Journal article
Identification of genetic variants or genes that are associated with Homoharringtonine (HHT) response through a genome-wide association study in human lymphoblastoid cell lines (LCLs)
Frontiers in genetics, Vol.5, pp.465-465
01/13/2015
DOI: 10.3389/fgene.2014.00465
PMCID: PMC4292778
PMID: 25628645
Abstract
Homoharringtonine (HHT) has been widely used in China to treat patients with acute and chronic myeloid leukemia for decades. Since response to HHT varies among patients, our study aimed to identify biomarkers that might influence the response to HHT using a panel of various human lymphoblastoid cell lines (LCLs). Genome-wide association (GWA) analysis using single nucleotide polymorphism (SNP) and mRNA expression data was assessed for association with cytotoxicity to HHT in LCLs. Integrated analysis among SNPs, expression, AUC value was also performed to help select candidate genes for further functional characterization. Functional validation of candidate genes was performed using leukemia cell lines (U937, K562). Candidate genes were knocked down using specific siRNA and its response to HHT was assessed using MTS assay. We found that 15 expression probes were associated with HHT AUC with
P
< 10
−4
, and 96 individual probe sets with
P
< 10
−3
. Eighteen SNPs were associated with HHT AUC with
P
< 10
−5
and 281 SNPs with
P
< 10
−4
. The integrated analysis identified 4 unique SNPs that were associated with both expression and AUC. Functional validation using siRNA knockdown in leukemia cell lines showed that knocking down
CCDC88A, CTBP2, SOCS4
genes in U937 and K562 cells significantly altered HHT cytotoxicity. In summary, this study performed with LCLs can help to identify novel biomarker that might contribute to variation in response to HHT therapy.
Details
- Title: Subtitle
- Identification of genetic variants or genes that are associated with Homoharringtonine (HHT) response through a genome-wide association study in human lymphoblastoid cell lines (LCLs)
- Creators
- Yin Tong - Shanghai Jiao Tong UniversityNifang Niu - Mayo ClinicGregory Jenkins - Mayo Clinic in FloridaAnthony Batzler - Mayo Clinic in FloridaLiang Li - Chinese Academy of Medical Sciences & Peking Union Medical CollegeKrishna R. Kalari - Mayo Clinic in FloridaLiewei Wang - Mayo Clinic
- Resource Type
- Journal article
- Publication Details
- Frontiers in genetics, Vol.5, pp.465-465
- Publisher
- Frontiers Media S.A
- DOI
- 10.3389/fgene.2014.00465
- PMID
- 25628645
- PMCID
- PMC4292778
- ISSN
- 1664-8021
- eISSN
- 1664-8021
- Language
- English
- Date published
- 01/13/2015
- Academic Unit
- Stead Family Department of Pediatrics; Medical Genetics and Genomics
- Record Identifier
- 9984701551702771
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