REAGENT or RESOURCE	SOURCE	IDENTIFIER
Antibodies
goat anti-mouse FITC-F(ab’)2 fragment, polyclonal	Invitrogen	Cat# A24519; RRID: AB_2535988, Lot# 46-101-040115
mouse anti-human CD34-APC, QBend10	Abcam	Cat# FAB7227A; RRID: AB_10972777, Lot# ACOE01
mouse anti-human CD34-FITC, QBend10	Abcam	Cat# ab78165; RRID: AB_1566006, Lot# GR214126-11
mouse anti-human CD3-PerCP-Cy5.5, OKT3	eBioscience	Cat# 45-0037-42; RRID: AB_1566006, Lot# E11758-1634
mouse anti-human CD8-Pe-Cy7, RPA-T8	eBioscience	Cat# 25-0088-42; RRID: AB_1659702, Lot# E10669-1635
mouse anti-human CD4-eFluor450, OKT4	eBioscience	Cat# 48-0048-42; RRID: AB_2016674, Lot# E10910-1633
mouse anti-human TCRVα24-PE, C15	Beckman Coulter	Cat# IM2283; RRID: AB_131321, Lot# 33
mouse anti-human TCRVβ11-APC, C21	Beckman Coulter	Cat# A66905, Lot# 15
mouse anti-human TCRVα24Jα18-FITC, 6B11	BD Pharmingen™	Cat# 558371; RRID: AB_397078, Lot# 73592
mouse anti-human CD19-BV421, HIB19	Biolegend	Cat# 302234; RRID: AB_302234, Lot# B218631
mouse anti-human CD1d-APC, 51.1	Biolegend	Cat# 350307; RRID: AB_10642029, Lot# B187498
mouse anti-human CD1d-APC, 42.1	BD Pharmingen™	Cat# 563505, Lot# 6119717
mouse anti-human CD5-PerCP-eFluor710, UCHT2	eBioscience	Cat# 46-0059-42; RRID: AB_1834407, Lot# E10854-1633
mouse anti-human CD3-APC-eFluor780, OKT3	eBioscience	Cat# 47-0038-42; RRID: AB_1272042, Lot# E08437-1636
mouse anti-human CD3-eFluor450, UCHT1	eBioscience	Cat# 48-0037-42; RRID: AB_1272055, Lot# E08482-1633
mouse anti-human CD4-PerCP-eFluor710, SK3	eBioscience	Cat# 46-0047-42; RRID: AB_1834401, Lot# E10835-1634
mouse anti-human CD8a-BUV395, RPA-T8	BD Horizon™	Cat# 563795; RRID: AB_2722501, Lot# 6084982
mouse anti-human Perforin-FITC, delta-G9	eBioscience	Cat# 11-9994-41; RRID: AB_1944476, Lot# E11376-1630
mouse anti-human Perforin-FITC, B-D48	2BScientific	Cat# 854.952.010; RRID: AB_2169096, Lot# F131108
mouse anti-human GranzymeB-PE, GB11	eBioscience	Cat# 12-8899-41; RRID: AB_1659718, Lot# E10678-1639
mouse anti-human IFNgamma-APC, 4S.B3	eBioscience	Cat# 17-7319-41; RRID: AB_10852838, Lot# E14061-104
rat anti-human IL-2-PE, MQ1-17H12	eBioscience	Cat# 12-7029-42; RRID: AB_2572651, Lot# E17170-102
mouse anti-human IL-4-PeCy7, 8D4-8	eBioscience	Cat# 25-7049-41; RRID: AB_1659722, Lot# E10585-1632
mouse anti-human IL17A APC-eFluor780 eBio64, DEC17	eBioscience	Cat# 47-7179-42; RRID: AB_11043559, Lot# E15331-105
mouse anti-human CD3-Pe/Cy7, OKT3	Biolegend	Cat# 317333; RRID: AB_317333, Lot# B224617
mouse anti-human CD56-Pe/Cy7, 5.1H11	Biolegend	Cat# 362509; RRID: AB_2563926, Lot# B230713
mouse anti-human CD11b-Pe/Cy7, ICRF44	Biolegend	Cat# 301322; RRID: AB_830644, Lot# B166859
mouse anti-human CD14-Pe/Cy7, HCD14	Biolegend	Cat# 325617; RRID: AB_830690, Lot# B161190
mouse anti-human CD16-Pe/Cy7, B73.1	Biolegend	Cat# 360707; RRID: AB_2562950, Lot# B203769
mouse IgG2bk-APC isotype control, MPC11	Biolegend	Cat# 400322; RRID: AB_326500, Lot# B202281
mouse IgG1k-APC isotype control, MOPC-21	BD Pharmingen™	Cat# 550854; RRID: AB_398467, Lot# 7061976
mouse IgG1-FITC isotype control, 11711	R&D Systems	Cat# IC002F; RRID: AB_357241, Lot# LGY0914051
mouse IgG1k-PeCy7 isotype control, P3.6.2.8.1	eBioscience	Cat# 25-4714-41; RRID: AB_1548707, Lot# E10143-1634
mouse IgG1k-APCeFluor780 isotype control, P3.6.2.8.1	eBioscience	Cat# 47-4714-80; RRID: AB_1271993, Lot# E08469-1636
mouse IgG1-Pe isotype control, X40	BD Biosciences	Cat# 345816, Lot# 3352966
rat IgG2ak-Pe isotype control, eBR2a	eBioscience	Cat# 12-4321-41; RRID: AB_1518774, Lot# E10138-1631
rabbit anti-histone H3 tri methyl K4 antibody, polyclonal	Abcam	Cat# ab8580; RRID: AB_306649, Lot# GR3175719-1
mouse anti-histone H3 tri methyl K27, mAbcam 6002	Abcam	Cat# ab6002; RRID: AB_305237, Lot# GR130002-6
rabbit anti-RNA polymerase II CTD repeat YSPTSPS phospho S2, polyclonal	Abcam	Cat# ab5131; RRID: AB_449369, Lot# GR126665-3
rabbit anti-RNA polymerase II CTD repeat YSPTSPS phosphor S5, polyclonal	Abcam	Cat# ab5095; RRID: AB_304749, Lot# GR132981-2
rabbit anti-EZH2, polyclonal	Abcam	Cat# ab195409, Lot# GR3100231-14
mouse anti-retinoic acid receptor alpha, H1920	Abcam	Cat# ab41934; RRID: AB_777683, Lot# GR298513-4
rabbit IgG, polyclonal	Millipore	Cat# PP64; RRID: AB_97852, Lot# 2146049
mouse IgG, polyclonal	Millipore	Cat# 12-371B; RRID: AB_2617156, Lot# 2138001
mouse anti–human CD19, BT51E	Novocastra	Cat# PA0843
rabbit anti–human CD19, polyclonal	Abcam	Cat# ab99965; RRID: AB_10672632
mouse anti–human CD3, PS1	Novocastra	Cat# RTU-CD3-PS1; RRID: AB_563542
rabbit anti–human CD3, SP7	Abcam	Cat# ab16669; RRID: AB_443425
Bacterial and Virus Strains
Turbo Competent E.coli, F′ ´proA+B+ lacIq Δ lacZ M15/ fhuA2 Δ(lac-proAB) glnV gal R(zgb- 210::Tn10)TetS endA1 thi-1 Δ(hsdS-mcrB)5	New England Biolabs	Cat# C2984I
All lenti- and retro-viruses were VSV-G pseudotyped	This paper	N/A
Biological Samples
Healthy donors and B lymphoproliferative disorders (MCL, MZL, CLL) patients’ peripheral blood/apheresis	Hammersmith Hospital	N/A
Xenografts tissues	This paper	N/A
Chemicals, Peptides, and Recombinant Protein
KRN7000 (α-galactosylceramide)	BioVision	Cat# 2152 250
All-trans retinoic acid (ATRA)	Sigma-Aldrich	Cat# 2625
GSK343	Sigma-Aldrich	Cat# SML0766
Dimethyl sulfoxide (CryoSure-DMSO)	WAK-Chemie Medical GmbH	Cat# WAK-DMSO-10
Polybrene	Sigma-Aldrich	Cat# H9268
Poly-L-ornithine	Sigma-Aldrich	Cat# P4957
Dynabeads™ Human T-Activator CD3/CD28 for T Cell Expansion and Activation	Gibco™	Cat# 11131D
Human IL-2 IS, premium grade	Miltenyi Biotec	Cat# 130-097-745
Human IL-15, premium grade	Miltenyi Biotec	Cat# 130-095-765
Cell Stimulation Cocktail (500X)	eBioscience	Cat# 00-4970-93
Monensin Solution (1000x) 1 mL	eBioscience	Cat# 00-4505-51
Brefeldin A Solution (1000X) 1 mL	eBioscience	Cat# 00-4506-51
CellTrace™ Violet	Invitrogen™	Cat# C34571
7-AAD	Invitrogen™	Cat# 00-6993-50
4',6-Diamidino-2-Phenylindole, Dilactate (DAPI)	Invitrogen™	Cat# D3571
Isoflurane	Zoetis UK	Vm 42058/4195
D-luciferin	Goldbio	Cat# LUCK-1G
Formalin solution, neutral buffered, 10%	Sigma-Aldrich	Cat# HT501128
Acetic acid, zinc chloride and formaldehyde solution (AZF)	Genta Medical	N/A
Xylenes	Sigma-Aldrich	Cat# 214736
Ethanol	Sigma-Aldrich	Cat# E7023
Haematoxylin	Sigma-Aldrich	Cat# H3136
Eosin	Sigma-Aldrich	Cat# 230251
Hydrochloric Acid	Sigma-Aldrich	Cat# 1.09057
Sodium citrate tribasic dihydrate	Sigma-Aldrich	Cat# C8532
Tween-20	Sigma-Aldrich	Cat# P1379
Triton-X100	Sigma-Aldrich	Cat# X100
Saponin	Sigma-Aldrich	Cat# 47036
Normal goat serum	Abcam	Cat# ab7481
Gadovist (Gadobutrol)	Bayer	PL 00010/0535
Critical Commercial Assays
ProcartaPlex HumanCytokine Panel 1B (25 plex)	Invitrogen™	Cat# EPX250-12166-901
Taqman Gene Expression Master Mix and Assays	Applied Biosystems	Cat# 4369016
Deposited Data
CAR-iNKT/CAR-T cell/C1R cell line RNA-seq data	This paper	EGAS00001003176
Experimental Models: Cell Lines
Lenti-X-293T	Clontech	Cat# 632180
K562	ATCC	Cat# ATCC CCL-243
ARH-77	DSMZ	Cat# ACC 512
KMS-12-BM	DSMZ	Cat# ACC 551
NCI-H929	DSMZ	Cat# ACC 163
U266	DSMZ	Cat# ACC 9
C1R and C1R-CD1d	Prof Vincenzo Cerundolo, University of Oxford, Oxford, UK	N/A
Farage	Prof Ronald Gartenhaus, University of Maryland School of Medicine, Baltimore, USA	N/A
Experimental Models: Organisms/Strains
NOD/SCID/IL-2Rγ-null NSG	Charles River	N/A
Oligonucleotides
19-CD28ζ CAR forward: 5’-CCCAGCACCTCCCGTGGCCGGCCCGTCA GTCTTCTGGGTCCTGGTGGTGG	This paper	N/A
19-CD28ζ CAR reverse: 5’-CGATAAGCTTGATAT CAAGCTTGCATGCCTGCAGGTCATCTGGGTG	This paper	N/A
19-CD28OX40ζ CAR forward: 5’-CCCAGCACCTCCCGTGGCCGGCCC GTCAGTCTTTTGGGTGCTGGTGGTG	This paper	N/A
19-CD28OX40ζ CAR reverse: 5’-CGATAAGCTTGATA TCAAGCTTGCATGCCTGCAGGTTAGCGAGGAGGC	This paper	N/A
CD1D Hs00939888_m1	Applied Biosystems	Cat# 4331182
ACTB Hs99999903_m1	Applied Biosystems	Cat# 4331182
GAPDH Hs03929097_g1	Applied Biosystems	Cat# 4331182
U266 ChIP, CD1D forward: 5’-CCCTGAGAAAGTGACCTTGG	This paper	N/A
U266 ChIP, CD1D reverse: 5’-TGGCTGTTAGCTTTCAGTTCC	This paper	N/A
U266 ChIP, GAPDH forward: 5’-CCGGGAGAAGCTGAGTCATG	This paper	N/A
U266 ChIP, GAPDH reverse: 5-TTTGCGGTGGAAATGTCCTT	This paper	N/A
U266 ChIP, HOXA2 forward: 5’-AGGAAAGATTTTGGTTGGGAAG	This paper	N/A
U266 ChIP, HOXA2 reverse: 5’-AAAAAGAGGGAAAGGGACAGAC	This paper	N/A
CLL ChIP, CD1d distal promoter forward: 5'-TGGACGTCCGAGAGGTAAGAG	This paper	N/A
CLL ChIP, CD1d distal promoter reverse: 5'-CACAGTAACCTGGAGATCCACTA	This paper	N/A
CLL ChIP, CD1d proximal promoter forward: 5'-AATGATGCTGGGGTGTGAGG	This paper	N/A
CLL ChIP, CD1d proximal promoter reverse: 5'-GCACGGCCTGCAAGATTATG	This paper	N/A
CLL ChIP, CD1d exon 2 forward: 5'-CTCCAGATCTCGTCCTTCGC	This paper	N/A
CLL ChIP, CD1d exon 2 reverse: 5'-CTGGGACCAAGGCTTCAGAG	This paper	N/A
Recombinant DNA
19-IgGFc-CD28ζ CAR	Martin Pule	N/A
19-IgGFc-CD28OX40ζ CAR	Martin Pule	N/A
19-CD28ζ CAR	This paper	N/A
19-CD28OX40ζ CAR	This paper	N/A
SFG-dCD19	Martin Pule	N/A
pHRSIN-CD1d	Vincenzo Cerundolo	N/A
SFG-CD1d	This paper	N/A
SFG-CD1d.2A.dCD19	This paper	N/A
SFG-ffLuciferase.tdRFP	Whilding et al., 2017	N/A
Software and Algorithms
FlowJo v10	www.flowjo.com	http://docs.flowjo.com/
IncuCyte™ software	EssenBio/Sartorius	https://www.essenbioscience.com/en/resources/incucyte-zoom-resources-support/
Living Image software	PerkinElmer	http://www.perkinelmer.com/lab-products-and-services/resources/in-vivo-imaging-software-downloads.html
Paravision 6.01	Bruker, BioSpin	https://www.bruker.com/service/support-upgrades/software-downloads/mri.html
OsiriX	Pixmeo SARL	http://www.osirix-viewer.com/download_form/download_form.php
jMRUI	MRUI Consortium	http://www.jmrui.eu/license-and-download/
GraphPad Prism 7	GraphPad Software	https://www.graphpad.com/scientific-software/prism/
FastQC (version 0.64)	Babraham Bioinformatics https://www.bioinformatics.babraham.ac.uk/projects/fastqc/	https://toolshed.g2.bx.psu.edu/repository/display_tool?repository_id=ca249a25748b71a3&render_repository_actions_for=tool_shed&tool_config=%2Fsrv%2Ftoolshed%2Fmain%2Fvar%2Fdata%2Frepos%2F000%2Frepo_829%2FrgFastQC.xml&changeset_revision=28d39af2dd06
bcl2fastq2 Conversion Software v2.18	http://emea.support.illumina.com/sequencing/sequencing_software/bcl2fastq-conversion-software/downloads.html#	https://support.illumina.com/sequencing/sequencing_software/bcl2fastq-conversion-software/downloads.html
STAR (version 2.5.3a)	(Dobin et al., 2013)	https://github.com/alexdobin/STAR
R package Rsubread (version 1.24.2)	(Liao et al., 2013)	https://bioconductor.org/packages/release/bioc/html/Rsubread.html
R package edgeR v3.20.9	(Robinson et al., 2010)	https://bioconductor.org/packages/release/bioc/html/edgeR.html
TopHat 2.0.14	(Kim et al., 2013)	http://ccb.jhu.edu/software/tophat/downloads/
Cufflinks 2.2.1	(Trapnell et al., 2010)	http://cole-trapnell-lab.github.io/cufflinks/releases/v2.2.1/
Other
Anti-iNKT, microbeads, human	Miltenyi Biotec	Cat# 130-094-842
CD34 MicroBead Kit UltraPure, human	Miltenyi Biotec	Cat# 130-100-453
NucleoSpin RNA kit	Macherey Nagel	Cat# 740955
RevertAid first strand cDNA synthesis kit	Thermo Fisher Scientific	Cat# K1621
Qubit RNA HS Assay kit	Life Technologies	Cat# Q32852
RNA 6000 pico kit	Agilent	Cat# 5 067-1513
NEBNext® Ultra™ II Directional RNA Library Prep Kit for Illumina with rRNA depletion	New England Biolabs	Cat# E7760S/L
NEBNext poly(A) mRNA Magnetic Isolation Module	New England Biolabs	Cat# E7490S/L
NEBNext Ultra RNA Library Prep kit for Illumina	New England Biolabs	Cat# E7530S/L
Qubit dsDNA High Sensitivity Assay kit	Life Technologies	Cat# Q32851
Bioanalyser High Sensitivity DNA kit	Agilent	Cat# 5067-4626
NEBNext® Library Quant Kit for Illumina	New England Biolabs	Cat# E7630S/L