RNAi

Gene Info

  • Species: Human (Homo sapiens)
  • GeneID: 64131
  • Symbol: XYLT1
  • Description: xylosyltransferase 1
DataSource: http://genomernai.dkfz.de/v16/genedetails/64131

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Stable_ID Entrez_ID Gene_ID Gene_Symbol Reagent_ID Score Phenotype Conditions Follow_Up Comment Screen_Title Publication_Title Authors Publication_Year Pubmed_ID Biosource Biomodel Assay Method Library Scope Reagent_Type Score_Type Cutoff Notes
GR00053-A 64131 NM_022166 XYLT1 np sp Increased gamma-H2AX phosphorylation no group 2 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 64131 NM_022166 XYLT1 np 1.417 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 64131 NM_022166 XYLT1 np 0.923 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 64131 NM_022166 XYLT1 M-013749-00 -0.97 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 64131 NM_022166 XYLT1 M-013749-00 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 64131 ENSG00000103489 XYLT1 ENSG00000103489 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
GR00149-A-1 64131 64131 XYLT1 29873 3.49 none no Ciliogenesis and cilium length (1) Functional genomic screen for modulators of ciliogenesis and cilium length. Kim et al. 2010 20393563 Cell line htRPE Smoothed protein expression Fluorescence Human druggable genome siRNA library V3.1 Druggable genes siRNA Normalized percent inhibition > 1.5 OR < -1.5 standard deviations from mean
GR00149-A-1 64131 64131 XYLT1 29873 -14.02 none no Ciliogenesis and cilium length (1) Functional genomic screen for modulators of ciliogenesis and cilium length. Kim et al. 2010 20393563 Cell line htRPE Smoothed protein expression Fluorescence Human druggable genome siRNA library V3.1 Druggable genes siRNA Normalized percent inhibition > 1.5 OR < -1.5 standard deviations from mean
GR00149-A-1 64131 64131 XYLT1 112163 7.82 none no Ciliogenesis and cilium length (1) Functional genomic screen for modulators of ciliogenesis and cilium length. Kim et al. 2010 20393563 Cell line htRPE Smoothed protein expression Fluorescence Human druggable genome siRNA library V3.1 Druggable genes siRNA Normalized percent inhibition > 1.5 OR < -1.5 standard deviations from mean
GR00149-A-1 64131 64131 XYLT1 112163 -11.25 none no Ciliogenesis and cilium length (1) Functional genomic screen for modulators of ciliogenesis and cilium length. Kim et al. 2010 20393563 Cell line htRPE Smoothed protein expression Fluorescence Human druggable genome siRNA library V3.1 Druggable genes siRNA Normalized percent inhibition > 1.5 OR < -1.5 standard deviations from mean
GR00149-A-1 64131 64131 XYLT1 112164 166.6 none no Ciliogenesis and cilium length (1) Functional genomic screen for modulators of ciliogenesis and cilium length. Kim et al. 2010 20393563 Cell line htRPE Smoothed protein expression Fluorescence Human druggable genome siRNA library V3.1 Druggable genes siRNA Normalized percent inhibition > 1.5 OR < -1.5 standard deviations from mean
GR00149-A-1 64131 64131 XYLT1 112164 192.83 none no Ciliogenesis and cilium length (1) Functional genomic screen for modulators of ciliogenesis and cilium length. Kim et al. 2010 20393563 Cell line htRPE Smoothed protein expression Fluorescence Human druggable genome siRNA library V3.1 Druggable genes siRNA Normalized percent inhibition > 1.5 OR < -1.5 standard deviations from mean
GR00149-A-1 64131 64131 XYLT1 112165 27.93 none no Ciliogenesis and cilium length (1) Functional genomic screen for modulators of ciliogenesis and cilium length. Kim et al. 2010 20393563 Cell line htRPE Smoothed protein expression Fluorescence Human druggable genome siRNA library V3.1 Druggable genes siRNA Normalized percent inhibition > 1.5 OR < -1.5 standard deviations from mean
GR00149-A-1 64131 64131 XYLT1 112165 -24.69 none no Ciliogenesis and cilium length (1) Functional genomic screen for modulators of ciliogenesis and cilium length. Kim et al. 2010 20393563 Cell line htRPE Smoothed protein expression Fluorescence Human druggable genome siRNA library V3.1 Druggable genes siRNA Normalized percent inhibition > 1.5 OR < -1.5 standard deviations from mean
GR00151-A-1 64131 ENSG00000103489 XYLT1 np -1.568 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 64131 64131 XYLT1 PL-50063 0.914 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 64131 NM_022166 XYLT1 M-013749-00 -0.481024422077168 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 64131 ENSG00000103489 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 64131 64131 XYLT1 M-013749-00 1.797577328 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 64131 64131 XYLT1 M-013749-00 0.660275908100881 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 64131 NM_022166 XYLT1 M-013749-00 0.75 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 64131 NM_022166 XYLT1 M-013749-00 -0.38 none no Z-score 0.4525 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 64131 NM_022166 XYLT1 np np 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 64131 XYLT1 np sp FOXO1 nuclear localization rank: 167 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
GR00247-A-2 64131 64131 XYLT1 D-013749-01 sp none 0/4 siRNAs validated Regulation of FOXO1 nuclear localization (2) 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 np Selected genes siRNA Complex, sp Complex criteria Reconfirmed gene if >
GR00247-A-2 64131 64131 XYLT1 D-013749-02 sp none 0/4 siRNAs validated Regulation of FOXO1 nuclear localization (2) 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 np Selected genes siRNA Complex, sp Complex criteria Reconfirmed gene if >
GR00247-A-2 64131 64131 XYLT1 D-013749-03 sp none 0/4 siRNAs validated Regulation of FOXO1 nuclear localization (2) 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 np Selected genes siRNA Complex, sp Complex criteria Reconfirmed gene if >
GR00247-A-2 64131 64131 XYLT1 D-013749-04 sp none 0/4 siRNAs validated Regulation of FOXO1 nuclear localization (2) 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 np Selected genes siRNA Complex, sp Complex criteria Reconfirmed gene if >
GR00249-S 64131 64131 XYLT1 J-013749-05 -0.58952 none no number of cells compared to control (%): 59.84 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 64131 64131 XYLT1 M-013749-01 0.60743 Decreased viability no number of cells compared to control (%): 47.46 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 64131 64131 XYLT1 s34492 -1.80614 Decreased vaccinia virus (VACV) infection no number of cells compared to control (%): 85.95 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 %.
GR00249-S 64131 64131 XYLT1 s34493 -1.65431 Decreased vaccinia virus (VACV) infection no number of cells compared to control (%): 79.66 Vaccinia virus (VACV) infection Human genome-wide RNAi screen reveals a role for nuclear pore proteins in poxvirus morphogenesis. Sivan et al. 2013 23401514 Cell line HeLa Vaccinia virus VACV IHD-J/GFP protein expression and DNA content Fluorescence Silencer Select Version 4, siGENOME SMARTpool and OnTargetPlus Genome-wide siRNA Z-score > Author-submitted data. Primary screen. Decreased viability phenotype if number of cells compared to control < 50 %.
GR00249-S 64131 64131 XYLT1 s34494 -0.6218 none no number of cells compared to control (%): 103.29 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 64131 NM_022166 XYLT1 np 0.421 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 <
GR00257-A-1 64131 xylt1 112164 sp Dynamic nuclei (hole, folded or small irregular) Cell division, migration and survival (1) Phenotypic profiling of the human genome by time-lapse microscopy reveals cell division genes. Neumann et al. 2010 20360735 Cell line HeLa H2B-GFP protein expression Fluorescence Mapped using ENSEMBL genome database version 27 Selected genes siRNA Complex, sp Complex criteria HeLa-H2B-GFP cells used.
GR00293-A 64131 XYLT1 np -0.885 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.
GR00297-A 64131 XYLT1 TRCN0000034883 -0.06 none Glucose limitation response Metabolic determinants of cancer cell sensitivity to glucose limitation and biguanides Birsoy et al. 2014 24670634 Cell line Jurkat shRNA abundance in high and low glucose Deep sequencing TRC Selected genes shRNA Log2 ratio < -0.75
GR00297-A 64131 XYLT1 TRCN0000034881 1.08 none Glucose limitation response Metabolic determinants of cancer cell sensitivity to glucose limitation and biguanides Birsoy et al. 2014 24670634 Cell line Jurkat shRNA abundance in high and low glucose Deep sequencing TRC Selected genes shRNA Log2 ratio < -0.75
GR00297-A 64131 XYLT1 TRCN0000034879 0.49 none Glucose limitation response Metabolic determinants of cancer cell sensitivity to glucose limitation and biguanides Birsoy et al. 2014 24670634 Cell line Jurkat shRNA abundance in high and low glucose Deep sequencing TRC Selected genes shRNA Log2 ratio < -0.75
GR00297-A 64131 XYLT1 TRCN0000034882 0.06 none Glucose limitation response Metabolic determinants of cancer cell sensitivity to glucose limitation and biguanides Birsoy et al. 2014 24670634 Cell line Jurkat shRNA abundance in high and low glucose Deep sequencing TRC Selected genes shRNA Log2 ratio < -0.75
GR00300-A 64131 XYLT1 TRCN0000034882, TRCN0000034883, TRCN0000034880, TRCN0000034881 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 64131 NM_022166 XYLT1 np 0.64 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 64131 64131 XYLT1 np -0.14 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
64131 64131 XYLT1 np 20.3 none 90,3% viability
GR00313-A 64131 NM_022166 XYLT1 np 0.36 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 64131 4464 XYLT1 CLL-H-027337 -0.6655565004516252 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 64131 4464 XYLT1 CLL-H-027334 -1.9140400474921806 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 64131 4464 XYLT1 CLL-H-027333 np 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 64131 4464 XYLT1 CLL-H-027335 1.0554830776247912 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 64131 4464 XYLT1 CLL-H-027336 1.361102960676448 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.
GR00343-S 64131 64131 XYLT1 TRCN0000034881 -0.5975000000000001 none Lentiviral shRNA "Achilles Heel" screen Inhibition of the mitochondrial protease, ClpP, as a therapeutic strategy for human acute myeloid leukemia Cole et al. 2015 26058080 Cell line K562 shRNA abundance Fluorescence Lentiviral shRNA library Genome-wide shRNA Log2 ratio < Comparison of day 21 vs. day 0 abundance data
GR00343-S 64131 64131 XYLT1 TRCN0000034880 -0.2375000000000007 none Lentiviral shRNA "Achilles Heel" screen Inhibition of the mitochondrial protease, ClpP, as a therapeutic strategy for human acute myeloid leukemia Cole et al. 2015 26058080 Cell line K562 shRNA abundance Fluorescence Lentiviral shRNA library Genome-wide shRNA Log2 ratio < Comparison of day 21 vs. day 0 abundance data
GR00343-S 64131 64131 XYLT1 TRCN0000034883 0.9399999999999995 none Lentiviral shRNA "Achilles Heel" screen Inhibition of the mitochondrial protease, ClpP, as a therapeutic strategy for human acute myeloid leukemia Cole et al. 2015 26058080 Cell line K562 shRNA abundance Fluorescence Lentiviral shRNA library Genome-wide shRNA Log2 ratio < Comparison of day 21 vs. day 0 abundance data
GR00343-S 64131 64131 XYLT1 TRCN0000034882 0.04249999999999865 none Lentiviral shRNA "Achilles Heel" screen Inhibition of the mitochondrial protease, ClpP, as a therapeutic strategy for human acute myeloid leukemia Cole et al. 2015 26058080 Cell line K562 shRNA abundance Fluorescence Lentiviral shRNA library Genome-wide shRNA Log2 ratio < Comparison of day 21 vs. day 0 abundance data
GR00360-A-1 64131 ENSG00000103489 XYLT1 112163 0.8485 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).
GR00368-A 64131 64131 XYLT1 0.71 Decreased viability ratio wt viability: 0,87 Combinatorial effect with E-Cadherin Synthetic Lethal Screens Identify Vulnerabilities in GPCR Signaling and Cytoskeletal Organization in E-Cadherin–Deficient Cells Telford et al. 2015 25777964 Cell line MCF10A Viability (synthetic lethal) Luminescence Dharmacon Genome-wide siRNA CDH1(-/-)/wt viability ratio < MCF10A wild type viability higher-or-equal to 50% was considered as additional cutoff (values noted in "comment" section).
64131 64131 XYLT1 -0.13 none
GR00376-A-1 64131 64131 XYLT1 0.084507242 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 64131 64131 XYLT1 0.321770459 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 64131 XYLT1 1.301641318 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
64131 NM_022166 XYLT1 25.704 none
GR00386-A-1 64131 64131 XYLT1 101.590168267113 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 64131 64131 XYLT1 -344.1 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