Details for gene set KEGG_ALZHEIMERS_DISEASE[GSEA]

Table: GSEA Results Summary

Dataset	preliminary.phenotype.cls#NGP_versus_NG.phenotype.cls#NGP_versus_NG_repos
Phenotype	phenotype.cls#NGP_versus_NG_repos
Upregulated in class	NG
GeneSet	KEGG_ALZHEIMERS_DISEASE
Enrichment Score (ES)	-0.38708347
Normalized Enrichment Score (NES)	-1.6622669
Nominal p-value	0.0
FDR q-value	0.07719004
FWER p-Value	0.352

Fig 1: Enrichment plot: KEGG_ALZHEIMERS_DISEASE   
Profile of the Running ES Score & Positions of GeneSet Members on the Rank Ordered List

Table: GSEA details [plain text format]

	PROBE	DESCRIPTION (from dataset)	GENE SYMBOL	GENE_TITLE	RANK IN GENE LIST	RANK METRIC SCORE	RUNNING ES	CORE ENRICHMENT
1	CACNA1D	Cacna1d			5	3.519	0.0632	No
2	ATP2A1	Atp2a1			411	1.242	0.0593	No
3	CASP7	Casp7			749	0.942	0.0544	No
4	GRIN2B	Grin2b			828	0.898	0.0656	No
5	COX6B2	Cox6b2			984	0.837	0.0706	No
6	CHP2	Chp2			1035	0.819	0.0821	No
7	COX8C	Cox8b			1280	0.741	0.0796	No
8	COX4I2	Cox4i2			1333	0.734	0.0895	No
9	CDK5R1	Cdk5r1			2250	0.495	0.0389	No
10	ITPR1	Itpr1			2629	0.441	0.0223	No
11	IL1B	Il1b			2791	0.428	0.0195	No
12	LPL	Lpl			2934	0.410	0.0177	No
13	PPP3R2	Ppp3r2			3033	0.401	0.0186	No
14	GRIN2D	Grin2d			4098	0.282	-0.0455	No
15	BACE2	Bace2			5083	0.182	-0.1062	No
16	ITPR2	Itpr2			5259	0.167	-0.1146	No
17	NDUFA6	Ndufa6			5344	0.161	-0.1171	No
18	UQCRFS1	Uqcrfs1			5418	0.155	-0.1191	No
19	HSD17B10	Hsd17b10			5442	0.153	-0.1178	No
20	MAPK3	Mapk3			5579	0.140	-0.1241	No
21	NDUFB2	Ndufb2			5696	0.131	-0.1293	No
22	NDUFA10	Ndufa10			5721	0.129	-0.1285	No
23	CYC1	Cyc1			5740	0.126	-0.1274	No
24	NDUFV1	Ndufv1			5870	0.117	-0.1337	No
25	CASP3	Casp3			6007	0.107	-0.1406	No
26	APAF1	Apaf1			6075	0.101	-0.1431	No
27	NDUFS3	Ndufs3			6158	0.093	-0.1468	No
28	COX7A2L	Cox7a2l			6167	0.093	-0.1456	No
29	APH1A	Aph1a			6193	0.091	-0.1456	No
30	PLCB3	Plcb3			6255	0.087	-0.1480	No
31	GRIN2A	Grin2a			6303	0.084	-0.1495	No
32	NDUFB5	Ndufb5			6335	0.082	-0.1501	No
33	GAPDH	Gapdh			6557	0.067	-0.1632	No
34	PPP3CC	Ppp3cc			6577	0.065	-0.1633	No
35	PSEN1	Psen1			6617	0.063	-0.1647	No
36	CYCS	Cycs			7103	0.027	-0.1957	No
37	TNF	Tnf			7294	0.011	-0.2079	No
38	NDUFS2	Ndufs2			7378	0.006	-0.2132	No
39	UQCRC2	Uqcrc2			7439	0.002	-0.2171	No
40	COX7B2	Cox7b2			7652	0.000	-0.2308	No
41	MT-CO2	mt-Co2			7705	0.000	-0.2342	No
42	NDUFA4L2	Ndufa4l2			8009	-0.011	-0.2537	No
43	NDUFS7	Ndufs7			8011	-0.011	-0.2536	No
44	ATP5F1C	Atp5c1			8083	-0.016	-0.2579	No
45	TNFRSF1A	Tnfrsf1a			8190	-0.024	-0.2644	No
46	COX6A2	Cox6a2			8390	-0.037	-0.2767	No
47	ATP5F1B	Atp5b			8399	-0.037	-0.2765	No
48	ATP2A2	Atp2a2			8419	-0.038	-0.2771	No
49	GRIN2C	Grin2c			8617	-0.052	-0.2889	No
50	ERN1	Ern1			8717	-0.060	-0.2943	No
51	NAE1	Nae1			8734	-0.061	-0.2942	No
52	PSEN2	Psen2			8767	-0.062	-0.2952	No
53	NDUFB9	Ndufb9			8817	-0.066	-0.2972	No
54	NDUFAB1	Ndufab1			9031	-0.081	-0.3096	No
55	FADD	Fadd			9090	-0.085	-0.3118	No
56	NDUFA9	Ndufa9			9127	-0.088	-0.3125	No
57	NDUFS4	Ndufs4			9344	-0.103	-0.3247	No
58	COX5B	Cox5b			9355	-0.103	-0.3235	No
59	SDHC	Sdhc			9435	-0.110	-0.3267	No
60	COX4I1	Cox4i1			9535	-0.118	-0.3310	No
61	SNCA	Snca			9568	-0.120	-0.3309	No
62	PLCB4	Plcb4			9624	-0.125	-0.3322	No
63	ATP5F1A	Atp5a1			9760	-0.135	-0.3385	No
64	COX7C	Cox7c			9876	-0.145	-0.3434	No
65	CAPN2	Capn2			9901	-0.147	-0.3423	No
66	NDUFS1	Ndufs1			9952	-0.151	-0.3428	No
67	COX6B1	Cox6b1			10014	-0.155	-0.3440	No
68	NDUFV2	Ndufv2			10048	-0.157	-0.3433	No
69	NOS1	Nos1			10165	-0.166	-0.3479	No
70	BACE1	Bace1			10309	-0.178	-0.3539	No
71	APBB1	Apbb1			10467	-0.189	-0.3607	No
72	SDHB	Sdhb			10474	-0.190	-0.3577	No
73	CASP9	Casp9			10476	-0.190	-0.3543	No
74	GSK3B	Gsk3b			10504	-0.192	-0.3526	No
75	NCSTN	Ncstn			10540	-0.195	-0.3514	No
76	NDUFB10	Ndufb10			10571	-0.197	-0.3498	No
77	NDUFB3	Ndufb3			10631	-0.200	-0.3500	No
78	NDUFA8	Ndufa8			10676	-0.204	-0.3492	No
79	MAPK1	Mapk1			10708	-0.207	-0.3474	No
80	CALM2	Calm2			10735	-0.209	-0.3453	No
81	COX5A	Cox5a			10781	-0.213	-0.3444	No
82	PPP3CB	Ppp3cb			10834	-0.218	-0.3439	No
83	APOE	Apoe			11062	-0.239	-0.3543	No
84	COX7A2	Cox7a2			11224	-0.255	-0.3602	No
85	MT-CYB	mt-Cytb			11374	-0.270	-0.3650	No
86	UQCRC1	Uqcrc1			11468	-0.278	-0.3660	No
87	NDUFB1	Ndufb1-ps			11756	-0.306	-0.3792	No
88	ADAM17	Adam17			11879	-0.320	-0.3813	Yes
89	COX8A	Cox8a			11885	-0.321	-0.3758	Yes
90	ATF6	Atf6			11898	-0.324	-0.3708	Yes
91	UQCRB	Uqcrb			11992	-0.334	-0.3708	Yes
92	CACNA1F	Cacna1f			12021	-0.338	-0.3665	Yes
93	CALML3	Calml3			12117	-0.346	-0.3664	Yes
94	BAD	Bad			12251	-0.360	-0.3686	Yes
95	ATP5MC3	Atp5g3			12291	-0.365	-0.3645	Yes
96	IDE	Ide			12311	-0.368	-0.3591	Yes
97	NDUFB6	Ndufb6			12354	-0.372	-0.3551	Yes
98	NDUFA3	Ndufa3			12359	-0.373	-0.3486	Yes
99	CALM3	Calm3			12399	-0.378	-0.3443	Yes
100	ATP5F1D	Atp5d			12403	-0.379	-0.3377	Yes
101	ATP5PD	Atp5h			12479	-0.388	-0.3356	Yes
102	COX7B	Cox7b			12512	-0.392	-0.3306	Yes
103	COX7A1	Cox7a1			12522	-0.394	-0.3240	Yes
104	MT-CO1	mt-Co1			12585	-0.401	-0.3208	Yes
105	CASP8	Casp8			12626	-0.405	-0.3161	Yes
106	CAPN1	Capn1			12683	-0.413	-0.3123	Yes
107	CDK5	Cdk5			12747	-0.423	-0.3088	Yes
108	FAS	Fas			12823	-0.434	-0.3058	Yes
109	MT-ATP6	mt-Atp6			12940	-0.443	-0.3053	Yes
110	APP	App			13008	-0.448	-0.3016	Yes
111	ADAM10	Adam10			13077	-0.458	-0.2978	Yes
112	PPP3CA	Ppp3ca			13145	-0.468	-0.2937	Yes
113	NDUFB7	Ndufb7			13279	-0.492	-0.2934	Yes
114	MT-CO3	mt-Co3			13320	-0.498	-0.2870	Yes
115	BID	Bid			13410	-0.503	-0.2837	Yes
116	ATP5F1E	Atp5e			13433	-0.508	-0.2760	Yes
117	COX6C	Cox6c			13521	-0.523	-0.2722	Yes
118	CACNA1C	Cacna1c			13597	-0.532	-0.2675	Yes
119	NDUFB4	Ndufb4			13601	-0.534	-0.2580	Yes
120	NDUFS8	Ndufs8			13664	-0.545	-0.2522	Yes
121	NDUFA1	Ndufa1			13759	-0.566	-0.2481	Yes
122	ATP5PF	Atp5j			13797	-0.573	-0.2402	Yes
123	CALM1	Calm1			13895	-0.591	-0.2358	Yes
124	CHP1	Chp1			13957	-0.605	-0.2288	Yes
125	NDUFS6	Ndufs6			13984	-0.610	-0.2195	Yes
126	NDUFA2	Ndufa2			14058	-0.626	-0.2130	Yes
127	LRP1	Lrp1			14082	-0.633	-0.2030	Yes
128	NDUFV3	Ndufv3			14135	-0.645	-0.1948	Yes
129	UQCR10	Uqcr10			14215	-0.666	-0.1879	Yes
130	NDUFA4	Ndufa4			14228	-0.671	-0.1766	Yes
131	ITPR3	Itpr3			14234	-0.673	-0.1647	Yes
132	COX6A1	Cox6a1			14276	-0.686	-0.1550	Yes
133	UQCRQ	Uqcrq			14286	-0.690	-0.1431	Yes
134	NDUFC1	Ndufc1			14306	-0.695	-0.1318	Yes
135	NDUFA5	Ndufa5			14324	-0.701	-0.1203	Yes
136	ATP2A3	Atp2a3			14880	-0.934	-0.1395	Yes
137	EIF2AK3	Eif2ak3			14920	-0.959	-0.1247	Yes
138	NDUFS5	Ndufs5			14975	-0.990	-0.1103	Yes
139	MAPT	Mapt			14984	-0.995	-0.0929	Yes
140	GRIN1	Grin1			14989	-0.997	-0.0751	Yes
141	RYR3	Ryr3			15002	-1.010	-0.0577	Yes
142	PLCB1	Plcb1			15093	-1.088	-0.0439	Yes
143	PLCB2	Plcb2			15231	-1.247	-0.0303	Yes
144	CACNA1S	Cacna1s			15291	-1.364	-0.0095	Yes
145	MME	Mme			15293	-1.364	0.0151	Yes

Fig 2: KEGG_ALZHEIMERS_DISEASE   
Blue-Pink O' Gram in the Space of the Analyzed GeneSet

Fig 3: KEGG_ALZHEIMERS_DISEASE: Random ES distribution   
Gene set null distribution of ES for KEGG_ALZHEIMERS_DISEASE