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. 2023 Nov 7;26(12):108411. doi: 10.1016/j.isci.2023.108411
REAGENT or RESOURCE SOURCE IDENTIFIER
Chemicals, peptides, and recombinant proteins

Sardine Oil Peru in 2019 N/A
cis-5,8,11,14,17-Eicosapentaenoic acid Sigma-Aldrich Cat# E2011
cis-4,7,10,13,16,19-Docosahexaenoic acid Sigma-Aldrich Cat# D2534
Isopropanol, Optima LC/MS grade Fisher Scientific Cat# A461-4
Methanol, Optima LC-MS grade Fisher Scientific Cat# A955-500
Acetonitrile, Optima LC-MS grade Fisher Scientific Cat# A955-500
Ethanol, HPLC grade Fisher Scientific Cat# AC611050040
Water, Optima LC-MS grade Fisher Scientific Cat# W6500
Tert-Butyl Methyl Ether, HPLC Plus grade Sigma Aldrich Cat# 650560
Ammonium formate Alfa Aeser Cat# 540-69-2
Butylated hydroxytoluene Sigma Aldrich Cat# B1378-100G
Acetic Acid, Optima LC/MS grad Fisher Scientific Cat# A11350
Phosphatidylcholine (23:0/23:0) Avanti Polar Lipids Cat# 850372
Phosphatidylglycerol (14:0/14:0) Avanti Polar Lipids Cat# 840445
Phosphatidic acid (14:0/14:0) Avanti Polar Lipids Cat# 830845
Phosphatidylethanolamine (14:0/14:0) Avanti Polar Lipids Cat# 850745
Phosphatidylserine (14:0/14:0) Avanti Polar Lipids Cat# 840033
Sphingomyelin (18:1/12:0) Avanti Polar Lipids Cat# 860583
Deuterated (d8)-Arachidonic acid Cayman Chemical Cat# 390010
Triglyceride (14:1/14:1/14:1) NuCheck Prep Cat# T-205
Liposome kit Sigma-Aldrich Cat# L4395-1VL
Oil red O Poly Scientific, Inc Cat# S-2146
Hematoxylin and eosin Leica Leica
(5Z,8Z,11Z,14Z,17Z)-Icosa-5,8,11,14,17-pentaenoic acid Combi-Blocks Cat# QG-5508
LiAlH4 MilliporeSigma Cat# 199877
NaI MilliporeSigma Cat# 383112
Li2CuCl4 MilliporeSigma Cat# 224308
Jones reagent MilliporeSigma Cat# 758035
RNeasy Mini Kit Qiagen Cat# 74004
TruSeq Stranded mRNA Sample Prep Kit Illumina Cat#: 20020595
Ketamine Akorn, Inc Cat# NDC42023-115-10
Xylazine Akorn, Inc Cat# NDC59399-110-20
1% tropicamide ophthalmic solution Akorn, Inc Cat# NDC17478-102-12

Deposited data

RNA-seq data This paper GEO: GSE221559

Experimental models: Cell lines

Chinese hamster ovary (CHO) cells ATCC CCL-61

Experimental models: Organisms/strains

Mouse: C57BL/6 Taconic Biosciences B6NTac
Mouse: C57BL/6J Jackson Laboratories JAX:000664

Oligonucleotides

Cyp4a10 (Mm02601690_gH) Life Technologies Cat# 4331182
Cyp4a14 (Mm00484135_m1) Life Technologies Cat# 4331182
Cyp4a31 (Mm07308194_g1) Life Technologies Cat# 4351372
Acot1 (Mm01622471_s1) Life Technologies Cat# 4331182
Lpl (Mm00434764_m1) Life Technologies Cat# 4331182
Pck1 (Mm01247058_m1) Life Technologies Cat# 4331182
Pdhb (Mm00499323_m1) Life Technologies Cat# 4331182
C9 (Mm00442739_m1) Life Technologies Cat# 4331182
C4a (Mm01132415_g1) Life Technologies Cat# 4331182
Elovl2 (Mm00517086_m1) Life Technologies Cat# 4331182
Elovl5 (Mm00506717_m) Life Technologies Cat# 4331182
Actb (Mm02619580_g1) Life Technologies Cat# 4331182

Software and algorithms

NDP.view2 Hamamatsu Photonics Cat# U12388-01
Optomotry VR, optomotor tests of vision Cerebral Mechanics Inc. Cat# Optomotry VR 1.7.4
ERG (UTAS visual diagnostic test system) LKC technologies Cat# EM for windows version 9.4.0
kallisto Bray et al.36 https://github.com/pachterlab/kallisto
tximport Soneson et al.37 https://bioconductor.org/packages/release/bioc/html/tximport.html
edgeR Robinson et al.38 https://bioconductor.org/packages/release/bioc/html/edgeR.html
limma Ritchie et al.39 https://bioconductor.org/packages/release/bioc/html/limma.html
gProfiler Raudvere et al.40 https://biit.cs.ut.ee/gprofiler/gost
Pathview Luo et al.41 https://bioconductor.org/packages/release/bioc/html/pathview.html
msigdb Liberzon et al.42 https://www.gsea-msigdb.org/gsea/msigdb
MGI Mouse Genome Database https://www.informatics.jax.org/
tidyverse R packages https://www.tidyverse.org/
MAVEN metabolomics software v. 2.0.5 Life Technologies Cat# NC2169324
LIMSA add-in for Microsoft Excel N/A www.helsinki.fi/science/lipids/software.html
MetaboAnalyst v. 5.0 software N/A www.metaboanalyst.ca

Other

Cobas® 6000 analyzer Roche Diagnostics Cat# ROCHE Cobas 6000
SuperoseTM 6 10/300 GL column GE Healthcare Cat# GE17-5172-01
ÄKTA pure™ chromatography system GE Healthcare Cat# 29018224
NanoDropTM spectrophotometer Life Technologies Cat# ND2000CLAPTOP
4200 TapeStation System Agilent Technologies Cat# G2991BA
NextSeq 2000 Illumina Cat# 20038897
Hamamatsu NDP scanner Hamamatsu Photonics Cat# RS
Nuclear Magnetic Resonance Spectroscopy (NMR) Agilent Technologies Model: Varian INOVA 400
High-Resolution Mass Spectrometry (HRMS) Waters Corp Model: Xevo G2-XS QT
ERG instrument (Full field ERG, UTAS E 3000) LKC technologies Cat# UTAS E 3000
OptoMotry CerebralMechanics Inc. Optomotry, serial number DP/N 00324H
Fisher Bead Mill 4 Fisher Scientific Cat# 15-340-164
Ceramic beads Fisher Scientific Cat# 15-340-185
Savant Speedvac SC110A American Laboratory Trading Cat# 23011
Vortex Genie II Scientific Industries Cat# SI-0236
Synergi HydroRP C18AQ 150 × 2 mm, 4 u, 80A LC-MS column Phenomenex Cat# 00F-4375-B0
C18AQ SecurityGuard cartridge Phenomenex Cat# AJ0-7510
Shimadzu Prominence HPLC Prodigy Scientific Cat# Shimadzu-Prom
Thermo LTQ-Orbitrap Velos mass spectrometer Labexchange Cat# 19984
Eppendorf Safe-Lock 2.0 mL tubes, PCR clean Sigma Aldrich Cat# EP022363344
Cat# EP022363344 Fisher Scientific Cat# 06-406-19M
LC-MS vial snap-caps, 11 mm Fisher Scientific Cat# 14-823-399
Agilent vial inserts 250 ul Agilent Cat# 5183-2085
Bleaching Clay Mizusawa Industrial Chemicals, Ltd. Cat# GALLEON EARTH V2
Silica Gel AGC Si-Tech Co., LTD Cat# M.S.GEL D-75-60A