Investigating core genetic-and-epigenetic cell cycle networks for stemness and carcinogenic mechanisms, and cancer drug design using big database mining and genome-wide next-generation sequencing data

References

• Ramalho-Santos M, Yoon S, Matsuzaki Y, Mulligan RC, Melton DA. “Stemness”: transcriptional profiling of embryonic and adult stem cells. Science 2002; 298(5593):597-600; PMID:12228720; http://dx.doi.org/10.1126/science.1072530
   PubMed Web of Science ®Google Scholar
• Zhu D, Wan X, Huang H, Chen X, Liang W, Zhao F, Lin T, Han J, Xie W. Knockdown of Bmi1 inhibits the stemness properties and tumorigenicity of human bladder cancer stem cell-like side population cells. Oncol Rep 2014; 31(2):727-36; PMID:24337040
   PubMed Web of Science ®Google Scholar
• Okita K, Yamanaka S. Induced pluripotent stem cells: opportunities and challenges. Philos Trans R Soc Lond B Biol Sci 2011; 366(1575):2198-207; PMID:21727125; http://dx.doi.org/10.1098/rstb.2011.0016
   PubMed Web of Science ®Google Scholar
• Cai J, Weiss ML, Rao MS. In search of “stemness”. Exp Hematol 2004; 32(7):585-98; PMID:15246154; http://dx.doi.org/10.1016/j.exphem.2004.03.013
   PubMed Web of Science ®Google Scholar
• Bueno MJ, Malumbres M. MicroRNAs and the cell cycle. Biochim Biophys Acta 2011; 1812(5):592-601
   PubMed Web of Science ®Google Scholar
• Morishita A, Masaki T. miRNA in hepatocellular carcinoma. Hepatol Res 2015; 45(2):128-41; PMID:25040738; http://dx.doi.org/10.1111/hepr.12386
   PubMed Web of Science ®Google Scholar
• Li CW, Chen BS. Network biomarkers of bladder cancer based on a genome-wide genetic and epigenetic network derived from next-generation sequencing data. Dis Markers 2016; 2016:4149608, ; PMID:27034531
   PubMed Web of Science ®Google Scholar
• Li CW, Wang WH, Chen BS. Investigating the specific core genetic-and-epigenetic networks of cellular mechanisms involved in human aging in peripheral blood mononuclear cells.” Oncotarget 2016; 7:8556-79; PMID:26895224.
   PubMed Web of Science ®Google Scholar
• Thomson JA, Itskovitz-Eldor J, Shapiro SS, Waknitz MA, Swiergiel JJ, Marshall VS, Jones JM. Embryonic stem cell lines derived from human blastocysts. Science 1998; 282(5391):1145-7; PMID:9804556; http://dx.doi.org/10.1126/science.282.5391.1145
   PubMed Web of Science ®Google Scholar
• Ivankovic M, Cukusic A, Gotic I, Skrobot N, Matijasić M, Polancec D, Rubelj I. Telomerase activity in HeLa cervical carcinoma cell line proliferation. Biogerontology 2007; 8(2):163-72; PMID:16955216; http://dx.doi.org/10.1007/s10522-006-9043-9
   PubMed Web of Science ®Google Scholar
• Sa G, Das T. Anti cancer effects of curcumin: cycle of life and death. Cell Div 2008; 3:14; PMID:18834508; http://dx.doi.org/10.1186/1747-1028-3-14
   PubMed Web of Science ®Google Scholar
• Wang Y, Baskerville S, Shenoy A, Babiarz JE, Baehner L, Blelloch R. Embryonic stem cell-specific microRNAs regulate the G1-S transition and promote rapid proliferation. Nat Genet 2008; 40(12):1478-83; PMID:18978791; http://dx.doi.org/10.1038/ng.250
   PubMed Web of Science ®Google Scholar
• Oram SW, Liu XX, Lee TL, Chan WY, Lau YF. TSPY potentiates cell proliferation and tumorigenesis by promoting cell cycle progression in HeLa and NIH3T3 cells. BMC Cancer 2006;6:154; PMID:16762081; http://dx.doi.org/10.1186/1471-2407-6-154
   PubMed Web of Science ®Google Scholar
• Mine KL, Shulzhenko N, Yambartsev A, Rochman M, Sanson GF, Lando M, Varma S, Skinner J, Volfovsky N, Deng T, et al. Gene network reconstruction reveals cell cycle and antiviral genes as major drivers of cervical cancer. Nat Commun 2013;4:1806; PMID:23651994; http://dx.doi.org/10.1038/ncomms2693
   PubMed Web of Science ®Google Scholar
• Hashem IAT, Yaqoob I, Anuar NB et al. The rise of “big data” on cloud computing: Review and open research issues. Information Systems 2015;47:98-115; http://dx.doi.org/10.1016/j.is.2014.07.006.
   Web of Science ®Google Scholar
• Cohen PR. DARPA's Big Mechanism program. Phys Biol 2015; 12(4):045008; PMID:26178259; http://dx.doi.org/10.1088/1478-3975/12/4/045008
   PubMed Web of Science ®Google Scholar
• Chen BS, Li CW. Measuring information flow in cellular networks by the systems biology method through microarray data. Front Plant Sci 2015; 6; PMID:26082788
   PubMed Web of Science ®Google Scholar
• Li CW, Chen BS. Identifying functional mechanisms of gene and protein regulatory networks in response to a broader range of environmental stresses. Comp Funct Genomics 2010; Article ID 408705; PMID:20454442; http://dx.doi.org/10.1155/2010/408705
   PubMedGoogle Scholar
• Przytycka TM, Kim YA. Network integration meets network dynamics. BMC Biol 2010; 8:48, ; PMID:20513250; http://dx.doi.org/10.1186/1741-7007-8-48
   PubMed Web of Science ®Google Scholar
• Chen BS, Li CW. On the interplay between entropy and robustness of gene regulatory networks. Entropy 2010; 12(5):1071-101http://dx.doi.org/10.3390/e12051071
   Web of Science ®Google Scholar
• Chen BS, Wong SW, Li CW. On the calculation of system entropy in nonlinear stochastic biological networks. Entropy 2015; 17(10):6801-33; http://dx.doi.org/10.3390/e17106801
   Web of Science ®Google Scholar
• Schadt EE, Friend SH, Shaywitz DA. OPINION A network view of disease and compound screening. Nat Rev Drug Discov 2009; 8(4):286-95; PMID:19337271; http://dx.doi.org/10.1038/nrd2826
   PubMed Web of Science ®Google Scholar
• Berger SI, Iyengar R. Network analyses in systems pharmacology. Bioinformatics 2009; 25(19):2466-72; PMID:19648136; http://dx.doi.org/10.1093/bioinformatics/btp465
   PubMed Web of Science ®Google Scholar
• Godoy P, Schmidt-Heck W, Natarajan K, Lucendo-Villarin B, Szkolnicka D, Asplund A, Björquist P, Widera A, Stöber R, Campos G, et al. Gene networks and transcription factor motifs defining the differentiation of stem cells into hepatocyte-like cells. J Hepatol 2015; 63(4):934-42; PMID:26022688; http://dx.doi.org/10.1016/j.jhep.2015.05.013
   PubMed Web of Science ®Google Scholar
• McKinney EF, Lee JC, Jayne DR, Lyons PA, Smith KG. T-cell exhaustion, co-stimulation and clinical outcome in autoimmunity and infection. Nature 2015; 523(7562):612-6; PMID:26123020; http://dx.doi.org/10.1038/nature14468
   PubMed Web of Science ®Google Scholar
• Parikshak NN, Gandal MJ, Geschwind DH. Systems biology and gene networks in neurodevelopmental and neurodegenerative disorders. Nat Rev Genet 2015; 16(8):441-58; PMID:26149713; http://dx.doi.org/10.1038/nrg3934
   PubMed Web of Science ®Google Scholar
• Banyai G, Baidi F, Coudreuse D, Szilagyi Z. Cdk1 activity acts as a quantitative platform for coordinating cell cycle progression with periodic transcription. Nat Commun 2016; 7:11161; PMID:27045731; http://dx.doi.org/10.1038/ncomms11161
   PubMed Web of Science ®Google Scholar
• Young TR, Fernandez B, Buckalew R, Moses G, Boczko EM. Clustering in cell cycle dynamics with general response/signaling feedback. J Theor Biol 2012; 292:103-15; PMID:22001733; http://dx.doi.org/10.1016/j.jtbi.2011.10.002
   PubMed Web of Science ®Google Scholar
• Bell R, Hubbard A, Chettier R, Chen D, Miller JP, Kapahi P, Tarnopolsky M, Sahasrabuhde S, Melov S, Hughes RE. A human protein interaction network shows conservation of aging processes between human and invertebrate species. Plos Genet 2009; 5(3): PMID:19293945
   PubMed Web of Science ®Google Scholar
• Drozdov I, Tsoka S, Ouzounis CA, Shah AM. Genome-wide expression patterns in physiological cardiac hypertrophy. BMC Genomics 2010; 11:557; PMID:20937113; http://dx.doi.org/10.1186/1471-2164-11-557
   PubMed Web of Science ®Google Scholar
• Sandmann T, Girardot C, Brehme M, Tongprasit W, Stolc V, Furlong EE. A core transcriptional network for early mesoderm development in Drosophila melanogaster. Genes Dev 2007; 21(4):436-49; PMID:17322403; http://dx.doi.org/10.1101/gad.1509007
   PubMed Web of Science ®Google Scholar
• Zhao S, Iyengar R. Systems pharmacology: network analysis to identify multiscale mechanisms of drug action. Annu Rev Pharmacol Toxicol 2012; 52:505-21; PMID:22235860; http://dx.doi.org/10.1146/annurev-pharmtox-010611-134520
   PubMed Web of Science ®Google Scholar
• Singh AM, Chappell J, Trost R, Lin L, Wang T, Tang J, Matlock BK, Weller KP, Wu H, Zhao S, et al. Cell-cycle control of developmentally regulated transcription factors accounts for heterogeneity in human pluripotent cells.” Stem Cell Rep 2013; 1(6):532-44; PMID:24371808; http://dx.doi.org/10.1016/j.stemcr.2013.10.009
   PubMed Web of Science ®Google Scholar
• Langmead B, Trapnell C, Pop M, Salzberg SL. Ultrafast and memory-efficient alignment of short DNA sequences to the human genome. Genome Biol 2009; 10(3):R25; PMID:19261174; http://dx.doi.org/10.1186/gb-2009-10-3-r25
   PubMed Web of Science ®Google Scholar
• Kim D, Pertea G, Trapnell C, Pimentel H, Kelley R, Salzberg SL. TopHat2: accurate alignment of transcriptomes in the presence of insertions, deletions and gene fusions. Genome Biol 2013; 14(4):R36; PMID:23618408; http://dx.doi.org/10.1186/gb-2013-14-4-r36
   PubMed Web of Science ®Google Scholar
• Trapnell C, Williams BA, Pertea G, Mortazavi A, Kwan G, van Baren MJ, Salzberg SL, Wold BJ, Pachter L. Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation. Nat Biotechnol 2010; 28(5):511-5; PMID:20436464; http://dx.doi.org/10.1038/nbt.1621
   PubMed Web of Science ®Google Scholar
• Goecks J, Nekrutenko A, Taylor J, Galaxy Team. Galaxy: a comprehensive approach for supporting accessible, reproducible, and transparent computational research in the life sciences. Genome Biol 2010; 11(8):R86; PMID:20738864; http://dx.doi.org/10.1186/gb-2010-11-8-r86
   PubMed Web of Science ®Google Scholar
• Blankenberg D, Von Kuster G, Coraor N, Ananda G, Lazarus R, Mangan M, Nekrutenko A, Taylor J. Galaxy: a web-based genome analysis tool for experimentalists. Curr Protoc Mol Biol 2010; vol. Chapter 19, pp. Unit 19 10 1–21; PMID:20069535; http://dx.doi.org/10.1002/0471142727
   PubMedGoogle Scholar
• Giardine B, Riemer C, Hardison RC, Burhans R, Elnitski L, Shah P, Zhang Y, Blankenberg D, Albert I, Taylor J, et al. Galaxy: a platform for interactive large-scale genome analysis. Genome Res 2005; 15(10):1451-5; PMID:16169926; http://dx.doi.org/10.1101/gr.4086505
   PubMed Web of Science ®Google Scholar
• Sadasivam S, Duan S, DeCaprio JA. The MuvB complex sequentially recruits B-Myb and FoxM1 to promote mitotic gene expression. Genes Dev 2012; 26(5):474-89; PMID:22391450
   PubMed Web of Science ®Google Scholar
• Nishino K, Toyoda M, Yamazaki-Inoue M, Fukawatase Y, Chikazawa E, Sakaguchi H, Akutsu H, Umezawa A. DNA Methylation Dynamics in Human Induced Pluripotent Stem Cells over Time. Plos Genet 2011; 7(5): ; PMID:21637780; http://dx.doi.org/10.1371/journal.pgen.1002085
   PubMed Web of Science ®Google Scholar
• Zheng G, Tu K, Yang Q, Xiong Y, Wei C, Xie L, Zhu Y, Li Y. ITFP: an integrated platform of mammalian transcription factors. Bioinformatics 2008; 24(20):2416-7; PMID:18713790; http://dx.doi.org/10.1093/bioinformatics/btn439
   PubMed Web of Science ®Google Scholar
• Bovolenta LA, Acencio ML, Lemke N. HTRIdb: an open-access database for experimentally verified human transcriptional regulation interactions. BMC Genomics 2012; 13:405; PMID:22900683; http://dx.doi.org/10.1186/1471-2164-13-405
   PubMed Web of Science ®Google Scholar
• Matys V, Kel-Margoulis OV, Fricke E, Liebich I, Land S, Barre-Dirrie A, Reuter I, Chekmenev D, Krull M, Hornischer K, et al. TRANSFAC and its module TRANSCompel: transcriptional gene regulation in eukaryotes. Nucleic Acids Res 2006; 34:D108-10; PMID:16381825; http://dx.doi.org/10.1093/nar/gkj143
   PubMed Web of Science ®Google Scholar
• Agarwal V, Bell GW, Nam JW, Bartel DP. Predicting effective microRNA target sites in mammalian mRNAs. eLife 2015; 4:e05005; PMID:26267216; http://dx.doi.org/10.7554/eLife.05005
   PubMedGoogle Scholar
• Lu P, Vogel C, Wang R, Yao X, Marcotte EM. Absolute protein expression profiling estimates the relative contributions of transcriptional and translational regulation. Nat Biotechnol 2007; 25(1):117-24; PMID:17187058; http://dx.doi.org/10.1038/nbt1270
   PubMed Web of Science ®Google Scholar
• Coleman TF, Li YY. A reflective Newton method for minimizing a quadratic function subject to bounds on some of the variables. Siam J Opt 1996; 6(4):1040-1058; http://dx.doi.org/10.1137/S1052623494240456
   Web of Science ®Google Scholar
• Johansson R. System modeling and identification, Englewood Cliffs, NJ: Prentice Hall, 1993.
   Google Scholar
• Pagano M, Gauvreau K. Principles of biostatistics, 2nd ed., Pacific Grove, CA: Duxbury, 2000.
   Google Scholar
• Alter O, Brown PO, Botstein D. Singular value decomposition for genome-wide expression data processing and modeling. Proc Natl Acad Sci U S A 2000; 97(18):10101-6; PMID:10963673; http://dx.doi.org/10.1073/pnas.97.18.10101
   PubMed Web of Science ®Google Scholar
• Lamb J, Crawford ED, Peck D, Modell JW, Blat IC, Wrobel MJ, Lerner J, Brunet JP, Subramanian A, Ross KN, et al. The Connectivity Map: using gene-expression signatures to connect small molecules, genes, and disease. Science 2006; 313(5795):1929-35; PMID:17008526; http://dx.doi.org/10.1126/science.1132939
   PubMed Web of Science ®Google Scholar
• Griffith M, Griffith OL, Coffman AC, Weible JV, McMichael JF, Spies NC, Koval J, Das I, Callaway MB, Eldred JM, et al. DGIdb: mining the druggable genome. Nat Methods 2013; 10(12):1209-10; PMID:24122041; http://dx.doi.org/10.1038/nmeth.2689
   PubMed Web of Science ®Google Scholar
• Geng YJ, Zhao YF, Schuster LC, Feng B, Lynn DA, Austin KM, Stoklosa JD, Morrison JD. A chemical biology study of human pluripotent stem cells unveils HSPA8 as a key regulator of pluripotency. Stem Cell Rep 2015; 5(6):1143-54; PMID:26549849; http://dx.doi.org/10.1016/j.stemcr.2015.09.023
   PubMed Web of Science ®Google Scholar
• Park HJ, Costa RH, Lau LF, Tyner AL, Raychaudhuri P. Anaphase-promoting complex/cyclosome-CDH1-mediated proteolysis of the forkhead box M1 transcription factor is critical for regulated entry into S phase. Mol Cell Biol 2008; 28(17):5162-71; PMID:18573889; http://dx.doi.org/10.1128/MCB.00387-08
   PubMed Web of Science ®Google Scholar
• Zafonte BT, Hulit J, Amanatullah DF, Albanese C, Wang C, Rosen E, Reutens A, Sparano JA, Lisanti MP, Pestell RG. Cell-cycle dysregulation in breast cancer: breast cancer therapies targeting the cell cycle. Front Biosci 2000; 5:D938-61; PMID:11102317; http://dx.doi.org/10.2741/zafonte
   PubMed Web of Science ®Google Scholar
• Weber M, Hellmann I, Stadler MB, Ramos L, Pääbo S, Rebhan M, Schübeler D. Distribution, silencing potential and evolutionary impact of promoter DNA methylation in the human genome. Nat Genet 2007; 39(4):457-66; PMID:17334365; http://dx.doi.org/10.1038/ng1990
   PubMed Web of Science ®Google Scholar
• Ward A, Sivakumar G, Kanjeekal S, Hamm C, Labute BC, Shum D, Hudson JW. The deregulated promoter methylation of the Polo-like kinases as a potential biomarker in hematological malignancies. Leuk Lymphoma 2015; 56(7):2123-33; PMID:25347426; http://dx.doi.org/10.3109/10428194.2014.971407
   PubMed Web of Science ®Google Scholar
• Kamaraj B, Rajendran V, Sethumadhavan R, Purohit R. In-silico screening of cancer associated mutation on PLK1 protein and its structural consequences. J Mol Model 2013; 19(12):5587-99; PMID:24271645; http://dx.doi.org/10.1007/s00894-013-2044-0
   PubMed Web of Science ®Google Scholar
• Hsiung Y, Jannatipour M, Rose A, McMahon J, Duncan D, Nitiss JL. Functional expression of human topoisomerase II alpha in yeast: mutations at amino acids 450 or 803 of topoisomerase II alpha result in enzymes that can confer resistance to anti-topoisomerase II agents. Cancer Res 1996; 56(1):91-9; PMID:8548781
   PubMed Web of Science ®Google Scholar
• Espinosa M, Cantu D, Herrera N, Lopez CM, De la Garza JG, Maldonado V, Melendez-Zajgla J. Inhibitors of apoptosis proteins in human cervical cancer. BMC Cancer 2006; 6:45; PMID:16504151; http://dx.doi.org/10.1186/1471-2407-6-45
   PubMed Web of Science ®Google Scholar
• Chen BS, Tsai KW, Li CW. Using nonlinear stochastic evolutionary game strategy to model an evolutionary biological network of organ carcinogenesis under a natural selection scheme. Evol Bioinform 2015; 11:155-78; PMID:26244004; http://dx.doi.org/10.4137/EBO.S26195
   PubMed Web of Science ®Google Scholar
• Woo YH, Li WH. DNA replication timing and selection shape the landscape of nucleotide variation in cancer genomes. Nat Commun 2012; 3:1004; PMID:22893128; http://dx.doi.org/10.1038/ncomms1982
   PubMed Web of Science ®Google Scholar
• Sohr S, Engeland K. RHAMM is differentially expressed in the cell cycle and downregulated by the tumor suppressor p53. Cell Cycle 2008; 7(21):3448-60; PMID:18971636; http://dx.doi.org/10.4161/cc.7.21.7014
   PubMed Web of Science ®Google Scholar
• Chhabra R. Cervical cancer stem cells: opportunities and challenges. J Cancer Res Clin Oncol 2015; 141(11):1889-97; PMID:25563493; http://dx.doi.org/10.1007/s00432-014-1905-y
   PubMed Web of Science ®Google Scholar
• Huang DW, Sherman BT, Tan Q, Collins JR, Alvord WG, Roayaei J, Stephens R, Baseler MW, Lane HC, Lempicki RA. The DAVID Gene Functional Classification Tool: a novel biological module-centric algorithm to functionally analyze large gene lists. Genome Biol 2007; 8(9):R183; PMID:17784955; http://dx.doi.org/10.1186/gb-2007-8-9-r183
   PubMed Web of Science ®Google Scholar
• Wehbe H, Henson R, Meng FY, Mize-Berge J, Patel T. Interleukin-6 contributes to growth in cholangiocarcinoma cells by aberrant promoter methylation and gene expression. Cancer Res 2006; 66(21):10517-24; PMID:17079474; http://dx.doi.org/10.1158/0008-5472.CAN-06-2130
   PubMed Web of Science ®Google Scholar
• Baba A, Ohtake F, Okuno Y, Yokota K, Okada M, Imai Y, Ni M, Meyer CA, Igarashi K, Kanno J, et al. PKA-dependent regulation of the histone lysine demethylase complex PHF2-ARID5B. Nat Cell Biol 2011; 13(6):668-75; PMID:21532585; http://dx.doi.org/10.1038/ncb2228
   PubMed Web of Science ®Google Scholar
• Sethi G, Pathak HB, Zhang H, Zhou Y, Einarson MB, Vathipadiekal V, Gunewardena S, Birrer MJ, Godwin AK. An RNA interference lethality screen of the human druggable genome to identify molecular vulnerabilities in epithelial ovarian cancer. Plos One 2012; 7(10):e47086; PMID:23056589; http://dx.doi.org/10.1371/journal.pone.0047086
   PubMed Web of Science ®Google Scholar
• Cheng Y, Yan Z, Liu Y, Liang C, Xia H, Feng J, Zheng G, Luo H. Analysis of DNA methylation patterns associated with the gastric cancer genome. Oncol Lett 2014; 7(4):1021-6; PMID:24944662
   PubMed Web of Science ®Google Scholar
• Cinquetti R, Badi I, Campione M, Bortoletto E, Chiesa G, Parolini C, Camesasca C, Russo A, Taramelli R, Acquati F. Transcriptional deregulation and a missense mutation define ANKRD1 as a candidate gene for total anomalous pulmonary venous return. Hum Mutat 2008; 29(4):468-74; PMID:18273862; http://dx.doi.org/10.1002/humu.20711
   PubMed Web of Science ®Google Scholar
• Niittymaki I, Gylfe A, Laine L, Laakso M, Lehtonen HJ, Kondelin J, Tolvanen J, Nousiainen K, Pouwels J, Järvinen H, et al. High frequency of TTK mutations in microsatellite-unstable colorectal cancer and evaluation of their effect on spindle assembly checkpoint. Carcinogenesis 2011; 32(3):305-11; PMID:21163887
   PubMed Web of Science ®Google Scholar
• Wangpermtam P, Sanguansin S, Petmitr S, Punyarit P, Weerapradist W. Genetic alteration in oral squamous cell carcinoma detected by arbitrarily primed polymerase chain reaction. Asian Pac J Cancer Prev 2011; 12(8):2081-5; PMID:22292655
   PubMedGoogle Scholar
• Cancer Genome Atlas Research N, Kandoth C, Schultz N, Cherniack AD, Akbani R, Liu Y, Shen H, Robertson AG, Pashtan I, Shen R, et al. Integrated genomic characterization of endometrial carcinoma. Nature 2013; 497(7447):67-73; PMID:23636398; http://dx.doi.org/10.1038/nature12113
   PubMed Web of Science ®Google Scholar
• Kaina B. DNA damage-triggered apoptosis: critical role of DNA repair, double-strand breaks, cell proliferation and signaling. Biochem Pharmacol 2003; 66(8):1547-54; PMID:14555233; http://dx.doi.org/10.1016/S0006-2952(03)00510-0
   PubMed Web of Science ®Google Scholar
• Borze I, Juvonen E, Ninomiya S, Jee KJ, Elonen E, Knuutila S. High-resolution oligonucleotide array comparative genomic hybridization study and methylation status of the RPS14 gene in de novo myelodysplastic syndromes. Cancer Genet Cytogenet 2010; 197(2):166-73; PMID:20193850
   PubMedGoogle Scholar
• Vizoso M, Puig M, Carmona FJ, Maqueda M, Velásquez A, Gómez A, Labernadie A, Lugo R, Gabasa M, Rigat-Brugarolas LG, et al. Aberrant DNA methylation in non-small cell lung cancer-associated fibroblasts. Carcinogenesis 2015; 36(12):1453-63; PMID:26449251
   PubMed Web of Science ®Google Scholar
• Yong WH, Shabihkhani M, Telesca D, Yang S, Tso JL, Menjivar JC, Wei B, Lucey GM, Mareninov S, Chen Z, et al. Ribosomal proteins RPS11 and RPS20, two stress-response markers of glioblastoma stem cells, are novel predictors of poor prognosis in glioblastoma patients. PLoS One 2015; 10(10):e0141334; PMID:26506620; http://dx.doi.org/10.1371/journal.pone.0141334
   PubMed Web of Science ®Google Scholar
• Asselin-Labat ML, Vaillant F, Sheridan JM, Pal B, Wu D, Simpson ER, Yasuda H, Smyth GK, Martin TJ, Lindeman GJ, et al. Control of mammary stem cell function by steroid hormone signalling. Nature 2010; 465(7299):798-802; PMID:20383121; http://dx.doi.org/10.1038/nature09027
   PubMed Web of Science ®Google Scholar
• Sauter CN, McDermid RL, Weinberg AL, Greco TL, Xu X, Murdoch FE, Fritsch MK. Differentiation of murine embryonic stem cells induces progesterone receptor gene expression. Exp Cell Res 2005; 311(2):251-64; PMID:16223481; http://dx.doi.org/10.1016/j.yexcr.2005.09.005
   PubMed Web of Science ®Google Scholar
• Gallego MJ, Porayette P, Kaltcheva MM, Bowen RL, Vadakkadath Meethal S, Atwood CS. The pregnancy hormones human chorionic gonadotropin and progesterone induce human embryonic stem cell proliferation and differentiation into neuroectodermal rosettes. Stem Cell Res Ther 2010; 1:28; PMID:20836886; http://dx.doi.org/10.1186/scrt28
   PubMed Web of Science ®Google Scholar
• Wang ES, Reyes NA, Melton C, Huskey NE, Momcilovic O, Goga A, Blelloch R, Oakes SA. Fas-activated mitochondrial apoptosis culls stalled embryonic stem cells to promote differentiation. Curr Biol 2015; 25(23):3110-8; PMID:26585277; http://dx.doi.org/10.1016/j.cub.2015.10.020
   PubMed Web of Science ®Google Scholar
• Fang J, Zhang T, Liu Y, Li Y, Zhou S, Song D, Zhao Y, Feng R, Zhang X, Li L, et al. PAX6 downregulates miR-124 expression to promote cell migration during embryonic stem cell differentiation. Stem Cells Dev 2014; 23(19):2297-310; PMID:24773074; http://dx.doi.org/10.1089/scd.2013.0410
   PubMed Web of Science ®Google Scholar
• Li J, Bei YH, Liu Q, Lv D, Xu T, He Y, Chen P, Xiao J. MicroRNA-221 is required for proliferation of mouse embryonic stem cells via P57 targeting. Stem Cell Rev Rep 2015; 11(1):39-49; PMID:25086570; http://dx.doi.org/10.1007/s12015-014-9543-y
   PubMed Web of Science ®Google Scholar
• Sato T, Liu XD, Basma H, Togo S, Sugiura H, Nelson A, Nakanishi M, Kanaji N, Wang X, Kim M, et al. IL-4 induces differentiation of human embryonic stem cells into fibrogenic fibroblast-like cells. J Allergy Clin Immunol 2011; 127(6):1595-603; PMID:21388667; http://dx.doi.org/10.1016/j.jaci.2011.01.049
   PubMed Web of Science ®Google Scholar
• Tarantino C, Paolella G, Cozzuto L, Minopoli G, Pastore L, Parisi S, Russo T. miRNA 34a, 100, and 137 modulate differentiation of mouse embryonic stem cells. FASEB J 2010; 24(9):3255-63; PMID:20439489; http://dx.doi.org/10.1096/fj.09-152207
   PubMed Web of Science ®Google Scholar
• Maitra A, Arking DE, Shivapurkar N, Ikeda M, Stastny V, Kassauei K, Sui G, Cutler DJ, Liu Y, Brimble SN, et al. Genomic alterations in cultured human embryonic stem cells. Nat Genet 2005; 37(10):1099-103; PMID:16142235; http://dx.doi.org/10.1038/ng1631
   PubMed Web of Science ®Google Scholar
• Farinelli SE, Greene LA. Cell cycle blockers mimosine, ciclopirox, and deferoxamine prevent the death of PC12 cells and postmitotic sympathetic neurons after removal of trophic support. J Neurosci 1996; 16(3):1150-62; PMID:8558244
   PubMed Web of Science ®Google Scholar
• Krude T. Mimosine arrests proliferating human cells before onset of DNA replication in a dose-dependent manner. Exp Cell Res 1999; 247(1):148-59; PMID:10047457; http://dx.doi.org/10.1006/excr.1998.4342
   PubMed Web of Science ®Google Scholar
• Vidya Priyadarsini R, Senthil Murugan R, Maitreyi S, Ramalingam K, Karunagaran D, Nagini S. The flavonoid quercetin induces cell cycle arrest and mitochondria-mediated apoptosis in human cervical cancer (HeLa) cells through p53 induction and NF-kappaB inhibition. Eur J Pharmacol 2010; 649(1–3):84-91; PMID:20858478; http://dx.doi.org/10.1016/j.ejphar.2010.09.020
   PubMed Web of Science ®Google Scholar
• Chen J, Gu W, Yang L, Chen C, Shao R, Xu K, Xu ZP. Nanotechnology in the management of cervical cancer. Rev Med Virol 2015; 25(Suppl 1):72-83; PMID:25752817
   PubMed Web of Science ®Google Scholar