KEY RESOURCES TABLE
| REAGENT or RESOURCE | SOURCE | IDENTIFIER |
|---|---|---|
| Antibodies | ||
| ACTIN | Sigma-Aldrich | Cat# A4700, RRID:AB_476730 |
| ACTIN | Sigma-Aldrich | Cat# A2066, RRID:AB_476693 |
| GFP | Abcam | Cat# ab13970, RRID:AB_300798 |
| IQGAP1 | Sigma-Aldrich | Cat# SAB4200079, RRID:AB_10604111 |
| RALA | Abcam | Cat# ab126627, RRID:AB_11127656 |
| DIABLO | Cell Signaling | Cat# 2954, RRID:AB_2131196 |
| XIAP | Cell Signaling | Cat# 2042, RRID:AB_2214870 |
| SMARCA4 | Cell Signaling | Cat# 3508, RRID:AB_2193944 |
| SMARCA5 | Cell Signaling | Cat# 38410 |
| HSPA9 | Sigma-Aldrich | Cat# SAB4100033, RRID:AB_10743101 |
| TIMM44 | Abcam | Cat# ab194829 |
| BAZ1B | Santa Cruz Biotechnology | Cat# sc-514287 |
| ATP5B | Abcam | Cat# ab14730, RRID:AB_301438 |
| VDAC1 | Abcam | Cat# ab15895, RRID:AB_2214787 |
| MYC | Sigma-Aldrich | Cat# M4439, RRID:AB_439694 |
| BIRC3 (c-IAP2) | Cell Signaling | Cat# 3130P, RRID:AB_10693298 |
| mCherry | Abcam | Cat# ab125096, RRID:AB_11133266 |
| CXCR4 | Santa Cruz Biotechnology | Cat# sc-53534, RRID:AB_782002 |
| ELAVL1 (HuR) | Millipore | Cat# 07-1735, RRID:AB_1977173 |
| STAU1 | Proteintech | Cat# 14225-1-AP, RRID:AB_2302744 |
| hnRNPA1 | Santa Cruz Biotechnology | Cat# sc-374526, RRID:AB_10991524 |
| hnRNPQ (SYNCRIP) | Sigma-Aldrich | Cat# R5653, RRID:AB_261964 |
| CTR9 | Sigma-Aldrich | Cat# SAB1100738, RRID:AB_10013607 |
| SF3B1 | Gift from Omar Abdel-Wahab (MSKCC) | N/A |
| NUDT21 | Santa Cruz Biotechnology | Cat# sc-81109, RRID:AB_2153989 |
| FUS | Sigma-Aldrich | Cat# SAB4200478, RRID:AB_2737446 |
| KHSRP | Sigma-Aldrich | Cat# SAB4200566, RRID:AB_2737444 |
| YBX1 | Bethyl Laboratories | Cat# A303-231A-M, RRID:AB_2781069 |
| IGF2BP1 | Aviva Systems Biology | Cat# ARP40658_P050, RRID:AB_2122664 |
| DDX17 | Abcam | Cat# ab24601, RRID:AB_731871 |
| snRNP70 | Santa Cruz Biotechnology | Cat# sc-9571, RRID:AB_2193707 |
| hnRNPC | Santa Cruz Biotechnology | Cat# sc-32308, RRID:AB_627731 |
| IgG | Santa Cruz Biotechnology | Cat# sc-2025, RRID:AB_737182 |
| CD27 | BD Biosciences | Cat# 555441, RRID:AB_395834 |
| CD47 | BD Biosciences | Cat# 561261, RRID:AB_10611734 |
| CD38 | BD Biosciences | Cat# 555462, RRID:AB_398599 |
| CD19 | BD Biosciences | Cat# 555415, RRID:AB_398597 |
| CD184 (CXCR4) | BD Biosciences | Cat# 560936, RRID:AB_10563070 |
| anti-mouse IRDye 700 | Rockland Immunochemicals | Cat# 610-730-002, RRID:AB_1660934 |
| anti-rabbit IRDye 680 | Li-Cor Biosciences | Cat# 926-68073, RRID:AB_10954442 |
| anti-rabbit IRDye 800 | Li-Cor Biosciences | Cat# 926-32213, RRID:AB_621848 |
| anti-mouse IRDye 800 | Li-Cor Biosciences | Cat# 926-32212, RRID:AB_621847 |
| Bacterial and Virus Strains | ||
| E.coli DH5 alpha | Lab strain | N/A |
| Biological Samples | ||
| Human CLL cells | Lee, Singh et al., 2018 | N/A |
| Human normal CD5+B cells | Lee, Singh et al., 2018 | N/A |
| Chemicals, Peptides, and Recombinant Proteins | ||
| Tri reagent solution | Invitrogen | Cat# AM9738 |
| Fibronectin | Invitrogen | Cat# 33016-015 |
| Polybrene (hexadimethrine bromide) | Sigma-Aldrich | Cat# H9268 |
| 16% Paraformaldehde, aqueous solution | Fisher scientific | Cat# 50-980-487 |
| Formamide | Sigma-Aldrich | Cat# F7503 |
| Ribonucleoside vanadyl complex | New England Biolabs | Cat# S1402 |
| Dextran sulfate sodium salt | Spectrum Chemical | Cat# DE131 |
| Fludarabine phosphate | Sigma-Aldrich | Cat# F9813 |
| Resazurin | R&D Systems | Cat# AR002 |
| CXCL12 | Life technologies | Cat# 10118-HNAE-25 |
| Trypan blue | Sigma-Aldrich | Cat# 93595 |
| CHAPS hydrate | Sigma-Aldrich | Cat# C3023 |
| Na-deoxycholate | Fisher scientific | Cat# BP349-100 |
| Triton X-100 | Fisher scientific | Cat# BP151-100 |
| Nonidet P-40 | Sigma-Aldrich | Cat# 74385 |
| Sodium chloride | Fisher scientific | Cat# S271-3 |
| Bovine serum albumin (BSA) | Fisher scientific | Cat# BP1605100 |
| Tris base | Fisher scientific | Cat# BP152-1 |
| Q5 High-fidelity DNA polymerase | New England Biolabs | Cat# M0491L |
| T4 DNA ligase | New England Biolabs | Cat# M0202L |
| Chloroform | Fisher scientific | Cat# C607-4 |
| Isopropanol | Fisher scientific | Cat# BP26184 |
| Ethanol | Fisher scientific | Cat# BP28184 |
| Methanol | Fisher scientific | Cat# A412-4 |
| SeeBlue® Plus2 pre-stained standard | Invitrogen | Cat# LC5925 |
| Biotin-UTP | Invitrogen | Cat# AM8450 |
| Phenol | Sigma-Aldrich | Cat# P4682 |
| Critical Commercial Assays | ||
| FastStart universal SYBR green master mix | Roche | Cat# 04913850001 |
| Experimental Models: Cell Lines | ||
| Raji | Gift from Hans-Guido Wendel (MSKCC) | |
| HEK293T | ATCC | ATCC Cat# CRL-3216, RRID:CVCL_0063 |
| HeLa | Gift from Jonathan Weissman (UCSF) | |
| Oligonucleotides | ||
| Oligonucleotides for PCR | This paper | Table S4 |
| Oligonucleotides for shRNA cloning | This paper | Table S4 |
| Oligonucleotides for construct cloning | This paper | Table S4 |
| Oligonucleotides for CRISPR guide cloning | This paper | Table S4 |
| Oligonucleotides for Northern blot probe | This paper | Table S4 |
| Recombinant DNA | ||
| pcDNA3.1-GFP-BIRC3-NU | This paper | N/A |
| pcDNA3.1-GFP-BIRC3-SU | This paper | N/A |
| pcDNA3.1-GFP-BIRC3-LU | This paper | N/A |
| pcDNA3.1-GFP | This paper | N/A |
| pcDNA3.1-GFP-ΔCDR-SU | This paper | N/A |
| pcDNA3.1-GFP-ΔCDR-LU | This paper | N/A |
| pcDNA3.1-CXCR4-myc | This paper | N/A |
| pcDNA3.1-GFP-BIRC3-MS2-SU | This paper | N/A |
| pcDNA3.1-MCP-mCherry-STAU1 | This paper | N/A |
| pcDNA3.1-MCP-mCherry-HuR | This paper | N/A |
| pcDNA3.1-MCP-mCherry | This paper | N/A |
| pSUPERretropuro-shRNA Control | Berkovits and Mayr, 2015 | N/A |
| pSUPERretropuro-shRNA HuR-2 | Berkovits and Mayr, 2015 | N/A |
| pSUPERretropuro-shRNA HuR-3 | Berkovits and Mayr, 2015 | N/A |
| pSUPERretropuro-shRNA STAU1-1 | This paper | N/A |
| pSUPERretropuro-shRNA STAU1-3 | This paper | N/A |
| pSUPERretropuro-shRNA BIRC3-1 | This paper | N/A |
| pSUPERretropuro-shRNA BIRC3-3 | This paper | N/A |
| pSUPERretropuro-shRNA RalA-2 | This paper | N/A |
| pSUPERretropuro-shRNA RalA-3 | This paper | N/A |
| pSUPERretropuro-shRNA IQGAP1-1 | This paper | N/A |
| pSUPERretropuro-shRNA IQGAP1-2 | This paper | N/A |
| pCR-Blunt-ARE | This paper | N/A |
| pCR-Blunt-SU | This paper | N/A |
| pCR-Blunt-LU | This paper | N/A |
| pCR-Blunt-LU1 | This paper | N/A |
| pCR-Blunt-antisense SU | This paper | N/A |
| pCR-Blunt-antisense LU | This paper | N/A |
| pCR-Blunt-antisense LU1 | This paper | N/A |
| pLKO.1-puro-shRNA IGF2BP1 | Sigma-Aldrich | MISSION® shRNA TRCN0000218799, TRCN0000230114 |
| pLKO.1-puro-shRNA Luciferase (control shRNA) | Sigma-Aldrich | MISSION® shRNA SHC007 |
| pX458-BIRC3 guide 3 | This paper | N/A |
| pX458-BIRC3 guide 4 | This paper | N/A |
| Software and Algorithms | ||
| FlowJo | FlowJo | https://www.flowjo.com |
| Odyssey | LI-COR Biosciences | https://www.licor.com/bio/products/imaging_systems/odyssey/ |
| MaxQuant | Max Planck Institute of Biochemistry | version 1.5.1.0 |
| Scaffold 4 | Proteome Software | version 4.5, http://www.proteomesoftware.com/products/scaffold/ |
| MultiGauge | Fuji | |
| ZEN | ZEISS | https://www.zeiss.com/microscopy/int/downloads/zen.html |
| Other | ||
| Lipofectamine 2000 | Invitrogen | Cat# 11668019 |
| Trypsin-EDTA (0.05%) | Fisher scientific | Cat# 25300062 |
| Opti-MEM I reduced-serum medium | Invitrogen | Cat# 31985-070 |
| Penicillin-streptomycin solution, 100X | Fisher scientific | Cat# 15070-063 |
| Puromycin | Sigma-Aldrich | Cat# P8833 |
| Protein A/G PLUS-agarose beads | Santa Cruz Biotechnology | Cat# sc-2003 |
| qScript cDNA SuperMix | Quanta Biosciences | Cat# 101414-106 |
| Nucleofactor V kit | Lonza Bioscience | Cat# VCA-1003 |
| Gibson assembly master mix | New England Biolabs | Cat# E2611L |
| GFP-trap_A beads | Chromotek | Cat# gta-100 |
| 2x Laemmli sample buffer | Sigma-Aldrich | Cat# S3401 |
| MES running buffer | Natural Diagnostics | Cat# NP0002 |
| RNase A | Sigma-Aldrich | Cat# R4642 |
| MES running buffer (20X) | Life technologies | Cat# NP0002 |
| MES running buffer (20X) | National Diagnostics | Cat# EC-868 |
| SILAC culture media | Cambridge Isotope Laboratories | Cat# CNLM-539-H-0.05 |
| SimplyBlue | Invitrogen | Cat# LC6065 |
| Odyssey blocking buffer | Li-Cor Biosciences | Cat# 927-40000 |
| MEGAscript T7 | Life technologies | Cat# AM1333 |
| RNaseOUT | Life technologies | Cat# 10777-019 |
| Dynabeads® MyOne™ Streptavidin C1 | Life technologies | Cat# 65002 |
| RNase A | Sigma-Aldrich | Cat# R4642 |
| Halt protease inhibitor cocktail | Thermo Fisher Scientific | Cat# 78439 |
| Phosphatase inhibitors 2 | Sigma-Aldrich | Cat# P5726 |
| Phosphatase inhibitors 3 | Sigma-Aldrich | Cat# P0044 |