| GR00053-A |
55120 |
NM_018062 |
FANCL |
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 |
55120 |
NM_018062 |
FANCL |
np |
0.935 |
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 |
55120 |
NM_018062 |
FANCL |
np |
0.898 |
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 |
55120 |
NM_018062 |
FANCL |
M-021486-00 |
-0.96 |
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 |
55120 |
NM_018062 |
FANCL |
M-021486-00 |
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 |
55120 |
ENSG00000115392 |
FANCL |
ENSG00000115392 |
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 |
55120 |
NM_018062 |
|
v2HS_155491 |
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 |
55120 |
|
FANCL |
v2HS_155493 |
-1.09 |
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 |
< |
|
GR00103-A-0 |
55120 |
|
FANCL |
v2HS_155490 |
-1.66 |
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 |
< |
|
GR00151-A-1 |
55120 |
ENSG00000115392 |
FANCL |
np |
-1.341 |
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. |
SÅ‚abicki 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 |
55120 |
55120 |
FANCL |
PL-50060 |
0.834 |
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 |
55120 |
NM_018062 |
FANCL |
M-021486-00 |
-0.346969738437815 |
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 |
55120 |
ENSG00000115392 |
|
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 |
55120 |
55120 |
FANCL |
M-021486-00 |
-0.293497743 |
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 |
55120 |
55120 |
FANCL |
M-021486-00 |
1.42351770775936 |
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 |
55120 |
NM_018062 |
FANCL |
M-021486-00 |
-0.43 |
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 |
55120 |
NM_018062 |
FANCL |
M-021486-00 |
1.77 |
none |
|
no |
Z-score 1.619 |
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 |
55120 |
NM_018062 |
FANCL |
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 |
55120 |
55120 |
FANCL |
D-021486-01 |
0.92 |
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 |
55120 |
55120 |
FANCL |
D-021486-02 |
0.015 |
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 |
55120 |
55120 |
FANCL |
D-021486-03 |
6.8e-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-2 |
55120 |
55120 |
FANCL |
D-021486-04 |
1 |
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-3 |
55120 |
55120 |
FANCL |
D-021486-03 |
3.6e-05 |
Decreased viability after sindbis virus (SIN) dsTE12Q infection |
|
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 |
55120 |
55120 |
FANCL |
D-021486-04 |
0.026 |
Decreased viability after sindbis virus (SIN) dsTE12Q infection |
|
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 |
55120 |
55120 |
FANCL |
D-021486-01 |
0.0008 |
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-3 |
55120 |
55120 |
FANCL |
D-021486-02 |
1.6e-05 |
Decreased viability after sindbis virus (SIN) dsTE12Q infection |
|
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-4 |
55120 |
9765 |
FANCL |
D-021486-01 |
0.02 |
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 |
55120 |
9765 |
FANCL |
D-021486-02 |
0.95 |
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 |
55120 |
7743 |
FANCL |
D-021486-03 |
0.6 |
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 |
55120 |
7743 |
FANCL |
D-021486-04 |
0.49 |
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 |
|
GR00247-A-1 |
55120 |
|
FANCL |
np |
sp |
none |
|
|
rank: 19979 |
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 |
55120 |
55120 |
FANCL |
J-021486-05 |
1.02581 |
Increased vaccinia virus (VACV) infection |
|
no |
number of cells compared to control (%): 86.74 |
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 |
55120 |
55120 |
FANCL |
M-021486-00 |
-0.21573 |
none |
|
no |
number of cells compared to control (%): 93.65 |
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 |
55120 |
55120 |
FANCL |
s30218 |
-0.11422 |
none |
|
no |
number of cells compared to control (%): 82.25 |
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 |
55120 |
55120 |
FANCL |
s30219 |
-1.18901 |
none |
|
no |
number of cells compared to control (%): 95.06 |
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 |
55120 |
55120 |
FANCL |
s30220 |
-0.63729 |
none |
|
no |
number of cells compared to control (%): 97.04 |
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 %. |
GR00250-A-3 |
55120 |
55120 |
FANCL |
D-021486-01 |
sp |
Synthetic lethal with MLN4924 (a NAE inhibitor) |
|
|
91 nM MLN4924; set: 320DDR; final hit |
Combinatorial effect with MLN4924, a NAE inhibitor (3) |
Novel DNA damage checkpoints mediating cell death induced by the NEDD8-activating enzyme inhibitor MLN4924. |
Blank et al. |
2013 |
23100467 |
Cell line |
HCT116 |
Viability (synthetic lethal) |
Luminescence |
np |
Selected and random genes |
siRNA |
Complex, sp |
Complex criteria |
|
GR00250-A-3 |
55120 |
55120 |
FANCL |
D-021486-02 |
sp |
Synthetic lethal with MLN4924 (a NAE inhibitor) |
|
|
91 nM MLN4924; set: 320DDR; final hit |
Combinatorial effect with MLN4924, a NAE inhibitor (3) |
Novel DNA damage checkpoints mediating cell death induced by the NEDD8-activating enzyme inhibitor MLN4924. |
Blank et al. |
2013 |
23100467 |
Cell line |
HCT116 |
Viability (synthetic lethal) |
Luminescence |
np |
Selected and random genes |
siRNA |
Complex, sp |
Complex criteria |
|
GR00250-A-3 |
55120 |
55120 |
FANCL |
D-021486-03 |
sp |
Synthetic lethal with MLN4924 (a NAE inhibitor) |
|
|
91 nM MLN4924; set: 320DDR; final hit |
Combinatorial effect with MLN4924, a NAE inhibitor (3) |
Novel DNA damage checkpoints mediating cell death induced by the NEDD8-activating enzyme inhibitor MLN4924. |
Blank et al. |
2013 |
23100467 |
Cell line |
HCT116 |
Viability (synthetic lethal) |
Luminescence |
np |
Selected and random genes |
siRNA |
Complex, sp |
Complex criteria |
|
GR00250-A-3 |
55120 |
55120 |
FANCL |
D-021486-04 |
sp |
Increased viability with MLN4924 (a NAE inhibitor) |
|
|
91 nM MLN4924; set: 320DDR; final hit |
Combinatorial effect with MLN4924, a NAE inhibitor (3) |
Novel DNA damage checkpoints mediating cell death induced by the NEDD8-activating enzyme inhibitor MLN4924. |
Blank et al. |
2013 |
23100467 |
Cell line |
HCT116 |
Viability (synthetic lethal) |
Luminescence |
np |
Selected and random genes |
siRNA |
Complex, sp |
Complex criteria |
|
GR00253-A |
55120 |
NM_018062 |
FANCL |
np |
-0.278 |
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 |
55120 |
55120 |
FANCL |
TRCN0000083298, TRCN0000083299, TRCN0000083300, TRCN0000083301, TRCN0000083302 |
0.153069576 |
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 |
55120 |
55120 |
FANCL |
TRCN0000083298, TRCN0000083299, TRCN0000083300, TRCN0000083301, TRCN0000083302 |
-0.578623262 |
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 |
55120 |
55120 |
FANCL |
TRCN0000083298, TRCN0000083299, TRCN0000083300, TRCN0000083301, TRCN0000083302 |
-0.042483345 |
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 |
55120 |
55120 |
FANCL |
TRCN0000083298, TRCN0000083299, TRCN0000083300, TRCN0000083301, TRCN0000083302 |
0.291337338 |
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 |
55120 |
55120 |
FANCL |
TRCN0000083298, TRCN0000083299, TRCN0000083300, TRCN0000083301, TRCN0000083302 |
0.065640523 |
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 |
55120 |
|
FANCL |
np |
0.75 |
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 |
55120 |
|
FANCL |
TRCN0000083301, TRCN0000083298, TRCN0000083302, TRCN0000083300, TRCN0000083299 |
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. |
GR00300-A |
55120 |
|
VRK2 |
TRCN0000195058, TRCN0000197178, TRCN0000195264, TRCN0000010208, TRCN0000199398, TRCN0000010205, TRCN0000010204, TRCN0000010207, TRCN0000196878, TRCN0000010206 |
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 |
55120 |
NM_018062 |
FANCL |
np |
0.43 |
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 |
55120 |
55120 |
FANCL |
np |
0.23 |
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 |
|
|
55120 |
55120 |
FANCL |
np |
52 |
none |
|
|
65,4% viability |
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
GR00313-A |
55120 |
NM_018062 |
FANCL |
np |
1.04 |
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%. |
|
55120 |
|
FANCL |
np |
3 |
Resistant to vaccinia virus (VACV-A4L) infection |
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
GR00351-A-2 |
55120 |
55120 |
FANCL |
TRCN0000301012, TRCN0000083301, TRCN0000083300, TRCN0000323352, TRCN0000083299 |
sp |
none |
|
|
|
Orthopoxvirus infection (2) |
The Master Regulator of the Cellular Stress Response (HSF1) Is Critical for Orthopoxvirus Infection |
Filone et al. |
2014 |
24516381 |
Cell line |
A549 |
Vaccinia virus (VACV-LREV) gene expression |
Fluorescence |
TRC |
Selected genes |
shRNA |
Normalized RFU |
Complex criteria |
The vaccinia virus VACV-LREV expressed soluble Venus under an early promoter and soluble mCherry under a late promoter. |
GR00360-A-1 |
55120 |
ENSG00000115392 |
FANCL |
132264 |
0.800275 |
Mildly decreased CFP-tsO45G cell surface transport |
|
|
|
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). |
|
55120 |
55120 |
FANCL |
|
0.05000000000000002 |
none |
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
GR00371-A-1 |
55120 |
55120 |
FANCL |
|
-0.513268150147 |
none |
|
|
Ambion |
Nanog expression in absence of bFGF and TGFbeta |
Deterministic Restriction on Pluripotent State Dissolution by Cell-Cycle Pathways |
Gonzales et al. |
2015 |
26232226 |
Cell line |
NANOG-GFP H1 hESC |
NANOG expression |
Fluorescence |
Dharmacon and Ambion |
Selected genes |
siRNA |
Z-score |
>1,25 OR >1,5 [in at least two replicates] |
Z-score shown is an average of the z-scores from the three replicates performed for each gene. In the "Comment" field, the siRNA library used for each particular gene is noted. |
GR00371-A-2 |
55120 |
FANCL |
55120 |
|
-0.106780612978 |
none |
|
|
Ambion |
Nanog expression in presence of TGFbeta inhibitor |
Deterministic Restriction on Pluripotent State Dissolution by Cell-Cycle Pathways |
Gonzales et al. |
2015 |
26232226 |
Cell line |
NANOG-GFP H1 hESC |
NANOG expression |
Fluorescence |
Dharmacon and Ambion |
Selected genes |
siRNA |
Z-score |
>1,25 OR >1,5 [in at least two replicates] |
Z-score shown is an average of the z-scores from the three replicates performed for each gene. In the "Comment" field, the siRNA library used for each particular gene is noted. |
GR00371-A-3 |
55120 |
55120 |
FANCL |
|
0.892962642983 |
none |
|
|
Ambion |
Nanog expression in presence of MEK inhibitor |
Deterministic Restriction on Pluripotent State Dissolution by Cell-Cycle Pathways |
Gonzales et al. |
2015 |
26232226 |
Cell line |
NANOG-GFP H1 hESC |
NANOG expression |
Fluorescence |
Dharmacon and Ambion |
Selected genes |
siRNA |
Z-score |
>1,25 OR >1,5 [in at least two replicates] |
Z-score shown is an average of the z-scores from the three replicates performed for each gene. In the "Comment" field, the siRNA library used for each particular gene is noted. |
GR00371-A-4 |
55120 |
55120 |
FANCL |
|
0.210487835432 |
none |
|
|
Ambion |
Nanog expression in presence of PI3K inhibitor |
Deterministic Restriction on Pluripotent State Dissolution by Cell-Cycle Pathways |
Gonzales et al. |
2015 |
26232226 |
Cell line |
NANOG-GFP H1 hESC |
NANOG expression |
Fluorescence |
Dharmacon and Ambion |
Selected genes |
siRNA |
Z-score |
>1,25 OR >1,5 [in at least two replicates] |
Z-score shown is an average of the z-scores from the three replicates performed for each gene. In the "Comment" field, the siRNA library used for each particular gene is noted. |
GR00371-A-5 |
55120 |
55120 |
FANCL |
|
0.383724714957 |
none |
|
|
Ambion |
Nanog expression in presence of retinoic acid |
Deterministic Restriction on Pluripotent State Dissolution by Cell-Cycle Pathways |
Gonzales et al. |
2015 |
26232226 |
Cell line |
NANOG-GFP H1 hESC |
NANOG expression |
Fluorescence |
Dharmacon and Ambion |
Selected genes |
siRNA |
Z-score |
>1,25 OR >1,5 [in at least two replicates] |
Z-score shown is an average of the z-scores from the three replicates performed for each gene. In the "Comment" field, the siRNA library used for each particular gene is noted. |
GR00376-A-1 |
55120 |
55120 |
FANCL |
|
0.510249694 |
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 |
55120 |
55120 |
FANCL |
|
0.063246899 |
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 |
55120 |
|
FANCL |
|
-0.063265346 |
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 |
GR00378-A |
55120 |
|
FANCL |
|
1.733084401 |
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 |
|
55120 |
NM_018062 |
FANCL |
|
56.568 |
none |
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
GR00386-A-1 |
55120 |
55120 |
FANCL |
|
71.1472175734536 |
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 |
55120 |
55120 |
FANCL |
|
-18.4 |
none |
|
|
|
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 |