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. Author manuscript; available in PMC: 2019 May 31.
Published in final edited form as: Cell Rep. 2019 May 14;27(7):2002–2013.e5. doi: 10.1016/j.celrep.2019.04.062

KEY RESOURCES TABLE

REAGENT or RESOURCE SOURCE IDENTIFIER
Antibodies
goat GFP (1:2000) Abcam Cat# ab5450; RRID:AB_304897
rabbit IBA1 (1:1000) Wako Cat# 019–19741; RRID:AB_839504
488 Donkey anti-goat (1:400) Invitrogen Cat# A11055; RRID:AB_2534102
488 Donkey anti-rabbit (1:400) Invitrogen Cat# A21206; RRID:AB_2535792
BV421 CD45 BD Bioscience Cat# 563890; RRID:AB_2651151
488 CD11b BD Bioscience Cat# 557672; RRID:AB_396784
PE CD11b BD Bioscience Cat# 553311; RRID:AB_394775
APC CD11c BD Pharmingen Cat# 561119; RRID:AB_10562405
APC CCR2 R&D Cat# FAB5538P; RRID:AB_10718414
PE CD115 BioLegend Cat# 135505; RRID:AB_1937254
Chemicals, Peptides, and Recombinant Proteins
IB4-Lectin (1:400) Sigma-Aldrich Cat# L9381
Tamoxifen Sigma-Aldrich Cat# T5648
Corn oil Sigma-Aldrich Cat# C8267
Pexidartinib (PLX3397) AdooQ BioScience Cat# A15520
Liberase TM Sigma-Aldrich Cat# 5401119001
Red blood cell lysis buffer eBioscience Cat# 00-4333-57
Mouse Fc Block BD Biosciences Cat# 553142
DNase I Sigma-Aldrich Cat# D4513
Critical Commercial Assays
in situ hybridization chain reaction v3.0 (HCR) Molecular Instruments N/A
RNeasy Micro Kit QIAGEN Cat# 74004
SuperScript III First Strand cDNA synthesis kit Invitrogen Cat# 11752
SYBR Select Master mix Applied Biosciences 4472908
Deposited Data
RNA-seq files https://www.ncbi.nlm.nih.gov/geo GEO: GSE123757
Experimental Models: Organisms/Strains
B6.129P2(Cg)-Cx3cr1tm1Litt/J or CX3CR1-GFP gift from Richard Lang JAX 005582
B6.129P2(C)-Cx3cr1tm2.1(cre/ERT2)Jung/J gift from Steffen Jung JAX 020940
B6.Cg-Csf1rtm1.2Jwp/J Jackson Labs JAX 021212
C57BL/6J-Trem2em2Adiuj/J Jackson Labs JAX 027197
B6.129P2-Apoetm1Unc/J Jackson Labs JAX 002052
B6.Cg-Gt(ROSA)26Sortm14(CAG-tdTomato)Hze/J gift from Mario Capecchi JAX 007914
B6.129X1-Baxtm1Sjk/J Jackson Labs JAX 002994
C57BL/6J Jackson Labs JAX 000664
Oligonucleotides
Beta Actin Forward: TGAGAGGGAAATCGTGCGTG University of Utah,DNA/Peptide Facility N/A
Beta Actin Reverse: TCGTTGCCAATAGTGATGACCTG University of Utah,DNA/Peptide Facility N/A
Tmem119 Forward: CTTCACCCAGAGCTGGTTCCATA University of Utah, DNA/Peptide Facility N/A
Tmem119 Reverse: CGCGATGAGCATCACGTACT University of Utah, DNA/Peptide Facility N/A
P2ry12 Forward: AGTGCAAGAACACTCAAGGC University of Utah, DNA/Peptide Facility N/A
P2ry12 Reverse: GTGTTGACACCAGGCACATC University of Utah, DNA/Peptide Facility N/A
Itgax Forward: CAAGACAGGACATCGCTCCC University of Utah, DNA/Peptide Facility N/A
Itgax Reverse: CCTGGAAATCTCTGCAGGTGT University of Utah, DNA/Peptide Facility N/A
Apoe Forward: GGGACAGGGGGAGTCCTATAAT University of Utah, DNA/Peptide Facility N/A
Apoe Reverse: TTTGCCACTCGAGCTGATCT University of Utah, DNA/Peptide Facility N/A
Clec7a Forward: CTTCACCTTGGAGGCCCATT University of Utah, DNA/Peptide Facility N/A
Clec7a Reverse: AGGGAGCCACCTTCTCATCT University of Utah, DNA/Peptide Facility N/A
Lpl Forward: CGAGAGCGAGAACATTCCCT University of Utah, DNA/Peptide Facility N/A
Lpl Reverse: GTCTCTCCGGCTTTCACTCG University of Utah, DNA/Peptide Facility N/A
Igf1 Reverse: GGCTTGTTGAAGTAAAAGCCCC University of Utah, DNA/Peptide Facility N/A
Cd68 Forward: GGACACTTCGGGCCATGTTT University of Utah, DNA/Peptide Facility N/A
Cd68 Reverse: CTTACACAGTGGACTGGGGC University of Utah, DNA/Peptide Facility N/A
Csf1 Forward: AGAACAAGGCCTGTGTCCGAA University of Utah, DNA/Peptide Facility N/A
Csf1 Reverse: CTGCTAGGGGTGGCTTTAGG University of Utah, DNA/Peptide Facility N/A
Lamp1 Forward: GGTAACAACGGAACCTGCCT University of Utah, DNA/Peptide Facility N/A
Lamp1 Reverse: TGGCATTCATCCCAAACTGC University of Utah, DNA/Peptide Facility N/A
Lyz2 Forward: TGAACGTTGTGAGTTTGCCAG University of Utah, DNA/Peptide Facility N/A
Lyz2 Reverse: CAGCAGAGCACTGCAATTGAT University of Utah, DNA/Peptide Facility N/A
B3-Apoe ISH probe Molecular Instruments N/A
B2-Clec7a ISH probe Molecular Instruments N/A
B1-Cx3cr1 ISH probe Molecular Technologies N/A
B3-Cx3cr1 ISH probe Molecular Instruments N/A
B4-Igf1 ISH probe Molecular Technologies N/A
B1-Itgax ISH probe Molecular Instruments N/A
B2-Lyz2 ISH probe Molecular Technologies N/A
B1-Spp1 ISH probe Molecular Technologies N/A
B4-Tmem119 ISH probe Molecular Technologies N/A
B1-Alexa 488 amplifier Molecular Technologies N/A
B1-Alexa 546 amplifier Molecular Technologies N/A
B2-Alexa 546 amplifier Molecular Technologies N/A
B2-Alexa 647 amplifier Molecular Technologies N/A
B3-Alexa 647 amplifier Molecular Technologies N/A
B4-Alexa 546 amplifier Molecular Technologies N/A
Software and Algorithms
Nikon Elements Nikon N/A
Prism Graph Pad V8
FastQC Babraham Bioinformatics V0.10.1
Salmon http://combine-lab.github.io V0.9.1
R https://www.r-project.org V3.5.1
Tximport Bioconductor V1.8.0
DESeq2 Bioconductor V1.20.0
clusterProfiler Bioconductor V3.10.1
GAGE Bioconductor V2.32.1