REAGENT or RESOURCE	SOURCE	IDENTIFIER
Antibodies
ATF-4 (D4B8) Rabbit mAb	Cell Signaling Technologies	Cat# 11815
Anti-SDHB	Abcam	Cat# ab14714
Anti- ACTB	Santa Cruz	Cat# sc-47778
Anti-rat ED1	Bio-Rad	Cat# MCA341R
anti-PCNA	Abcam	Cat# ab29
Polyclonal Rabbit Anti-mouse immunoglobulins/HRP	DAKO	Cat# P0260
Polyclonal Swine Anti-rabbit immunoglobulins/HRP	DAKO	Cat# P0217
Chemicals, Peptides, and Recombinant Proteins
Recombinant Human M-CSF	PeproTech	Cat# AF-300-25
Oil-Red-O	Sigma	Cat# O0625
Haematoxylin	Sigma	Cat# MHS16
Iron(III) chloride (FeCl3)	Sigma	Cat# 451649
Deferiprone (DEF)	Sigma	Cat# 379409
2-deoxyglucose (2-DG)	Sigma	Cat# D6134
NADP	Sigma	Cat# N5755
cis-aconitic acid	Sigma	Cat# A3412
MTT	Sigma	Cat# M5655
phenazine methosulfate	Sigma	Cat# P9625
isocitrate dehydrogenase	Sigma	Cat# I5036
Cerulenin	Sigma	Cat# C2389
Critical Commercial Assays
Seahorse XF Cell Mito Stress Test Kit	Agilent Technologies	Cat #103015-100
RNeasy mini kit	QIAGEN	Cat# 74106
RNase-free DNase Kit	QIAGEN	Cat# 79254
NEBNext Ultra II Directional RNA Library Prep kit	NEB	Cat# E7760
iScript cDNA Synthesis Kit	Bio-Rad	Cat# 170-8891
Brilliant II SYBR Green QPCR Master Mix	Agilent	Cat# 600828
Pierce BCA Protein Assay Kit	Thermo Fisher Scientific	Cat# 23225
IL-1β ELISA	Invitrogen	Cat# 88-7261-88
TNFα ELISA	Invitrogen	Cat# 88-7346-88
Deposited Data
RNA-sequencing data	This paper	GEO accession number GSE128885
Oligonucleotides
Table S2	This paper	N/A
Software and Algorithms
picard (v.2.6.0)	N/A	https://broadinstitute.github.io/picard/
edgeR (v.3.22.3)	(Robinson et al., 2010)	https://bioconductor.org/packages/release/bioc/html/edgeR.html
DESeq2 (v.1.14.1)	(Love et al., 2014)	https://bioconductor.org/packages/release/bioc/html/DESeq2.html
pcaExplorer (v.2.6.0)	N/A	https://github.com/federicomarini/pcaExplorer
pheatmap (v 1.0.10)	N/A	https://cran.r-project.org/web/packages/pheatmap/index.html
ggplot2 (v.3.0.0)	(Wickham, 2016)	https://cran.r-project.org/web/packages/ggplot2/index.html
R/Bioconductor environment (v.3.4.4)	N/A	http://www.R-project.org/
Gene Set Enrichment Analysis (GSEA) (v5.2)	(Subramanian et al., 2005)	http://software.broadinstitute.org/gsea/index.jsp
STRING database	(Szklarczyk et al., 2015)	https://string-db.org/
GraphPad prism (v 7.02)	GraphPad Software	N/A
Other
RPMI 1640 medium	Life Technologies	Cat# 11879020
Fetal calf serum (FCS)	Labtech International	Cat# FB-1001
Hanks’ Balanced Salt Solution (HBSS)	Life Technologies	Cat# 14170112
Histopaque	Sigma	Cat# 1077
Seahorse XF RPMI medium	Agilent Technologies	Cat # 103576-100
SILAC medium	SILAC medium	Cat# A2494201
L-glutamine	Thermo Fisher Scientific	Cat# 25030081
L-Arginine	Sigma	Cat# A8094
L-Lysine	Sigma	Cat# L8662
D-Glucose U-13C, 99%	Cambridge isotope laboratories	Cat# CLM-1396
AMPure XP Beads	Beckman Coulter	Cat# A63880
SuperSignal West Femto Chemiluminescent Substrate	Thermo Fisher Scientific	Cat# 34580
TWEEN 20	Sigma	Cat# P1379
ON-TARGETplus SMARTpool - Human	Dharmacon	Cat# L-HUMAN-XX
DharmaFECT 1 Transfection Reagent	Dharmacon	Cat# T-2001
OPTIMEM	Thermo Fisher Scientific	Cat# 11058021