REAGENT or RESOURCE	SOURCE	IDENTIFIER
Antibodies
anti-HMGB1 Neutralizing antibody	Arigo Biolaboratories	ARG66714
Mouse IgM Kappa Isotype Control antibody	Arigo Biolaboratories	ARG66747
MLKL Antibody (Mouse Specific)	Cell Signaling Technology	Cat# 28640; RRID:AB_2802139
Phospho-MLKL (Ser345) (D6E3G) Rabbit mAb	Cell Signaling Technology	Cat# 37333; RRID:AB_2799112
Caspase-3 Antibody	Cell Signaling Technology	Cat# 9662; RRID:AB_331439
Cleaved Caspase-3 (Asp175) Antibody	Cell Signaling Technology	Cat# 9661; RRID:AB_2341188
Anti-GSDMD antibody [EPR20859]	Abcam	Cat# ab219800; RRID:AB_2888940
GSDMD (Full Length+N terminal) Rabbit pAb	ABclonal	A20197
Goat Anti-Rabbit IgG (H + L)-HRP Conjugate	Bio-Rad	Cat# 170-6515; RRID:AB_11125142
Monoclonal Anti-β-Actin antibody produced in mouse	Sigma-Aldrich	A5411
PHOSPHO-MLKL (S345) RECOMBINANT RABBIT MONOCLONAL ANTIBODY [JM92-37]	HUABIO	ET1705-51
GASDERMIN D (N TERMINAL) RABBIT POLYCLONAL ANTIBODY	HUABIO	ER1901-37
Biological samples
Human Serum Samples	Yokohama City University Advanced Medical Research Center, Biobank Division	Not applicable
Chemicals, peptides, and recombinant proteins
SARS-CoV-2 Spike protein (ECD, His & FLAG Tag)	GenScript	Z03481
Polyinosinic–polycytidylic acid sodium salt	Sigma-Aldrich	P1530
Critical commercial assays
Human RAGE DuoSet ELISA	R&D systems	DY1145
Human Angiopoietin-2 DuoSet ELISA	R&D systems	DY623
Human SP-D DuoSet ELISA	R&D systems	DY1920
M65 ELISA	VLVBio	#10040
M30-Apoptosense ELISA	VLVBio	#10011
Proteome Profiler Mouse Cytokine Array Kit, Panel A	R&D systems	ARY006
Pierce™ BCA Protein Assay Kit	Thermo Fisher Scientific	23225
Mouse RAGE DuoSet ELISA	R&D systems	DY1179
Mouse/Rat Angiopoietin-2 Quantikine ELISA Kit	R&D systems	MANG20
Mouse Keratin, type I cytoskeletal 18 fragment (K18-Asp396) ELISA Kit	Cusabio	CSB-E14265M
Mouse Keratin, type I cytoskeletal 18(KRT18) ELISA kit	Cusabio	CSB-E17158M
Mouse/Rat HMGB1 ELISA Kit	Arigo Biolaboratories	ARG81310
Pierce™ Reversible Protein Stain Kit for PVDF Membranes	Thermo Fisher Scientific	24585
FastGene™ RNA Premium Kit	Nippon Genetics	FG-81050
Deposited data
RNA-seq data of mice lung tissue	NCBI GEO	GSE154104
RNA-seq data of mice lung tissue	NCBI GEO	GSE166778
RNA-seq data of mice lung tissue	NCBI GEO	GSE174382
RNA-seq data of mice lung tissue	NCBI GEO	GSE180557
RNA-seq data of mice lung tissue	NCBI GEO	GSE189015
RNA-seq data of mice lung tissue	NCBI GEO	GSE205014
RNA-seq data of mice lung tissue	NCBI GEO (the present study)	GSE216644
Experimental models: Organisms/strains
Mouse C57BL/6J	Japan SLC	Not applicable
Software and algorithms
Prism 9 for macOS	GraphPad
ImageJ2 Version 2.3.0/1.53f	National Institutes of Health
Trim Galore Version 0.6.7	Babraham Bioinformatics
Salmon Version 1.9.0.	Patro et al.75
R version 4.2.0	The R Foundation for Statistical Computing
tximport R package Version 1.24.0	Soneson et al.76
DESeq2 R package Version 1.36.0	Love et al.77
fgsea R package Version 1.22.0	Korotkevich et al.78