Online-only Table 2.

Antibody Staining Plan for DATASET-1.

channel_number	cycle_number	marker_name	fluorescence_label	wavelength_name	excitation_wavelength	emission_wavelength	antibody_ID	antibody_vendor	antibody_catalog	antibody_dilution	exposure_time (sec)
1	1	DAPI_1	Hoechst 33342	DAPI	395	431	119	Cell Signaling Technology	4082 S	1:1000	0.1
2	1	A488 background		FITC	485	525					1
3	1	A555 background		Cy3	555	590					1
4	1	A647 background		Cy5	640	690					1
5	2	DAPI_2	Hoechst 33342	DAPI	395	431	119	Cell Signaling Technology	4082 S	1:1000	0.05
6	2	A488 background	Alexa 488	FITC	485	525					1
7	2	A555 background	Alexa 555	Cy3	555	590					1
8	2	A647 background	Alexa 647	Cy5	640	690					1
9	3	DAPI_3	Hoechst 33342	DAPI	395	431	119	Cell Signaling Technology	4082 S	1:1000	0.075
10	3	A488 background	Alexa 488	FITC	485	525					1
11	3	LAG3	Alexa 555	Cy3	555	590	76	Abcam	ab180187	1:100	1
12	3	ARL13B	Alexa 647	Cy5	640	690	117	Antibodies Incorporated	75-287	1:100	1
13	4	DAPI_4	Hoechst 33342	DAPI	395	431	119	Cell Signaling Technology	4082 S	1:1000	0.05
14	4	KI67	Alexa 488	FITC	485	525	42	Cell Signaling Technology	11882 s	1:100	1
15	4	KERATIN	Alexa 555	Cy3	555	590	56	eBioscience	41-9003-80	1:200	1
16	4	PD1	Alexa 647	Cy5	640	690	89	Abcam	ab201825	1:100	1
17	5	DAPI_5	Hoechst 33342	DAPI	395	431	119	Cell Signaling Technology	4082 S	1:1000	0.02
18	5	CD45RB	Alexa 488	FITC	485	525	68	eBioscience	53-9458-80	1:100	1
19	5	CD3D	Alexa 555	Cy3	555	590	97	Abcam	ab208514	1:100	1
20	5	PDL1	Alexa 647	Cy5	640	690	50	Cell Signaling Technology	15005 S	1:50	1
21	6	DAPI_6	Hoechst 33342	DAPI	395	431	119	Cell Signaling Technology	4082 S	1:1000	0.02
22	6	CD4	Alexa 488	FITC	485	525	108	R&D Systems	FAB8165G	1:100	1
23	6	CD45	Alexa 555	Cy3	555	590	106	R&D Systems	FAB1430P-025	1:100	1
24	6	CD8A	Alexa 647	Cy5	640	690	62	eBioscience	50-0008-80	1:100	1
25	7	DAPI_7	Hoechst 33342	DAPI	395	431	119	Cell Signaling Technology	4082 S	1:1000	0.05
26	7	CD163	Alexa 488	FITC	485	525	101	Abcam	ab218293	1:100	1
27	7	CD68	Alexa 555	Cy3	555	590	1	Cell Signaling Technology	79594	1:100	1
28	7	CD14	Alexa 647	Cy5	640	690	83	Abcam	ab196169	1:100	0.75
29	8	DAPI_8	Hoechst 33342	DAPI	395	431	119	Cell Signaling Technology	4082 S	1:1000	0.15
30	8	CD11B	Alexa 488	FITC	485	525	67	eBioscience	53-0196-80	1:100	0.75
31	8	FOXP3	Alexa 555	Cy3	555	590	55	eBioscience	41-4777-80	1:100	1
32	8	CD21	Alexa 647	Cy5	640	690	91	Abcam	ab202693	1:100	0.2
33	9	DAPI_9	Hoechst 33342	DAPI	395	431	119	Cell Signaling Technology	4082 S	1:1000	0.05
34	9	IBA1	Alexa 488	FITC	485	525	82	Abcam	ab195031	1:250	0.75
35	9	ASMA	Alexa 555	Cy3	555	590	90	Abcam	ab202509	1:250	0.2
36	9	CD20	Alexa 647	Cy5	640	690	64	eBioscience	50-0202-80	1:250	0.2
37	10	DAPI_10	Hoechst 33342	DAPI	395	431	119	Cell Signaling Technology	4082 S	1:1000	0.1
38	10	CD19	Alexa 488	FITC	485	525	94	Abcam	ab196468	1:100	1
39	10	GFAP	Alexa 555	Cy3	555	590	60	eBioscience	41-9892-80	1:100	0.1
40	10	GTUBULIN	Alexa 647	Cy5	640	690	79	Abcam	ab191114	1:100	1
41	11	DAPI_11	Hoechst 33342	DAPI	395	431	119	Cell Signaling Technology	4082 S	1:1000	0.075
42	11	LAMINAC	Alexa 488	FITC	485	525	78	Abcam	ab185014	1:100	0.5
43	11	BANF1	Alexa 555	Cy3	555	590	98	Abcam	ab208534	1:100	1
44	11	LAMINB	Alexa 647	Cy5	640	690	81	Abcam	ab194108	1:100	0.4