| GR00053-A | 56241 | NM_019601 | SUSD2 | np | sp | Increased gamma-H2AX phosphorylation | | no | group 4 | 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 | 56241 | NM_019601 | SUSD2 | np | 0.913 | 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 | 56241 | NM_019601 | SUSD2 | np | 0.785 | 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 | 56241 | NM_019601 | SUSD2 | M-010716-00 | -0.19 | 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 | 56241 | NM_019601 | SUSD2 | M-010716-00 | 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). | GR00098-A-1 | 56241 | ENSG00000099994 | SUSD2 | ENSG00000099994 | sp | Increased S DNA content | | yes | did not validate with resynthesized esiRNA | 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 | | GR00098-A-3 | 56241 | ENSG00000099994 | SUSD2 | ENSG00000099994 | 0.6 | none | | yes | | Cell division (3) | Genome-scale RNAi profiling of cell division in human tissue culture cells. | Kittler et al. | 2007 | 17994010 | Cell line | HeLa | Histone H3 phosphorylation; alpha-tubulin and pericentrin protein expression | Fluorescence | rp | Selected genes | esiRNA | Mitotic index | > | | GR00098-A-4 | 56241 | ENSG00000099994 | SUSD2 | ENSG00000099994 | -1.6 | none | | no | | Cell division (4) | Genome-scale RNAi profiling of cell division in human tissue culture cells. | Kittler et al. | 2007 | 17994010 | Cell line | HeLa | Cell size (forward scatter) | Flow cytometry | rp | Selected genes | esiRNA | Cell size | > | | GR00149-A-1 | 56241 | 56241 | SUSD2 | 27945 | 87.11 | Decreased cilium length after serum starvation | | yes | | 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 | 56241 | 56241 | SUSD2 | 27945 | 61.93 | Decreased cilium length after serum starvation | | yes | | 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 | 56241 | 56241 | SUSD2 | 28041 | 97.4 | Decreased cilium length after serum starvation | | yes | | 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 | 56241 | 56241 | SUSD2 | 28041 | 76.27 | Decreased cilium length after serum starvation | | yes | | 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 | 56241 | 56241 | SUSD2 | 28133 | 54.91 | Decreased cilium length after serum starvation | | yes | | 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 | 56241 | 56241 | SUSD2 | 28133 | 104.67 | Decreased cilium length after serum starvation | | yes | | 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 | 56241 | 56241 | SUSD2 | 147732 | 81.44 | Decreased cilium length after serum starvation | | yes | | 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 | 56241 | 56241 | SUSD2 | 147732 | 125.9 | Decreased cilium length after serum starvation | | yes | | 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-2 | 56241 | 56241 | SUSD2 | 27945 | -4.16 | Decreased cilium length after serum starvation | | yes | | Ciliogenesis and cilium length (2) | 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 | Selected genes | siRNA | Z-score | < | | GR00149-A-2 | 56241 | 56241 | SUSD2 | 28041 | -0.66 | Decreased cilium length after serum starvation | | yes | | Ciliogenesis and cilium length (2) | 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 | Selected genes | siRNA | Z-score | < | | GR00149-A-2 | 56241 | 56241 | SUSD2 | 147732 | -0.64 | Decreased cilium length after serum starvation | | yes | | Ciliogenesis and cilium length (2) | 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 | Selected genes | siRNA | Z-score | < | | GR00149-A-2 | 56241 | 56241 | SUSD2 | 28133 | -0.11 | Decreased cilium length after serum starvation | | yes | | Ciliogenesis and cilium length (2) | 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 | Selected genes | siRNA | Z-score | < | | GR00149-A-2 | 56241 | 56241 | SUSD2 | 27945 | -2.77 | Decreased cilium length after serum starvation | | yes | | Ciliogenesis and cilium length (2) | 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 | Selected genes | siRNA | Z-score | < | | GR00149-A-2 | 56241 | 56241 | SUSD2 | 28041 | -0.39 | Decreased cilium length after serum starvation | | yes | | Ciliogenesis and cilium length (2) | 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 | Selected genes | siRNA | Z-score | < | | GR00149-A-2 | 56241 | 56241 | SUSD2 | 147732 | -1.07 | Decreased cilium length after serum starvation | | yes | | Ciliogenesis and cilium length (2) | 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 | Selected genes | siRNA | Z-score | < | | GR00149-A-2 | 56241 | 56241 | SUSD2 | 28133 | -0.06 | Decreased cilium length after serum starvation | | yes | | Ciliogenesis and cilium length (2) | 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 | Selected genes | siRNA | Z-score | < | | GR00149-A-2 | 56241 | 56241 | SUSD2 | 27945 | -3.01 | Decreased cilium length after serum starvation | | yes | | Ciliogenesis and cilium length (2) | 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 | Selected genes | siRNA | Z-score | < | | GR00149-A-2 | 56241 | 56241 | SUSD2 | 28041 | -0.98 | Decreased cilium length after serum starvation | | yes | | Ciliogenesis and cilium length (2) | 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 | Selected genes | siRNA | Z-score | < | | GR00149-A-2 | 56241 | 56241 | SUSD2 | 147732 | -0.41 | Decreased cilium length after serum starvation | | yes | | Ciliogenesis and cilium length (2) | 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 | Selected genes | siRNA | Z-score | < | | GR00149-A-2 | 56241 | 56241 | SUSD2 | 28133 | -0.12 | Decreased cilium length after serum starvation | | yes | | Ciliogenesis and cilium length (2) | 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 | Selected genes | siRNA | Z-score | < | | GR00149-A-2 | 56241 | 56241 | SUSD2 | 27945 | -4.07 | Decreased cilium length after serum starvation | | yes | | Ciliogenesis and cilium length (2) | 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 | Selected genes | siRNA | Z-score | < | | GR00149-A-2 | 56241 | 56241 | SUSD2 | 28041 | -0.99 | Decreased cilium length after serum starvation | | yes | | Ciliogenesis and cilium length (2) | 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 | Selected genes | siRNA | Z-score | < | | GR00149-A-2 | 56241 | 56241 | SUSD2 | 147732 | -0.26 | Decreased cilium length after serum starvation | | yes | | Ciliogenesis and cilium length (2) | 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 | Selected genes | siRNA | Z-score | < | | GR00149-A-2 | 56241 | 56241 | SUSD2 | 28133 | 0.16 | Decreased cilium length after serum starvation | | yes | | Ciliogenesis and cilium length (2) | 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 | Selected genes | siRNA | Z-score | < | | GR00151-A-1 | 56241 | ENSG00000099994 | SUSD2 | np | -0.925 | 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 | 56241 | 56241 | SUSD2 | PL-50062 | 0.753 | 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 | | GR00184-A-1 | 56241 | NM_019601 | SUSD2 | M-010716-00 | -0.227103055380961 | 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 | | GR00196-A-1 | 56241 | ENSG00000099994 | | 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 | 56241 | 56241 | SUSD2 | M-010716-00 | 0.440681786 | 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 | GR00236-A-1 | 56241 | 56241 | SUSD2 | M-010716-00 | 0.930594926171304 | 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 | 56241 | NM_019601 | SUSD2 | M-010716-00 | 0.85 | 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 | 56241 | NM_019601 | SUSD2 | M-010716-00 | -1.1 | none | | no | Z-score -0.279 | 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 | 56241 | NM_019601 | SUSD2 | 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 | 56241 | | SUSD2 | np | sp | none | | | rank: 7635 | 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 | 56241 | 56241 | SUSD2 | J-010716-05 | 0.54594 | none | | no | number of cells compared to control (%): 87.32 | 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 | 56241 | 56241 | SUSD2 | M-010716-01 | -0.07855 | none | | no | number of cells compared to control (%): 76.02 | 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 | 56241 | 56241 | SUSD2 | s224416 | -1.70211 | Decreased vaccinia virus (VACV) infection | | no | number of cells compared to control (%): 84.85 | 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 | 56241 | 56241 | SUSD2 | s32064 | -1.18983 | none | | no | number of cells compared to control (%): 78.79 | 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 | 56241 | 56241 | SUSD2 | s32065 | -0.41365 | none | | no | number of cells compared to control (%): 101.68 | 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 %. | GR00251-A-1 | 56241 | | SUSD2 | np | -1 | Decreased shRNA abundance | | | | Non-small cell lung cancer (NSCLC) cytotoxicity (1) | Proteasome inhibitors block DNA repair and radiosensitize non-small cell lung cancer. | Cron et al. | 2013 | 24040035 | Cell line | A549 | shRNA abundance | Microarray | np | Genome-wide | shRNA | Complex, sp | Complex criteria | All listed genes are final hits. Final hit: > | GR00251-A-2 | 56241 | | SUSD2 | np | -1 | Decreased shRNA abundance | | | | Non-small cell lung cancer (NSCLC) cytotoxicity (2) | Proteasome inhibitors block DNA repair and radiosensitize non-small cell lung cancer. | Cron et al. | 2013 | 24040035 | Cell line | NCI-H460 | shRNA abundance | Microarray | np | Genome-wide | shRNA | Complex, sp | Complex criteria | All listed genes are final hits. Final hit: > | GR00253-A | 56241 | NM_019601 | SUSD2 | np | 1.082 | 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 < | GR00293-A | 56241 | | SUSD2 | np | -0.407 | none | | | | 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 | 56241 | | SUSD2 | TRCN0000172757, TRCN0000168823, TRCN0000168567, TRCN0000172361 | 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 | 56241 | NM_019601 | SUSD2 | np | 0.49 | 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 | 56241 | 56241 | SUSD2 | np | 1.18 | 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 | | | 56241 | 56241 | SUSD2 | np | -39.8 | Increased NF-kappaB reporter expression | | | 87.5% viability; included in validation screen | | | | | | | | | | | | | | | | GR00313-A | 56241 | NM_019601 | SUSD2 | np | -1.44 | 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%. | GR00363-A | 56241 | 56241 | SUSD2 | SI00736799, SI00736820, SI00736806, 147732, esi2124, SI00736813 | sp | Decreased endosome-nucleus distance (endosomes clustered in the perinuclear region) | | | 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. | GR00376-A-1 | 56241 | 56241 | SUSD2 | | 0.054725151 | 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 | 56241 | 56241 | SUSD2 | | 0.285710864 | 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 | 56241 | | SUSD2 | | -0.369418669 | 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 | | 56241 | NM_019601 | SUSD2 | | 16.745 | Decreased viability | | | | | | | | | | | | | | | | | | | GR00381-A-2 | 56241 | | SUSD2 | | 38.90368988943653 | none | | | Extracellular Space; other | Regulation of mammary epithelial cell growth (2) | A co-culture genome-wide RNAi screen with mammary epithelial cells reveals transmembrane signals required for growth and differentiation. | Burleigh et al. | 2015 | 25572802 | Cell line | 184-hTERT-L9 (mammary epithelial cells) | Viability | Count | Dharmacon siGENOME | Selected genes | siRNA | Percent growth | < 25 % AND p-value < 0.05 | 388 genes from screen (1) showing <25% growth and suspected or confirmed to be present in transmembrane or extracellular space, and secreted proteins were selected for this secondary screening. Not all of the final hits are represented since more data was taken into account for the final selection. For reagents information check screen (1) | GR00381-A-3 | 56241 | | SUSD2 | | 40.52750410509031 | none | | | Extracellular Space; other | Regulation of mammary epithelial cell growth (3) | A co-culture genome-wide RNAi screen with mammary epithelial cells reveals transmembrane signals required for growth and differentiation. | Burleigh et al. | 2015 | 25572802 | Cell line | 184-hTERT-E11 (mammary epithelial cells) | Viability | Count | Dharmacon siGENOME | Selected genes | siRNA | Percent growth | < 25 % AND p-value < 0.05 | 184-hTERT-E11 differs from 184-hTERT-L9 only in the position of hTERT insertion. 388 genes from screen (1) showing <25% growth and suspected or confirmed to be present in transmembrane or extracellular space, and secreted proteins were selected for this secondary screening. Not all of the final hits are represented since more data was taken into account for the final selection. For reagents information check screen (1) | GR00386-A-1 | 56241 | 56241 | SUSD2 | | 81.5218572938091 | 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 | 56241 | 56241 | SUSD2 | | -673.4 | 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 |