Key resources table.
| Reagent type (species) or resource |
Designation | Source or reference | Identifiers | Additional information |
|---|---|---|---|---|
| Cell line (Homo-sapiens) |
Pfeiffer | ATCC (Cat# CRL-2632) | RRID:CVCL_3326 | Diffuse Large B-Cell Lymphoma |
| Cell line (Homo-sapiens) |
SU-DHL-4 | ATCC (Cat# CRL-2957) | RRID:CVCL_0539 | Diffuse Large B-Cell Lymphoma |
| Cell line (Homo-sapiens) |
SU-DHL-6 | ATCC (Cat# CRL-2959) | RRID:CVCL_2206 | Diffuse Large B-Cell Lymphoma |
| Biological sample (Homo-sapiens) |
Pooled human complement serum | Innovative Research | IPLA-CSER | |
| Peptide, recombinant protein | Rituximab | Dana Farber Cancer Institute | 8 mg/mL in the clinical formulation + 10% Glycerol | |
| Chemical compound, drug | 4-hydroperoxy-cyclophosphamide (4-H-Cyclo.) | Niomech | D-18864 | Pre-activated form of cyclophosphamide |
| Chemical compound, drug | Doxorubicin | Selleck Chemicals | S1208 | |
| Chemical compound, drug | Vincristine | Selleck Chemicals | S1241 | |
| Chemical compound, drug | Prednisolone | Selleck Chemicals | S1737 | Pre-activated form of prednisone |
| Commercial assay or kit | CellTiter-Glo | Promega | G7573 | Luminescent cell viability assay |
| Chemical compound, drug | N-ethyl-N-nitrosourea (ENU) | Sigma Aldrich | N3385 | Mutation-inducing agent |
| Recombinant DNA reagent | ClonTracer Barcoding library | Addgene (Cat# 67267) | RRID:Addgene_67267 | (Bhang et al., 2015) |
| Software, algorithm | clonTracer_analyze v1.0 | (Bhang et al., 2015) | Script for analysis of barcode composition | |
| Cell line (Homo-sapiens) | HEK293T | ATCC (Cat# CRL-3216) | RRID:CVCL_0063 | For lentivirus production |
| Recombinant DNA reagent | psPAX2 | Addgene (Cat# 12260) | RRID:Addgene_12260 | Lentiviral packaging plasmid |
| Recombinant DNA reagent | pCMV-VSV-G | Addgene (Cat# 8454) | RRID:Addgene_8454 | VSV-G envelope expressing plasmid for lentivirus production |
| Cell line (Homo-sapiens) |
Pfeiffer CRISPRi | This paper | See Materials and methods, Section ‘Generation of dCas9-expressing cell lines’ | |
| Recombinant DNA reagent | pMH0001 | Addgene (Cat# 85969) | RRID:Addgene_85969 | Lentiviral construct for expression of dCas9-BFP-KRAB |
| Cell line (Homo-sapiens) |
K562 | ATCC (Cat# CCL-243) | RRID:CVCL_0004 | Chronic myeloid leukemia (CML) cell line |
| Cell line (Homo-sapiens) |
K562 CRISPRa | This paper | See Materials and methods, Section ‘Generation of dCas9-expressing cell lines’ | |
| Recombinant DNA reagent | pHRdSV40-dCas9-10xGCN4_v4-P2A-BFP | Addgene (Cat# 60903) | RRID:Addgene_60903 | Lentiviral construct for expression of dCas9-SunTag |
| Recombinant DNA reagent | pHRdSV40-scFv-GCN4-sfGFP-VP64-GB1-NLS | Addgene (Cat# 60904) | RRID:Addgene_60904 | Lentiviral construct for expression of scFv-sfGFP-VP64 |
| Recombinant DNA reagent | pU6-sgRNA EF1Alpha-puro-T2A-BFP | Addgene (Cat# 60955) | RRID:Addgene_60955 | Lentiviral construct for expression of sgRNAs |
| Recombinant DNA reagent | hCRISPRi_v2 | Addgene (Cat#83969 and 83970) | RRID:Addgene_83969 | Genome-wide human library of sgRNAs for CRISPRi |
| Recombinant DNA reagent | hCRISPRa_v2 | Addgene (Cat# 83978 and 83979) | RRID:Addgene_83978 | Genome-wide human library of sgRNAs for CRISPRa |
| Software, algorithm | ScreenProcessing pipeline | (Horlbeck et al., 2016) | https://github.com/mhorlbeck/ScreenProcessing | |
| Cell line (Homo-sapiens) |
Pfeiffer CRISPRa | This paper | See Materials and methods, Section ‘Validation of CRISPR screens’ |