KEY RESOURCES TABLE

REAGENT or RESOURCE	SOURCE	IDENTIFIER
Antibodies
Rabbit anti-Cathespin D	ProteinTech	Cat#21327–1-AP; RRID:AB_10733646
Rabbit anti-CD68	Abcam	Cat#ab125212; RRID:AB_10975465
Rabbit anti-Gfap	Biogenex	Cat#PU020-UP
Rabbit anti-Iba1	Wako Chemicals	Cat#019–19741; RRID:AB_839504
Rat anti-Lamp1	Invitrogen	Cat#14–1071-82; RRID:AB_657531
Mouse anti-Map2	Sigma	Cat#M1406; RRID:AB_477171
Mouse anti-Mbp	R&D Systems	Cat#MAB42282
Mouse anti-NeuN	Chemicon	Cat#MAB377; RRID:AB_2298772
Rabbit anti-pTdp-43		Rb3655
Mouse anti-Ubi1	EMD Millipore	Cat#MAB1510; RRID:AB_2180556
Biological samples
Patient-derived pons tissue	Mayo Clinic Florida Brain Bank	http://www.mayo.edu/research/departments-divisions/department-neuroscience-florida/brain-banks/mayo-clinic-brain-bank
Chemicals, peptides, and recombinant proteins
pHrodo Red, succinimidyl ester (pHrodo Red, SE)	ThermoFisher	P36600
cOmplete Protease Inhibitor Tablets	Roche	11873580001
Experimental models: Organisms/strains
Mouse: Grn KO	Kayasuga et al., 2007	N/A
Mouse: Ctsd KO	Saftig et al., 1995	N/A
Software and algorithms
Aperio eSlide Manager v12.1	Leica Biosystems	https://www.leicabiosystems.com/aperio-eslide-manager/
Aperio ImageScope v12.1	Leica Biosystems	https://www.leicabiosystems.com/digital-pathology/manage/aperio-imagescope/
Graphpad Prism v8.1.1	GraphPad	https://www.graphpad.com/scientific-software/prism/
Zeiss Zen 2.3.	Zeiss	https://www.zeiss.com/microscopy/us/products/microscope-software/zen.html
SDS v2.2.2	ThermoFisher	https://www.thermofisher.com/us/en/home/technical-resources/software-downloads/applied-biosystems-7900ht-fast-real-timespcr-system.html