Research Topics
Genomes and Genes | Long Cheng LiSummaryAffiliation: University of California Country: USA Publications
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Publications
MethPrimer: designing primers for methylation PCRsLong Cheng Li
Department of Urology, Veterans Affairs Medical Center, and University of California San Francisco, San Francisco, CA 94121, USA
Bioinformatics 18:1427-31. 2002..Primers are then picked around the predicted CpG islands or around regions specified by users. MethPrimer can design primers for BSP and MSP. Results of primer selection are delivered through a web browser in text and in graphic view...- Cytochrome P450 1B1 is overexpressed and regulated by hypomethylation in prostate cancerTakashi Tokizane
Department of Urology, Veterans Affairs Medical Center and University of California, San Francisco, California 94121, USA
Clin Cancer Res 11:5793-801. 2005..We hypothesized that promoter/enhancer CpG methylation contributes to the regulation of CYP1B1 expression in human prostate tissue... - Increased heparanase expression is caused by promoter hypomethylation and up-regulation of transcriptional factor early growth response-1 in human prostate cancerTatsuya Ogishima
Department of Urology, University of California San Francisco and Veterans Affairs Medical Center, 4150 Clement Street, San Francisco, CA 94121, USA
Clin Cancer Res 11:1028-36. 2005..We hypothesize that CpG hypomethylation in the heparanase promoter coupled with up-regulation of EGR1 levels may induce heparanase expression in human prostate cancer... - Epigenetic inactivation of the dioxin-responsive cytochrome P4501A1 gene in human prostate cancerSteven T Okino
Department of Urology, San Francisco Veterans Affairs Medical Center 4150 Clement Street, San Francisco, CA 94121, USA
Cancer Res 66:7420-8. 2006..This is the first report that shows that CYP1A1 is aberrantly hypermethylated in human prostate cancer and has an altered, inaccessible chromatin structure that suppresses its dioxin responsiveness... - Epigenetic inactivation of Wnt inhibitory factor-1 plays an important role in bladder cancer through aberrant canonical Wnt/beta-catenin signaling pathwayShinji Urakami
Department of Urology 112F, Veterans Affairs Medical Center, and University of California at San Francisco, 4150 Clement Street, San Francisco, CA 94121, USA
Clin Cancer Res 12:383-91. 2006..Wnt inhibitory factor-1 (Wif-1) was identified as one of the secreted antagonists that can bind Wnt protein. We hypothesize that Wif-1 plays an important role in bladder cancer pathogenesis... 
Small dsRNAs induce transcriptional activation in human cellsLong Cheng Li
Department of Urology, Veterans Affairs Medical Center and University of California, San Francisco, CA 94121, USA
Proc Natl Acad Sci U S A 103:17337-42. 2006..These findings reveal a more diverse role for small RNA molecules in the regulation of gene expression than previously recognized and identify a potential therapeutic use for dsRNA in targeted gene activation...- CpG hypermethylation of promoter region and inactivation of E-cadherin gene in human bladder cancerLeopoldo Alves Ribeiro-Filho
Department of Urology, San Francisco Veterans Affairs Medical Center and University of California, 94121, USA
Mol Carcinog 34:187-98. 2002..These findings may provide a better strategy for the diagnosis and management of bladder cancer... - Effects of transplantation of adipose tissue-derived stem cells on prostate tumorGuiting Lin
Knuppe Molecular Urology Laboratory, Department of Urology, School of Medicine, University of California, San Francisco, California 94143 0738, USA
Prostate 70:1066-73. 2010..Obesity is a risk factor for prostate cancer development, but the underlying mechanism is unknown. The present study tested the hypothesis that stromal cells of the adipose tissue might be recruited by cancer cells to help tumor growth... - Prognostic value and function of KLF4 in prostate cancer: RNAa and vector-mediated overexpression identify KLF4 as an inhibitor of tumor cell growth and migrationJi Wang
Department of Urology and Helen Diller Comprehensive Cancer Center, University of California, San Francisco, San Francisco, California, USA
Cancer Res 70:10182-91. 2010..These results suggest that KLF4 functions as an inhibitor of tumor cell growth and migration in prostate cancer and decreased expression has prognostic value for predicting prostate cancer metastasis... - Age-dependent methylation of ESR1 gene in prostate cancerLong Cheng Li
Department of Urology, Veterans Affairs Medical Center, University of California San Francisco, San Francisco, CA 94121, USA
Biochem Biophys Res Commun 321:455-61. 2004..45; P, 0.018; 95% CI, 1.04-4.26). These findings suggest that methylation of ESR1 is both age-dependent and tumor differentiation-dependent and age-dependent methylation of ESR1 may represent a mechanism linking aging and prostate cancer... - Formulation of Small Activating RNA Into Lipidoid Nanoparticles Inhibits Xenograft Prostate Tumor Growth by Inducing p21 ExpressionRobert F Place
1 Department of Urology and Helen Diller Comprehensive Cancer Center, University of California, San Francisco, California, USA 2 RNA Therapeutics, Inc, San Francisco, California, USA
Mol Ther Nucleic Acids 1:e15. 2012..Our results provide proof-of-principle that RNAa in conjunction with lipidioids may represent a novel approach for stimulating gene expression in vivo to treat disease... - Upregulation of Cyclin B1 by miRNA and its implications in cancerVera Huang
Department of Urology and Helen Diller Comprehensive Cancer Center, University of California San Francisco, San Francisco, CA 94158, USA
Nucleic Acids Res 40:1695-707. 2012..Such phenotypes were recapitulated by overexpression of Ccnb1. Our findings reveal an endogenous system by which miRNA functions to activate Ccnb1 expression in mouse cells and manipulate in vivo tumor development/growth... - Designing PCR primer for DNA methylation mappingLong Cheng Li
Department of Urology, Veterans Affairs Medical Center and University of California, San Francisco, USA
Methods Mol Biol 402:371-84. 2007..Results of primer selection are delivered through a Web browser in text and graphic views. This chapter discusses the process of using MethPrimer to design BSP and MSP primers... - Induction of NANOG expression by targeting promoter sequence with small activating RNA antagonizes retinoic acid-induced differentiationXiaoling Wang
Department of Urology, University of California San Francisco, San Francisco, CA 94158, USA
Biochem J 443:821-8. 2012..Ectopic overexpression of NANOG via lentiviral transduction further recapitulates saRNA results, providing proof-of-concept that RNAa may be utilized to activate development-related genes and manipulate cell fate... - Transforming growth factor-beta(s) and their receptors in aging rat prostateHong Zhao
Department of Urology, Veterans Affairs Medical Center, University of California San Francisco, San Francisco, CA 94121, USA
Biochem Biophys Res Commun 294:464-9. 2002..These findings are important in understanding the mechanisms of UGM mediated prostatic growth... - MicroRNA-373 induces expression of genes with complementary promoter sequencesRobert F Place
Department of Urology, Veterans Affairs Medical Center and University of California, San Francisco, CA 94121, USA
Proc Natl Acad Sci U S A 105:1608-13. 2008..In conclusion, we have identified a miRNA that targets promoter sequences and induces gene expression. These findings reveal a new mode by which miRNAs may regulate gene expression... - The E-cadherin -160 C/A polymorphism and prostate cancer risk in white and black American menDeepa Pookot
Department of Urology, Veterans Affairs Medical Center and University of California San Francisco, 94121, USA
J Urol 176:793-6. 2006..We hypothesized that allelic variation at this site may be associated with racial differences in the incidence and severity of prostate cancer... - Chromatin changes on the GSTP1 promoter associated with its inactivation in prostate cancerSteven T Okino
Department of Urology, San Francisco Veterans Affairs Medical Center and the University of California San Francisco, San Francisco, California 94121, USA
Mol Carcinog 46:839-46. 2007..We conclude that, in the process of prostate carcinogenesis, activating histone modifications on GSTP1 are lost and the DNA becomes methylated and inaccessible resulting in transcriptional silencing... - RNAa is conserved in mammalian cellsVera Huang
Helen Diller Comprehensive Cancer Center, University of California San Francisco, San Francisco, California, USA
PLoS ONE 5:e8848. 2010..Thus far, RNAa has only been demonstrated in human cells and is unclear whether it is conserved in other mammals... - The multifaceted small RNAsLong Cheng Li
Department of Urology, University of California San Francisco, San Francisco, California 94143, USA
RNA Biol 5:61-4. 2008..These two opposing activities of gene silencing and activation together constitute an integrated gene regulatory mechanism... - Targeted p21WAF1/CIP1 activation by RNAa inhibits hepatocellular carcinoma cellsMika Kosaka
Department of Urology and Helen Diller Comprehensive Cancer Center, University of California San Francisco, San Francisco, CA, USA
Nucleic Acid Ther 22:335-43. 2012..This study suggests that targeted activation of p21 by RNAa may be explored as a novel therapy for the treatment of HCC... - miRNA goes nuclearVera Huang
Department of Urology and Helen Diller Comprehensive Cancer Center, University of California San Francisco, San Francisco, CA, USA
RNA Biol 9:269-73. 2012..In this point-of-view, we will specifically focus on the nuclear functions of miRNAs and discuss examples of miRNA-directed transcriptional gene regulation identified in recent years... - Epigenetics of prostate cancerLong Cheng Li
Department of Urology, University of California San Francisco and Veterans Affairs Medical Center San Francisco, San Francisco, CA 94121, USA
Front Biosci 12:3377-97. 2007..In this chapter, we examined the current literature regarding epigenetic changes in prostate cancer and discuss the clinical potential of cancer epigenetics for the diagnosis and treatment of this disease... - Defining features and exploring chemical modifications to manipulate RNAa activityRobert F Place
Helen Diller Comprehensive Cancer Center, Department of Urology, University of California, PO Box 589001, San Francisco, CA 94158 9001, USA
Curr Pharm Biotechnol 11:518-26. 2010..These findings reveal functional features of RNAa that may be utilized to augment saRNA function for mechanistic studies or the development of RNAa-based drugs... 
Intravesical delivery of small activating RNA formulated into lipid nanoparticles inhibits orthotopic bladder tumor growthMoo Rim Kang
Department of Urology and Helen Diller Comprehensive Cancer Center, University of California, San Francisco, California, USA
Cancer Res 72:5069-79. 2012..Our results provide preclinical proof-of-concept for a novel method to treat bladder cancer by intravesical administration of LNP-formulated RNA duplexes...- MicroRNA regulation of neuron-like differentiation of adipose tissue-derived stem cellsHongxiu Ning
Knuppe Molecular Urology Laboratory, Department of Urology, School of Medicine, University of California, San Francisco, CA 94143 0738, USA
Differentiation 78:253-9. 2009..Thus, IGF-I signaling and miR-133b co-regulate potential neural differentiation of ADSC through a feedback mechanism, in which IGF-I upregulates miR-133b while miR-133b in turn downregulates IGF-IR... - Antitumor effect of dsRNA-induced p21(WAF1/CIP1) gene activation in human bladder cancer cellsZhong Chen
Department of Urology, University of California San Francisco, San Francisco, CA 94143, USA
Mol Cancer Ther 7:698-703. 2008..In conclusion, p21 activation by RNAa has antitumor activity in vitro in bladder cancer cells. These results suggest that RNAa could be used for cancer treatment by targeted activation of tumor suppressor genes... - CpG methylation at promoter site -140 inactivates TGFbeta2 receptor gene in prostate cancerHong Zhao
Department of Urology, Veterans Affairs Medical Center and University of California San Francisco, San Francisco, California 94121, USA
Cancer 104:44-52. 2005..Treatment with 5-aza-2' deoxycytidine can restore gene expression. The current study results report the first association between prostate cancer and loss of the TGF- beta signaling pathway by TbetaRII DNA promoter methylation... - Multigene methylation analysis for detection and staging of prostate cancerHideki Enokida
Department of Urology, Veterans Affairs Medical Center, University of California, San Francisco, CA 94121, USA
Clin Cancer Res 11:6582-8. 2005..010). CONCLUSIONS: This is the first report demonstrating that M score is a new method for multigene methylation analysis that can serve as a good diagnostic and staging biomarker for prostate cancer... - Smoking influences aberrant CpG hypermethylation of multiple genes in human prostate carcinomaHideki Enokida
Department of Urology, Veterans Affairs Medical Center and University of California, San Francisco, California 94121, USA
Cancer 106:79-86. 2006..Smoking status may influence both progression and prognosis of PC through CpG hypermethylation of related genes... - Epigenetic changes in prostate cancer: implication for diagnosis and treatmentLong-Cheng Li
Department of Urology, Veterans Affairs Medical Center, and University of California San Francisco, 94121, USA
J Natl Cancer Inst 97:103-15. 2005..In this review, we examine the current literature on epigenetic changes in prostate cancer and discuss the clinical potential of cancer epigenetics for the diagnosis and treatment of this disease... - DNA methylation in prostate cancerLong-Cheng Li
Department of Urology, Veterans Affairs Medical Center, and University of California San Francisco, 4150 Clement Street, San Francisco, CA 94121, USA
Biochim Biophys Acta 1704:87-102. 2004..We will also discuss the potential involvement of DNA methylation in age-related, race-related and hereditary prostate cancer, and the potential use of hypermethylated genes as biomarkers to detect prostate cancer and assess its risk... - CpG hypermethylation of MDR1 gene contributes to the pathogenesis and progression of human prostate cancerHideki Enokida
Department of Urology, University of California, San Francisco, California 94121, USA
Cancer Res 64:5956-62. 2004..These findings suggest that CpG hypermethylation of MDR1 promoter is a frequent event in prostate cancer and is related to disease progression via increased cell proliferation in prostate cancer cells... - Ethnic group-related differences in CpG hypermethylation of the GSTP1 gene promoter among African-American, Caucasian and Asian patients with prostate cancerHideki Enokida
Department of Urology and Pathology, Veterans Affairs Medical Center and University of California, San Francisco, CA 94121, USA
Int J Cancer 116:174-81. 2005..Ours is the first study investigating GSTP1 methylation differences in PC among African-American, Caucasian and Asian... - PGDB: a curated and integrated database of genes related to the prostateLong-Cheng Li
Department of Urology, Veterans Affairs Medical Center, and University of California San Francisco, 4150 Clement Street, San Francisco, CA 94121, USA
Nucleic Acids Res 31:291-3. 2003..Detailed expression data calculated from the UniGene and SAGEmap databases are also presented... - Association between a C/A single nucleotide polymorphism of the E-cadherin gene promoter and transitional cell carcinoma of the bladderXu Zhang
Department of Urology, Tongji Hospital, Tongji Medical College, Huazhong University of Science and Technology, Wuhan, People s Republic of China
J Urol 170:1379-82. 2003..We investigated whether a C/A single nucleotide polymorphism at position -160 from the transcription start site of the E-cadherin gene promoter is associated with transitional cell carcinoma of the bladder (TCCB)... - Functional Loss of the gamma-catenin gene through epigenetic and genetic pathways in human prostate cancerHiroaki Shiina
Department of Urology, Shimane University School of Medicine, Izumo, Japan
Cancer Res 65:2130-8. 2005..The gamma-catenin mutation related to Bcl-2 overexpression has a significant effect on the pathogenesis of HRPC. This is the first report to characterize the epigenetic and genetic regulation of gamma-catenin in human prostate cancer...