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. 2018 Mar 22;173(1):260–274.e25. doi: 10.1016/j.cell.2018.02.030
REAGENT or RESOURCE SOURCE IDENTIFIER
Antibodies

anti-CD3 Abcam Cat# ab8090
anti-CD28 BD Biosciences Cat# 555725
GREB1 Abcam Cat# ab72999
GLUL BD Biosciences Cat# 610517
HSP70 Cell Signaling Cat# 4872
α-tubulin Sigma Cat# T6793
IRDye800 (anti-mouse) Li-Cor Cat# 925-32210
IRDye680 (anti-rabbit) Li-Cor Cat# 925-68071

Biological Samples

Human buffy coats (consented donors, IRB approved) DRK-Blutspendedienst Mannheim N/A

Chemicals, Peptides, and Recombinant Proteins

17-AAG LC LABS Cat# A-6880
I-BET151 GSK compound collection (Dawson et.al. 2011) CAS: 1300031-49-5
estradiol Sigma-Aldrich Cat# E8875; E2758
GW7604 GSK compound collection CAS: 195611-82-6
raloxifene GSK compound collection CAS: 84449-90-1
JQ1 Carbosynth Cat# FC43273
calyculin A Apollo Scientific Cat# BIC1019
sodium orthovanadate Sigma-Aldrich Cat# S6508
JQ1-VHL PROTAC This publication N/A
JQ1-Az This publication N/A
VHL alkyne This publication N/A
IBET-151-PROTAC This publication N/A
TMT10plex ThermoFisherScientific Cat# 90406
Basal RPMI medium GIBCO Cat# A24942-01
Dialysed FBS GIBCO Cat# 26400-044
Glucose 2g/L GIBCO Cat# A24940-01
L-Glutamine (200 mM) GIBCO Cat# 24030-032
L-Arginine light Sigma Cat# A8094-25G
L-Lysine light Sigma Cat# L9037-25G
L-Arginine heavy (SILAC) Thermo Cat# 88434
L-Lysine heavy (SILAC) Sigma Cat# 608041-1G
Cy3-Oligo(dT)50 Sigma N/A
Wheat Germ Agglutinin (WGA) Alexa Fluor 647 Conjugate Life Technologies Cat# W32466
Hoechst 33258 Sigma Cat# H3569
Recombinant FYTTD1 Abcam Cat# ab164533
Protein G beads Sigma Cat# P7700
benzonase Sigma Cat# E1014
Igepal CA-630 Sigma Cat# I8896

Critical Commercial Assays

T cells negative selection kit StemCell Technologies Cat# 19051
CellTiter-Glo Promega Cat# G9242
RNAquous extraction kit Life Technologies Cat# Q10212
Maxima First Strand cDNA kit Thermo Fisher Cat# K1641
Qubit kit Life Technologies Cat# Q10212
TaqMan master mix Thermo Fisher Cat# 4369016

Deposited Data

Supplemental datasets for individual Figures Mendeley Data https://doi.org/10.17632/8pzhg2tdyb.1
Multiplexed proteome dynamics profiling of JQ1-PROTAC PRIDE PXD008637
Thermal proteome profiling of JQ1 PRIDE PXD008638
2 Dimensional Thermal proteome profiling of JQ1 PRIDE PXD008626
Multiplexed proteome dynamics profiling of Estradiol and SERMs PRIDE PXD008636
Expression proteomics combination treatment of Estradiol and SERMs PRIDE PXD008628
Multiplexed proteome dynamics profiling of HSP90 inhibitor 17-AAG PRIDE PXD008633
Immunoaffinity enrichment of GREB1 to co-enrich HSP90 PRIDE PXD008631
Thermal proteome profiling of Jurkat cells PRIDE PXD008639
Kinobeads affinity enrichment from lysate derived from stimulated cells PRIDE PXD008632
Jurkat protein half live PRIDE PXD008629
T cell protein half live PRIDE PXD008630
Multiplexed proteome dynamics profiling of HSP90 inhibitor 17-AAG in T cells PRIDE PXD008635
Multiplexed proteome dynamics profiling of HSP90 inhibitor 17-AAG in anti-CD3 and anti-CD28 stimulated T cells PRIDE PXD008634
Expression profiling of HSP90 inhibitor 17-AAG in anti-CD3 and anti-CD28 stimulated T cells PRIDE PXD008627

Experimental Models: Cell Lines

THP-1 ATCC TIB-202
MCF-7 ATCC HTB-22
Jurkat ATCC TIB-152

Oligonucleotides

Amplicon context sequence for GLUL (FAM) Thermo Fisher Cat# 4331182
ACCCGGACCCTGGACA
GTGAGCCCAAGTGT GTGGAAGAGT
Assay ID# Hs00365928
Amplicon context sequence for RPL7 (VIC) Thermo Fisher Cat# 4331182
AGAACCCAAATTGGC
GTTTGTCATCAGAATCAGAGGTA
Assay ID# Hs02596927

Software and Algorithms

ImageJ 1.45 s NIH https://imagej.nih.gov/ij/download.html
CellProfiler 2.1.1 Broad Institute http://cellprofiler.org
Mascot 2.4 Matrix Science, Boston, MA N/A
isobarQuant Franken et al., 2015 https://github.com/protcode/isob/archive/1.1.0.zip
R 3.4.1 R Core Team https://www.R-project.org
TPP library Franken et al., 2015 http://bioconductor.org/biocLite.R; library(“TPP”)
Spotfire 7.0.1.24 Tibco https://spotfire.tibco.com
Graphpad Prism 7 GraphPad Software https://www.graphpad.com