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Center for Computational Systems Medicine
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Gene summary

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Gene structure and Gene expression level

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Sex-biased somatic mutation

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DNA methylation with beta values in gene

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Exon skipping events with PSI in TCGA

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RNA A-to-I editing events in TCGA

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Sex-biased TF-Gene network of gene

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Sex-biased RBP-ES network of gene

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Sex-biased CeRNA regulation of gene

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Sex-biased eQTL regulation of gene

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Sex-biased eQTM regulation of gene

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Sex-biased sQTL regulation of gene

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Sex-biased sQTM regulation of gene

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Related disease information of gene

Gene: ENSG00000083093

Summary for PALB2

check button Gene summary

Gene informationEnsembl ID

ENSG00000083093

Gene symbol

PALB2

Gene namepartner and localizer of BRCA2
HGNC

26144

Entrez ID

79728

Gene typeprotein_coding
SynonymsPALB2|FLJ21816|FANCN
UniProtAcc

Q86YC2


check buttonDrugs associated with this gene(DrugBank).
Gene IDGene SymbolDrug IDDrug NameDrug Type

check buttonCancer therapeutic drugs associated with this gene(NCI).
Gene IDGene NameDrug IDDrug NameDrug TypeCancer

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Structure and expression level for PALB2

check buttonAS events and RNA A-to-I editing events of the gene in TCGA based on Genvode V22 structure.
∗For more information on exon skipping events please check the ExonskipDB database.
∗For more information on exon skipping events please check the CAeditome database.
UCSC result

check buttonLandscape of gene expressions across multiple cancer types.
gene expression analysis

check buttonDifferentially expressed gene analysis between tumor male and tumor female samples.
Coding NameBase Meanlog2FoldChangelfcSEStatP valueP.adjust ValueCancer Type

check buttonDifferentially expressed gene analysis between tumor male and normal male samples.
DEG result
Coding NameBase Meanlog2FoldChangelfcSEStatP valueP.adjust ValueCancer Type
PALB29.88e+021.10e+002.17e-015.05e+004.43e-073.77e-06BLCA

check buttonDifferentially expressed gene analysis between tumor female and normal female samples.
Coding NameBase Meanlog2FoldChangelfcSEStatP valueP.adjust ValueCancer Type

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Sex-biased somatic mutation for PALB2

∗For more information on exon skipping events please check the ExonskipDB database.
Gene IDCancer TypeHugo SymbolMaleFemalepvalorci.upci.lowadjPval

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DNA methylation with beta values for PALB2

check buttonLandscape of DNA methylation across multiple cancer types.
methylation heatmap

check buttonDifferentially expressed CpG sites between male tumor and female tumor patients.
Cancer TypeCpG SitePositionCpG IslandPosition to Geneave1ave2wilcoxon.wwilcoxon.ppadjdBeta

check buttonDifferentially expressed CpG sites between male tumor and male normal patients.
Cancer TypeCpG SitePositionCpG IslandPosition to Geneave1ave2wilcoxon.wwilcoxon.ppadjdBeta

check buttonDifferentially expressed CpG sites between female tumor and female normal patients.
Cancer TypeCpG SitePositionCpG IslandPosition to Geneave1ave2wilcoxon.wwilcoxon.ppadjdBeta

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Exon skipping events with PSI in TCGA for PALB2

∗Please access ExonSkipDB for exon skipping annotation.
check buttonLandscape of exon skipping events across multiple cancer types.
AS event heatmap

check buttonDifferentially expressed exon skipping events between male tumor and female tumor patients.
Cancer TypeExon Skippingave.female_Tave.female_Nwilcoxon.wwilcoxon.ppadjdPSI

check buttonDifferentially expressed exon skipping events between male tumor and male normal patients.
Cancer TypeExon Skippingave.female_Tave.female_Nwilcoxon.wwilcoxon.ppadjdPSI

check buttonDifferentially expressed exon skipping events between female tumor and female normal patients.
Cancer TypeExon Skippingave.female_Tave.female_Nwilcoxon.wwilcoxon.ppadjdPSI

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RNA A-to-I editing events in TCGA for PALB2

∗Please access CAeditome for RNA editing annotation.
check buttonDifferentially expressed RNA editing events between male tumor and female tumor patients.
Cancer TypeTranscriptEditingave.male_Tave.female_Twilcoxon.wwilcoxon.pp_adjdFre

check buttonDifferentially expressed RNA editing events between male tumor and male normal patients.
Cancer TypeTranscriptEditingave.male_Tave.female_Twilcoxon.wwilcoxon.pp_adjdFre

check buttonDifferentially expressed RNA editing events between female tumor and female normal patients.
Cancer TypeTranscriptEditingave.male_Tave.female_Twilcoxon.wwilcoxon.pp_adjdFre

check buttonProtein coding RNA editing(s).
Editing PositionVariant TypeGene SymbolTranscript IDNTchangeAAchange

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Sex-biased TF-Gene network for PALB2

check buttonTFs related to PALB2.
∗The female-biased TF-gene edges were identified if Female_Edge_threshold>0.98 and Male_Edge_threshold<=0.98.
∗The male-biased TF-gene edges were identified if Male_Edge_threshold>0.98 and Female_Edge_threshold<=0.98.
TF Gene
Cancer TypeTFTarget GeneMale Edge ScoreMale Edge ThresholdFemale Edge ScoreFemale Edge ThresholdType
ACCZNF182PALB24.05e+009.82e-013.19e+007.31e-03Male-biased
ACCZNF487PALB24.11e+009.82e-013.25e+007.78e-03Male-biased
BLCAPRDM6PALB24.23e+009.85e-013.18e+004.13e-03Male-biased
BLCAZNF182PALB24.36e+009.87e-013.32e+004.35e-03Male-biased
BLCAZNF22PALB24.36e+009.87e-013.32e+004.29e-03Male-biased
BLCAZNF235PALB24.54e+009.90e-013.47e+004.01e-03Male-biased
BLCAZNF384PALB24.09e+009.80e-013.15e+005.97e-03Male-biased
BLCAZNF487PALB24.35e+009.87e-013.29e+004.01e-03Male-biased
BLCAZNF613PALB24.28e+009.84e-013.35e+006.10e-03Male-biased
BLCAZNF79PALB24.23e+009.81e-013.37e+007.84e-03Male-biased

check buttonPALB2 related gene.
∗Only the gene encode TF might with this result.
∗For more information please check Sex-biased TF-Coding gene network.

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Sex-biased RBP-ES network for PALB2

check buttonRBPs related to ES in PALB2.
∗The female-biased RBP-ES edges were identified if Female_Edge_threshold>0.98 and Male_Edge_threshold<=0.98.
∗The male-biased RBP-ES edges were identified if Male_Edge_threshold>0.98 and Female_Edge_threshold<=0.98.
RBP ES
Cancer TypeRBPTarget ESMale Edge ScoreMale Edge ThresholdFemale Edge ScoreFemale Edge ThresholdType
STADQKIexon_skip_1431691.29e+015.44e-031.33e+019.94e-01Female-biased
ACCMSI1exon_skip_1431721.44e+019.95e-011.39e+014.71e-03Male-biased
ACCQKIexon_skip_1431691.35e+019.94e-011.30e+015.71e-03Male-biased
THYMQKIexon_skip_1431691.35e+011.01e-031.41e+019.99e-01Female-biased
DLBCMSI1exon_skip_1431721.54e+019.99e-011.48e+011.13e-03Male-biased
DLBCQKIexon_skip_1431721.30e+019.91e-011.26e+019.07e-03Male-biased
KIRPMSI1exon_skip_1431721.48e+019.99e-011.43e+018.07e-04Male-biased
KIRPQKIexon_skip_1431721.29e+019.99e-011.23e+014.32e-04Male-biased
BRCAMSI1exon_skip_1431721.43e+019.87e-011.37e+011.25e-02Male-biased
READKHDRBS1exon_skip_1431726.94e+004.48e-037.35e+009.84e-01Female-biased
READMSI1exon_skip_1431721.42e+011.11e-031.47e+019.99e-01Female-biased
READQKIexon_skip_1431721.15e+011.64e-031.20e+019.98e-01Female-biased
THCAPABPC3exon_skip_1431698.47e+009.87e-018.15e+006.86e-03Male-biased
THCAQKIexon_skip_1431691.34e+019.99e-011.29e+016.98e-04Male-biased
MESOQKIexon_skip_1431691.32e+015.16e-041.38e+019.99e-01Female-biased
LGGMSI1exon_skip_1431721.36e+013.18e-031.41e+019.97e-01Female-biased
LGGQKIexon_skip_1431721.17e+014.95e-031.21e+019.95e-01Female-biased
GBMQKIexon_skip_1431691.30e+015.75e-041.36e+019.99e-01Female-biased
KICHQKIexon_skip_1431691.30e+012.90e-031.35e+019.97e-01Female-biased
BLCAPABPC3exon_skip_1431698.13e+001.07e-028.48e+009.83e-01Female-biased
BLCAQKIexon_skip_1431691.35e+012.27e-031.40e+019.98e-01Female-biased
SARCKHDRBS1exon_skip_1431727.18e+009.54e-037.54e+009.80e-01Female-biased
SARCMSI1exon_skip_1431721.40e+011.23e-031.46e+019.99e-01Female-biased
SARCQKIexon_skip_1431691.39e+019.99e-011.33e+011.15e-03Male-biased
SARCQKIexon_skip_1431721.22e+013.13e-031.27e+019.96e-01Female-biased

check buttonPALB2 related ES.
∗Only the gene encode RBP might with this result.
∗For more information please check Sex-biased RBP-ES network in cancer.

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Sex-biased CeRNA regulation of gene

check buttonSex-biased CeRNA regulation of gene.
Gene IDceRNA(lncRNA-miRNA-mRNA)GroupCancer Type

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Sex-biased eQTL regulation of gene

check buttonSex-biased eQTL regulation of gene (The figures only show the pairs with FDR <1e-5. For more information please check the below table).
eQTLDescription

check buttonMale-specific eQTL regulation.
SNP IDSNP InfoPosition to GeneEffect ScoreFDRCancer TypeBiased Type
rs72781586chr16:17383236:A:G-0.1298350278596510.0046760802106489BLCAFemale-baised eQTL
rs8053503chr16:17357522:A:T-0.1253903785153510.00535920383318861BLCAFemale-baised eQTL
rs79389160chr16:27973639:G:A-0.1582120706734740.0263799948153461BLCAFemale-baised eQTL
rs72781536chr16:17350946:G:T-0.1138457512740540.0404879191499131BLCAFemale-baised eQTL
rs80094791chr16:17348902:C:T-0.1130448209932780.0446878514181078BLCAFemale-baised eQTL
rs3743955chr16:19121125:A:C-0.08727355137786420.0152494536059704LUADFemale-baised eQTL
rs3743956chr16:19121458:T:C-0.08294481301264880.0181227212159548LUADFemale-baised eQTL
rs12446979chr16:25627973:A:G-0.06018319093780180.0192090504859456LUADFemale-baised eQTL
rs2943312chr16:25629694:T:C-0.05953937990765180.0213031822931526LUADFemale-baised eQTL
rs2966239chr16:25629779:A:G-0.05953937990765180.0213031822931526LUADFemale-baised eQTL
rs2966238chr16:25629833:A:G-0.05953937990765180.0213031822931526LUADFemale-baised eQTL
rs2910846chr16:25629916:T:G-0.05953937990765180.0213031822931526LUADFemale-baised eQTL
rs2910847chr16:25631173:A:G-0.05929878017144450.0233204158060873LUADFemale-baised eQTL
rs2943310chr16:25631178:T:C-0.05929878017144450.0233204158060873LUADFemale-baised eQTL
rs2943309chr16:25631340:T:C-0.05863191332956840.025669747000643LUADFemale-baised eQTL
rs437545chr16:24200055:T:A-0.07830730388036370.0263719880078158LUADFemale-baised eQTL
rs11864339chr16:24982115:T:C-0.08585848221368690.0342214478508701LUADFemale-baised eQTL
rs8045116chr16:24983440:G:A-0.08585848221368690.0342214478508701LUADFemale-baised eQTL
rs1423639chr16:25634271:T:A-0.05662279745341330.0357439743728735LUADFemale-baised eQTL
rs1040354chr16:25634362:T:C-0.05662279745341330.0357439743728735LUADFemale-baised eQTL
rs12933885chr16:25634007:A:G-0.05642871166913090.0373816154226149LUADFemale-baised eQTL
rs12934442chr16:25634066:G:A-0.05642871166913090.0373816154226149LUADFemale-baised eQTL
rs1423638chr16:25634174:C:T-0.05642871166913090.0373816154226149LUADFemale-baised eQTL
rs1364011chr16:25631549:A:T-0.05621486784006370.0405780997367226LUADFemale-baised eQTL
rs16974979chr16:25633686:G:A-0.05580494799003180.0413274919210707LUADFemale-baised eQTL
rs35121326chr16:25372538:G:A--0.06958321038258680.025263478388535COADFemale-baised eQTL

check buttonFemale-specific eQTL regulation.
SNP IDSNP InfoPosition to GeneEffect ScoreFDRCancer TypeBiased Type
rs1493867chr16:17820751:C:G-0.02552871232099110.00709501001309173LUSCMale-baised eQTL
rs1493866chr16:17820899:G:T-0.02552871232099110.00709501001309173LUSCMale-baised eQTL
rs8053373chr16:17824837:G:A-0.02547473879228110.00782526162745085LUSCMale-baised eQTL
rs12934279chr16:17829890:C:T-0.02481698458248410.0114857441545072LUSCMale-baised eQTL
rs6498744chr16:17823028:C:T-0.02469412811784020.0127242408099551LUSCMale-baised eQTL
rs8059715chr16:17825420:C:T-0.02458962148414040.013617473561523LUSCMale-baised eQTL
rs8046136chr16:17820605:T:C-0.02443849359207240.0146848697935327LUSCMale-baised eQTL
rs4257197chr16:17821528:A:G-0.02443849359207240.0146848697935327LUSCMale-baised eQTL
rs8050464chr16:17821995:G:A-0.02443849359207240.0146848697935327LUSCMale-baised eQTL
rs11646781chr16:17822258:T:C-0.02433482735043670.0156592587150686LUSCMale-baised eQTL
rs4474664chr16:17822334:T:C-0.02290783887843260.0389512410866295LUSCMale-baised eQTL
rs200676812chr16:24706979:T:A-0.09166226437835040.0072389726433265COADMale-baised eQTL
rs9635492chr16:24706641:C:G-0.08506504523246470.0140701186013714COADMale-baised eQTL
rs67546616chr16:24706930:G:A-0.08506504523246470.0140701186013714COADMale-baised eQTL
rs7199130chr16:24707058:C:T-0.08506504523246470.0140701186013714COADMale-baised eQTL
rs7199355chr16:24707216:A:G-0.08506504523246470.0140701186013714COADMale-baised eQTL
rs60820369chr16:24707349:C:T-0.08506504523246470.0140701186013714COADMale-baised eQTL
rs66587448chr16:24707444:A:G-0.08506504523246470.0140701186013714COADMale-baised eQTL
rs67799000chr16:24707675:C:T-0.08506504523246470.0140701186013714COADMale-baised eQTL
rs113271742chr16:24708294:G:A-0.08506504523246470.0140701186013714COADMale-baised eQTL
rs75813157chr16:24708396:A:G-0.08506504523246470.0140701186013714COADMale-baised eQTL
rs56666521chr16:24708476:G:C-0.08506504523246470.0140701186013714COADMale-baised eQTL
rs7188815chr16:24708635:G:A-0.08506504523246470.0140701186013714COADMale-baised eQTL
rs7188960chr16:24708666:G:A-0.08506504523246470.0140701186013714COADMale-baised eQTL
rs7189584chr16:24709037:G:A-0.08506504523246470.0140701186013714COADMale-baised eQTL
rs13380784chr16:24710183:C:T-0.08506504523246470.0140701186013714COADMale-baised eQTL
rs56189906chr16:24710365:C:T-0.08506504523246470.0140701186013714COADMale-baised eQTL
rs61366617chr16:24710807:G:A-0.08506504523246470.0140701186013714COADMale-baised eQTL
rs7203925chr16:24711167:T:C-0.08506504523246470.0140701186013714COADMale-baised eQTL
rs7190025chr16:24709443:C:G-0.08354216721903970.0148498783720161COADMale-baised eQTL

check buttonOpposite sex-biased eQTL regulation.
SNP IDSNP InfoPosition to GeneMale EffectMale FDRFemale EffectFemale FDRSex-biased Gene in CancerCancer Type

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Sex-biased eQTM regulation of gene

check buttonSex-biased eQTM regulation of gene (The figures only show the pairs with FDR<1e-5. For more information please check the below table).
eQTMDescription

check buttonMale-specific eQTM regulation.
CpG SiteCpG PostionPosition to GeneEffect ScoreFDRCor.rCor.PvalueCancer Type

check buttonFemale-specific eQTM regulation.
CpG SiteCpG PostionPosition to GeneEffect ScoreFDRCor.rCor.PvalueCancer Type

check buttonOpposite sex-biased eQTM regulation.
CpG SiteCpG PostionCpG IslandPosition to GeneMale EffectMale FDRFemale EffectFemale FDRMale CorMale P-valueFemale CorFemale P-valueSex-biased Coding GeneCancer Type

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Sex-biased sQTL regulation of gene

check buttonSex-biased sQTL regulation of gene (The figures only show the pairs with FDR <1e-5. For more information please check the below table).
sQTLDescription

check buttonMale-specific sQTL regulation.
ES IDSkipped ExonORF AnnoSNP IDSNP InfoSNP Position to ESEffect ScoreFDRCancer TypeBiased Type
exon_skip_143165chr16:23607863:23608012Frame-shiftrs198188chr16:24124880:A:GDistant upstream0.01945670471728850.0421729530247505LUADFemale-baised sQTL
exon_skip_143165chr16:23607863:23608012Frame-shiftrs12920718chr16:23867367:C:TDistant upstream-0.04853122763009280.03343777365875PAADFemale-baised sQTL
exon_skip_143165chr16:23607863:23608012Frame-shiftrs12931600chr16:23869770:C:TDistant upstream-0.04853122763009280.03343777365875PAADFemale-baised sQTL
exon_skip_143165chr16:23607863:23608012Frame-shiftrs12929938chr16:23872801:T:ADistant upstream-0.04853122763009280.03343777365875PAADFemale-baised sQTL
exon_skip_143165chr16:23607863:23608012Frame-shiftrs12934555chr16:23873965:G:ADistant upstream-0.04853122763009280.03343777365875PAADFemale-baised sQTL
exon_skip_143165chr16:23607863:23608012Frame-shiftrs9940072chr16:23876862:G:TDistant upstream-0.04853122763009280.03343777365875PAADFemale-baised sQTL
exon_skip_143165chr16:23607863:23608012Frame-shiftrs3785403chr16:23855702:G:CDistant upstream-0.04741156254354270.0413238760458076PAADFemale-baised sQTL

check buttonFemale-specific sQTL regulation.
ES IDSkipped ExonORF AnnoSNP IDSNP InfoSNP Position to ESEffect ScoreFDRCancer TypeBiased Type
exon_skip_143165chr16:23607863:23608012Frame-shiftrs208635chr16:22904006:A:GDistant downstream0.03733203422999580.0437514637195552KIRCMale-baised sQTL

check buttonOpposite sex-biased sQTL regulation.
ES IDSkipped ExonORF AnnoSNP IDSNP InfoSNP Position to ESMale EffectMale FDRFemale EffectFemale FDRCancer Type

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Sex-biased sQTM regulation of gene

check buttonSex-biased sQTM regulation of gene (The figures only show the pairs with FDR <1e-5. For more information please check the below table).
sQTMDescription

check buttonMale-specific sQTM regulation.
EX IDSkipped ExonCPG SiteCPG PositionPosition to EX EventsEffect ScoreFDRCor.rCor.PvalueORF_annoCancer Type

check buttonFemale-specific sQTM regulation.
EX IDSkipped ExonCPG SiteCPG PositionPosition to EX EventsEffect ScoreFDRCor.rCor.PvalueORF_annoCancer Type

check buttonOpposite sex-biased sQTM regulation.
EX IDEX InfoSkipped ExonCPG SiteCPG PositionCPG IslandPosition to EX EventsMale EffectMale FDRFemale EffectFemale FDRMale CorrelationMale P-valueFemale CorrelationFemale P-valueORF_annoCancer Type

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Related disease information of PALB2

check buttonDiseases associated with this gene (DisGeNET).
Gene IDGene SymbolDisease IDDisease NameNumber of PMIDSource
ENSG00000083093PALB2C0005586Bipolar Disorder1PSYGENET
ENSG00000083093PALB2C0006142Malignant neoplasm of breast1CTD_human
ENSG00000083093PALB2C0030297Pancreatic Neoplasm1CTD_human
ENSG00000083093PALB2C0033578Prostatic Neoplasms1CTD_human
ENSG00000083093PALB2C0346647Malignant neoplasm of pancreas1CTD_human
ENSG00000083093PALB2C0376358Malignant neoplasm of prostate1CTD_human
ENSG00000083093PALB2C0678222Breast Carcinoma1CTD_human
ENSG00000083093PALB2C1257931Mammary Neoplasms, Human1CTD_human
ENSG00000083093PALB2C1458155Mammary Neoplasms1CTD_human
ENSG00000083093PALB2C1835817FANCONI ANEMIA, COMPLEMENTATION GROUP N1CTD_human
ENSG00000083093PALB2C4704874Mammary Carcinoma, Human1CTD_human