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. 2022 Mar 26;25(4):104170. doi: 10.1016/j.isci.2022.104170
REAGENT or RESOURCE SOURCE IDENTIFIER
Antibodies

Anti-SHIP-1 Antibody (P1C1) Santa Cruz Biotechnology Cat# Sc-8425
Santa Cruz Biotechnology Cat# Sc-13119
Anti-β-Actin Antibody (C4) Santa Cruz Biotechnology Cat# Sc-47778
m-IgGκ BP-HRP Santa Cruz Biotechnology Cat# Sc-516102
TruStain FcX (anti-mouse CD16/32, Clone 93) Biolegend Cat# 101320
SHIP1-PE (Clone P1C1) Biolegend Cat # 656604
APC/Cyanine7 anti-mouse CD45 Antibody Biolegend Cat# 103116
CD45-PerCP (Clone 30-F11) Biolegend Cat# 557235
CD11b-APC_Cyanine7 (Clone M1/70) BD Biosciences Cat# 557657
iNOS-PE_eFlour610 (CloneCxNFT) ThermoFisher Scientific Cat #61-5920-80
Anti-PtdIns(3,4)P2 Echelon Biosciences Cat# Z-P034
Phalloidin CruzFluor, 647 Conjugate Santa Cruz Biotechnology Cat#sc-363797
Alexa Fluor Plus 555 Goat anti-Mouse IgG (H+L) Thermofisher Scientific Cat# A32727

Bacterial and virus strains

DH 5 alpha competent E.coli New England Biolabs Cat# C2987H
BL2I (DE3) competent E.coli New England Biolabs Cat# C2527H

Chemicals, peptides, and recombinant proteins

beta-Amyloid Peptide (1-42) Human Abcam Cat#ab120301
Lipopolysaccharides from, E coli 0111:B4 (LPS) Sigma-Aldrich Cat# L2630
Beta-Amyloid (1-42), HiLyte™ Fluor 488-labeled Human Anaspec Cat# AS-60479-01
SHIP2 Lipid Phosphatase Enzyme Echelon Biosciences Cat # E-1000-2
BugBuster HT Millipore Cat# 70922-4
PI(3,4,5)P3 diC8 (PIP3) Echelon Biosciences Cat# P-3908-3
Malachite Green Solution Echelon Biosciences Cat# K-1501
eBioscience IC Fixation Buffer ThermoFisher Scientific Cat# 00-8222-49
eBioscience Permeabilization Buffer (10X) ThermoFisher Scientific Cat# 00-8333-56
Zombie Aqua Fixable Viability Kit Biolegend Cat #423102
Molecular Probes DAPI (4',6 Diamidino 2 Phenylindole, Dihydrochloride) Thermo Fisher Scientific Cat#D1306
Propidium iodide (PI) Sigma Cat#P4170
Mowiol (Polyvinyl Alcohol) Sigma Merck Cat#81381

Critical commercial assays

Plasmid Midi Kit (25) Qiagen Cat#12143
5’PtdIns(3,4,5)P3 Phophatase Activity Fluorescence Polarization Assay Echelon Biosciences Cat# K-1400
SuperSignal™ West Femto Maximum Sensitivity Substrate Thermo Scientific™ Cat#34095
SuperSignal™ West Pico PLUS Chemiluminescent Substrate Thermo Scientific™ Cat#34080
Halt™ Protease and Phosphatase Inhibitor Cocktail (100X) Thermo Scientific™ Cat#78440
Syn PER Synaptic Protein Extraction Reagent Thermo Fisher Scientific Cat#87793
4–15% Mini-PROTEAN® TGX™ Precast Protein Gels Bio-Rad Cat#4561084
ELISA MAX™ Standard Set Mouse IL-6 BioLegend Cat#431301
ELISA MAX™ Standard Set Mouse TNF-α BioLegend Cat#430901
TMB Substrate Set BioLegend Cat#421101
Cell Counting KIT-8 CCK-8 Dojindo Molecular Technologies Inc Cat#CK04-20
Lipofectamine™ CRISPRMAX™ Cas9 Transfection Reagent Thermo Fisher Scientific Cat#CMAX00008
Truecut™ Cas9 Protein v2 Thermo Fisher Scientific Cat#A36498
TrueGuide™ Synthetic sgRNA – Inpp5d mouse Thermo Fisher Scientific Cat#CRISPR494808_SGM
TrueGuide™ Synthetic sgRNA – Negative control Thermo Fisher Scientific Cat#A35526
Syn PER Synaptic Protein Extraction Reagent Thermo Fisher Scientific Cat#87793
V-PLEX Aβ Peptide Panel 1 (6E10) Kit Meso Scale Discovery Cat#K15200E-2
In Vitro Toxicology Assay Kit, Resazurin based Sigma-Aldrich Cat#TOX8-1KT
Phrodo™ iFL Green STP Ester (amine-reactive) Thermo Fisher Scientific Cat# P36012

Deposited data

SHIP2 structure (Mills et al., 2012) PDBID: 4A9C
SHIP2 structure (Le Coq et al., 2017) PDBID: 5OKM
INPP5B structure (Tresaugues et al., 2014) PDBID: 3MTC
Mcule library (Hsieh et al., 2019) N/A

Experimental models: Cell lines

BV2 ATCC Cat# CRL-2467
Mouse BV2 scramble clone Generated by Paolicelli’s lab NA
Mouse BV2 Inpp5d clone 1 Generated by Paolicelli’s lab NA
Mouse BV2 Inpp5d clone 2 Generated by Paolicelli’s lab NA
Mouse BV2 cell-line Kind gift of Marc Suter (UNIL) CVCL_0182
Human Stably expressing-APPsw Hela cells Kind gift from Lawrence Rajendran (UZH) N/A
L929 mouse fibroblast cells Kind gift of Steven Taffet (UPSTATE) N/A

Experimental models: Organisms/strains

C57BL/6J Jackson Laboratory Cat#000664
B6.129S6-Inpp5dtm1Wgk/J Jackson Laboratory Cat#028255
B6.129P2-Lyz2tm1(cre)Ifo/J Jackson Laboratory Cat#004781
Mouse: B6.Cg-Tg(Camk2a-cre)T29-1Stl/J Jackson Laboratory Cat#005359
Mouse: B6.Cg-Gt(ROSA)26Sortm14(CAG tdTomato)Hze/J Jackson Laboratory Cat#007914

Oligonucleotides

See Table S2 for: SHIP1 cloning primers (pS97splitRBP_S1-Enz) This Paper N/A
See Table S2 for: SHIP1deltaC2 cloning primers (pS97splitRBP_ S1ΔC2) This Paper N/A
See Table S2 for: SHIP2 cloning primers (pS97splitRBP_ S2-Enz) This Paper N/A

Recombinant DNA

pET24TEV-tSHIP1 (Brooks et al., 2015) Addgene ID 183770
pET24TEV-tSHIP2 (Russo et al., 2015) Addgene ID 183771
pS97splitRBP (Ha et al., 2019) N/A
pS97splitRBP_S1ΔC2 This paper Addgene ID 183769
pS97splitRBP_S1-Enz This paper Addgene ID 183767
pS97splitRBP_S2-Enz This paper Addgene ID 183768

Software and algorithms

AtomNet® AI technology This paper N/A
FlowJo v10.8.1 BD Biosciences https://www.flowjo.com
SpectroFlo Version 2.2.0.2 Cytek https://cytekbio.com/pages/aurora
ImageJ (Schneider et al., 2012) https://imagej.nih.gov/ij/
Imaris Bitplane http://www.bitplane.com/imaris/imaris
Prism 9.2 GraphPad https://www.graphpad.com/
BioTek Gen2 Data analysis software Agilent https://www.biotek.com/
Image Lab Software Bio-rad Cat# 12012931
Thunder Imaging System Leica Microsystems https://www.leica-microsystems.com

Other

HisTrap™ High Performance 5mL column Cytiva Life Sciences Cat# GE17-5248-01
Pierce Protein Concentrators 30KMWCO PES Thermo Fisher Scientific Cat#88529
DMEM/Ham's F-12 50/50 Mix [+] L-glutamine Corning® Cat#10-090-CV
Cellstripper™, Liquid Corning® Cat# 25-056-CI
Gibco™ DMEM, low glucose, pyruvate ThermoFisher Scientific Cat# 31885049
Trypsin-EDTA (0.05%), phenol red ThermoFisher Scientific Cat# 25300062
Poly-D-lysine Hydrobromide Sigma Merck Cat# P7886
μ-Slide 18 Well IBI Cat# 81817
Geneticin disulphate (G418) Carl Roth Cat# 108321-42-2
Zeocin™ Selection Reagent ThermoFisher Scientific Cat# R25001
Microvette® 100 Serum, 300 μL Sarstedt Cat#20.1308.100