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. 2022 Jun 3;25(7):104518. doi: 10.1016/j.isci.2022.104518
REAGENT or RESOURCE SOURCE IDENTIFIER
Antibodies

4EBP1 mAb (Rabbit) Cell Signaling Technology Cat# 9644; RRID:AB_2097841
4EBP1 (T37/46P) mAb (Rabbit) Cell Signaling Technology Cat# 2855; RRID:AB_560835
AKT1 antibody (Rabbit) Cell Signaling Technology Cat# 9272; RRID:AB_329827
AKT1 (S473P) mAb (Mouse) Cell Signaling Technology Cat# 4051; RRID:AB_331158
AKT1 (T308P) antibody (Rabbit) Cell Signaling Technology Cat# 9275; RRID:AB_329828
AKT2 antibody (Rabbit) Cell Signaling Technology Cat# 2962; RRID:AB_329872
AKT3 antibody (Rabbit) Cell Signaling Technology Cat# 4059; RRID:AB_2225351
Anti-p21 Antibody (F-5) (Mouse) Santa Cruz Biotechnology Cat# sc-6246; RRID:AB_628073
Anti-puromycin antibody (Mouse) Millipore Cat# MABE343; RRID:AB_2566826
BAD mAb (Rabbit) Cell Signaling Technology Cat# 9239; RRID:AB_2062127
BAX mAb (Rabbit) Cell Signaling Technology Cat# 5023; RRID:AB_10557411
Bcl2 mAb (Rabbit) Cell Signaling Technology Cat# 4223; RRID:AB_1903909
β-Actin (13E5) mAb (Rabbit) Cell Signaling Technology Cat# 4970; RRID:AB_2223172
Bim mAb (Rabbit) Cell Signaling Technology Cat# 2933; RRID:AB_1030947
Caspase 3 (Rabbit) Cell Signaling Technology Cat# 9662; RRID:AB_331439
Caspase 8 mAb (Rabbit) Cell Signaling Technology Cat# 4790; RRID:AB_10545768
Cleaved caspase 3 (Rabbit) Cell Signaling Technology Cat# 9664; RRID:AB_2070042
Cleaved caspase 8 mAb (Rabbit) Cell Signaling Technology Cat# 8592; RRID:AB_10891784
Cleaved PARP1 mAb (Rabbit) Cell Signaling Technology Cat# 5625; RRID:AB_10699459
DR5 mAb (Rabbit) Cell Signaling Technology Cat# 8074; RRID:AB_10950817
GAPDH mAb (Rabbit) Cell Signaling Technology Cat# 8884; RRID:AB_11129865
IgG (Rabbit) Sigma-Aldrich Cat# GENA934, RRID:AB_2722659
IgG2a, kappa Isotype Control Antibody (Mouse) Biolegend Cat# 401502; RRID:AB_2800437
mTOR (Rabbit) Cell Signaling Technology Cat# 2983; RRID:AB_2105622
mTOR (S2448P) mAb (Rabbit) Cell Signaling Technology Cat# 5536; RRID:AB_10691552
p53 (Mouse) Santa Cruz Biotechnology Cat# sc-126; RRID:AB_628082
PARP1 mAb (Rabbit) Cell Signaling Technology Cat# 9532; RRID:AB_659884
PP2AC mAb (Rabbit) Cell Signaling Technology Cat# 2259; RRID:AB_561239
PUMA (Rabbit) Cell Signaling Technology Cat# 98672; RRID:N/A

Chemicals, peptides, and recombinant proteins

10x Tris/glycine buffer Bio-Rad Cat# 1610734
10x Tris/glycine/SDS buffer Bio-Rad Cat# 1610732
5-FU (99% HPLC purified) Sigma-Aldrich Cat# F6627
BCA protein assay kit Thermo-Scientific Cat# 23225
Bolt LDS sample buffer (4X) Life Technologies Cat# B0007
Cell Dissociation Buffer, enzyme-free Thermo-Scientific Cat#13151014
Cycloheximide Sigma-Aldrich Cat# 01810
Halt Protease and Phosphatase inhibitor cocktail Thermo-Scientific Cat# 78440
Immobilon-P (PVDF) membrane Merck Millipore Cat# IPVH00010
Mini-PROTEAN TGX precast gel 4–15% Bio-Rad Cat# 456–1085
Muse Caspase-3/7 kitEMD Millipore Cat# MCH100108
MTT (3-(4,5-dimethylthiazol-2yl-)-2,5-diphenyl tetrazolium bromide) Fisher Scientific Cat# M6494
Oxaliplatin TOCRIS Biosciences Cat# 2623
PBS with 0.5% Tween 20 pH 7.4 Sigma-Aldrich Cat# P3563
Phosphate Buffer Saline Sigma-Aldrich Cat# P-5368
Pierce RIPA buffer Thermo-Scientific Cat# 89901
Protein A/G PLUS-Agarose Santa Cruz Biotechnology Cat# sc-2003
Puromycin dihydrochloride Santa Cruz Biotechnology Cat# sc-108071A
rPP2A-Cα (recombinant) Cayman Chemical Cat# 10011237
Threonine phosphopeptide (KRpTIRR) MilliporeSigma Cat# 12-219
TRAIL/Apo2l PreproTech, Inc. Cat# 310-04
TRIZOL reagent Life Technologies Cat# 15596
Trypsin/EDTA (0.05%) Thermo-Scientific Cat# 25300054

Deposited data

RNAseq data of FOLFOX-resistant HT29 cells This paper: https://doi.org/10.5281/zenodo.6565046 Zenoda data: https://zenodo.org/record/6565046#.YobdkKjMJPY
TCGA data were for CRC cells This paper: https://www.cancer.gov/about-nci/organization/ccg/research/structural-genomics/tcga/studied-cancers/colorectal Cancer Genome Atlas: https://www.cancer.gov/about-nci/organization/ccg/research/structural-genomics/tcga/studied-cancers/colorectal
Gene expression data for FOLFOX-resistant and non-resistant patient This paper: https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE72970 NCBI Gene expression Omnibus (GEO) under GSE72970 accession: https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE72970

Experimental models: Cell lines

FHC ATCC N/A
FOLFOX-resistant HCT116 Adhip P. Majumdar, John D. Dingell VA Medical Centre, Detroit, MI N/A
FOLFOX-resistant HT29 Adhip P. Majumdar, John D. Dingell VA Medical Centre, Detroit, MI N/A
HCT116 ATCC N/A
HCT116-p21−/− cells Bert Vogelstein, Johns Hopkins Medical School, Baltimore, MD N/A
HCT116-p21−/−/H6p21 cells Brian K. Law, University of Florida, Gainesville, FL N/A
HT-29 ATCC N/A
LoVo ATCC N/A
LS174T ATCC N/A
RKO ATCC N/A
SW480 ATCC N/A

Oligonucleotides

actin B-F (GCTCCTCCTGAGCGCAAGTACTC Sigma-Aldrich N/A
actin B-R (GTGGACAGCGAGGCCAGGAT) Sigma-Aldrich N/A
p21-F- (CCGCGACTGTGATGCGCTAATG) Sigma-Aldrich N/A
p21-R (CTCGGTGACAAAGTCGAAGTTC) Sigma-Aldrich N/A
TP53-F (CACATGACGGAGGTTGTGAG) Sigma-Aldrich N/A
TP53-R (ACACGCAAATTTCCTTCCAC) Sigma-Aldrich N/A

Software and algorithms

CalcuSyn Biosoft http://www.biosoft.com/w/calcusyn.htm
GraphPad Prism v8.0 Dotmatics N/A
ImageJ NIH Image N/A
Sigma-Plot 9 Systat Software, Inc. N/A