| GR00053-A | 1404 | NM_001884 | HAPLN1 | 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 | 1404 | NM_001884 | HAPLN1 | np | 0.919 | 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 | 1404 | NM_001884 | HAPLN1 | np | 1.309 | 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 | 1404 | NM_001884 | HAPLN1 | M-019514-00 | -1.01 | 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 | 1404 | NM_001884 | HAPLN1 | M-019514-00 | 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 | 1404 | ENSG00000145681 | HAPLN1 | ENSG00000145681 | 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 | | GR00151-A-1 | 1404 | ENSG00000145681 | HAPLN1 | np | -1.233 | 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 | 1404 | 1404 | HAPLN1 | PL-50047 | 0.786 | 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 | 1404 | NM_001884 | HAPLN1 | M-019514-00 | -1.16555070774387 | 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 | 1404 | ENSG00000145681 | | 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 | 1404 | 1404 | HAPLN1 | M-019514-00 | -0.53190391 | 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 | GR00198-A-2 | 1404 | 1404 | HAPLN1 | M-019514-00 | np | Decreased number of cells in monopolar arrest with EMD534085 (a Kinesin-5 inhibitor) | | no | number of confimed duplexes: 3 | Combinatorial effect with EMD534085, a Kinesin-5 inhibitor (2) | An intermittent live cell imaging screen for siRNA enhancers and suppressors of a kinesin-5 inhibitor. | Tsui et al. | 2009 | 19802393 | Cell line | HeLa | H2B protein expression | Fluorescence | siARRAY siRNA Library | Selected genes | siRNA | Ratio monopolar to total nuclei | > 2 standard deviations below mean for > | Additional information about the primary genome-wide screen | GR00236-A-1 | 1404 | 1404 | HAPLN1 | M-019514-00 | 0.729408207082242 | 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 | 1404 | NM_001884 | HAPLN1 | M-019514-00 | 1.07 | 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 | 1404 | NM_001884 | HAPLN1 | M-019514-00 | -1.92 | none | | no | Z-score -0.767 | 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 | 1404 | NM_001884 | HAPLN1 | np | sp | Decreased Sindbis virus (SIN) capsid and autophagosome LC3 protein colocalization | | yes | 2/4 siRNAs confirmed | 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 | | GR00242-A-2 | 1404 | 1404 | HAPLN1 | D-019514-01 | 0.005 | Decreased Sindbis virus (SIN) capsid and autophagosome LC3 protein colocalization | | yes | | Selective autophagy regulation (2) | 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 | np | Selected genes | siRNA | p-value | < 0.05 | | GR00242-A-2 | 1404 | 1404 | HAPLN1 | D-019514-02 | 0.31 | none | | yes | | Selective autophagy regulation (2) | 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 | np | Selected genes | siRNA | p-value | < 0.05 | | GR00242-A-2 | 1404 | 1404 | HAPLN1 | D-019514-03 | 0.83 | none | | yes | | Selective autophagy regulation (2) | 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 | np | Selected genes | siRNA | p-value | < 0.05 | | GR00242-A-2 | 1404 | 1404 | HAPLN1 | D-019514-04 | 2.7e-10 | Decreased Sindbis virus (SIN) capsid and autophagosome LC3 protein colocalization | | yes | | Selective autophagy regulation (2) | 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 | np | Selected genes | siRNA | p-value | < 0.05 | | GR00242-A-3 | 1404 | 1404 | HAPLN1 | D-019514-01 | 0.12 | none | | yes | miRNA seeds (7-8mer): 1 | Selective autophagy regulation (3) | Image-based genome-wide siRNA screen identifies selective autophagy factors. | Orvedahl et al. | 2011 | 22020285 | Cell line | HeLa/GFP-LC3 | Viability | Luminescence | np | Selected genes | siRNA | p-value | < 0.05 | | GR00242-A-3 | 1404 | 1404 | HAPLN1 | D-019514-02 | 0.42 | none | | yes | miRNA seeds (7-8mer): 2 | Selective autophagy regulation (3) | Image-based genome-wide siRNA screen identifies selective autophagy factors. | Orvedahl et al. | 2011 | 22020285 | Cell line | HeLa/GFP-LC3 | Viability | Luminescence | np | Selected genes | siRNA | p-value | < 0.05 | | GR00242-A-3 | 1404 | 1404 | HAPLN1 | D-019514-03 | 0.5 | none | | yes | | Selective autophagy regulation (3) | Image-based genome-wide siRNA screen identifies selective autophagy factors. | Orvedahl et al. | 2011 | 22020285 | Cell line | HeLa/GFP-LC3 | Viability | Luminescence | np | Selected genes | siRNA | p-value | < 0.05 | | GR00242-A-3 | 1404 | 1404 | HAPLN1 | D-019514-04 | 8.3e-05 | Decreased viability after sindbis virus (SIN) dsTE12Q infection | | yes | miRNA seeds (7-8mer): 1 | Selective autophagy regulation (3) | Image-based genome-wide siRNA screen identifies selective autophagy factors. | Orvedahl et al. | 2011 | 22020285 | Cell line | HeLa/GFP-LC3 | Viability | Luminescence | np | Selected genes | siRNA | p-value | < 0.05 | | GR00242-A-4 | 1404 | 1404 | FLJ25363 | D-028146-15 | 0.05 | Decreased mitophagy mCherry-Parkin protein expression after carbonyl cyanide m-chlorphenylhydrazone (CCCP) stimulation | | no | miRNA seeds (7-8mer): 1 | Selective autophagy regulation (4) | Image-based genome-wide siRNA screen identifies selective autophagy factors. | Orvedahl et al. | 2011 | 22020285 | Cell line | HeLa | Mitophagy mCherry-Parkin protein expression after carbonyl cyanide m-chlorphenylhydrazone (CCCP) stimulation | Fluorescence | np | Selected genes | siRNA | p-value | < 0.05 | | GR00242-A-4 | 1404 | 4300 | HAPLN1 | D-019514-01 | np | none | | no | insufficient numbers of green or red dots per cell or total number of cells per well, miRNA seeds (7-8mer): 1 | Selective autophagy regulation (4) | Image-based genome-wide siRNA screen identifies selective autophagy factors. | Orvedahl et al. | 2011 | 22020285 | Cell line | HeLa | Mitophagy mCherry-Parkin protein expression after carbonyl cyanide m-chlorphenylhydrazone (CCCP) stimulation | Fluorescence | np | Selected genes | siRNA | p-value | < 0.05 | | GR00242-A-4 | 1404 | 55173 | HAPLN1 | D-019514-02 | 0.0021 | Decreased mitophagy mCherry-Parkin protein expression after carbonyl cyanide m-chlorphenylhydrazone (CCCP) stimulation | | no | miRNA seeds (7-8mer): 2 | Selective autophagy regulation (4) | Image-based genome-wide siRNA screen identifies selective autophagy factors. | Orvedahl et al. | 2011 | 22020285 | Cell line | HeLa | Mitophagy mCherry-Parkin protein expression after carbonyl cyanide m-chlorphenylhydrazone (CCCP) stimulation | Fluorescence | np | Selected genes | siRNA | p-value | < 0.05 | | GR00242-A-4 | 1404 | 55173 | HAPLN1 | D-019514-03 | 0.19 | none | | no | | Selective autophagy regulation (4) | Image-based genome-wide siRNA screen identifies selective autophagy factors. | Orvedahl et al. | 2011 | 22020285 | Cell line | HeLa | Mitophagy mCherry-Parkin protein expression after carbonyl cyanide m-chlorphenylhydrazone (CCCP) stimulation | Fluorescence | np | Selected genes | siRNA | p-value | < 0.05 | | GR00242-A-4 | 1404 | 51338 | HAPLN1 | D-019514-04 | 0.0069 | Decreased mitophagy mCherry-Parkin protein expression after carbonyl cyanide m-chlorphenylhydrazone (CCCP) stimulation | | no | miRNA seeds (7-8mer): 1 | Selective autophagy regulation (4) | Image-based genome-wide siRNA screen identifies selective autophagy factors. | Orvedahl et al. | 2011 | 22020285 | Cell line | HeLa | Mitophagy mCherry-Parkin protein expression after carbonyl cyanide m-chlorphenylhydrazone (CCCP) stimulation | Fluorescence | np | Selected genes | siRNA | p-value | < 0.05 | | GR00247-A-1 | 1404 | | HAPLN1 | np | sp | none | | | rank: 10173 | 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 | 1404 | 1404 | HAPLN1 | J-019514-09 | -0.68133 | none | | no | number of cells compared to control (%): 88.80 | 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 | 1404 | 1404 | HAPLN1 | M-019514-00 | -0.84131 | none | | no | number of cells compared to control (%): 82.71 | 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 | 1404 | 1404 | HAPLN1 | s3531 | -0.87318 | none | | no | number of cells compared to control (%): 84.82 | 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 | 1404 | 1404 | HAPLN1 | s3532 | -0.1655 | none | | no | number of cells compared to control (%): 97.81 | 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 | 1404 | 1404 | HAPLN1 | s3533 | -0.06432 | none | | no | number of cells compared to control (%): 72.25 | 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 | 1404 | 1404 | HAPLN1 | J-019514-09 | -0.27051 | none | | no | number of cells compared to control (%): 83.95 | 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 | 1404 | NM_001884 | HAPLN1 | np | -0.027 | 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 | 1404 | 1404 | HAPLN1 | TRCN0000150501, TRCN0000150533, TRCN0000153337, TRCN0000153400, TRCN0000155939 | 1.001558195 | 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 | 1404 | 1404 | HAPLN1 | TRCN0000150501, TRCN0000150533, TRCN0000153337, TRCN0000153400, TRCN0000155939 | -0.002249004 | 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 | 1404 | 1404 | HAPLN1 | TRCN0000150501, TRCN0000150533, TRCN0000153337, TRCN0000153400, TRCN0000155939 | 0.113802212 | 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 | 1404 | 1404 | HAPLN1 | TRCN0000150501, TRCN0000150533, TRCN0000153337, TRCN0000153400, TRCN0000155939 | -0.191277073 | 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 | 1404 | 1404 | HAPLN1 | TRCN0000150501, TRCN0000150533, TRCN0000153337, TRCN0000153400, TRCN0000155939 | 0.50500348 | 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) | GR00293-A | 1404 | | HAPLN1 | np | 1.4 | 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 | 1404 | | HAPLN1 | TRCN0000153400, TRCN0000150501, TRCN0000155939, TRCN0000153337, TRCN0000150533 | 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 | 1404 | NM_001884 | HAPLN1 | np | 0.01 | 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. | GR00306-A | 1404 | 1404 | HAPLN1 | np | 37.18 | Decreased human papilloma virus 16 (HPV16) pseudovirus infection | | | | Human papillomavirus 16 (HPV16) infection | Genome-wide siRNA screen identifies the retromer as a cellular entry factor for human papillomavirus | Lipovsky et al. | 2013 | 23569269 | Cell line | HeLa-S3 | HPV16 pseudovirus reporter | Fluorescence | Dharmacon SMARTpool | Genome-wide | siRNA | Modified activity score (MAS1) | Top 1000 | | GR00310-A-1 | 1404 | 1404 | HAPLN1 | np | -0.5 | 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 | | | 1404 | 1404 | HAPLN1 | np | 95 | Inconclusive | | | 48% viability | | | | | | | | | | | | | | | | GR00313-A | 1404 | NM_001884 | HAPLN1 | np | 0.61 | 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%. | GR00327-A | 1404 | 1404 | UCP1 | CLL-H-026599 | -0.4116274823311705 | none | | | | Tumor formation | An in vivo RNAi screen identifies SALL1 as a tumor suppressor in human breast cancer with a role in CDH1 regulation | Wolf et al. | 2013 | 24292671 | Cell line | SUM-149 | shRNA abundance | Next-generation sequencing | Decipher library module 1 | Selected genes | shRNA | Z-score | > 2.24 | Genes were scored as hit if at least 2 shRNAs scored as hit, see comment. | GR00327-A | 1404 | 1404 | UCP1 | CLL-H-026595 | 3.3330178984166157 | Increased shRNA abundance | | | | Tumor formation | An in vivo RNAi screen identifies SALL1 as a tumor suppressor in human breast cancer with a role in CDH1 regulation | Wolf et al. | 2013 | 24292671 | Cell line | SUM-149 | shRNA abundance | Next-generation sequencing | Decipher library module 1 | Selected genes | shRNA | Z-score | > 2.24 | Genes were scored as hit if at least 2 shRNAs scored as hit, see comment. | GR00327-A | 1404 | 1404 | UCP1 | CLL-H-026598 | 1.9785429334492741 | none | | | | Tumor formation | An in vivo RNAi screen identifies SALL1 as a tumor suppressor in human breast cancer with a role in CDH1 regulation | Wolf et al. | 2013 | 24292671 | Cell line | SUM-149 | shRNA abundance | Next-generation sequencing | Decipher library module 1 | Selected genes | shRNA | Z-score | > 2.24 | Genes were scored as hit if at least 2 shRNAs scored as hit, see comment. | GR00327-A | 1404 | 1404 | UCP1 | CLL-H-026596 | -0.3212066356600686 | none | | | | Tumor formation | An in vivo RNAi screen identifies SALL1 as a tumor suppressor in human breast cancer with a role in CDH1 regulation | Wolf et al. | 2013 | 24292671 | Cell line | SUM-149 | shRNA abundance | Next-generation sequencing | Decipher library module 1 | Selected genes | shRNA | Z-score | > 2.24 | Genes were scored as hit if at least 2 shRNAs scored as hit, see comment. | GR00327-A | 1404 | 1404 | UCP1 | CLL-H-026597 | -1.0687908492773373 | none | | | | Tumor formation | An in vivo RNAi screen identifies SALL1 as a tumor suppressor in human breast cancer with a role in CDH1 regulation | Wolf et al. | 2013 | 24292671 | Cell line | SUM-149 | shRNA abundance | Next-generation sequencing | Decipher library module 1 | Selected genes | shRNA | Z-score | > 2.24 | Genes were scored as hit if at least 2 shRNAs scored as hit, see comment. | GR00327-A | 1404 | 1404 | UCP1 | CLL-H-026600 | 0.702122095577781 | none | | | | Tumor formation | An in vivo RNAi screen identifies SALL1 as a tumor suppressor in human breast cancer with a role in CDH1 regulation | Wolf et al. | 2013 | 24292671 | Cell line | SUM-149 | shRNA abundance | Next-generation sequencing | Decipher library module 1 | Selected genes | shRNA | Z-score | > 2.24 | Genes were scored as hit if at least 2 shRNAs scored as hit, see comment. | | 1404 | 1404 | HAPLN1 | | 0 | none | | | | | | | | | | | | | | | | | | | GR00376-A-1 | 1404 | 1404 | HAPLN1 | | 0.856484711 | 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 | 1404 | 1404 | HAPLN1 | | 0.159170172 | 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 | 1404 | | HAPLN1 | | 0.293512551 | 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 | | 1404 | NM_001884 | HAPLN1 | | 49.382 | none | | | | | | | | | | | | | | | | | | | GR00386-A-1 | 1404 | 1404 | HAPLN1 | | 47.3170857577829 | Decreased viability | | | | 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 | 1404 | 1404 | HAPLN1 | | 75.4 | Decreased 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 |