource': 'TOTAL', 'total': 44, 'found': 2,...	False
87	R-HSA-1266738	1266738	Developmental Biology	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	False	{'resource': 'TOTAL', 'total': 1262, 'found': ...	{'resource': 'TOTAL', 'total': 556, 'found': 7...	False
88	R-HSA-1236975	1236975	Antigen processing-Cross presentation	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	False	{'resource': 'TOTAL', 'total': 195, 'found': 1...	{'resource': 'TOTAL', 'total': 23, 'found': 3,...	False
89	R-HSA-9711123	9711123	Cellular response to chemical stress	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	False	{'resource': 'TOTAL', 'total': 208, 'found': 1...	{'resource': 'TOTAL', 'total': 71, 'found': 1,...	False
90	R-HSA-397014	397014	Muscle contraction	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	False	{'resource': 'TOTAL', 'total': 213, 'found': 1...	{'resource': 'TOTAL', 'total': 42, 'found': 5,...	False
91	R-HSA-2262752	2262752	Cellular responses to stress	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	False	{'resource': 'TOTAL', 'total': 948, 'found': 3...	{'resource': 'TOTAL', 'total': 381, 'found': 2...	False
92	R-HSA-422475	422475	Axon guidance	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	False	{'resource': 'TOTAL', 'total': 584, 'found': 2...	{'resource': 'TOTAL', 'total': 298, 'found': 3...	False
93	R-HSA-8953897	8953897	Cellular responses to stimuli	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	False	{'resource': 'TOTAL', 'total': 966, 'found': 3...	{'resource': 'TOTAL', 'total': 412, 'found': 2...	False
94	R-HSA-500792	500792	GPCR ligand binding	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	False	{'resource': 'TOTAL', 'total': 606, 'found': 2...	{'resource': 'TOTAL', 'total': 186, 'found': 1...	False
95	R-HSA-9675108	9675108	Nervous system development	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	False	{'resource': 'TOTAL', 'total': 620, 'found': 2...	{'resource': 'TOTAL', 'total': 324, 'found': 3...	False
96	R-HSA-392499	392499	Metabolism of proteins	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	False	{'resource': 'TOTAL', 'total': 2205, 'found': ...	{'resource': 'TOTAL', 'total': 798, 'found': 9...	False
97	R-HSA-1280215	1280215	Cytokine Signaling in Immune system	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	False	{'resource': 'TOTAL', 'total': 1092, 'found': ...	{'resource': 'TOTAL', 'total': 708, 'found': 5...	False
98	R-HSA-212436	212436	Generic Transcription Pathway	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	True	{'resource': 'TOTAL', 'total': 1555, 'found': ...	{'resource': 'TOTAL', 'total': 824, 'found': 7...	False
99	R-HSA-198933	198933	Immunoregulatory interactions between a Lympho...	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	True	{'resource': 'TOTAL', 'total': 316, 'found': 1...	{'resource': 'TOTAL', 'total': 44, 'found': 1,...	False
100	R-HSA-5673001	5673001	RAF/MAP kinase cascade	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	True	{'resource': 'TOTAL', 'total': 322, 'found': 1...	{'resource': 'TOTAL', 'total': 75, 'found': 8,...	False
101	R-HSA-195258	195258	RHO GTPase Effectors	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	False	{'resource': 'TOTAL', 'total': 326, 'found': 1...	{'resource': 'TOTAL', 'total': 113, 'found': 5...	False
102	R-HSA-5684996	5684996	MAPK1/MAPK3 signaling	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	False	{'resource': 'TOTAL', 'total': 329, 'found': 1...	{'resource': 'TOTAL', 'total': 82, 'found': 8,...	False
103	R-HSA-5653656	5653656	Vesicle-mediated transport	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	False	{'resource': 'TOTAL', 'total': 824, 'found': 2...	{'resource': 'TOTAL', 'total': 252, 'found': 5...	False
104	R-HSA-5683057	5683057	MAPK family signaling cascades	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	False	{'resource': 'TOTAL', 'total': 380, 'found': 1...	{'resource': 'TOTAL', 'total': 122, 'found': 8...	False
105	R-HSA-73857	73857	RNA Polymerase II Transcription	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	False	{'resource': 'TOTAL', 'total': 1694, 'found': ...	{'resource': 'TOTAL', 'total': 885, 'found': 7...	False
106	R-HSA-372790	372790	Signaling by GPCR	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	False	{'resource': 'TOTAL', 'total': 864, 'found': 2...	{'resource': 'TOTAL', 'total': 354, 'found': 1...	False
107	R-HSA-446203	446203	Asparagine N-linked glycosylation	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	True	{'resource': 'TOTAL', 'total': 421, 'found': 1...	{'resource': 'TOTAL', 'total': 144, 'found': 3...	False
108	R-HSA-71387	71387	Metabolism of carbohydrates	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	False	{'resource': 'TOTAL', 'total': 456, 'found': 1...	{'resource': 'TOTAL', 'total': 243, 'found': 1...	False
109	R-HSA-74160	74160	Gene expression (Transcription)	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	False	{'resource': 'TOTAL', 'total': 1855, 'found': ...	{'resource': 'TOTAL', 'total': 1000, 'found': ...	False
110	R-HSA-983169	983169	Class I MHC mediated antigen processing & pres...	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	False	{'resource': 'TOTAL', 'total': 473, 'found': 1...	{'resource': 'TOTAL', 'total': 48, 'found': 6,...	False
111	R-HSA-112316	112316	Neuronal System	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	False	{'resource': 'TOTAL', 'total': 487, 'found': 1...	{'resource': 'TOTAL', 'total': 216, 'found': 4...	False
112	R-HSA-162582	162582	Signal Transduction	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	False	{'resource': 'TOTAL', 'total': 2993, 'found': ...	{'resource': 'TOTAL', 'total': 2445, 'found': ...	False
113	R-HSA-9006934	9006934	Signaling by Receptor Tyrosine Kinases	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	False	{'resource': 'TOTAL', 'total': 617, 'found': 1...	{'resource': 'TOTAL', 'total': 744, 'found': 1...	False
114	R-HSA-449147	449147	Signaling by Interleukins	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	False	{'resource': 'TOTAL', 'total': 643, 'found': 1...	{'resource': 'TOTAL', 'total': 493, 'found': 3...	False
115	R-HSA-71291	71291	Metabolism of amino acids and derivatives	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	False	{'resource': 'TOTAL', 'total': 661, 'found': 1...	{'resource': 'TOTAL', 'total': 285, 'found': 1...	False
116	R-HSA-199991	199991	Membrane Trafficking	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	False	{'resource': 'TOTAL', 'total': 665, 'found': 1...	{'resource': 'TOTAL', 'total': 219, 'found': 1...	False
117	R-HSA-194315	194315	Signaling by Rho GTPases	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	False	{'resource': 'TOTAL', 'total': 709, 'found': 1...	{'resource': 'TOTAL', 'total': 203, 'found': 5...	False
118	R-HSA-9716542	9716542	Signaling by Rho GTPases, Miro GTPases and RHO...	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	False	{'resource': 'TOTAL', 'total': 725, 'found': 1...	{'resource': 'TOTAL', 'total': 212, 'found': 5...	False
119	R-HSA-556833	556833	Metabolism of lipids	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	False	{'resource': 'TOTAL', 'total': 1437, 'found': ...	{'resource': 'TOTAL', 'total': 949, 'found': 3...	False
120	R-HSA-382551	382551	Transport of small molecules	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	False	{'resource': 'TOTAL', 'total': 958, 'found': 1...	{'resource': 'TOTAL', 'total': 442, 'found': 3...	False
121	R-HSA-1430728	1430728	Metabolism	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	False	{'resource': 'TOTAL', 'total': 3633, 'found': ...	{'resource': 'TOTAL', 'total': 2250, 'found': ...	False

In [19]:

pathways(adata, "3Ery")

Out[19]:

	stId	dbId	name	species	llp	entities	reactions	inDisease
0	R-HSA-5661231	5661231	Metallothioneins bind metals	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	True	{'resource': 'TOTAL', 'total': 16, 'found': 3,...	{'resource': 'TOTAL', 'total': 27, 'found': 10...	False
1	R-HSA-5660526	5660526	Response to metal ions	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	False	{'resource': 'TOTAL', 'total': 21, 'found': 3,...	{'resource': 'TOTAL', 'total': 31, 'found': 10...	False
2	R-HSA-9037628	9037628	Rhesus blood group biosynthesis	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	True	{'resource': 'TOTAL', 'total': 4, 'found': 2, ...	{'resource': 'TOTAL', 'total': 2, 'found': 1, ...	False
3	R-HSA-189445	189445	Metabolism of porphyrins	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	False	{'resource': 'TOTAL', 'total': 74, 'found': 3,...	{'resource': 'TOTAL', 'total': 42, 'found': 4,...	False
4	R-HSA-210745	210745	Regulation of gene expression in beta cells	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	True	{'resource': 'TOTAL', 'total': 35, 'found': 2,...	{'resource': 'TOTAL', 'total': 12, 'found': 1,...	False
5	R-HSA-189451	189451	Heme biosynthesis	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	True	{'resource': 'TOTAL', 'total': 46, 'found': 2,...	{'resource': 'TOTAL', 'total': 20, 'found': 3,...	False
6	R-HSA-9033658	9033658	Blood group systems biosynthesis	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	False	{'resource': 'TOTAL', 'total': 52, 'found': 2,...	{'resource': 'TOTAL', 'total': 22, 'found': 1,...	False
7	R-HSA-186712	186712	Regulation of beta-cell development	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	False	{'resource': 'TOTAL', 'total': 67, 'found': 2,...	{'resource': 'TOTAL', 'total': 26, 'found': 1,...	False
8	R-HSA-8936459	8936459	RUNX1 regulates genes involved in megakaryocyt...	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	True	{'resource': 'TOTAL', 'total': 78, 'found': 2,...	{'resource': 'TOTAL', 'total': 33, 'found': 12...	False
9	R-HSA-163765	163765	ChREBP activates metabolic gene expression	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	True	{'resource': 'TOTAL', 'total': 9, 'found': 1, ...	{'resource': 'TOTAL', 'total': 6, 'found': 1, ...	False
10	R-HSA-71387	71387	Metabolism of carbohydrates	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	False	{'resource': 'TOTAL', 'total': 456, 'found': 4...	{'resource': 'TOTAL', 'total': 243, 'found': 2...	False
11	R-HSA-70171	70171	Glycolysis	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	True	{'resource': 'TOTAL', 'total': 110, 'found': 2...	{'resource': 'TOTAL', 'total': 24, 'found': 1,...	False
12	R-HSA-390471	390471	Association of TriC/CCT with target proteins d...	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	True	{'resource': 'TOTAL', 'total': 40, 'found': 1,...	{'resource': 'TOTAL', 'total': 2, 'found': 1, ...	False
13	R-HSA-432047	432047	Passive transport by Aquaporins	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	True	{'resource': 'TOTAL', 'total': 21, 'found': 1,...	{'resource': 'TOTAL', 'total': 8, 'found': 2, ...	False
14	R-HSA-1247673	1247673	Erythrocytes take up oxygen and release carbon...	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	True	{'resource': 'TOTAL', 'total': 16, 'found': 1,...	{'resource': 'TOTAL', 'total': 6, 'found': 1, ...	False
15	R-HSA-1362409	1362409	Mitochondrial iron-sulfur cluster biogenesis	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	True	{'resource': 'TOTAL', 'total': 25, 'found': 1,...	{'resource': 'TOTAL', 'total': 6, 'found': 1, ...	False
16	R-HSA-5218921	5218921	VEGFR2 mediated cell proliferation	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	True	{'resource': 'TOTAL', 'total': 31, 'found': 1,...	{'resource': 'TOTAL', 'total': 12, 'found': 2,...	False
17	R-HSA-196757	196757	Metabolism of folate and pterines	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	True	{'resource': 'TOTAL', 'total': 44, 'found': 1,...	{'resource': 'TOTAL', 'total': 30, 'found': 5,...	False
18	R-HSA-1480926	1480926	O2/CO2 exchange in erythrocytes	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	False	{'resource': 'TOTAL', 'total': 23, 'found': 1,...	{'resource': 'TOTAL', 'total': 13, 'found': 2,...	False
19	R-HSA-1237044	1237044	Erythrocytes take up carbon dioxide and releas...	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	True	{'resource': 'TOTAL', 'total': 23, 'found': 1,...	{'resource': 'TOTAL', 'total': 7, 'found': 1, ...	False
20	R-HSA-8964539	8964539	Glutamate and glutamine metabolism	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	True	{'resource': 'TOTAL', 'total': 40, 'found': 1,...	{'resource': 'TOTAL', 'total': 14, 'found': 2,...	False
21	R-HSA-210991	210991	Basigin interactions	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	True	{'resource': 'TOTAL', 'total': 26, 'found': 1,...	{'resource': 'TOTAL', 'total': 10, 'found': 1,...	False
22	R-HSA-189483	189483	Heme degradation	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	True	{'resource': 'TOTAL', 'total': 38, 'found': 1,...	{'resource': 'TOTAL', 'total': 22, 'found': 1,...	False
23	R-HSA-8953897	8953897	Cellular responses to stimuli	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	False	{'resource': 'TOTAL', 'total': 966, 'found': 5...	{'resource': 'TOTAL', 'total': 412, 'found': 1...	False
24	R-HSA-9711123	9711123	Cellular response to chemical stress	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	False	{'resource': 'TOTAL', 'total': 208, 'found': 2...	{'resource': 'TOTAL', 'total': 71, 'found': 2,...	False
25	R-HSA-983231	983231	Factors involved in megakaryocyte development ...	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	True	{'resource': 'TOTAL', 'total': 194, 'found': 2...	{'resource': 'TOTAL', 'total': 43, 'found': 1,...	False
26	R-HSA-70326	70326	Glucose metabolism	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	False	{'resource': 'TOTAL', 'total': 140, 'found': 2...	{'resource': 'TOTAL', 'total': 50, 'found': 1,...	False
27	R-HSA-445717	445717	Aquaporin-mediated transport	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	False	{'resource': 'TOTAL', 'total': 68, 'found': 1,...	{'resource': 'TOTAL', 'total': 25, 'found': 4,...	False
28	R-HSA-432040	432040	Vasopressin regulates renal water homeostasis ...	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	True	{'resource': 'TOTAL', 'total': 52, 'found': 1,...	{'resource': 'TOTAL', 'total': 15, 'found': 2,...	False
29	R-HSA-5578775	5578775	Ion homeostasis	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	True	{'resource': 'TOTAL', 'total': 64, 'found': 1,...	{'resource': 'TOTAL', 'total': 16, 'found': 2,...	False
30	R-HSA-936837	936837	Ion transport by P-type ATPases	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	True	{'resource': 'TOTAL', 'total': 71, 'found': 1,...	{'resource': 'TOTAL', 'total': 16, 'found': 2,...	False
31	R-HSA-877300	877300	Interferon gamma signaling	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	True	{'resource': 'TOTAL', 'total': 250, 'found': 2...	{'resource': 'TOTAL', 'total': 16, 'found': 2,...	False
32	R-HSA-8878171	8878171	Transcriptional regulation by RUNX1	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	False	{'resource': 'TOTAL', 'total': 261, 'found': 2...	{'resource': 'TOTAL', 'total': 132, 'found': 1...	False
33	R-HSA-8939236	8939236	RUNX1 regulates transcription of genes involve...	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	True	{'resource': 'TOTAL', 'total': 106, 'found': 1...	{'resource': 'TOTAL', 'total': 15, 'found': 1,...	False
34	R-HSA-1660661	1660661	Sphingolipid de novo biosynthesis	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	True	{'resource': 'TOTAL', 'total': 80, 'found': 1,...	{'resource': 'TOTAL', 'total': 32, 'found': 2,...	False
35	R-HSA-390466	390466	Chaperonin-mediated protein folding	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	False	{'resource': 'TOTAL', 'total': 96, 'found': 1,...	{'resource': 'TOTAL', 'total': 19, 'found': 1,...	False
36	R-HSA-391251	391251	Protein folding	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	False	{'resource': 'TOTAL', 'total': 102, 'found': 1...	{'resource': 'TOTAL', 'total': 28, 'found': 1,...	False
37	R-HSA-3299685	3299685	Detoxification of Reactive Oxygen Species	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	True	{'resource': 'TOTAL', 'total': 65, 'found': 1,...	{'resource': 'TOTAL', 'total': 34, 'found': 1,...	False
38	R-HSA-917937	917937	Iron uptake and transport	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	True	{'resource': 'TOTAL', 'total': 83, 'found': 1,...	{'resource': 'TOTAL', 'total': 34, 'found': 1,...	False
39	R-HSA-1430728	1430728	Metabolism	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	False	{'resource': 'TOTAL', 'total': 3633, 'found': ...	{'resource': 'TOTAL', 'total': 2250, 'found': ...	False
40	R-HSA-913531	913531	Interferon Signaling	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	False	{'resource': 'TOTAL', 'total': 394, 'found': 2...	{'resource': 'TOTAL', 'total': 69, 'found': 2,...	False
41	R-HSA-9009391	9009391	Extra-nuclear estrogen signaling	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	True	{'resource': 'TOTAL', 'total': 110, 'found': 1...	{'resource': 'TOTAL', 'total': 38, 'found': 1,...	False
42	R-HSA-5628897	5628897	TP53 Regulates Metabolic Genes	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	True	{'resource': 'TOTAL', 'total': 126, 'found': 1...	{'resource': 'TOTAL', 'total': 34, 'found': 1,...	False
43	R-HSA-4420097	4420097	VEGFA-VEGFR2 Pathway	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	True	{'resource': 'TOTAL', 'total': 126, 'found': 1...	{'resource': 'TOTAL', 'total': 79, 'found': 2,...	False
44	R-HSA-109582	109582	Hemostasis	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	False	{'resource': 'TOTAL', 'total': 801, 'found': 3...	{'resource': 'TOTAL', 'total': 334, 'found': 2...	False
45	R-HSA-194138	194138	Signaling by VEGF	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	True	{'resource': 'TOTAL', 'total': 137, 'found': 1...	{'resource': 'TOTAL', 'total': 86, 'found': 2,...	False
46	R-HSA-5576891	5576891	Cardiac conduction	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	False	{'resource': 'TOTAL', 'total': 138, 'found': 1...	{'resource': 'TOTAL', 'total': 27, 'found': 2,...	False
47	R-HSA-163685	163685	Integration of energy metabolism	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	True	{'resource': 'TOTAL', 'total': 145, 'found': 1...	{'resource': 'TOTAL', 'total': 62, 'found': 1,...	False
48	R-HSA-2132295	2132295	MHC class II antigen presentation	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	True	{'resource': 'TOTAL', 'total': 148, 'found': 1...	{'resource': 'TOTAL', 'total': 26, 'found': 3,...	False
49	R-HSA-6798695	6798695	Neutrophil degranulation	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	True	{'resource': 'TOTAL', 'total': 480, 'found': 2...	{'resource': 'TOTAL', 'total': 10, 'found': 2,...	False
50	R-HSA-428157	428157	Sphingolipid metabolism	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	False	{'resource': 'TOTAL', 'total': 158, 'found': 1...	{'resource': 'TOTAL', 'total': 64, 'found': 2,...	False
51	R-HSA-9707564	9707564	Cytoprotection by HMOX1	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	True	{'resource': 'TOTAL', 'total': 158, 'found': 1...	{'resource': 'TOTAL', 'total': 37, 'found': 1,...	False
52	R-HSA-6791226	6791226	Major pathway of rRNA processing in the nucleo...	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	True	{'resource': 'TOTAL', 'total': 189, 'found': 1...	{'resource': 'TOTAL', 'total': 7, 'found': 1, ...	False
53	R-HSA-382551	382551	Transport of small molecules	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	False	{'resource': 'TOTAL', 'total': 958, 'found': 3...	{'resource': 'TOTAL', 'total': 442, 'found': 9...	False
54	R-HSA-983712	983712	Ion channel transport	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	True	{'resource': 'TOTAL', 'total': 206, 'found': 1...	{'resource': 'TOTAL', 'total': 45, 'found': 2,...	False
55	R-HSA-8868773	8868773	rRNA processing in the nucleus and cytosol	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	False	{'resource': 'TOTAL', 'total': 207, 'found': 1...	{'resource': 'TOTAL', 'total': 15, 'found': 1,...	False
56	R-HSA-397014	397014	Muscle contraction	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	False	{'resource': 'TOTAL', 'total': 213, 'found': 1...	{'resource': 'TOTAL', 'total': 42, 'found': 2,...	False
57	R-HSA-72312	72312	rRNA processing	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	False	{'resource': 'TOTAL', 'total': 245, 'found': 1...	{'resource': 'TOTAL', 'total': 21, 'found': 1,...	False
58	R-HSA-196849	196849	Metabolism of water-soluble vitamins and cofac...	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	False	{'resource': 'TOTAL', 'total': 254, 'found': 1...	{'resource': 'TOTAL', 'total': 144, 'found': 5...	False
59	R-HSA-8939211	8939211	ESR-mediated signaling	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	True	{'resource': 'TOTAL', 'total': 256, 'found': 1...	{'resource': 'TOTAL', 'total': 111, 'found': 1...	False
60	R-HSA-202733	202733	Cell surface interactions at the vascular wall	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	True	{'resource': 'TOTAL', 'total': 257, 'found': 1...	{'resource': 'TOTAL', 'total': 65, 'found': 1,...	False
61	R-HSA-196854	196854	Metabolism of vitamins and cofactors	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	False	{'resource': 'TOTAL', 'total': 377, 'found': 1...	{'resource': 'TOTAL', 'total': 206, 'found': 5...	False
62	R-HSA-9006931	9006931	Signaling by Nuclear Receptors	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	False	{'resource': 'TOTAL', 'total': 384, 'found': 1...	{'resource': 'TOTAL', 'total': 192, 'found': 1...	False
63	R-HSA-2262752	2262752	Cellular responses to stress	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	False	{'resource': 'TOTAL', 'total': 948, 'found': 2...	{'resource': 'TOTAL', 'total': 381, 'found': 2...	False
64	R-HSA-3700989	3700989	Transcriptional Regulation by TP53	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	False	{'resource': 'TOTAL', 'total': 487, 'found': 1...	{'resource': 'TOTAL', 'total': 259, 'found': 1...	False
65	R-HSA-212436	212436	Generic Transcription Pathway	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	True	{'resource': 'TOTAL', 'total': 1555, 'found': ...	{'resource': 'TOTAL', 'total': 824, 'found': 1...	False
66	R-HSA-1280215	1280215	Cytokine Signaling in Immune system	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	False	{'resource': 'TOTAL', 'total': 1092, 'found': ...	{'resource': 'TOTAL', 'total': 708, 'found': 2...	False
67	R-HSA-168256	168256	Immune System	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	False	{'resource': 'TOTAL', 'total': 2681, 'found': ...	{'resource': 'TOTAL', 'total': 1623, 'found': ...	False
68	R-HSA-73857	73857	RNA Polymerase II Transcription	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	False	{'resource': 'TOTAL', 'total': 1694, 'found': ...	{'resource': 'TOTAL', 'total': 885, 'found': 1...	False
69	R-HSA-9006934	9006934	Signaling by Receptor Tyrosine Kinases	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	False	{'resource': 'TOTAL', 'total': 617, 'found': 1...	{'resource': 'TOTAL', 'total': 744, 'found': 2...	False
70	R-HSA-71291	71291	Metabolism of amino acids and derivatives	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	False	{'resource': 'TOTAL', 'total': 661, 'found': 1...	{'resource': 'TOTAL', 'total': 285, 'found': 2...	False
71	R-HSA-1266738	1266738	Developmental Biology	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	False	{'resource': 'TOTAL', 'total': 1262, 'found': ...	{'resource': 'TOTAL', 'total': 556, 'found': 1...	False
72	R-HSA-74160	74160	Gene expression (Transcription)	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	False	{'resource': 'TOTAL', 'total': 1855, 'found': ...	{'resource': 'TOTAL', 'total': 1000, 'found': ...	False
73	R-HSA-168249	168249	Innate Immune System	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	False	{'resource': 'TOTAL', 'total': 1334, 'found': ...	{'resource': 'TOTAL', 'total': 710, 'found': 2...	False
74	R-HSA-8953854	8953854	Metabolism of RNA	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	False	{'resource': 'TOTAL', 'total': 782, 'found': 1...	{'resource': 'TOTAL', 'total': 187, 'found': 1...	False
75	R-HSA-1280218	1280218	Adaptive Immune System	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	False	{'resource': 'TOTAL', 'total': 1004, 'found': ...	{'resource': 'TOTAL', 'total': 264, 'found': 3...	False
76	R-HSA-556833	556833	Metabolism of lipids	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	False	{'resource': 'TOTAL', 'total': 1437, 'found': ...	{'resource': 'TOTAL', 'total': 949, 'found': 2...	False
77	R-HSA-392499	392499	Metabolism of proteins	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	False	{'resource': 'TOTAL', 'total': 2205, 'found': ...	{'resource': 'TOTAL', 'total': 798, 'found': 1...	False
78	R-HSA-162582	162582	Signal Transduction	{'dbId': 48887, 'taxId': '9606', 'name': 'Homo...	False	{'resource': 'TOTAL', 'total': 2993, 'found': ...	{'resource': 'TOTAL', 'total': 2445, 'found': ...	False