{"text_format":"3","workbook":"xls","n_sheets":5,"sheets":["DE_genes_grouped_by_pathway-fun","Apoptosis-associated_DE_gene","Mitochondria-associated_DE_gene","Lysosome-associated_DE_genes","Endosome-associated_DE_genes"],"read":"whole","date_system":"1900","formulas":"cached_only"}

{"sheet":"DE_genes_grouped_by_pathway-fun","index":0,"n_rows":88,"n_cols":5,"rows_kept":88,"merged":[[0,0,0,8],[1,1,1,4],[3,0,6,0],[7,0,7,4],[9,0,9,4],[10,0,16,0],[17,0,17,4],[18,0,20,0],[21,0,21,4],[22,0,24,0],[25,0,25,4],[26,0,27,0],[28,0,28,4],[29,0,36,0],[37,0,37,4],[38,0,40,0],[41,0,41,4],[42,0,44,0],[45,0,45,4],[46,0,48,0],[50,0,51,0],[52,0,52,4],[53,0,62,0],[66,0,67,0],[68,0,68,4],[73,0,78,0],[79,0,79,4],[80,0,87,0]],"flags":["formulas_cached_only"]}
["Subset of significantly differentially expressed genes detected by comparing CHMP2B patients cell lines with Cas9-corrected controls. Genes are grouped based on their association with processes/functions/characteristics of interests for which lists of related genes were retrieved from one of the following sources: gene ontology (GO); wikipathways; KEGG; literature (manually curated). For each gene we report its name, Ensembl identifier, log2 fold change and adjusted P-value (as computed by DESeq2).\nNote: only significantly differentially expressed genes are reported in this table (adjusted P-value <= 0.05, absolute log2 fold change >=1 and average of normalized read counts >=10) "]
[null,"CHMP2B mutant patient VS Cas9-corrected isogenic control"]
[null,"GENE NAME","ENSEMBL ID","LOG2 FOLD CHANGE","ADJ. PVAL"]
["Mitochondria fission \n(GO:0000266)","BNIP3","ENSG00000176171",{"v":-1.04177721181842,"d":"-1.0418"},{"v":6.6710630784605e-05,"d":"6.67E-05"}]
[null,"DCN","ENSG00000011465",{"v":2.53219228398069,"d":"2.5322"},{"v":0.00820587782636453,"d":"8.21E-03"}]
[null,"DNM3","ENSG00000197959",{"v":1.01044494080971,"d":"1.0104"},{"v":0.0125829006363113,"d":"1.26E-02"}]
[null,"KDR","ENSG00000128052",{"v":-1.0899511661405,"d":"-1.0900"},{"v":0.0259198528214096,"d":"2.59E-02"}]
[]
["Mitochondria fusion \n(GO:0008053)","BNIP3","ENSG00000176171",{"v":-1.04177721181842,"d":"-1.0418"},{"v":6.6710630784605e-05,"d":"6.67E-05"}]
[]
["Citric acid cycle (TCA) & related\n(literature search - manually curated)","BDH1","ENSG00000161267",{"v":-1.91029332397026,"d":"-1.9103"},{"v":7.28645347544599e-06,"d":"7.29E-06"}]
[null,"GAD1","ENSG00000128683",{"v":-2.02314997403579,"d":"-2.0231"},{"v":0.000352670150117954,"d":"3.53E-04"}]
[null,"GYS1","ENSG00000104812",{"v":-1.22605539638025,"d":"-1.2261"},{"v":4.00305514853182e-08,"d":"4.00E-08"}]
[null,"SLC16A12","ENSG00000152779",{"v":2.50657928809076,"d":"2.5066"},{"v":1.86724638276832e-21,"d":"1.87E-21"}]
[null,"SLC2A1","ENSG00000117394",{"v":-1.35911556263187,"d":"-1.3591"},{"v":5.20546701099166e-05,"d":"5.21E-05"}]
[null,"SLC2A11","ENSG00000133460",{"v":-1.01691941509904,"d":"-1.0169"},{"v":3.21211927762213e-07,"d":"3.21E-07"}]
[null,"SLC2A5","ENSG00000142583",{"v":-1.5583623459458,"d":"-1.5584"},{"v":0.00375383165755129,"d":"3.75E-03"}]
[]
["Glycolysis and gluconeogenesis \n(Wikipathways WP534)","ENO2","ENSG00000111674",{"v":-1.09828382478236,"d":"-1.0983"},{"v":2.14787543544594e-05,"d":"2.15E-05"}]
[null,"SLC2A1","ENSG00000117394",{"v":-1.35911556263187,"d":"-1.3591"},{"v":5.20546701099166e-05,"d":"5.21E-05"}]
[null,"SLC2A5","ENSG00000142583",{"v":-1.5583623459458,"d":"-1.5584"},{"v":0.00375383165755129,"d":"3.75E-03"}]
[]
["Autophagy of mitochondrion \n(GO:0000422)","ATP13A2","ENSG00000159363",{"v":-1.06965340757884,"d":"-1.0697"},{"v":1.80015067564098e-11,"d":"1.80E-11"}]
[null,"BNIP3","ENSG00000176171",{"v":-1.04177721181842,"d":"-1.0418"},{"v":6.6710630784605e-05,"d":"6.67E-05"}]
[null,"FZD5","ENSG00000163251",{"v":-1.1551123769016,"d":"-1.1551"},{"v":0.0442822133080347,"d":"4.43E-02"}]
[]
["Mitochondria electron transport chain\n(GO:0019646)","MT-CO2","ENSG00000198712",{"v":-1.13833235475097,"d":"-1.1383"},{"v":8.47477319280229e-13,"d":"8.47E-13"}]
[null,"MT-CO3","ENSG00000198938",{"v":-1.0997581505515,"d":"-1.0998"},{"v":8.25075337783818e-09,"d":"8.25E-09"}]
[]
["Oxidative phosphorylation \n(GO:0006119)","MT-ATP6","ENSG00000198899",{"v":-1.1774163484036,"d":"-1.1774"},{"v":2.03610612997466e-10,"d":"2.04E-10"}]
[null,"MT-ATP8","ENSG00000228253",{"v":-1.17333725471335,"d":"-1.1733"},{"v":1.64128676938671e-09,"d":"1.64E-09"}]
[null,"MT-CO2","ENSG00000198712",{"v":-1.13833235475097,"d":"-1.1383"},{"v":8.47477319280229e-13,"d":"8.47E-13"}]
[null,"MT-CO3","ENSG00000198938",{"v":-1.0997581505515,"d":"-1.0998"},{"v":8.25075337783818e-09,"d":"8.25E-09"}]
[null,"MT-CYB","ENSG00000198727",{"v":-1.00531245993239,"d":"-1.0053"},{"v":7.07963245759294e-05,"d":"7.08E-05"}]
[null,"MT-ND1","ENSG00000198888",{"v":-1.51674842047786,"d":"-1.5167"},{"v":2.16924060561665e-12,"d":"2.17E-12"}]
[null,"MT-ND2","ENSG00000198763",{"v":-1.47564884489854,"d":"-1.4756"},{"v":9.10629500355123e-14,"d":"9.11E-14"}]
[null,"MT-ND3","ENSG00000198840",{"v":-1.07593858033502,"d":"-1.0759"},{"v":1.65559725951357e-07,"d":"1.66E-07"}]
[]
["Oxidative stress \n(Wikipathways WP408)","MT1X","ENSG00000187193",{"v":-1.31546884788,"d":"-1.3155"},{"v":0.00946663439316577,"d":"9.47E-03"}]
[null,"SOD3","ENSG00000109610",{"v":1.36253605558056,"d":"1.3625"},{"v":0.0443944538884185,"d":"4.44E-02"}]
[null,"TXNRD2","ENSG00000184470",{"v":-2.05423896801406,"d":"-2.0542"},{"v":1.28653269338966e-05,"d":"1.29E-05"}]
[]
["Oxidative damage \n(Wikipathways WP3941)","C5AR1","ENSG00000197405",{"v":-2.06412458222,"d":"-2.0641"},{"v":2.83529057138497e-06,"d":"2.84E-06"}]
[null,"MAP3K1","ENSG00000095015",{"v":1.3227002362836,"d":"1.3227"},{"v":3.7901943737633e-13,"d":"3.79E-13"}]
[null,"MAP3K9","ENSG00000006432",{"v":-2.21831251275179,"d":"-2.2183"},{"v":7.53278045531047e-22,"d":"7.53E-22"}]
[]
["A1 astrocytes \n(literature search - manually curated)","C3","ENSG00000125730",{"v":-2.27069604130675,"d":"-2.2707"},{"v":0.0107476742523369,"d":"1.07E-02"}]
[null,"FBLN5","ENSG00000140092",{"v":1.03716562669389,"d":"1.0372"},{"v":0.00997949158380657,"d":"9.98E-03"}]
[null,"SERPING1","ENSG00000149131",{"v":1.61407967338711,"d":"1.6141"},{"v":0.031992005852797,"d":"3.20E-02"}]
[]
["A2 astrocytes \n(literature search - manually curated)","EMP1","ENSG00000134531",{"v":1.42786730645092,"d":"1.4279"},{"v":1.28211434200575e-07,"d":"1.28E-07"}]
[null,"PTX3","ENSG00000163661",{"v":1.72687522893453,"d":"1.7269"},{"v":3.1490896109158e-06,"d":"3.15E-06"}]
[]
["Astrocytes reactiveness  \n(literature search - manually curated)","ACKR3","ENSG00000144476",{"v":-2.44290157269833,"d":"-2.4429"},{"v":1.06775180709799e-20,"d":"1.07E-20"}]
[null,"AREG","ENSG00000109321",{"v":-2.70557615050394,"d":"-2.7056"},{"v":0.0180089496639032,"d":"1.80E-02"}]
[null,"CXCL5","ENSG00000163735",{"v":-2.08583136941931,"d":"-2.0858"},{"v":0.000230943668640342,"d":"2.31E-04"}]
[null,"EPHA7","ENSG00000135333",{"v":2.78789447810452,"d":"2.7879"},{"v":0.0422182384346539,"d":"4.22E-02"}]
[null,"HTR2B","ENSG00000135914",{"v":1.673433197735,"d":"1.6734"},{"v":0.00607155856532565,"d":"6.07E-03"}]
[null,"IL6","ENSG00000136244",{"v":-1.24956737590938,"d":"-1.2496"},{"v":0.00662372559324527,"d":"6.62E-03"}]
[null,"MTUS1","ENSG00000129422",{"v":1.3864442286735,"d":"1.3864"},{"v":0.0131108529996504,"d":"1.31E-02"}]
[null,"S1PR3","ENSG00000213694",{"v":-1.60082986783693,"d":"-1.6008"},{"v":1.84067807748559e-05,"d":"1.84E-05"}]
[null,"TMEM178A","ENSG00000152154",{"v":-1.35902830475272,"d":"-1.3590"},{"v":0.0059830133314319,"d":"5.98E-03"}]
[null,"WNT2B","ENSG00000134245",{"v":1.41697909615803,"d":"1.4170"},{"v":0.00108471168549407,"d":"1.08E-03"}]
[]
["Positive regulation of cytokine production involved in inflammatory response (GO:1900017)","IL17D","ENSG00000172458",{"v":1.33840286294958,"d":"1.3384"},{"v":0.000644834367912494,"d":"6.45E-04"}]
[]
["Negative regulation of cytokine production involved in inflammatory response (GO:1900016)","SIRPA","ENSG00000198053",{"v":-1.72799919153268,"d":"-1.7280"},{"v":3.5960453148025e-19,"d":"3.60E-19"}]
[null,"APOD","ENSG00000189058",{"v":1.55327906389751,"d":"1.5533"},{"v":0.0140857039441754,"d":"1.41E-02"}]
[]
["Positive regulation of glial cell apoptotic process\n(GO:0034352)","AKAP12","ENSG00000131016",{"v":1.39605046431183,"d":"1.3961"},{"v":9.00422667988214e-18,"d":"9.00E-18"}]
[]
["Negative regulation of glial cell apoptotic process\n(GO:0034351)","GAS6","ENSG00000183087",{"v":-1.19850966586567,"d":"-1.1985"},{"v":1.42367810923433e-05,"d":"1.42E-05"}]
[]
["NF-kappa B signaling pathway \n(KEGG hsa04064)","CARD11","ENSG00000198286",{"v":-3.559562292,"d":"-3.5596"},{"v":4.9e-12,"d":"4.90E-12"}]
[null,"VCAM1","ENSG00000162692",{"v":1.478328661,"d":"1.4783"},{"v":1.16e-08,"d":"1.16E-08"}]
[null,"CD40","ENSG00000101017",{"v":-1.137723113,"d":"-1.1377"},{"v":0.001944574,"d":"1.94E-03"}]
[null,"BIRC3","ENSG00000023445",{"v":-1.158923929,"d":"-1.1589"},{"v":0.024093527,"d":"2.41E-02"}]
[null,"LY96","ENSG00000154589",{"v":-1.128441192,"d":"-1.1284"},{"v":0.032883283,"d":"3.29E-02"}]
[null,"IL1R1","ENSG00000115594",{"v":1.45137812,"d":"1.4514"},{"v":0.043352179,"d":"4.34E-02"}]
[]
["TNF signaling pathway (KEGG hsa04668)","EDN1","ENSG00000078401",{"v":-2.00823139712672,"d":"-2.0082"},{"v":1.71215190583689e-11,"d":"1.71E-11"}]
[null,"VCAM1","ENSG00000162692",{"v":1.47832866127481,"d":"1.4783"},{"v":1.15584779859866e-08,"d":"1.16E-08"}]
[null,"LIF","ENSG00000128342",{"v":-1.2430805217543,"d":"-1.2431"},{"v":3.47637073285266e-08,"d":"3.48E-08"}]
[null,"JAG1","ENSG00000101384",{"v":1.77221946004009,"d":"1.7722"},{"v":5.58420855709663e-08,"d":"5.58E-08"}]
[null,"PIK3CD","ENSG00000171608",{"v":-1.15249194194017,"d":"-1.1525"},{"v":1.07457275351411e-07,"d":"1.07E-07"}]
[null,"CXCL5","ENSG00000163735",{"v":-2.08583136941931,"d":"-2.0858"},{"v":0.000230943668640342,"d":"2.31E-04"}]
[null,"IL6","ENSG00000136244",{"v":-1.24956737590938,"d":"-1.2496"},{"v":0.00662372559324527,"d":"6.62E-03"}]
[null,"BIRC3","ENSG00000023445",{"v":-1.1589239288497,"d":"-1.1589"},{"v":0.0240935271282212,"d":"2.41E-02"}]

{"sheet":"Apoptosis-associated_DE_gene","index":1,"n_rows":241,"n_cols":9,"rows_kept":241,"hidden":true,"merged":[[0,0,0,8],[1,1,1,4],[1,5,1,8],[3,0,240,0]],"flags":["formulas_cached_only"]}
["Subset of significantly differentially expressed genes detected by comparing CHMP2B mutant cell lines (either patients or heterozygous knockin) with controls (respectively Cas9-corrected and wild type). Genes in this table code for proteins that are localized/associated with mitochondria (COMPARTMENTS score >= 3). For each gene we report its name, Ensembl identifier, log2 fold change and adjusted P-value (as computed by DESeq2) and COMPARTMENTS score.\nNote: only significantly differentially expressed genes are reported in this table (adjusted P-value <= 0.05, absolute log2 fold change >=1 and average of normalized read counts >=10) "]
[null,"CHMP2B mutant patient VS Cas9-corrected isogenic control",{"$nulls":3},"CHMP2B mutant heterozygous knockin VS wild type"]
[null,"GENE NAME","ENSEMBL ID","LOG2 FOLD CHANGE","ADJ. PVAL","GENE NAME","ENSEMBL ID","LOG2 FOLD CHANGE","ADJ. PVAL"]
["Apoptotic process \n(GO:0006915)","ACKR3","ENSG00000144476",{"v":-2.44290157269833,"d":"-2.4429"},{"v":1.06775180709799e-20,"d":"1.07E-20"},"ACTN2","ENSG00000077522",{"v":-3.12086147415347,"d":"-3.1209"},{"v":0.0346048102407949,"d":"3.46E-02"}]
[null,"ADM","ENSG00000148926",{"v":-1.06289178177365,"d":"-1.0629"},{"v":7.50433295035164e-06,"d":"7.50E-06"},"ADCYAP1","ENSG00000141433",{"v":-7.69999178603531,"d":"-7.7000"},{"v":3.14398926436819e-09,"d":"3.14E-09"}]
[null,"AHR","ENSG00000106546",{"v":1.211726351589,"d":"1.2117"},{"v":2.2757943136845e-07,"d":"2.28E-07"},"ADORA1","ENSG00000163485",{"v":-2.85487075262907,"d":"-2.8549"},{"v":0.011044680944394,"d":"1.10E-02"}]
[null,"AKAP12","ENSG00000131016",{"v":1.39605046431183,"d":"1.3961"},{"v":9.00422667988214e-18,"d":"9.00E-18"},"ADRA1A","ENSG00000120907",{"v":-7.21146578570383,"d":"-7.2115"},{"v":0.00096539350560592,"d":"9.65E-04"}]
[null,"ALDH1A2","ENSG00000128918",{"v":3.11729339690702,"d":"3.1173"},{"v":0.00488731672431789,"d":"4.89E-03"},"AGAP2","ENSG00000135439",{"v":-3.23416068616926,"d":"-3.2342"},{"v":0.0106928670512473,"d":"1.07E-02"}]
[null,"ANGPTL4","ENSG00000167772",{"v":-4.1916397537198,"d":"-4.1916"},{"v":3.51643404369166e-35,"d":"3.52E-35"},"ALK","ENSG00000171094",{"v":-3.77859927017811,"d":"-3.7786"},{"v":0.0155312712334903,"d":"1.55E-02"}]
[null,"ANKRD1","ENSG00000148677",{"v":-2.3964257497278,"d":"-2.3964"},{"v":0.000202438386896825,"d":"2.02E-04"},"AMIGO2","ENSG00000139211",{"v":3.16263378417022,"d":"3.1626"},{"v":0.00604115998379588,"d":"6.04E-03"}]
[null,"BIRC3","ENSG00000023445",{"v":-1.1589239288497,"d":"-1.1589"},{"v":0.0240935271282212,"d":"2.41E-02"},"ANGPT1","ENSG00000154188",{"v":-3.94237341782663,"d":"-3.9424"},{"v":8.16370660873019e-05,"d":"8.16E-05"}]
[null,"BIRC7","ENSG00000101197",{"v":-2.26749265813532,"d":"-2.2675"},{"v":0.0040381900563231,"d":"4.04E-03"},"ANXA1","ENSG00000135046",{"v":2.25295546639405,"d":"2.2530"},{"v":0.0357062973377259,"d":"3.57E-02"}]
[null,"BNIP3","ENSG00000176171",{"v":-1.04177721181842,"d":"-1.0418"},{"v":6.6710630784605e-05,"d":"6.67E-05"},"AQP1","ENSG00000240583",{"v":2.71438874897872,"d":"2.7144"},{"v":2.90374424847041e-07,"d":"2.90E-07"}]
[null,"C5AR1","ENSG00000197405",{"v":-2.06412458222,"d":"-2.0641"},{"v":2.83529057138497e-06,"d":"2.84E-06"},"ARHGAP10","ENSG00000071205",{"v":2.27721052711558,"d":"2.2772"},{"v":0.0484840215403115,"d":"4.85E-02"}]
[null,"CADM1","ENSG00000182985",{"v":-1.81879254114252,"d":"-1.8188"},{"v":1.59519511068093e-18,"d":"1.60E-18"},"ARHGEF26","ENSG00000114790",{"v":-3.00634927475037,"d":"-3.0063"},{"v":0.037970842186658,"d":"3.80E-02"}]
[null,"CALHM2","ENSG00000138172",{"v":1.72292533758907,"d":"1.7229"},{"v":0.00324144202644902,"d":"3.24E-03"},"ARHGEF5","ENSG00000050327",{"v":7.44254744397991,"d":"7.4425"},{"v":0.00503193320770004,"d":"5.03E-03"}]
[null,"CAMK2D","ENSG00000145349",{"v":1.26811064627582,"d":"1.2681"},{"v":2.71479845434259e-06,"d":"2.71E-06"},"ASCL1","ENSG00000139352",{"v":-8.97957119084324,"d":"-8.9796"},{"v":5.58138435895099e-08,"d":"5.58E-08"}]
[null,"CARD11","ENSG00000198286",{"v":-3.55956229181349,"d":"-3.5596"},{"v":4.89866313361309e-12,"d":"4.90E-12"},"ATCAY","ENSG00000167654",{"v":-9.15876881707825,"d":"-9.1588"},{"v":5.06792292481982e-06,"d":"5.07E-06"}]
[null,"CD24","ENSG00000272398",{"v":-1.24707404832435,"d":"-1.2471"},{"v":3.33847609264707e-05,"d":"3.34E-05"},"AURKB","ENSG00000178999",{"v":-4.33179509878182,"d":"-4.3318"},{"v":0.00960451460963369,"d":"9.60E-03"}]
[null,"CD248","ENSG00000174807",{"v":2.21046146054405,"d":"2.2105"},{"v":0.00211051648726483,"d":"2.11E-03"},"AVEN","ENSG00000169857",{"v":2.99930317403019,"d":"2.9993"},{"v":0.0216123676419549,"d":"2.16E-02"}]
[null,"CD274","ENSG00000120217",{"v":-1.74275352107415,"d":"-1.7428"},{"v":8.76737873631135e-07,"d":"8.77E-07"},"AXL","ENSG00000167601",{"v":2.40417072791666,"d":"2.4042"},{"v":0.0202181628737634,"d":"2.02E-02"}]
[null,"CD40","ENSG00000101017",{"v":-1.13772311343608,"d":"-1.1377"},{"v":0.00194457408620512,"d":"1.94E-03"},"B4GALT1","ENSG00000086062",{"v":3.68997924073073,"d":"3.6900"},{"v":0.00541510001145231,"d":"5.42E-03"}]
[null,"CD70","ENSG00000125726",{"v":3.60222957355586,"d":"3.6022"},{"v":0.00592226708942109,"d":"5.92E-03"},"BCL11B","ENSG00000127152",{"v":-3.38716159074537,"d":"-3.3872"},{"v":0.0218673436702104,"d":"2.19E-02"}]
[null,"CORO1A","ENSG00000102879",{"v":-1.62012310864157,"d":"-1.6201"},{"v":0.0312871503276514,"d":"3.13E-02"},"BCL2","ENSG00000171791",{"v":-3.54703914193337,"d":"-3.5470"},{"v":0.0115623491572518,"d":"1.16E-02"}]
[null,"CRLF1","ENSG00000006016",{"v":2.38387826796454,"d":"2.3839"},{"v":1.49061020721817e-11,"d":"1.49E-11"},"BIRC5","ENSG00000089685",{"v":-3.90232437125519,"d":"-3.9023"},{"v":0.010997590258937,"d":"1.10E-02"}]
[null,"CRYAB","ENSG00000109846",{"v":2.52684958538783,"d":"2.5268"},{"v":0.00495860578286552,"d":"4.96E-03"},"BMP7","ENSG00000101144",{"v":-9.70001083543594,"d":"-9.7000"},{"v":3.51365267906307e-06,"d":"3.51E-06"}]
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[{"$nulls":5},"SLIT2","ENSG00000145147",{"v":-2.88778406423609,"d":"-2.8878"},{"v":0.0101400803288217,"d":"1.01E-02"}]
[{"$nulls":5},"SNAI2","ENSG00000019549",{"v":2.90887448522069,"d":"2.9089"},{"v":0.0196247780913863,"d":"1.96E-02"}]
[{"$nulls":5},"SOCS2","ENSG00000120833",{"v":-2.74159528242105,"d":"-2.7416"},{"v":0.0391260144664543,"d":"3.91E-02"}]
[{"$nulls":5},"SOX2","ENSG00000181449",{"v":-9.31364260324373,"d":"-9.3136"},{"v":1.81619598870293e-08,"d":"1.82E-08"}]
[{"$nulls":5},"SOX8","ENSG00000005513",{"v":-3.27652933293579,"d":"-3.2765"},{"v":0.0341104089523864,"d":"3.41E-02"}]
[{"$nulls":5},"SP100","ENSG00000067066",{"v":4.61434991368591,"d":"4.6143"},{"v":0.00126674815522923,"d":"1.27E-03"}]
[{"$nulls":5},"SRGN","ENSG00000122862",{"v":8.66006574499831,"d":"8.6601"},{"v":1.02163038523315e-06,"d":"1.02E-06"}]
[{"$nulls":5},"ST18","ENSG00000147488",{"v":-7.98075611111306,"d":"-7.9808"},{"v":0.000996615225748173,"d":"9.97E-04"}]
[{"$nulls":5},"STK17B","ENSG00000081320",{"v":2.52299985164803,"d":"2.5230"},{"v":0.0301606802474919,"d":"3.02E-02"}]
[{"$nulls":5},"SULF1","ENSG00000137573",{"v":3.27817874935228,"d":"3.2782"},{"v":0.0030533014602431,"d":"3.05E-03"}]
[{"$nulls":5},"TBX1","ENSG00000184058",{"v":4.11677146073642,"d":"4.1168"},{"v":0.0237867599505812,"d":"2.38E-02"}]
[{"$nulls":5},"TBX3","ENSG00000135111",{"v":3.05465009403627,"d":"3.0547"},{"v":0.0312260897327499,"d":"3.12E-02"}]
[{"$nulls":5},"TCIRG1","ENSG00000110719",{"v":2.86694005854982,"d":"2.8669"},{"v":0.0392168763514008,"d":"3.92E-02"}]
[{"$nulls":5},"TEK","ENSG00000120156",{"v":4.78645984837913,"d":"4.7865"},{"v":0.000333395198622385,"d":"3.33E-04"}]
[{"$nulls":5},"TGFB1","ENSG00000105329",{"v":2.78786994850674,"d":"2.7879"},{"v":0.0102768691506846,"d":"1.03E-02"}]
[{"$nulls":5},"TGFBR2","ENSG00000163513",{"v":4.67861707394281,"d":"4.6786"},{"v":0.000918317853471857,"d":"9.18E-04"}]
[{"$nulls":5},"TGM2","ENSG00000198959",{"v":2.94051935409078,"d":"2.9405"},{"v":0.0467213795741106,"d":"4.67E-02"}]
[{"$nulls":5},"THBS1","ENSG00000137801",{"v":5.7655119175065,"d":"5.7655"},{"v":0.000128405139068755,"d":"1.28E-04"}]
[{"$nulls":5},"TIMP1","ENSG00000102265",{"v":3.51753044095237,"d":"3.5175"},{"v":0.00684507450270388,"d":"6.85E-03"}]
[{"$nulls":5},"TLR4","ENSG00000136869",{"v":2.49390352225355,"d":"2.4939"},{"v":0.0312260897327499,"d":"3.12E-02"}]
[{"$nulls":5},"TNFAIP8","ENSG00000145779",{"v":2.95320889194083,"d":"2.9532"},{"v":0.00484291289256922,"d":"4.84E-03"}]
[{"$nulls":5},"TNFRSF10D","ENSG00000173530",{"v":4.53069002810998,"d":"4.5307"},{"v":0.00285019354762622,"d":"2.85E-03"}]
[{"$nulls":5},"TOP2A","ENSG00000131747",{"v":-4.47799980900806,"d":"-4.4780"},{"v":0.00250167416205945,"d":"2.50E-03"}]
[{"$nulls":5},"TOX3","ENSG00000103460",{"v":-10.8093190402476,"d":"-10.8093"},{"v":0.00551916038625,"d":"5.52E-03"}]
[{"$nulls":5},"TPD52L1","ENSG00000111907",{"v":2.980734524162,"d":"2.9807"},{"v":0.0198234846695586,"d":"1.98E-02"}]
[{"$nulls":5},"TRADD","ENSG00000102871",{"v":2.2896388135013,"d":"2.2896"},{"v":0.0407455100690605,"d":"4.07E-02"}]
[{"$nulls":5},"TSLP","ENSG00000145777",{"v":4.32411245677961,"d":"4.3241"},{"v":0.00400482789527356,"d":"4.00E-03"}]
[{"$nulls":5},"UACA","ENSG00000137831",{"v":2.54011807033713,"d":"2.5401"},{"v":0.0111994353113584,"d":"1.12E-02"}]
[{"$nulls":5},"UNC5A","ENSG00000113763",{"v":-7.01079437860766,"d":"-7.0108"},{"v":0.00216300418648194,"d":"2.16E-03"}]
[{"$nulls":5},"UNC5B","ENSG00000107731",{"v":2.069740912232,"d":"2.0697"},{"v":0.0491098009843318,"d":"4.91E-02"}]
[{"$nulls":5},"UNC5C","ENSG00000182168",{"v":-3.20177139812391,"d":"-3.2018"},{"v":0.0160041898692226,"d":"1.60E-02"}]
[{"$nulls":5},"UNC5D","ENSG00000156687",{"v":-4.35202933152813,"d":"-4.3520"},{"v":0.00706097889832717,"d":"7.06E-03"}]
[{"$nulls":5},"VAV3","ENSG00000134215",{"v":-3.89506056697079,"d":"-3.8951"},{"v":0.0184032773177277,"d":"1.84E-02"}]
[{"$nulls":5},"VDR","ENSG00000111424",{"v":2.94974071902267,"d":"2.9497"},{"v":0.0383253067333824,"d":"3.83E-02"}]
[{"$nulls":5},"VSTM2L","ENSG00000132821",{"v":-3.93046813751346,"d":"-3.9305"},{"v":0.00780918385816348,"d":"7.81E-03"}]
[{"$nulls":5},"WNT4","ENSG00000162552",{"v":-3.79998165973904,"d":"-3.8000"},{"v":0.00424435438759046,"d":"4.24E-03"}]
[{"$nulls":5},"WNT7A","ENSG00000154764",{"v":-8.83856577065812,"d":"-8.8386"},{"v":5.07189576929541e-06,"d":"5.07E-06"}]
[{"$nulls":5},"XDH","ENSG00000158125",{"v":2.83497839036163,"d":"2.8350"},{"v":0.0397596072499941,"d":"3.98E-02"}]
[{"$nulls":5},"XKR4","ENSG00000206579",{"v":-7.29261652425455,"d":"-7.2926"},{"v":0.000325736726555622,"d":"3.26E-04"}]
[{"$nulls":5},"XKR7","ENSG00000260903",{"v":-7.30235637302701,"d":"-7.3024"},{"v":9.1898324419851e-05,"d":"9.19E-05"}]
[{"$nulls":5},"ZBTB16","ENSG00000109906",{"v":-6.63854331627863,"d":"-6.6385"},{"v":0.0303912068090864,"d":"3.04E-02"}]

{"sheet":"Mitochondria-associated_DE_gene","index":2,"n_rows":42,"n_cols":6,"rows_kept":42,"merged":[[0,0,0,10],[1,1,1,5],[1,6,1,10],[3,0,41,0]],"flags":["formulas_cached_only"]}
["Subset of significantly differentially expressed genes detected by comparing CHMP2B patient cell lines with Cas9-corrected controls. Genes in this table code for proteins that are localized in/associated with mitochondria (COMPARTMENTS score >= 3). For each gene we report its name, Ensembl identifier, log2 fold change and adjusted P-value (as computed by DESeq2) and COMPARTMENTS score.\nNote: only significantly differentially expressed genes are reported in this table (adjusted P-value <= 0.05, absolute log2 fold change >=1 and average of normalized read counts >=10) "]
[null,"CHMP2B mutant patient VS Cas9-corrected isogenic control"]
[null,"GENE NAME","ENSEMBL ID","LOG2 FOLD CHANGE","ADJ. PVAL","COMPARTMENTS SCORE"]
["Mitochondrion compartment \n(scores from COMPARTMENTS database)","ECHDC2","ENSG00000121310",{"v":-1.4429073018331,"d":"-1.4429"},{"v":3.33387331947097e-16,"d":"3.33E-16"},4.271]
[null,"HKDC1","ENSG00000156510",{"v":-1.49176059793426,"d":"-1.4918"},{"v":3.33387331947097e-16,"d":"3.33E-16"},4.386]
[null,"MT-ND2","ENSG00000198763",{"v":-1.47564884489854,"d":"-1.4756"},{"v":9.10629500355123e-14,"d":"9.11E-14"},5]
[null,"MT-CO2","ENSG00000198712",{"v":-1.13833235475097,"d":"-1.1383"},{"v":8.47477319280229e-13,"d":"8.47E-13"},5]
[null,"MT-ND1","ENSG00000198888",{"v":-1.51674842047786,"d":"-1.5167"},{"v":2.16924060561665e-12,"d":"2.17E-12"},5]
[null,"SGK1","ENSG00000118515",{"v":-2.12043708072163,"d":"-2.1204"},{"v":1.33117885779405e-11,"d":"1.33E-11"},5]
[null,"POU5F1","ENSG00000204531",{"v":-3.36290026864641,"d":"-3.3629"},{"v":3.85591606694696e-11,"d":"3.86E-11"},4.282]
[null,"MT-ATP6","ENSG00000198899",{"v":-1.1774163484036,"d":"-1.1774"},{"v":2.03610612997466e-10,"d":"2.04E-10"},5]
[null,"C15orf48","ENSG00000166920",{"v":-4.15927823848607,"d":"-4.1593"},{"v":2.31742931653427e-10,"d":"2.32E-10"},3.075]
[null,"TXNIP","ENSG00000265972",{"v":1.02904879574715,"d":"1.0290"},{"v":5.256752675373e-10,"d":"5.26E-10"},3.161]
[null,"MT-ATP8","ENSG00000228253",{"v":-1.17333725471335,"d":"-1.1733"},{"v":1.64128676938671e-09,"d":"1.64E-09"},5]
[null,"MT-CO3","ENSG00000198938",{"v":-1.0997581505515,"d":"-1.0998"},{"v":8.25075337783818e-09,"d":"8.25E-09"},4.556]
[null,"MT-ND3","ENSG00000198840",{"v":-1.07593858033502,"d":"-1.0759"},{"v":1.65559725951357e-07,"d":"1.66E-07"},5]
[null,"ACSM3","ENSG00000005187",{"v":-1.74229295622255,"d":"-1.7423"},{"v":2.07963865482693e-06,"d":"2.08E-06"},3.501]
[null,"BDH1","ENSG00000161267",{"v":-1.91029332397026,"d":"-1.9103"},{"v":7.28645347544599e-06,"d":"7.29E-06"},4.837]
[null,"TXNRD2","ENSG00000184470",{"v":-2.05423896801406,"d":"-2.0542"},{"v":1.28653269338966e-05,"d":"1.29E-05"},5]
[null,"SLC22A4","ENSG00000197208",{"v":-1.04703055060246,"d":"-1.0470"},{"v":3.04713969427855e-05,"d":"3.05E-05"},5]
[null,"BNIP3","ENSG00000176171",{"v":-1.04177721181842,"d":"-1.0418"},{"v":6.6710630784605e-05,"d":"6.67E-05"},5]
[null,"MT-CYB","ENSG00000198727",{"v":-1.00531245993239,"d":"-1.0053"},{"v":7.07963245759294e-05,"d":"7.08E-05"},4.757]
[null,"PPL","ENSG00000118898",{"v":-1.47088172272505,"d":"-1.4709"},{"v":9.07032677946668e-05,"d":"9.07E-05"},3.15]
[null,"TGM2","ENSG00000198959",{"v":2.76794054530329,"d":"2.7679"},{"v":0.000128578883980239,"d":"1.29E-04"},5]
[null,"CPS1","ENSG00000021826",{"v":1.102853984038,"d":"1.1029"},{"v":0.000196960624780699,"d":"1.97E-04"},4.626]
[null,"DHRS2","ENSG00000100867",{"v":-1.98869305445543,"d":"-1.9887"},{"v":0.000203041420206521,"d":"2.03E-04"},5]
[null,"CYP27B1","ENSG00000111012",{"v":-1.26588948380499,"d":"-1.2659"},{"v":0.000248712930229935,"d":"2.49E-04"},5]
[null,"G0S2","ENSG00000123689",{"v":1.77390000484002,"d":"1.7739"},{"v":0.000358297986050255,"d":"3.58E-04"},5]
[null,"UCP3","ENSG00000175564",{"v":-1.48621797320595,"d":"-1.4862"},{"v":0.000976559086409287,"d":"9.77E-04"},4.695]
[null,"PLA2G4A","ENSG00000116711",{"v":1.22642141750134,"d":"1.2264"},{"v":0.0024035844266271,"d":"2.40E-03"},4.166]
[null,"NDUFA4L2","ENSG00000185633",{"v":1.85339620267902,"d":"1.8534"},{"v":0.0034975663443302,"d":"3.50E-03"},4.333]
[null,"CRYAB","ENSG00000109846",{"v":2.52684958538783,"d":"2.5268"},{"v":0.00495860578286552,"d":"4.96E-03"},3.51]
[null,"PLEKHN1","ENSG00000187583",{"v":-1.89136661112701,"d":"-1.8914"},{"v":0.00664974689323996,"d":"6.65E-03"},5]
[null,"NT5M","ENSG00000205309",{"v":1.14141610735344,"d":"1.1414"},{"v":0.00862662675137019,"d":"8.63E-03"},4.616]
[null,"TRIM14","ENSG00000106785",{"v":-1.12009234116993,"d":"-1.1201"},{"v":0.00874249510811795,"d":"8.74E-03"},3.285]
[null,"MAOB","ENSG00000069535",{"v":-1.4493568904396,"d":"-1.4494"},{"v":0.0125326122288172,"d":"1.25E-02"},5]
[null,"MTUS1","ENSG00000129422",{"v":1.3864442286735,"d":"1.3864"},{"v":0.0131108529996504,"d":"1.31E-02"},3.341]
[null,"UCP2","ENSG00000175567",{"v":-1.12805910194881,"d":"-1.1281"},{"v":0.0159425850364851,"d":"1.59E-02"},5]
[null,"GAP43","ENSG00000172020",{"v":2.23435288109525,"d":"2.2344"},{"v":0.0195380188466542,"d":"1.95E-02"},3.337]
[null,"KMO","ENSG00000117009",{"v":-1.84003115141685,"d":"-1.8400"},{"v":0.0196964275494684,"d":"1.97E-02"},4.283]
[null,"SLC8A3","ENSG00000100678",{"v":-1.57427846796875,"d":"-1.5743"},{"v":0.0410668283085675,"d":"4.11E-02"},4.211]
[null,"LDHD","ENSG00000166816",{"v":1.50600205903958,"d":"1.5060"},{"v":0.042877606993062,"d":"4.29E-02"},4.501]

{"sheet":"Lysosome-associated_DE_genes","index":3,"n_rows":33,"n_cols":6,"rows_kept":33,"merged":[[0,0,0,10],[1,1,1,5],[1,6,1,10],[3,0,32,0]],"flags":["formulas_cached_only"]}
["Subset of significantly differentially expressed genes detected by comparing CHMP2B patient cell lines with Cas9-corrected controls. Genes in this table code for proteins that are localized in/associated with lysosomes (COMPARTMENTS score >= 3). For each gene we report its name, Ensembl identifier, log2 fold change and adjusted P-value (as computed by DESeq2) and COMPARTMENTS score.\nNote: only significantly differentially expressed genes are reported in this table (adjusted P-value <= 0.05, absolute log2 fold change >=1 and average of normalized read counts >=10) "]
[null,"CHMP2B mutant patient VS Cas9-corrected isogenic control"]
[null,"GENE NAME","ENSEMBL ID","LOG2 FOLD CHANGE","ADJ. PVAL","COMPARTMENTS SCORE"]
["Lysosome compartment \n(scores from COMPARTMENTS database)","EEF1A2","ENSG00000101210",-2.61012767140541,3.86144992095432e-18,4]
[null,"ATP13A2","ENSG00000159363",-1.06965340757884,1.80015067564098e-11,5]
[null,"BGN","ENSG00000182492",1.149493473135,3.83763838474125e-10,4]
[null,"PDGFRB","ENSG00000113721",1.57317756947641,1.04528692612669e-08,5]
[null,"CUBN","ENSG00000107611",-1.33794822448092,1.194840605657e-08,4.405]
[null,"ABCA5","ENSG00000154265",-1.21705171456714,4.17993415218289e-08,4]
[null,"LDLR","ENSG00000130164",1.03785282939667,7.46275769279684e-08,5]
[null,"SDC2","ENSG00000169439",1.36474240166946,8.87069816968152e-07,4]
[null,"IFITM3","ENSG00000142089",1.58419827111162,2.16351178054513e-06,5]
[null,"CFTR","ENSG00000001626",-6.19958931561391,2.53120572339445e-06,4.34]
[null,"RNF152","ENSG00000176641",1.10195777358479,2.81633345861844e-05,5]
[null,"ACAN","ENSG00000157766",7.33528794557655,0.000148141863919386,4.107]
[null,"CSPG5","ENSG00000114646",-1.38029832299935,0.000214557913680196,4]
[null,"SLC7A14","ENSG00000013293",-2.13552057791597,0.000324878488270683,3]
[null,"MCOLN2","ENSG00000153898",-2.31819876104868,0.000550190631641769,3.69]
[null,"LUM","ENSG00000139329",2.2150094392647,0.000842803765131124,4.056]
[null,"SYT7","ENSG00000011347",1.00013460949972,0.000942550869490266,4.361]
[null,"STXBP2","ENSG00000076944",-1.26308062711024,0.00108677429600156,5]
[null,"VNN1","ENSG00000112299",-3.5785291174056,0.00132031854747252,4.112]
[null,"NCF2","ENSG00000116701",-1.46118169239277,0.00574702580584791,4]
[null,"RAB3D","ENSG00000105514",1.21382814392487,0.00667577221496417,4.123]
[null,"NSG1","ENSG00000168824",-2.1110642052037,0.00815535172738992,3.305]
[null,"DCN","ENSG00000011465",2.53219228398069,0.00820587782636453,4.199]
[null,"C3","ENSG00000125730",-2.27069604130675,0.0107476742523369,4.335]
[null,"OMD","ENSG00000127083",4.44743451815448,0.0120066245802895,4]
[null,"FRK","ENSG00000111816",-1.1195682108896,0.0154925855353506,4]
[null,"MCOLN3","ENSG00000055732",-1.20921640034097,0.0164584143917934,3.717]
[null,"GPC6","ENSG00000183098",1.61321019302682,0.0240972850680361,4.056]
[null,"MARCH3","ENSG00000173926",-1.57011208973852,0.0240979900766999,5]
[null,"PCSK9","ENSG00000169174",1.33193843569197,0.0471736562402869,5]

{"sheet":"Endosome-associated_DE_genes","index":4,"n_rows":54,"n_cols":6,"rows_kept":54,"merged":[[0,0,0,10],[1,1,1,5],[1,6,1,10],[3,0,53,0]],"flags":["formulas_cached_only"]}
["Subset of significantly differentially expressed genes detected by comparing CHMP2B patient cell lines with Cas9-corrected controls. Genes in this table code for proteins that are localized in/associated with endosomes (COMPARTMENTS score >= 3). For each gene we report its name, Ensembl identifier, log2 fold change and adjusted P-value (as computed by DESeq2) and COMPARTMENTS score.\nNote: only significantly differentially expressed genes are reported in this table (adjusted P-value <= 0.05, absolute log2 fold change >=1 and average of normalized read counts >=10) "]
[null,"CHMP2B mutant patient VS Cas9-corrected isogenic control"]
[null,"GENE NAME","ENSEMBL ID","LOG2 FOLD CHANGE","ADJ. PVAL","COMPARTMENTS SCORE"]
["Endosome compartment \n(scores from COMPARTMENTS database)","ACKR3","ENSG00000144476",-2.44290157269833,1.06775180709799e-20,5]
[null,"DYSF","ENSG00000135636",-1.49155728491939,1.69364524767508e-15,5]
[null,"DNER","ENSG00000187957",-3.54018156126678,1.13804377905282e-13,5]
[null,"FLT1","ENSG00000102755",2.13874935846827,1.20386351477054e-12,5]
[null,"ANXA8","ENSG00000265190",-4.15170571019451,2.52177024910528e-12,5]
[null,"ATP13A2","ENSG00000159363",-1.06965340757884,1.80015067564098e-11,4.306]
[null,"FGD5","ENSG00000154783",2.92071746911814,1.38661363495734e-10,3.254]
[null,"VCAM1","ENSG00000162692",1.47832866127482,1.15584779859866e-08,5]
[null,"CUBN","ENSG00000107611",-1.33794822448092,1.194840605657e-08,4.362]
[null,"RAB23","ENSG00000112210",1.26218371425246,2.90523606405583e-08,3]
[null,"ABCA5","ENSG00000154265",-1.21705171456714,4.17993415218289e-08,3]
[null,"LDLR","ENSG00000130164",1.03785282939667,7.46275769279684e-08,5]
[null,"OCIAD2","ENSG00000145247",-1.99684941794729,6.09200751362634e-07,3]
[null,"RNF128","ENSG00000133135",-2.72142995161388,6.5203445132758e-07,3]
[null,"CD274","ENSG00000120217",-1.74275352107415,8.76737873631135e-07,5]
[null,"IFITM3","ENSG00000142089",1.58419827111162,2.16351178054513e-06,5]
[null,"CFTR","ENSG00000001626",-6.19958931561391,2.53120572339445e-06,5]
[null,"DYNC1I1","ENSG00000158560",1.38022122088327,6.46064986928725e-06,5]
[null,"STEAP3","ENSG00000115107",-1.17637170253393,1.29262375257104e-05,5]
[null,"NDRG1","ENSG00000104419",-1.38519231940413,0.000141067550298692,5]
[null,"LPAR1","ENSG00000198121",1.4563804761342,0.000362349992808879,5]
[null,"ATP8A2","ENSG00000132932",-1.73170315784589,0.000381747301268797,3]
[null,"PRKCZ","ENSG00000067606",-1.19605985874428,0.000465943938792867,3.261]
[null,"MCOLN2","ENSG00000153898",-2.31819876104868,0.000550190631641769,3.683]
[null,"NEURL1B","ENSG00000214357",2.16534633675394,0.00055854122383158,4]
[null,"EZR","ENSG00000092820",-1.0143463825534,0.000702100907229928,5]
[null,"TMEM184A","ENSG00000164855",-2.07355447460667,0.00150854058499168,4]
[null,"CYTIP","ENSG00000115165",-2.24891650344791,0.00234921173612813,5]
[null,"STEAP2","ENSG00000157214",-1.10933124887826,0.00383735447764257,5]
[null,"CD4","ENSG00000010610",1.29643544588394,0.00438756061179689,4.146]
[null,"SNX10","ENSG00000086300",-1.68094359064448,0.00519434235316099,5]
[null,"PTPRN","ENSG00000054356",-1.50725906046452,0.0053374478231135,3]
[null,"RAB3D","ENSG00000105514",1.21382814392487,0.00667577221496417,3]
[null,"KCNH1","ENSG00000143473",-1.05494359311503,0.00720048840339971,5]
[null,"RNF144A","ENSG00000151692",1.31539045835013,0.00736086817593472,4]
[null,"RHOV","ENSG00000104140",-1.88271309037521,0.00790279998931783,3.37]
[null,"NSG1","ENSG00000168824",-2.1110642052037,0.00815535172738992,4.367]
[null,"S1PR1","ENSG00000170989",-1.15915541029041,0.0120424180771854,5]
[null,"IL12A","ENSG00000168811",-1.17564840830424,0.0133095520550536,4]
[null,"ATP6V0A4","ENSG00000105929",-2.03534323550587,0.0149427805706343,4.335]
[null,"MCOLN3","ENSG00000055732",-1.20921640034097,0.0164584143917934,3.69]
[null,"MARCH3","ENSG00000173926",-1.57011208973852,0.0240979900766999,5]
[null,"KDR","ENSG00000128052",-1.0899511661405,0.0259198528214096,5]
[null,"MCTP1","ENSG00000175471",-1.40026432809474,0.0277553859658668,4]
[null,"IL2RB","ENSG00000100385",-1.15567977080637,0.029696532287142,4]
[null,"SYNDIG1","ENSG00000101463",-1.36951306520468,0.0306980939726937,4]
[null,"LY96","ENSG00000154589",-1.12844119242698,0.0328832826922934,4.253]
[null,"HSD17B6","ENSG00000025423",-1.3535888701503,0.0365797568833465,3]
[null,"FZD5","ENSG00000163251",-1.1551123769016,0.0442822133080347,4]
[null,"PCSK9","ENSG00000169174",1.33193843569197,0.0471736562402869,5]
[null,"CHMP4C","ENSG00000164695",-2.26829570080473,0.0495458833236466,4.371]