| GR00016-A | 83737 | 83737 | ITCH | np | 0.95 | none | | no | | Wnt/beta-catenin pathway regulation | Bruton's tyrosine kinase revealed as a negative regulator of Wnt-beta-catenin signaling. | James et al. | 2009 | 19471023 | Cell line | RKO | Wnt/beta-catenin pathway reporter | Luminescence | rp | Selected genes | siRNA | Z-score | > 2 | | GR00053-A | 83737 | NM_031483 | ITCH | np | sp | none | | no | | Genome stability | A genome-wide siRNA screen reveals diverse cellular processes and pathways that mediate genome stability. | Paulsen et al. | 2009 | 19647519 | Cell line | HeLa | gamma-H2AX phosphorylation and DNA content | Fluorescence | siARRAY human genome siRNA library | Genome-wide | siRNA | p-value | Complex criteria | Confidence groupings from 4 to 1 (highest level of confidence in group 4) | GR00054-A | 83737 | NM_031483 | ITCH | np | 0.941 | none | | no | | Combinatorial effect with paclitaxel | Synthetic lethal screen identification of chemosensitizer loci in cancer cells. | Whitehurst et al. | 2007 | 17429401 | Cell line | NCI-H1155 | Viability (synthetic lethal) | ATP level | # G-005000-01 | Genome-wide | siRNA | Paclitaxel/control ratio | Complex criteria | Additional information about 87 high-confidence hits | GR00056-A | 83737 | NM_031483 | ITCH | np | 1.16 | none | | no | | Melanogenesis | Genome-wide siRNA-based functional genomics of pigmentation identifies novel genes and pathways that impact melanogenesis in human cells. | Ganesan et al. | 2008 | 19057677 | Cell line | MNT-1 | Melanin protein expression and viability | Absorbance and luminescence | rp | Genome-wide | siRNA | Normalized absorbance ratio | > 2 standard deviations below mean | Additional information about a secondary screen (retest to determine false-positive rate) | GR00057-A-1 | 83737 | NM_031483 | ITCH | M-007196-01 | -0.52 | none | | no | | Wnt/beta-catenin pathway regulation (1) | A genome-wide RNAi screen for Wnt/beta-catenin pathway components identifies unexpected roles for TCF transcription factors in cancer. | Tang et al. | 2008 | 18621708 | Cell line | HeLa | Wnt pathway reporter | Luminescence | Human siArray siRNA library | Genome-wide | siRNA | Z-score | > 4 | Screen without Wnt3A stimulation. Additional information about secondary screens (Dharmacon and Qiagen libraries). | GR00057-A-2 | 83737 | NM_031483 | ITCH | M-007196-01 | sp | none | | no | | Wnt/beta-catenin pathway regulation (2) | A genome-wide RNAi screen for Wnt/beta-catenin pathway components identifies unexpected roles for TCF transcription factors in cancer. | Tang et al. | 2008 | 18621708 | Cell line | HeLa | Wnt pathway reporter | Luminescence | Human siArray siRNA library | Genome-wide | siRNA | Complex, SP | Complex criteria | Screen with Wnt3A stimulation. Additional information about secondary screens (Dharmacon and Qiagen libraries). | GR00095-A | 83737 | NM_031483 | ITCH | np | np | none | | | | p53 pathway components | A large-scale RNAi screen in human cells identifies new components of the p53 pathway | Berns et al. | 2004 | 15042092 | Cell line | BJ-TERT-tsLT fibroblasts | Proliferation | Colony-forming cell assay | Nki library | Genome-wide | shRNA | np | np | | GR00098-A-1 | 83737 | ENSG00000078747 | ITCH | ENSG00000078747 | sp | none | | no | | Cell division (1) | Genome-scale RNAi profiling of cell division in human tissue culture cells. | Kittler et al. | 2007 | 17994010 | Cell line | HeLa | Cell number and DNA content | Laser scanning cytometry | rp | Genome-wide | esiRNA | Complex, sp | Complex criteria | | GR00100-A | 83737 | NM_031483 | | v2HS_91845 | np | none | | | | Mitosis regulation | Anaphase initiation is regulated by antagonistic ubiquitination and deubiquitination activities. | Stegmeier et al. | 2007 | 17443180 | Cell line | HeLa | Cell cycle | Microscopy | np | Selected genes | shRNA | Mitotic index | np | Sequences are avaible. | GR00100-A | 83737 | NM_031483 | | v2HS_91847 | np | none | | | | Mitosis regulation | Anaphase initiation is regulated by antagonistic ubiquitination and deubiquitination activities. | Stegmeier et al. | 2007 | 17443180 | Cell line | HeLa | Cell cycle | Microscopy | np | Selected genes | shRNA | Mitotic index | np | Sequences are avaible. | GR00100-A | 83737 | NM_031483 | | v2HS_91844 | np | none | | | | Mitosis regulation | Anaphase initiation is regulated by antagonistic ubiquitination and deubiquitination activities. | Stegmeier et al. | 2007 | 17443180 | Cell line | HeLa | Cell cycle | Microscopy | np | Selected genes | shRNA | Mitotic index | np | Sequences are avaible. | GR00103-A-0 | 83737 | | ITCH | v2HS_91844 | -1.16 | Increased cell death in HCC-1954 cells | | no | | Cell viability | Cancer proliferation gene discovery through functional genomics. | Schlabach et al. | 2008 | 18239126 | Cell line | DLD-1, HCT116; HCC1954; HMECs (mammary epithelia cells) | Cell viability | Micoarray hybridization | shRNA-mir (G. Hannon) | | shRNA | log ratio | < | | GR00103-A-0 | 83737 | | ITCH | v2HS_202209 | -1.06 | Increased cell death HMECs cells | | no | | Cell viability | Cancer proliferation gene discovery through functional genomics. | Schlabach et al. | 2008 | 18239126 | Cell line | DLD-1, HCT116; HCC1954; HMECs (mammary epithelia cells) | Cell viability | Micoarray hybridization | shRNA-mir (G. Hannon) | | shRNA | log ratio | < | | GR00123-A | 83737 | NM_031483 | ITCH | 177172, 177171, 177173 | np | none | | | | Combinatorial effect with nutlin-3 | An shRNA barcode screen provides insight into cancer cell vulnerability to MDM2 inhibitors | Brummelkamp et al. | 2006 | 16474381 | Cell line | MCF-7 | Viability | Fluoresence | Nki library | Genome-wide | shRNA | log2 ratio | np | | GR00133-A-1 | 83737 | 83737 | ITCH | np | 0.475053 | none | | no | | Salmonella enterica subspecies 1 serovar Typhimurium invasion (1) | RNAi screen of Salmonella invasion shows role of COPI in membrane targeting of cholesterol and Cdc42. | Misselwitz et al. | 2011 | 21407211 | Cell line | HeLa | Gentamycin protection invasion assay | Fluorescence | Druggable genome library V2.0 | Druggable genes | siRNA | log2 median | Complex criteria | | GR00141-A | 83737 | NM_031483 | ITCH | np | np | none | | no | | T cell chemotaxis | Synaptotagmin-mediated vesicle fusion regulates cell migration. | Colvin et al. | 2010 | 20473299 | Cell line | SupT1 | Cell migration | Fluorescence | shRNA Library | Kinases, phosphatases and selected genes | shRNA | Chemotactic index | > 1 standard deviation from plate mean by at least 2 shRNAs | | GR00149-A-1 | 83737 | 83737 | ITCH | 33253 | 112.71 | none | | no | | Ciliogenesis and cilium length (1) | Functional genomic screen for modulators of ciliogenesis and cilium length. | Kim et al. | 2010 | 20393563 | Cell line | htRPE | Smoothed protein expression | Fluorescence | Human druggable genome siRNA library V3.1 | Druggable genes | siRNA | Normalized percent inhibition | > 1.5 OR < -1.5 standard deviations from mean | | GR00149-A-1 | 83737 | 83737 | ITCH | 33253 | 89.8 | none | | no | | Ciliogenesis and cilium length (1) | Functional genomic screen for modulators of ciliogenesis and cilium length. | Kim et al. | 2010 | 20393563 | Cell line | htRPE | Smoothed protein expression | Fluorescence | Human druggable genome siRNA library V3.1 | Druggable genes | siRNA | Normalized percent inhibition | > 1.5 OR < -1.5 standard deviations from mean | | GR00149-A-1 | 83737 | 83737 | ITCH | 120672 | 74.33 | none | | no | | Ciliogenesis and cilium length (1) | Functional genomic screen for modulators of ciliogenesis and cilium length. | Kim et al. | 2010 | 20393563 | Cell line | htRPE | Smoothed protein expression | Fluorescence | Human druggable genome siRNA library V3.1 | Druggable genes | siRNA | Normalized percent inhibition | > 1.5 OR < -1.5 standard deviations from mean | | GR00149-A-1 | 83737 | 83737 | ITCH | 120672 | 190.16 | none | | no | | Ciliogenesis and cilium length (1) | Functional genomic screen for modulators of ciliogenesis and cilium length. | Kim et al. | 2010 | 20393563 | Cell line | htRPE | Smoothed protein expression | Fluorescence | Human druggable genome siRNA library V3.1 | Druggable genes | siRNA | Normalized percent inhibition | > 1.5 OR < -1.5 standard deviations from mean | | GR00149-A-1 | 83737 | 83737 | ITCH | 120673 | 100.49 | none | | no | | Ciliogenesis and cilium length (1) | Functional genomic screen for modulators of ciliogenesis and cilium length. | Kim et al. | 2010 | 20393563 | Cell line | htRPE | Smoothed protein expression | Fluorescence | Human druggable genome siRNA library V3.1 | Druggable genes | siRNA | Normalized percent inhibition | > 1.5 OR < -1.5 standard deviations from mean | | GR00149-A-1 | 83737 | 83737 | ITCH | 120673 | 55.06 | none | | no | | Ciliogenesis and cilium length (1) | Functional genomic screen for modulators of ciliogenesis and cilium length. | Kim et al. | 2010 | 20393563 | Cell line | htRPE | Smoothed protein expression | Fluorescence | Human druggable genome siRNA library V3.1 | Druggable genes | siRNA | Normalized percent inhibition | > 1.5 OR < -1.5 standard deviations from mean | | GR00149-A-1 | 83737 | 83737 | ITCH | 120674 | 74.07 | none | | no | | Ciliogenesis and cilium length (1) | Functional genomic screen for modulators of ciliogenesis and cilium length. | Kim et al. | 2010 | 20393563 | Cell line | htRPE | Smoothed protein expression | Fluorescence | Human druggable genome siRNA library V3.1 | Druggable genes | siRNA | Normalized percent inhibition | > 1.5 OR < -1.5 standard deviations from mean | | GR00149-A-1 | 83737 | 83737 | ITCH | 120674 | 118.07 | none | | no | | Ciliogenesis and cilium length (1) | Functional genomic screen for modulators of ciliogenesis and cilium length. | Kim et al. | 2010 | 20393563 | Cell line | htRPE | Smoothed protein expression | Fluorescence | Human druggable genome siRNA library V3.1 | Druggable genes | siRNA | Normalized percent inhibition | > 1.5 OR < -1.5 standard deviations from mean | | GR00149-A-1 | 83737 | 83737 | ITCH | np | np | none | | no | siRNA toxicity | Ciliogenesis and cilium length (1) | Functional genomic screen for modulators of ciliogenesis and cilium length. | Kim et al. | 2010 | 20393563 | Cell line | htRPE | Smoothed protein expression | Fluorescence | Human druggable genome siRNA library V3.1 | Druggable genes | siRNA | Normalized percent inhibition | > 1.5 OR < -1.5 standard deviations from mean | | GR00151-A-1 | 83737 | ENSG00000078747 | ITCH | np | -0.849 | none | | no | | Homologous recombination DNA double-strand break repair (HR-DSBR) (1) | A genome-scale DNA repair RNAi screen identifies SPG48 as a novel gene associated with hereditary spastic paraplegia. | Słabicki et al. | 2010 | 20613862 | Cell line | HeLa | (HR-DSBR) DR-GFP reporter | Flow cytometry | Custom-made | Genome-wide | esiRNA | Z-score | < -2 OR > 2 | | GR00180-A-1 | 83737 | 83737 | ITCH | PL-50015 | 0.747 | none | | no | | Hepatitis C virus replication (1) | A functional genomic screen identifies cellular cofactors of hepatitis C virus replication. | Tai et al. | 2009 | 19286138 | Cell line | Huh7/Rep-Feo | HCV replicon RNA copy number | Luminescence | siARRAY Human Genome siRNA Library | Genome-wide | siRNA | q-value | Complex criteria | | GR00181-A | 83737 | NM_031483 | ITCH | np | -20.81813378 | Synthetic lethal with imatinib mesylate | | no | at least 2 unique shRNAs identified | Combinatorial effect with imatinib | Wnt/Ca2+/NFAT signaling maintains survival of Ph+ leukemia cells upon inhibition of Bcr-Abl. | Gregory et al. | 2010 | 20609354 | Cell line | K562 | Viability (synthetic lethal) | PCR and Affymetrix microarray | GeneNet lentiviral human 50K shRNA library | Random genes | shRNA | Fold change | Complex criteria | | GR00181-A | 83737 | NM_031483 | ITCH | np | -63.34794127 | Synthetic lethal with imatinib mesylate | | no | at least 2 unique shRNAs identified | Combinatorial effect with imatinib | Wnt/Ca2+/NFAT signaling maintains survival of Ph+ leukemia cells upon inhibition of Bcr-Abl. | Gregory et al. | 2010 | 20609354 | Cell line | K562 | Viability (synthetic lethal) | PCR and Affymetrix microarray | GeneNet lentiviral human 50K shRNA library | Random genes | shRNA | Fold change | Complex criteria | | GR00184-A-1 | 83737 | NM_031483 | ITCH | M-007196-01 | -0.300598065826772 | none | | no | | Self-renewal and pluripotency in human embryonic stem cells (1) | A genome-wide RNAi screen reveals determinants of human embryonic stem cell identity. | Chia et al. | 2010 | 20953172 | Cell line | hESC H1 | POU5F1 protein expression | Fluorescence | SMARTpool siRNA library | Genome-wide | siRNA | Z-score | < -2 | | GR00188-A | 83737 | NM_031483 | ITCH | np | 0.75545086617502 | none | | no | | Release from monastrol-induced mitotic arrest | UBE2S elongates ubiquitin chains on APC/C substrates to promote mitotic exit. | Garnett et al. | 2009 | 19820702 | Cell line | CAL51 | Histone H3 serine 10 phosphorylation | Fluorescence | Ubiquitin-proteasome system siRNA library | Ubiquitin-proteasome system genes | siRNA | ΔMI standard score | > 2 AND p < 0.01 | | GR00196-A-1 | 83737 | ENSG00000078747 | | np | sp | none | | no | | TP53 interactions (1) | A systematic RNAi synthetic interaction screen reveals a link between p53 and snoRNP assembly. | Krastev et al. | 2011 | 21642980 | Cell line | HCT116 ( wildtype and TP53 knockout) | TP53 protein expression and viability | Fluorescence | rp | Genome-wide | esiRNA | Complex, sp | Complex criteria | | GR00197-A-1 | 83737 | 83737 | ITCH | M-007196-01 | 1.116499547 | none | | no | | Human papillomavirus oncogene expression regulation (1) | Genome-wide siRNA screen identifies SMCX, EP400, and Brd4 as E2-dependent regulators of human papillomavirus oncogene expression. | Smith et al. | 2010 | 20133580 | Cell line | C33A/BE2/18LCR c4 | HPV18 LCR reporter activity | Luminescence | Human siGENOME SMARTpool library | Genome-wide | siRNA | Z-score | > | Author-submitted data. Phenotype strength according to Z-scores: weak: 2 - 3; moderate: 3 - 5; strong: > 5 | GR00221-A-1 | 83737 | | ITCH | TRCN0000002088 | 0.03 | none | | yes | | Proliferation of cells with active beta-catenin (1) | CK1epsilon is required for breast cancers dependent on beta-catenin activity. | Kim et al. | 2010 | 20126544 | Cell line | MCF-7 | Viability | Luminescence | TRC shRNA Library | Kinases | shRNA | B-score | < -1 | Essential gene: gene with B-score < -1 for > | GR00221-A-1 | 83737 | | ITCH | TRCN0000002087 | 0.38 | none | | yes | | Proliferation of cells with active beta-catenin (1) | CK1epsilon is required for breast cancers dependent on beta-catenin activity. | Kim et al. | 2010 | 20126544 | Cell line | MCF-7 | Viability | Luminescence | TRC shRNA Library | Kinases | shRNA | B-score | < -1 | Essential gene: gene with B-score < -1 for > | GR00221-A-1 | 83737 | | ITCH | TRCN0000002090 | 0.82 | none | | yes | | Proliferation of cells with active beta-catenin (1) | CK1epsilon is required for breast cancers dependent on beta-catenin activity. | Kim et al. | 2010 | 20126544 | Cell line | MCF-7 | Viability | Luminescence | TRC shRNA Library | Kinases | shRNA | B-score | < -1 | Essential gene: gene with B-score < -1 for > | GR00221-A-1 | 83737 | | ITCH | TRCN0000002089 | 1.03 | none | | yes | | Proliferation of cells with active beta-catenin (1) | CK1epsilon is required for breast cancers dependent on beta-catenin activity. | Kim et al. | 2010 | 20126544 | Cell line | MCF-7 | Viability | Luminescence | TRC shRNA Library | Kinases | shRNA | B-score | < -1 | Essential gene: gene with B-score < -1 for > | GR00221-A-2 | 83737 | | ITCH | TRCN0000002088 | -0.14 | none | | yes | | Proliferation of cells with active beta-catenin (2) | CK1epsilon is required for breast cancers dependent on beta-catenin activity. | Kim et al. | 2010 | 20126544 | Cell line | MDA-MB-231 | Viability | Luminescence | TRC shRNA Library | Kinases | shRNA | B-score | < -1 | Essential gene: gene with B-score < -1 for > | GR00221-A-2 | 83737 | | ITCH | TRCN0000002089 | 0.4 | none | | yes | | Proliferation of cells with active beta-catenin (2) | CK1epsilon is required for breast cancers dependent on beta-catenin activity. | Kim et al. | 2010 | 20126544 | Cell line | MDA-MB-231 | Viability | Luminescence | TRC shRNA Library | Kinases | shRNA | B-score | < -1 | Essential gene: gene with B-score < -1 for > | GR00221-A-2 | 83737 | | ITCH | TRCN0000002087 | 0.7 | none | | yes | | Proliferation of cells with active beta-catenin (2) | CK1epsilon is required for breast cancers dependent on beta-catenin activity. | Kim et al. | 2010 | 20126544 | Cell line | MDA-MB-231 | Viability | Luminescence | TRC shRNA Library | Kinases | shRNA | B-score | < -1 | Essential gene: gene with B-score < -1 for > | GR00221-A-2 | 83737 | | ITCH | TRCN0000002090 | 0.85 | none | | yes | | Proliferation of cells with active beta-catenin (2) | CK1epsilon is required for breast cancers dependent on beta-catenin activity. | Kim et al. | 2010 | 20126544 | Cell line | MDA-MB-231 | Viability | Luminescence | TRC shRNA Library | Kinases | shRNA | B-score | < -1 | Essential gene: gene with B-score < -1 for > | GR00221-A-3 | 83737 | | ITCH | TRCN0000002088 | -0.22 | none | | yes | | Proliferation of cells with active beta-catenin (3) | CK1epsilon is required for breast cancers dependent on beta-catenin activity. | Kim et al. | 2010 | 20126544 | Cell line | MDA-MB-453 | Viability | Luminescence | TRC shRNA Library | Kinases | shRNA | B-score | < -1 | Essential gene: gene with B-score < -1 for > | GR00221-A-3 | 83737 | | ITCH | TRCN0000002087 | 0.08 | none | | yes | | Proliferation of cells with active beta-catenin (3) | CK1epsilon is required for breast cancers dependent on beta-catenin activity. | Kim et al. | 2010 | 20126544 | Cell line | MDA-MB-453 | Viability | Luminescence | TRC shRNA Library | Kinases | shRNA | B-score | < -1 | Essential gene: gene with B-score < -1 for > | GR00221-A-3 | 83737 | | ITCH | TRCN0000002090 | 0.22 | none | | yes | | Proliferation of cells with active beta-catenin (3) | CK1epsilon is required for breast cancers dependent on beta-catenin activity. | Kim et al. | 2010 | 20126544 | Cell line | MDA-MB-453 | Viability | Luminescence | TRC shRNA Library | Kinases | shRNA | B-score | < -1 | Essential gene: gene with B-score < -1 for > | GR00221-A-3 | 83737 | | ITCH | TRCN0000002089 | 0.76 | none | | yes | | Proliferation of cells with active beta-catenin (3) | CK1epsilon is required for breast cancers dependent on beta-catenin activity. | Kim et al. | 2010 | 20126544 | Cell line | MDA-MB-453 | Viability | Luminescence | TRC shRNA Library | Kinases | shRNA | B-score | < -1 | Essential gene: gene with B-score < -1 for > | GR00221-A-4 | 83737 | | ITCH | TRCN0000002088 | -0.93 | none | | no | | Proliferation of cells with active beta-catenin (4) | CK1epsilon is required for breast cancers dependent on beta-catenin activity. | Kim et al. | 2010 | 20126544 | Cell line | T47D | Viability | Luminescence | TRC shRNA Library | Kinases | shRNA | B-score | < -1 | Essential gene: gene with B-score < -1 for > | GR00221-A-4 | 83737 | | ITCH | TRCN0000002089 | -0.48 | none | | no | | Proliferation of cells with active beta-catenin (4) | CK1epsilon is required for breast cancers dependent on beta-catenin activity. | Kim et al. | 2010 | 20126544 | Cell line | T47D | Viability | Luminescence | TRC shRNA Library | Kinases | shRNA | B-score | < -1 | Essential gene: gene with B-score < -1 for > | GR00221-A-4 | 83737 | | ITCH | TRCN0000002087 | -0.16 | none | | no | | Proliferation of cells with active beta-catenin (4) | CK1epsilon is required for breast cancers dependent on beta-catenin activity. | Kim et al. | 2010 | 20126544 | Cell line | T47D | Viability | Luminescence | TRC shRNA Library | Kinases | shRNA | B-score | < -1 | Essential gene: gene with B-score < -1 for > | GR00221-A-4 | 83737 | | ITCH | TRCN0000002090 | 1.69 | none | | no | | Proliferation of cells with active beta-catenin (4) | CK1epsilon is required for breast cancers dependent on beta-catenin activity. | Kim et al. | 2010 | 20126544 | Cell line | T47D | Viability | Luminescence | TRC shRNA Library | Kinases | shRNA | B-score | < -1 | Essential gene: gene with B-score < -1 for > | GR00232-A-1 | 83737 | AF095745 | ITCH | v2HS_91847 | -1.39736730264651 | Increased ionizing radiation sensitivity | | no | | DNA damage regulation after ionizing radiation (1) | A genetic screen identifies the Triple T complex required for DNA damage signaling and ATM and ATR stability. | Hurov et al. | 2010 | 20810650 | Cell line | U2OS | Ionizing radiation sensitivity | Fluorescence | pSMP | Genome-wide | shRNA | log2 mean ratio | < -1 OR > 1 | The shRNA library is in a MSCV-PURO-based vector (MSCV-PM; Open Biosystems nomenclature is pSMP). The shRNAs with the “V3LHS” identifier were subcloned into the MSCV-PM vector from the pGIPZ vector. Additional information about a secondary screen in H460 cells. | GR00236-A-1 | 83737 | 83737 | ITCH | M-007196-01 | 1.54803818685007 | none | | no | | Homologous recombination DNA double-strand break repair (HR-DSBR) (1) | A genome-wide homologous recombination screen identifies the RNA-binding protein RBMX as a component of the DNA-damage response. | Adamson et al. | 2012 | 22344029 | Cell line | DR-U2OS | (HR-DSBR) DR-GFP reporter and DNA content | Fluorescence | Human siGENOME siRNA (G-005000-05) | Genome-wide | siRNA | Relative HR ratio | < ~0.4 OR > 1.88 | Cutoff values correspond 2 standard deviations from the screen-wide mean | GR00240-S-1 | 83737 | NM_031483 | ITCH | M-007196-01 | -0.15 | none | | yes | | TRAIL-induced apoptosis (1) | A synthetic lethal screen identifies FAT1 as an antagonist of caspase-8 in extrinsic apoptosis. | Kranz and Boutros | 2014 | 24442637 | Cell line | U251MG | Viability | Luminescence | SMART-pool siRNA | Genome-wide | siRNA | Z-score | > 4 | Author-submitted data | GR00240-S-2 | 83737 | NM_031483 | ITCH | M-007196-01 | 0.28 | none | | no | Z-score 0.156 | TRAIL-induced apoptosis (2) | A synthetic lethal screen identifies FAT1 as an antagonist of caspase-8 in extrinsic apoptosis. | Kranz and Boutros | 2014 | 24442637 | Cell line | U251MG | Viability (synthetic lethal) | Luminescence | SMART-pool siRNA | Genome-wide | siRNA | Differential score | > 3.6 AND viability Z-score < 4 | Author-submitted data. Z-scores from viability screen (1) are considered in score interpretation for this screen. | GR00242-A-1 | 83737 | NM_031483 | ITCH | np | sp | none | | no | | Selective autophagy regulation (1) | Image-based genome-wide siRNA screen identifies selective autophagy factors. | Orvedahl et al. | 2011 | 22020285 | Cell line | HeLa/GFP-LC3 | Sindbis virus (SIN) capsid SIN-mCherry.capsid and autophagosome GFP–LC3 protein expression | Fluorescence | siGenome | Genome-wide | siRNA | Z-score | Complex criteria | | GR00247-A-1 | 83737 | | ITCH | np | sp | none | | | rank: 15427 | Regulation of FOXO1 nuclear localization (1) | Whole genome siRNA cell-based screen links mitochondria to Akt signaling network through uncoupling of electron transport chain. | Senapedis et al. | 2011 | 21460183 | Cell line | U2OS | EGFP-FOXO1a protein expression and DNA content | Fluorescence | Human Genome library | Genome-wide | siRNA | Complex, sp | Complex criteria | | GR00249-S | 83737 | 83737 | ITCH | J-007196-07 | -0.7383 | none | | no | number of cells compared to control (%): 78.92 | Vaccinia virus (VACV) infection | Human genome-wide RNAi screen reveals a role for nuclear pore proteins in poxvirus morphogenesis. | Sivan et al. | 2013 | 23401514 | Cell line | HeLa | Vaccinia virus VACV IHD-J/GFP protein expression and DNA content | Fluorescence | Silencer Select Version 4, siGENOME SMARTpool and OnTargetPlus | Genome-wide | siRNA | Z-score | > | Author-submitted data. Primary screen. Decreased viability phenotype if number of cells compared to control < 50 %. | GR00249-S | 83737 | 83737 | ITCH | M-007196-01 | -0.31874 | none | | no | number of cells compared to control (%): 51.09 | Vaccinia virus (VACV) infection | Human genome-wide RNAi screen reveals a role for nuclear pore proteins in poxvirus morphogenesis. | Sivan et al. | 2013 | 23401514 | Cell line | HeLa | Vaccinia virus VACV IHD-J/GFP protein expression and DNA content | Fluorescence | Silencer Select Version 4, siGENOME SMARTpool and OnTargetPlus | Genome-wide | siRNA | Z-score | > | Author-submitted data. Primary screen. Decreased viability phenotype if number of cells compared to control < 50 %. | GR00249-S | 83737 | 83737 | ITCH | s38163 | -0.45516 | none | | no | number of cells compared to control (%): 74.66 | Vaccinia virus (VACV) infection | Human genome-wide RNAi screen reveals a role for nuclear pore proteins in poxvirus morphogenesis. | Sivan et al. | 2013 | 23401514 | Cell line | HeLa | Vaccinia virus VACV IHD-J/GFP protein expression and DNA content | Fluorescence | Silencer Select Version 4, siGENOME SMARTpool and OnTargetPlus | Genome-wide | siRNA | Z-score | > | Author-submitted data. Primary screen. Decreased viability phenotype if number of cells compared to control < 50 %. | GR00249-S | 83737 | 83737 | ITCH | s38164 | -0.58 | none | | no | number of cells compared to control (%): 79.10 | Vaccinia virus (VACV) infection | Human genome-wide RNAi screen reveals a role for nuclear pore proteins in poxvirus morphogenesis. | Sivan et al. | 2013 | 23401514 | Cell line | HeLa | Vaccinia virus VACV IHD-J/GFP protein expression and DNA content | Fluorescence | Silencer Select Version 4, siGENOME SMARTpool and OnTargetPlus | Genome-wide | siRNA | Z-score | > | Author-submitted data. Primary screen. Decreased viability phenotype if number of cells compared to control < 50 %. | GR00249-S | 83737 | 83737 | ITCH | s38165 | 0.46245 | none | | no | number of cells compared to control (%): 75.55 | Vaccinia virus (VACV) infection | Human genome-wide RNAi screen reveals a role for nuclear pore proteins in poxvirus morphogenesis. | Sivan et al. | 2013 | 23401514 | Cell line | HeLa | Vaccinia virus VACV IHD-J/GFP protein expression and DNA content | Fluorescence | Silencer Select Version 4, siGENOME SMARTpool and OnTargetPlus | Genome-wide | siRNA | Z-score | > | Author-submitted data. Primary screen. Decreased viability phenotype if number of cells compared to control < 50 %. | GR00253-A | 83737 | NM_031483 | ITCH | np | -0.725 | none | | | | hepcidin regulation | Unbiased RNAi screen for hepcidin regulators links hepcidin suppression to proliferative Ras/RAF and nutrient-dependent mTOR signaling. | Mleczko-Sanecka et al. | 2014 | 24385536 | Cell line | Huh7 | hepcidin::fluc mRNA expression | Luminescence | siGenome siARRAY SMARTpool | Genome-wide | siRNA | Z-score | > | Cutoff < | GR00255-A-1 | 83737 | 83737 | ITCH | TRCN0000002087, TRCN0000002088, TRCN0000002089, TRCN0000002090, TRCN0000010680 | -0.016313907 | none | | | | Negative genetic interactions (1) | A negative genetic interaction map in isogenic cancer cell lines reveals cancer cell vulnerabilities. | Vizeacoumar et al. | 2013 | 24104479 | Cell line | HCT116 | shRNA abundance | Microarray | np | Genome-wide | shRNA | differential Gene Activity Ranking Profile (dGARP) | < -1.0 | HCT116 BLM-/- and HCT116 BLM+/+ cells used. Cutoff corresponds to p-value < 0.05. Additional information about a secondary screen (genetic interactions with Cetuximab/Erbitux in LIM1215 cells) | GR00255-A-2 | 83737 | 83737 | ITCH | TRCN0000002087, TRCN0000002088, TRCN0000002089, TRCN0000002090, TRCN0000010680 | 0.10611796 | none | | | | Negative genetic interactions (2) | A negative genetic interaction map in isogenic cancer cell lines reveals cancer cell vulnerabilities. | Vizeacoumar et al. | 2013 | 24104479 | Cell line | HCT116 | shRNA abundance | Microarray | np | Genome-wide | shRNA | differential Gene Activity Ranking Profile (dGARP) | < -1.0 | HCT116 MUS81-/- and HCT116 MUS81+/+ cells used. Cutoff corresponds to p-value < 0.05. Additional information about a secondary screen (genetic interactions with Cetuximab/Erbitux in LIM1215 cells) | GR00255-A-3 | 83737 | 83737 | ITCH | TRCN0000002087, TRCN0000002088, TRCN0000002089, TRCN0000002090, TRCN0000010680 | 0.151557943 | none | | | | Negative genetic interactions (3) | A negative genetic interaction map in isogenic cancer cell lines reveals cancer cell vulnerabilities. | Vizeacoumar et al. | 2013 | 24104479 | Cell line | HCT116 | shRNA abundance | Microarray | np | Genome-wide | shRNA | differential Gene Activity Ranking Profile (dGARP) | < -1.2 | HCT116 PTEN-/- and HCT116 PTEN+/+ cells used. Cutoff corresponds to p-value < 0.05. Additional information about a secondary screen (genetic interactions with Cetuximab/Erbitux in LIM1215 cells) | GR00255-A-4 | 83737 | 83737 | ITCH | TRCN0000002087, TRCN0000002088, TRCN0000002089, TRCN0000002090, TRCN0000010680 | 0.265031689 | none | | | | Negative genetic interactions (4) | A negative genetic interaction map in isogenic cancer cell lines reveals cancer cell vulnerabilities. | Vizeacoumar et al. | 2013 | 24104479 | Cell line | HCT116 | shRNA abundance | Microarray | np | Genome-wide | shRNA | differential Gene Activity Ranking Profile (dGARP) | < -1.2 | HCT116 PTTG1-/- and HCT116 PTTG1+/+ cells used. Cutoff corresponds to p-value < 0.05. Additional information about a secondary screen (genetic interactions with Cetuximab/Erbitux in LIM1215 cells) | GR00255-A-5 | 83737 | 83737 | ITCH | TRCN0000002087, TRCN0000002088, TRCN0000002089, TRCN0000002090, TRCN0000010680 | -0.250460794 | none | | | | Negative genetic interactions (5) | A negative genetic interaction map in isogenic cancer cell lines reveals cancer cell vulnerabilities. | Vizeacoumar et al. | 2013 | 24104479 | Cell line | HCT116 | shRNA abundance | Microarray | np | Genome-wide | shRNA | differential Gene Activity Ranking Profile (dGARP) | < -0.8 | HCT116 KRASG13D/- and HCT116 KRAS+/- cells used. Cutoff corresponds to p-value < 0.05. Additional information about a secondary screen (genetic interactions with Cetuximab/Erbitux in LIM1215 cells) | GR00265-S | 83737 | NM_031483 | ITCH | np | - | none | | | | Cytochrome c degradation | The E3 ligase PARC mediates the degradation of cytosolic cytochrome c to promote survival in neurons and cancer cells. | Gama et al. | 2014 | 25028717 | Cell line | U-87 MG | Cytochrome c expression | Fluorescence | Dharmacon | Selected genes | siRNA | Intensity: weak, medium, strong | np | Reagents were designed based onRef Seq database v5.0-8.0. | GR00293-A | 83737 | | ITCH | np | -3.47 | Decreased viability with paclitaxel | | | | Combinatorial effect with paclitaxel | Mechanisms Promoting Escape from Mitotic Stress−Induced Tumor Cell Death | Sinnott et al. | 2014 | 24860162 | Cell line | HCC366 | Viability | Luminescence | Thermo-Fisher | Genome-wide | siRNA | Z-score | < -2.5 | Final hits according to the author are indicated in the comment. | GR00300-A | 83737 | | ITCH | TRCN0000010680, TRCN0000002087, TRCN0000002088, TRCN0000002089, TRCN0000002090 | 0 | none | | | | Combinatorial effect with RAF inhibitor PLX4720 | A genome-scale RNA interference screen implicates NF1 loss in resistance to RAF inhibition. | Whittaker et al. | 2013 | 23288408 | Cell line | A375 | shRNA abundance | Sequencing | TRC | Genome-wide | shRNA | Number of shRNAs ranked Top1000 | > 2 | The A375 cell line used here harbours the BRAF V600E mutation and is therefore sensitive to RAF inhibitors. | GR00303-A | 83737 | NM_031483 | ITCH | np | -1.13 | none | | | | Clear cell renal cell carcinoma (ccRCC) survival regulation | Genome-wide RNA interference analysis of renal carcinoma survival regulators identifies MCT4 as a Warburg effect metabolic target | Gerlinger et al. | 2012 | 22362593 | Cell line | VHL-deficient RCC4 | Proliferation and Viability | Fluorescence | np | Genome-wide | siRNA | Z-score | < | In the phenotype data duplicates were in the original document, which have been removed. | GR00310-A-1 | 83737 | 83737 | ITCH | np | -0.24 | none | | | | Sindbis virus (SINV) infection (1) | Genome-Wide RNAi Screen Identifies Novel Host Proteins Required for Alphavirus Entry | Ooi et al. | 2013 | 24367265 | Cell line | U2OS | Sindbis virus (SINV) reporter | Luminescence | Ambion Silencer V3 | Genome-wide | siRNA | Z-score | < -3 OR > 2 | | | 83737 | 83737 | ITCH | np | 41 | none | | | 85,6% viability | | | | | | | | | | | | | | | | GR00313-A | 83737 | NM_031483 | ITCH | np | 0.2 | none | | | | TNF-alpha pathway regulation | A Genome-Wide RNA Interference Screen Identifies Caspase 4 as a Factor Required for Tumor Necrosis Factor Alpha Signaling. | Nickles et al. | 2012 | 22733992 | Cell line | HEK293T | NFkappaB pathway reporter | Luminescence | Qiagen | Genome-wide | siRNA | Z-score | < | Additional filters were a reduction in firefly luciferase levels by at least 50% compared to the mean of the experiment and a concomitant reduction of renilla luciferase expression of not more than 30%. | GR00318-A | 83737 | 83737 | ITCH | np | 0.92 | none | | | siRNA set: druggable genome | Huntingtin toxicity | A Genome-Scale RNA–Interference Screen Identifies RRAS Signaling as a Pathologic Feature of Huntington’s Disease | Miller et al. | 2012 | 23209424 | Cell line | HEK293T | Caspase 3/7 activity | Fluorescence | Dharmacon | Selected genes | siRNA | Sum of normalized caspase 3/7 activity mean and standard error | < 0.683 | HEK293T cells were cotransfected with mutant Huntingtin fused to GFP (Htt1-558141Q-GFP). | GR00343-S | 83737 | 83737 | ITCH | TRCN0000002087 | 1.25 | none | | | | Lentiviral shRNA "Achilles Heel" screen | Inhibition of the mitochondrial protease, ClpP, as a therapeutic strategy for human acute myeloid leukemia | Cole et al. | 2015 | 26058080 | Cell line | K562 | shRNA abundance | Fluorescence | Lentiviral shRNA library | Genome-wide | shRNA | Log2 ratio | < | Comparison of day 21 vs. day 0 abundance data | GR00343-S | 83737 | 83737 | ITCH | TRCN0000002090 | 1.0899999999999999 | none | | | | Lentiviral shRNA "Achilles Heel" screen | Inhibition of the mitochondrial protease, ClpP, as a therapeutic strategy for human acute myeloid leukemia | Cole et al. | 2015 | 26058080 | Cell line | K562 | shRNA abundance | Fluorescence | Lentiviral shRNA library | Genome-wide | shRNA | Log2 ratio | < | Comparison of day 21 vs. day 0 abundance data | GR00343-S | 83737 | 83737 | ITCH | TRCN0000002089 | -0.4150000000000009 | none | | | | Lentiviral shRNA "Achilles Heel" screen | Inhibition of the mitochondrial protease, ClpP, as a therapeutic strategy for human acute myeloid leukemia | Cole et al. | 2015 | 26058080 | Cell line | K562 | shRNA abundance | Fluorescence | Lentiviral shRNA library | Genome-wide | shRNA | Log2 ratio | < | Comparison of day 21 vs. day 0 abundance data | GR00343-S | 83737 | 83737 | ITCH | TRCN0000002088 | -0.07750000000000057 | none | | | | Lentiviral shRNA "Achilles Heel" screen | Inhibition of the mitochondrial protease, ClpP, as a therapeutic strategy for human acute myeloid leukemia | Cole et al. | 2015 | 26058080 | Cell line | K562 | shRNA abundance | Fluorescence | Lentiviral shRNA library | Genome-wide | shRNA | Log2 ratio | < | Comparison of day 21 vs. day 0 abundance data | GR00355-A | 83737 | 83737 | ITCH | np | 1.606198157 | Increased epidermal growth factor receptor (EGFR) surface abundance | | | | PIP3-mediated epidermal growth factor (EGFR) endocytosis | PIP3 induces the recycling of receptor tyrosine kinases | Laketa et al. | 2014 | 24425787 | Cell line | HeLa Kyoto | Epidermal growth factor (EGFR) surface abundance | Fluorescence | Qiagen | Selected genes | siRNA | Deviation score | < -1 OR > 1 | HeLa Kyoto cells were stably transfected with EGFR-EYFP. Reagent Sequences (but no reagent ID) available in Table S4. | GR00360-A-1 | 83737 | ENSG00000078747 | ITCH | 120673 | np | No cells | | | | Secretory transport (1) | Genome-wide RNAi screening identifies human proteins with a regulatory function in the early secretory pathway | Simpson et al. | 2012 | 22660414 | Cell line | HeLa Kyoto | CFP-tsO45G cell surface transport | Fluorescence | Ambion | Genome-wide | siRNA | Deviation score | < - 1 OR > 0.75 (mild: 0.75 - 1.0; strong: > 1.0) | For validation screen see Secretory transport (2). | GR00363-A | 83737 | 83737 | ITCH | esi1419, SI00141071, SI00141085, SI03118437, SI03051839, 120672, 120673, 120674 | sp | Decreased epidermal growth factor (EGF) endocytosis, decreased transferrin (TF) endocytosis | | | strong | Endocytosis regulation | Systems survey of endocytosis by multiparametric image analysis. | Collinet et al. | 2010 | 20190736 | Cell line | HeLa | Transferrin (TF) and epidermal growth factor (EGF) subcellular localisation, DNA content | Fluorescence | Ambion, Qiagen and esiRNA library (Kittler et al.) | Genome-wide | siRNA | Complex, sp | Complex criteria | Two hit categories: "strong" (maximum of Prob Chi2, Prob Chi2 EGF, Prob Chi2 Tfn > 0.95) and "weak but specific" (maximum of Prob Chi2, Prob Chi2 EGF, Prob Chi2 Tfn < 0.95 but Phenoscore > 0.95). Additional information about secondary screens with kinase and phospatase libraries. | | 83737 | 83737 | ITCH | | 0.01 | none | | | | | | | | | | | | | | | | | | | GR00376-A-1 | 83737 | 83737 | ITCH | | 0.031771202 | none | | | | Mitigators of SS1P-induced immunotoxicity | Whole-genome RNAi screen highlights components of the endoplasmic reticulum/Golgi as a source of resistance to immunotoxin-mediated cytotoxicity | Pasetto et al. | 2015 | 25713356 | Cell line | KB cells | Viability | Luminescence | Ambion Silencer Select Version 4 | Genome-wide | siRNA | RSA P-value | <0.001 | SS1P was applied in a "high dose", ≈EC90, 13 ng/ml. Cutoff was derived from data submitted to Pubchem (ID 1117281). Reagent sequences but no ID | GR00376-A-2 | 83737 | 83737 | ITCH | | 0.683105003 | none | | | | Sensitizers of SS1P-induced immunotoxicity | Whole-genome RNAi screen highlights components of the endoplasmic reticulum/Golgi as a source of resistance to immunotoxin-mediated cytotoxicity | Pasetto et al. | 2015 | 25713356 | Cell line | KB cells | Viability | Luminescence | Ambion Silencer Select Version 4 | Genome-wide | siRNA | RSA P-value | <0.001 | SS1P was applied in a "low dose", ≈EC30, 3 ng/ml. Cutoff was derived from data submitted to PubChem (ID 1117281). Reagent sequences but no ID | GR00378-A | 83737 | | ITCH | | -0.090055295 | none | | | | Poliovirus vaccine production | Engineering Enhanced Vaccine Cell Lines To Eradicate Vaccine-Preventable Diseases: the Polio End Game | van der Sanden et al. | 2015 | 26581994 | Cell line | HEp-2C | Infection with Attenuated Poliovirus | ELISA | Dharmacon | Genome-wide | siRNA | Z-score | > | For infection, a single lot of the attenuated Sabin type 2 poliovirus was used for the screen. Gene IDs were not provided, only the gene name/symbol | | 83737 | NM_031483 | ITCH | | 31.382 | none | | | | | | | | | | | | | | | | | | | GR00386-A-1 | 83737 | 83737 | ITCH | | 80.5493153111725 | none | | | | NOD2 stimulation by MDP | A genome-wide small interfering RNA (siRNA) screen reveals nuclear factor-κB (NF-κB)-independent regulators of NOD2-induced interleukin-8 (IL-8) secretion. | Warner et al. | 2014 | 25170077 | Cell line | HEK293 stably expressing NOD2 | Viability | Luminescence | Dharmacon | Genome-wide | siRNA | Percentage growth | Decreased: <70, increased: >120 | Reagent IDs not provided | GR00386-A-2 | 83737 | 83737 | ITCH | | -480.3 | Increased IL-8 secretion | | | | MDP-induced IL-8 secretion | A genome-wide small interfering RNA (siRNA) screen reveals nuclear factor-κB (NF-κB)-independent regulators of NOD2-induced interleukin-8 (IL-8) secretion. | Warner et al. | 2014 | 25170077 | Cell line | HEK293 stably expressing NOD2 | IL-8 secretion | ELISA | Dharmacon | Genome-wide | siRNA | Percent inhibition of IL-8 secretion | Increased: <-300, Decreased: >60 | Concentration of IL-8 was measured from cell supernatants by sandwich ELISA. IL-8 values (pg/ml) were normalized to IL-8 secreted in cells treated with RIPK2-specific siRNA (100% inhibition) and non-targeting siRNA (0% inhibition). Secondary validating screen assessed 554 genes whose silencing affected MDP-induced IL-8 secretion in the primary screen. Final validated IL-8 regulators (positive or negative) are listed in the comments column. Reagent IDs not provided |