2024
Charting the metabolic biogeography of the colorectum in cancer: challenging the right sided versus left sided classification
Jain A, Morris M, Berardi D, Arora T, Domingo-Almenara X, Paty P, Rattray N, Kerekes D, Lu L, Khan S, Johnson C. Charting the metabolic biogeography of the colorectum in cancer: challenging the right sided versus left sided classification. Molecular Cancer 2024, 23: 211. PMID: 39342363, PMCID: PMC11438248, DOI: 10.1186/s12943-024-02133-5.Peer-Reviewed Original ResearchConceptsRectal cancerNormal mucosaMetabolite abundancePatient-matched tumorTumor-specific metabolitesMetabolic heterogeneityPatient survivalRectosigmoid colonSigmoid colonAnatomic subsitePatient-matched normal mucosaTransverse colonMetabolomic profilesAscending colonCRC biomarkersMetabolome DatabaseDescending colonMetabolite changesLeft-sidedRight-sidedColorectumRisk factorsMetabolome mapCancerTumor
2023
In silico designed mRNA vaccines targeting CA-125 neoantigen in breast and ovarian cancer
Lu L, Ma W, Johnson C, Khan S, Irwin M, Pusztai L. In silico designed mRNA vaccines targeting CA-125 neoantigen in breast and ovarian cancer. Vaccine 2023, 41: 2073-2083. PMID: 36813666, PMCID: PMC10064809, DOI: 10.1016/j.vaccine.2023.02.048.Peer-Reviewed Original ResearchConceptsMRNA vaccinesOvarian cancerT cell responsesMutation-derived neoantigensT cell epitopesSARS-CoV-2Multiple neoantigensCytotoxic CD8Dendritic cellsCA 125Cancer vaccinesPatient survivalImmune responseCell epitopesNeoepitope peptidesNeoantigensVaccineCell responsesCancerBreastReverse vaccinologyCD8CD40LIFNNeoepitopesIdentifying Sex-Specific Cancer Metabolites and Associations to Prognosis
Shen X, Ma S, Khan S, Johnson C. Identifying Sex-Specific Cancer Metabolites and Associations to Prognosis. Learning Materials In Biosciences 2023, 271-299. DOI: 10.1007/978-3-031-44256-8_11.Peer-Reviewed Original ResearchMetabolomics dataSurvival analysisCancer metabolitesColorectal cancerCox proportional hazards regression analysisProportional hazards regression analysisHazards regression analysisSex-specific associationsClinical dataCancer patientsCancer prognosisCancerMetabolomicsMultiple comparisonsPrognosisAnalytical methodSurvivalOncology studiesPatientsAlternative analytical approachRegression analysisSex-specificMetabolitesSex interactionAssociation
2020
Tumor Tissue-Specific Biomarkers of Colorectal Cancer by Anatomic Location and Stage
Cai Y, Rattray NJW, Zhang Q, Mironova V, Santos-Neto A, Muca E, Vollmar AKR, Hsu KS, Rattray Z, Cross JR, Zhang Y, Paty PB, Khan SA, Johnson CH. Tumor Tissue-Specific Biomarkers of Colorectal Cancer by Anatomic Location and Stage. Metabolites 2020, 10: 257. PMID: 32575361, PMCID: PMC7345993, DOI: 10.3390/metabo10060257.Peer-Reviewed Original ResearchColorectal cancerAnatomic locationTissue-specific biomarkersOrthogonal partial least squares discriminant analysisBlood samplesMetabolite biomarkersTumor tissueRight-sided colon cancerPatient blood samplesCRC patientsStudy cohortScreening regimensIndependent cohortUntargeted metabolomics analysisStage IColon cancerDisease influenceMetabolic consequencesDiscriminatory biomarkersNormal colonMetabolic signaturesPre-validation phaseBiomarker studiesBiomarkersCancer
2019
Exploring Microsatellite Instability (MSI) in Colorectal Cancer at Elevated Microsatellite Alterations at Selected Tetranucleotides (EMAST)
Kurbatov V, Khan SA. Exploring Microsatellite Instability (MSI) in Colorectal Cancer at Elevated Microsatellite Alterations at Selected Tetranucleotides (EMAST). Annals Of Surgical Oncology 2019, 27: 973-974. PMID: 31788754, DOI: 10.1245/s10434-019-08051-x.Peer-Reviewed Original ResearchMolecular Pathway Analysis Indicates a Distinct Metabolic Phenotype in Women With Right-Sided Colon Cancer
Sun Y, Mironova V, Chen Y, Lundh EPF, Zhang Q, Cai Y, Vasiliou V, Zhang Y, Garcia-Milian R, Khan SA, Johnson CH. Molecular Pathway Analysis Indicates a Distinct Metabolic Phenotype in Women With Right-Sided Colon Cancer. Translational Oncology 2019, 13: 42-56. PMID: 31760268, PMCID: PMC6883319, DOI: 10.1016/j.tranon.2019.09.004.Peer-Reviewed Original ResearchRight-sided colon cancerLeft-sided colon cancerColon cancerAnatomical locationTumor tissueAnti-tumor immune responseGene Expression OmnibusImportant predictive markerPoor clinical outcomeTumor anatomical locationClinical outcomesPredictive markerPrimary tumorImmune phenotypeDistinct metabolic phenotypesImmune responseLower incidenceTreatment responseSex-specific differencesMolecular pathway analysisClinical importanceCancerProtein kinase alpha subunitBiotechnology Information Gene Expression OmnibusWomen
2018
Defining Early-Onset Colon and Rectal Cancers
Jacobs D, Zhu R, Luo J, Grisotti G, Heller DR, Kurbatov V, Johnson CH, Zhang Y, Khan SA. Defining Early-Onset Colon and Rectal Cancers. Frontiers In Oncology 2018, 8: 504. PMID: 30460196, PMCID: PMC6232522, DOI: 10.3389/fonc.2018.00504.Peer-Reviewed Original ResearchEarly-onset colonRectal cancerCancer incidenceColon cancerEnd Results Program databaseSignet ring cell subtypeColorectal cancer incidenceRectal cancer incidenceColon cancer incidenceAdenocarcinoma histologyRectosigmoid locationBlack populationClinicopathological characteristicsClinicopathological featuresProgram databaseInclusion criteriaPercent changeColonCell subtypesCancerPatientsIncidence increasesIncidenceSimilar riseSuch cohortsLong Noncoding RNA HOTTIP Is Biomarker for Recurrence after Hepatic Metastasectomy for Colorectal Cancer
Kurbatov V, Heller D, Zeng Z, Paty P, Lu J, Khan S. Long Noncoding RNA HOTTIP Is Biomarker for Recurrence after Hepatic Metastasectomy for Colorectal Cancer. Journal Of The American College Of Surgeons 2018, 227: s67. DOI: 10.1016/j.jamcollsurg.2018.07.141.Peer-Reviewed Original ResearchIntegrated molecular subtyping defines a curable oligometastatic state in colorectal liver metastasis
Pitroda SP, Khodarev NN, Huang L, Uppal A, Wightman SC, Ganai S, Joseph N, Pitt J, Brown M, Forde M, Mangold K, Xue L, Weber C, Segal JP, Kadri S, Stack ME, Khan S, Paty P, Kaul K, Andrade J, White KP, Talamonti M, Posner MC, Hellman S, Weichselbaum RR. Integrated molecular subtyping defines a curable oligometastatic state in colorectal liver metastasis. Nature Communications 2018, 9: 1793. PMID: 29728604, PMCID: PMC5935683, DOI: 10.1038/s41467-018-04278-6.Peer-Reviewed Original ResearchConceptsColorectal liver metastasesLiver metastasesColorectal cancerOligometastatic colorectal cancerMetastatic colorectal cancerHigh-risk patientsSubset of patientsClinical risk stratificationTreatment of metastasesAngiogenic signatureVEGFA amplificationOligometastatic stateOverall survivalFavorable survivalRisk stratificationAdverse outcomesMetastatic cancerMolecular subtypesFocal therapyMetastasisPatientsMetastatic virulenceMolecular subtypingRobust subtypesCancer
2015
Pancreaticoduodenectomy for locally advanced colon cancer in hereditary nonpolyposis colorectal cancer
Zhu R, Grisotti G, Salem RR, Khan SA. Pancreaticoduodenectomy for locally advanced colon cancer in hereditary nonpolyposis colorectal cancer. World Journal Of Surgical Oncology 2015, 14: 12. PMID: 26769110, PMCID: PMC4714509, DOI: 10.1186/s12957-015-0755-7.Peer-Reviewed Original ResearchConceptsNonpolyposis colorectal cancerHereditary nonpolyposis colorectal cancerAdvanced colon cancerColorectal cancerColon cancerBetter long-term outcomesMulti-visceral resectionAdvanced colorectal cancerEarly-stage diseaseRare clinical entityLong-term outcomesSpecial surgical considerationsPaucity of dataAdvanced diseaseStage diseaseMultidisciplinary treatmentSubtotal colectomyPartial colectomyCase presentationWeClinical entitySurgical considerationsLynch syndromeCancerColectomyPancreaticoduodenectomy
2010
Improved Testing for Microsatellite Instability in Colorectal Cancer Using a Simplified 3-Marker Assay
Esemuede I, Forslund A, Khan SA, Qin LX, Gimbel MI, Nash GM, Zeng Z, Rosenberg S, Shia J, Barany F, Paty PB. Improved Testing for Microsatellite Instability in Colorectal Cancer Using a Simplified 3-Marker Assay. Annals Of Surgical Oncology 2010, 17: 3370-3378. PMID: 20703819, PMCID: PMC3269820, DOI: 10.1245/s10434-010-1147-4.Peer-Reviewed Original ResearchMeSH KeywordsAdenocarcinomaAdolescentAdultAgedAged, 80 and overBiological AssayBiomarkers, TumorColorectal NeoplasmsComparative Genomic HybridizationDNA RepairDNA Repair EnzymesFemaleFollow-Up StudiesGenetic TestingGerm-Line MutationHumansLymphatic MetastasisMaleMicrosatellite InstabilityMicrosatellite RepeatsMiddle AgedOligonucleotide Array Sequence AnalysisPrognosisProspective StudiesSurvival RateYoung AdultConceptsHereditary nonpolyposis colorectal cancerColorectal cancerMicrosatellite instabilityMSI testingMSI tumorsMismatch repair protein lossBackgroundIn colorectal cancerDisease-specific survivalPredictive scoring systemNonpolyposis colorectal cancerMore BRAF mutationsDefective DNA mismatch repairNCI criteriaFavorable prognosisFavorable survivalKRAS mutationsBRAF mutationsMSI statusDistinct phenotypic propertiesScoring systemCancerValuable markerMSS cancersMethodsDNA samplesProtein lossLoss of imprinting and marked gene elevation are 2 forms of aberrant IGF2 expression in colorectal cancer
Cheng Y, Idrees K, Shattock R, Khan SA, Zeng Z, Brennan CW, Paty P, Barany F. Loss of imprinting and marked gene elevation are 2 forms of aberrant IGF2 expression in colorectal cancer. International Journal Of Cancer 2010, 127: 568-577. PMID: 19957330, PMCID: PMC3270092, DOI: 10.1002/ijc.25086.Peer-Reviewed Original ResearchConceptsInsulin-like growth factor 2IGF2 LOIColorectal cancerLoss of imprintingPrimary colorectal cancerIGF2 expressionNormal colorectal tissuesPrimary CRC tumorsSignificant correlationGrowth factor 2CRC tumorigenesisCRC tumorsIGF2 levelsColorectal tissuesIGF2 overexpressionH19 methylationHuman malignanciesMicrosatellite instabilityExpression correlatesNormal tissuesH19 hypomethylationCancerCommon eventAberrant gene expressionFactor 2
2008
CpG Island Methylator Phenotype Associates with Low-Degree Chromosomal Abnormalities in Colorectal Cancer
Cheng YW, Pincas H, Bacolod MD, Schemmann G, Giardina SF, Huang J, Barral S, Idrees K, Khan SA, Zeng Z, Rosenberg S, Notterman DA, Ott J, Paty P, Barany F. CpG Island Methylator Phenotype Associates with Low-Degree Chromosomal Abnormalities in Colorectal Cancer. Clinical Cancer Research 2008, 14: 6005-6013. PMID: 18829479, PMCID: PMC3268558, DOI: 10.1158/1078-0432.ccr-08-0216.Peer-Reviewed Original ResearchConceptsCpG island methylator phenotypeColorectal cancerChromosomal aberrationsLigase detection reactionMicrosatellite instabilityRight-side colonPrimary colorectal cancerColorectal cancer developmentSporadic colorectal cancerSame study cohortCIMP-positive tumorsChromosomal instabilityStudy cohortAberrant promoter methylationPrimary tumorNormal mucosaBRAF mutationsIndependent markerPhenotype associatesDegree of aneuploidyBRAF mutation V600ETumor progressionIndependent molecular mechanismsCancerCancer developmentGenetic variants in germline TP53 and MDM2 SNP309 are not associated with early onset colorectal cancer
Khan SA, Idrees K, Forslund A, Zeng Z, Rosenberg S, Pincas H, Barany F, Offit K, LaQuaglia MP, Paty PB. Genetic variants in germline TP53 and MDM2 SNP309 are not associated with early onset colorectal cancer. Journal Of Surgical Oncology 2008, 97: 621-625. PMID: 18381604, PMCID: PMC4381874, DOI: 10.1002/jso.20996.Peer-Reviewed Original ResearchConceptsEarly-onset colorectal cancerOnset colorectal cancerColorectal cancerMDM2 SNP309Age 30Germline variantsLi-Fraumeni kindredsP53 genePeripheral blood leukocytesNormal control populationP53 pathway genesFrequency of polymorphismsGermline TP53Blood leukocytesRare diseaseSNP309Control populationTissue availabilityPatientsConstitutional mutationsDisease susceptibilityCancerP53DiseaseGenetic variants