KEY RESOURCES TABLE
| REAGENT or RESOURCE | SOURCE | IDENTIFIER | ||
|---|---|---|---|---|
| Antibodies | ||||
| α-RBM33 | Sigma | CAT #HPA021768 | ||
| α- m6A | Synaptic Systems | CAT #202003 | ||
| α- ALKBH5 | Sigma | CAT #HPA007196 | ||
| α-Strep | Sigma | CAT #SAB2702216 | ||
| α- Annexin V | Thermo Fisher | CAT #17800774 | ||
| α- SENP1 | Cell Signaling Technology | CAT #11929S | ||
| α- Actin | Cell Signaling Technology | CAT #8457S | ||
| α- Flag | Sigma | CAT #F1804 | ||
| α- SUMO-1 | Thermo Fisher | CAT #33–2400 | ||
| α- DDIT4 | Cell Signaling Technology | CAT #2516 | ||
| Alexa Fluor 594 goat anti-rabbit IgG | Jackson immunoResearch | CAT #111–585-003 | ||
| Alexa Fluor 488 goat anti-mouse IgG | Jackson immunoResearch | CAT #115–545-003 | ||
| ImmPRESS® HRP Horse Anti-Rabbit IgG Polymer Detection Kit, Peroxidase | Vector Laboratories Inc | CAT #MP-7401 | ||
| Goat anti-Rabbit IgG (H+L) Cross-Adsorbed Secondary Antibody, HRP | Thermo Fisher | CAT #G21234 | ||
| Chemicals, peptides, and recombinant proteins | ||||
| SuperScript III Reverse Transcriptase | Thermo Fisher | CAT #18080044 | ||
| RNaseOUT Recombinant Ribonuclease Inhibitor | Thermo Fisher | CAT #10777019 | ||
| dNTP Mix | Thermo Fisher | CAT # R0192 | ||
| TRIzol™ Reagent | Thermo Fisher | CAT #15596018 | ||
| ACTINOMYCIN D | Sigma | CAT #A1410 | ||
| ECL Western Blotting Detection Kit | LAMDA BIOTECH | CAT #G075 | ||
| 4-Thiouridine | Sigma | CAT #T4509 | ||
| GLYCOGEN | Sigma | CAT #G1767 | ||
| FBS | Thermo Fisher | CAT #16140071 | ||
| Protein G Agarose/Salmon Sperm DNA, 2.5 mL | Sigma | CAT #16–201 | ||
| Critical commercial assays | ||||
| FITC Annexin V Apoptosis Detection Kit I | BD Pharmingen | CAT #556547 | ||
| Dynabeads mRNA Purification Kit | Thermo Fisher | CAT #61006 | ||
| EpiQuik m6A RNA Methylation Quantification Kit | epigentek | CAT # P-9008–48 | ||
| NEBNext® Small RNA Library Prep Set for Illumina® | NEB | CAT # E7330S | ||
| Monarch® PCR & DNA Cleanup Kit | NEB | CAT #T1030L | ||
| Deposited data | ||||
| The raw and processed sequencing data | This paper | GEO: GSE202878 | ||
| The raw data and the analyzed data of spectrometry proteomics data | This paper | ProteomeXchange Consortium: PXD033861 | ||
| The raw data for FACS | This paper | the flow cytometry repository:http://flowrepository.org/id/RvFrqmygFTFYfcUcMryb0KueJ8wKpvgyEki6PXvB6HaI40zqK9fCXJcFDBT6buOV http://flowrepository.org/id/RvFriG3gY7h6XPt2gugIUmmw1vzSe1Gvt03h2jc2euZZfEaRREZzf8lrYCadvLFf http://flowrepository.org/id/RvFrmftoEHSGaS0skVN2AhpzyuDdEC0HeG4OGIXRwucrZGop4UldROZZ82qWgCPw http://flowrepository.org/id/RvFrRxAK0ZGiqGZsSC08zL9tmesGvqLDl72VutMbi9SicrLBxYWiWU3AwjQhv35MVw http://flowrepository.org/id/RvFrltp8tLuTzHOdz9OhyeCWDy9ZJZ5UTimYscHtvDO9lrSguFXqVU5jbpgwsXxk http://flowrepository.org/id/RvFrKDtRbfCXZiIaCXUNuNrxvNC5J7UxHHLQZf294tN9j1ULVyHmuc7T22GvQfkZ |
||
| Experimental models: Cell lines | ||||
| HEK293T | ATCC | Cat# CRL-11268 | ||
| HOK | ScienCell | 2610 | ||
| UM-SCC-1 | Gift from Dr. Lingtao Jin’s lab | RRID: CVCL_7707 | ||
| UM-SCC-2 | Gift from Dr. Lingtao Jin’s lab | N/A | ||
| SCC090 | Gift from Dr. Lingtao Jin’s lab | N/A | ||
| JHU022 | Gift from Dr. Lingtao Jin’s lab | RRID: CVCL_5991 | ||
| 93-VU-147T | Gift from Dr. Lingtao Jin’s lab | COSS2296308 | ||
| SqCC/Y1 | Gift from Dr. Lingtao Jin’s lab | RRID: CVCL_0551 | ||
| 1483 | Gift from Dr. Lingtao Jin’s lab | RRID: CVCL_6980 | ||
| Oligonucleotides | ||||
| Table S1 | This paper | N/A | ||
| Recombinant DNA | ||||
| pCDH- Strep-RBM33 | This paper | N/A | ||
| p3XFlag-RBM33 | This paper | N/A | ||
| pMSCV-HA-ALKBH5 | This paper | N/A | ||
| pCDH-Strep-ALKBH5 | This paper | N/A | ||
| p3XFlag-SENP1 | This paper | N/A | ||
| pCDH-Strep-DDIT4 | This paper | N/A | ||
| Software and algorithms | ||||
| Cutadapt (v1.18) | Martin, 2011 | N/A | ||
| HISAT2 (v2.1.0) | Kim et al., 2015 | N/A | ||
| featureCounts (v1.6.4) | Liao et al., 2014 | N/A | ||
| edgeR (v3.24.3) | Robinson et al., 2010 | PMID: 19910308 | ||
| DESeq2 | Love et al., 2014 | N/A | ||
| RADAR (v1.0) | Zhang et al., 2019 | N/A | ||
| MeRIPtools (v1.0) | Zhang et al., 2020 | N/A | ||
| Bowtie2 (v2.4.5) | Langmead and Salzberg, 2012 | N/A | ||
| STAR (v 2.7.9a) | Dobin et al., 2013 | N/A | ||