<?xml version="1.0" encoding="UTF-8"?>
<!DOCTYPE article PUBLIC "-//NLM//DTD JATS (Z39.96) Journal Publishing DTD v1.4 20241031//EN"
        "https://jats.nlm.nih.gov/publishing/1.4/JATS-journalpublishing1-4.dtd">
<article  article-type="research-article"        dtd-version="1.4">
            <front>

                <journal-meta>
                                                                <journal-id>jsr-a</journal-id>
            <journal-title-group>
                                                                                    <journal-title>Journal of Scientific Reports-A</journal-title>
            </journal-title-group>
                                        <issn pub-type="epub">2687-6167</issn>
                                                                                            <publisher>
                    <publisher-name>Kütahya Dumlupinar University</publisher-name>
                </publisher>
                    </journal-meta>
                <article-meta>
                                        <article-id pub-id-type="doi">10.59313/jsr-a.1397224</article-id>
                                                                <article-categories>
                                            <subj-group  xml:lang="en">
                                                            <subject>Gene and Molecular Therapy</subject>
                                                            <subject>Medical Biotechnology Diagnostics</subject>
                                                            <subject>Bioengineering (Other)</subject>
                                                    </subj-group>
                                            <subj-group  xml:lang="tr">
                                                            <subject>Gen ve Moleküler Tedavi</subject>
                                                            <subject>Tıbbi Biyoteknolojik Tanılama </subject>
                                                            <subject>Biyomühendislik (Diğer)</subject>
                                                    </subj-group>
                                    </article-categories>
                                                                                                                                                        <title-group>
                                                                                                                                                            <article-title>Drug repurposing analysis with co-expressed genes identifies novel drugs and small molecules for bladder cancer</article-title>
                                                                                                    </title-group>
            
                                                    <contrib-group content-type="authors">
                                                                        <contrib contrib-type="author">
                                                                    <contrib-id contrib-id-type="orcid">
                                        https://orcid.org/0000-0002-5256-4778</contrib-id>
                                                                <name>
                                    <surname>Göv</surname>
                                    <given-names>Esra</given-names>
                                </name>
                                                                    <aff>ADANA ALPARSLAN TÜRKEŞ BİLİM VE TEKNOLOJİ ÜNİVERSİTESİ</aff>
                                                            </contrib>
                                                    <contrib contrib-type="author">
                                                                    <contrib-id contrib-id-type="orcid">
                                        https://orcid.org/0000-0001-7948-5087</contrib-id>
                                                                <name>
                                    <surname>Kaynak Bayrak</surname>
                                    <given-names>Gökçe</given-names>
                                </name>
                                                                    <aff>İZMİR BAKIRÇAY ÜNİVERSİTESİ</aff>
                                                            </contrib>
                                                                                </contrib-group>
                        
                                        <pub-date pub-type="pub" iso-8601-date="20240331">
                    <day>03</day>
                    <month>31</month>
                    <year>2024</year>
                </pub-date>
                                                    <issue>056</issue>
                                        <fpage>70</fpage>
                                        <lpage>81</lpage>
                        
                        <history>
                                    <date date-type="received" iso-8601-date="20231128">
                        <day>11</day>
                        <month>28</month>
                        <year>2023</year>
                    </date>
                                                    <date date-type="accepted" iso-8601-date="20240201">
                        <day>02</day>
                        <month>01</month>
                        <year>2024</year>
                    </date>
                            </history>
                                        <permissions>
                    <copyright-statement>Copyright © 2020, Journal of Scientific Reports-A</copyright-statement>
                    <copyright-year>2020</copyright-year>
                    <copyright-holder>Journal of Scientific Reports-A</copyright-holder>
                </permissions>
            
                                                                                                                        <abstract><p>Bladder cancer (BC) is the fifth most common malignancy in humans and has poor survival rates.  Although there is extensive research on the diagnosis and treatment of BC, novel molecular therapies are essential due to tumor recurrence. In this study, we aim to identify repurposed drugs or small molecules of BC with multi-omics systems biology perspective. Gene expression datasets were statistically analyzed by comparing bladder tumor and normal bladder tissues and differentially expressed genes (DEGs) were determined. Co-expression network of common DEGs for BC was constructed and co-expressed module was found by using tumors and control bladder tissues. Using independent data, we demonstrated the high prognostic capacity of the module genes. Moreover, repurposed drugs or small molecules were predicted by using L1000CDS2 gene expression based-search engine tool. We found numerous drug candidates as 480743.cdx, MK-2206, Geldanamycin, PIK-90, BRD-K50387473 (XMD8-92), BRD-K96144918 (mead acid), Vorinostat, PLX-4720, Entinostat, BIX-01294, PD-0325901 and Selumetinib, that may be used in BC therapy. We report 480743.cdx, BRD-K50387473 (XMD8-92) and mead acid as novel drugs or small molecules that offer crucial step in translational cancer research of BC.</p></abstract>
                                                            
            
                                                                                        <kwd-group>
                                                    <kwd>multi-omics data</kwd>
                                                    <kwd>  gene expression</kwd>
                                                    <kwd>  drug repurposing</kwd>
                                                    <kwd>  bladder cancer</kwd>
                                            </kwd-group>
                            
                                                                                                                                                    </article-meta>
    </front>
    <back>
                            <ref-list>
                                    <ref id="ref1">
                        <label>1</label>
                        <mixed-citation publication-type="journal">[1] Tang, C., Yu, M., Ma, J., and Zhu, Y, “Metabolic classification of bladder cancer based on multi‑omics integrated analysis to predict patient prognosis and treatment response”, J Transl Med, vol. 19 no. 205, 2021, doi: 10.1186/s13073-022-01056-4.</mixed-citation>
                    </ref>
                                    <ref id="ref2">
                        <label>2</label>
                        <mixed-citation publication-type="journal">[2] Yu, E.Y.-W., Zhang, H., Fu Y., et al, “Integrative multi-omics analysis for the determination of non-muscle invasive vs. muscle invasive bladder cancer: a pilot study”, Curr Oncol, vol. 29, no. 8, pp. 5442–5456, 2022, doi: 10.3390/curroncol29080430.</mixed-citation>
                    </ref>
                                    <ref id="ref3">
                        <label>3</label>
                        <mixed-citation publication-type="journal">[3] Mo, Q., Li, R, Adeegbe, D.O., Peng, G., and Chan, K.S., “Integrative multi-omics analysis of muscle-invasive bladder cancer identifies prognostic biomarkers for frontline chemotherapy and immunotherapy”, Commun Bıol. Vol. 3, no. 784, 2020, doi:10.1038/s42003-020-01491-2.</mixed-citation>
                    </ref>
                                    <ref id="ref4">
                        <label>4</label>
                        <mixed-citation publication-type="journal">[4] Lindskrog, S.V., Prip, F., Lamy, P., et al., “An integrated multi-omics analysis identifies prognostic molecular subtypes of non-muscle invasive bladder cancer.”, Nat Commun., vol. 12, no. 2301, 2021. doi: 10.1038/s41467-021-22465-w.</mixed-citation>
                    </ref>
                                    <ref id="ref5">
                        <label>5</label>
                        <mixed-citation publication-type="journal">[5] Shi, Z.-D. Han, X.-X., Song, Z.-J., et al., “Integrative multi‑omics analysis depicts the methylome and hydroxymethylome in recurrent bladder cancers and identifies biomarkers for predicting PD‑L1 expression.”, Biomark. Res., vol. 11, no. 47, 2023, doi: 10.1186/s40364-023-00488-3.</mixed-citation>
                    </ref>
                                    <ref id="ref6">
                        <label>6</label>
                        <mixed-citation publication-type="journal">[6] Zhang, X., Wang, J., Lu, J. et al., “Robust prognostic subtyping of muscle-invasive bladder cancer revealed by deep learning-based multi-omics data integration”, Front. Oncol., vol. 11, no. 689626, 2021, doi.org/10.3389/fonc.2021.689626.</mixed-citation>
                    </ref>
                                    <ref id="ref7">
                        <label>7</label>
                        <mixed-citation publication-type="journal">[7] You, C., Piao, X.M., Kang, K., Kim, Y.J., and Kang, K., “Integrative transcriptome profiling reveals ska3 as a novel prognostic marker in non-muscle invasive bladder cancer.”, Cancers, vol. 13, no. 18, 4673, 2021, doi: 10.3390/cancers13184673.</mixed-citation>
                    </ref>
                                    <ref id="ref8">
                        <label>8</label>
                        <mixed-citation publication-type="journal">[8] Demirtas, T.Y., Rahman, R., Capkin Yurtsever, M., and Gov, E., “Forecasting gastric cancer diagnosis, prognosis, and drug repurposing with novel gene expression signatures.”, OMICS A J. Integr. Biol., vol. 26, no. 1, 2022, DOI:10.1089/omi.2021.0195.</mixed-citation>
                    </ref>
                                    <ref id="ref9">
                        <label>9</label>
                        <mixed-citation publication-type="journal">[9] Knowles, M.A., and Hurst, C.D., “Molecular biology of bladder cancer: new insights into</mixed-citation>
                    </ref>
                                    <ref id="ref10">
                        <label>10</label>
                        <mixed-citation publication-type="journal">pathogenesis and clinical diversity.”, Nat. Rev. Cancer, vol. 15, no. 1, pp. 25-41, 2014, doi: 10.1038/nrc3817.</mixed-citation>
                    </ref>
                                    <ref id="ref11">
                        <label>11</label>
                        <mixed-citation publication-type="journal">[10] Hurst, C.D., Cheng, G., and Platt, F.M., “Stage-stratified molecular profiling of non-muscle-invasive bladder cancer enhances biological, clinical, and therapeutic insight.”, Cell Rep. Med., vol. 2, 100472, 2021.</mixed-citation>
                    </ref>
                                    <ref id="ref12">
                        <label>12</label>
                        <mixed-citation publication-type="journal">[11] Goel, A., Ward, D.G., Noyvert, B., et al., “Combined exome and transcriptome sequencing of non‑muscle‑invasive bladder cancer: associations between genomic changes, expression subtypes, and clinical outcomes.”, Genome Med., vol. 14, no. 59, 2022, doi: 10.1186/s13073-022-01056-4.</mixed-citation>
                    </ref>
                                    <ref id="ref13">
                        <label>13</label>
                        <mixed-citation publication-type="journal">[12] Gonzalez‑Fierro, A., Romo‑Perez, A., Chavez‑Blanco, A., Dominguez‑Gomez, G., and Duenas‑Gonzalez, A., “Does therapeutic repurposing in cancer meet the expectations of having drugs at a lower price?”, Clin. Drug Investig., vol. 43, no. 4, pp. 227–239, 2023, doi: 10.1007/s40261-023-01251-0.</mixed-citation>
                    </ref>
                                    <ref id="ref14">
                        <label>14</label>
                        <mixed-citation publication-type="journal">[13] Malik, J.A., Ahmed, S., Momin, S.S., et al. “Drug repurposing: A new hope in drug discovery for prostate cancer”, ACS Omega, vol. 8, no. 1, pp. 56−73, 2023, doi: 10.1021/acsomega.2c05821</mixed-citation>
                    </ref>
                                    <ref id="ref15">
                        <label>15</label>
                        <mixed-citation publication-type="journal">[14] Feng, Y., Jia, B., and Shen, Z.,” Metformin and bladder cancer: Drug repurposing as a potential tool for novel therapy: A review”, Medicine, vol. 101, no. 45, 2022, doi: 10.1097/MD.0000000000031635.</mixed-citation>
                    </ref>
                                    <ref id="ref16">
                        <label>16</label>
                        <mixed-citation publication-type="journal">[15] Gao, X., Chen, Y., Chen, M., Wang, S., Wen, X., Zhang, S., “Identification of key candidate genes and biological pathways in bladder cancer.” Peer J, vol. 6, 2018, doi: 10.7717/peerj.6036.</mixed-citation>
                    </ref>
                                    <ref id="ref17">
                        <label>17</label>
                        <mixed-citation publication-type="journal">[16] Wang, J.P., Leng, J.Y., Zhang, R.K., Zhang, L., Zhang, B., Jiang, W.Y., Tong, L., “Functional analysis of gene expression profiling based prediction in bladder cancer.”, Oncol. Lett., vol. 15, no. 6, pp. 8417-8423, 2018, doi: 10.3892/ol.2018.8370.</mixed-citation>
                    </ref>
                                    <ref id="ref18">
                        <label>18</label>
                        <mixed-citation publication-type="journal">[17] Tang, F., He, Z., Lei, H., Chen, Y., Lu, Z., Zeng, G., Wang, H., “Identification of differentially expressed genes and biological pathways in bladder cancer”, Molecular Medicine Reports, vol. 17, no. 5, pp 6425-6434, 2018, doi: 10.3892/mmr.2018.8711.</mixed-citation>
                    </ref>
                                    <ref id="ref19">
                        <label>19</label>
                        <mixed-citation publication-type="journal">[18] Mengual, L, Burset, M, Ars, E, et al., “DNA microarray expression profiling of bladder cancer allows identification of noninvasive diagnostic markers.”, J Urol., vol. 182, no. 2, pp. 741-748, 2009, doi: 10.1016/j.juro.2009.03.084.</mixed-citation>
                    </ref>
                                    <ref id="ref20">
                        <label>20</label>
                        <mixed-citation publication-type="journal">[19] Zhang, Z., Furge, K.A., Yang, X.J., The, B.T., and Hansel, D.E., “Comparative gene expression profiling analysis of urothelial carcinoma of the renal pelvis and bladder.”, BMC Med Genom,. Vol. 3, no. 58, 2010, doi: 10.1186/1755-8794-3-58.</mixed-citation>
                    </ref>
                                    <ref id="ref21">
                        <label>21</label>
                        <mixed-citation publication-type="journal">[20] Barrett, T, Wilhite, S.E., Ledoux, P, et al., “NCBI GEO: Archive for functional genomics data sets-Update”, Nucleic Acids Res., 41(D1), D991–D995, 2013, doi: 10.1093/nar/gks1193.</mixed-citation>
                    </ref>
                                    <ref id="ref22">
                        <label>22</label>
                        <mixed-citation publication-type="journal">[21] Bolstad, B.M., Irizarry, R.A., Astrand, M., and Speed, T.P., “A comparison of normalization methods for high density oligonucleotide array data based on variance and bias.”, Bioinformatics, vol. 19, no. 2, pp. 185–193, 2013, doi: 10.1093/bioinformatics/19.2.185.</mixed-citation>
                    </ref>
                                    <ref id="ref23">
                        <label>23</label>
                        <mixed-citation publication-type="journal">[22] Gentleman, R., Carey, V.J., Huber, W., Irizarry, R.A., Dudoit, S., and Smyth, G.K. LIMMA: Linear models for microarray data. In: Bioinformatics and Computational Biology Solutions Using R and Bioconductor., eds. Springer: New York, New York, USA. 2005, pp. 397–420.</mixed-citation>
                    </ref>
                                    <ref id="ref24">
                        <label>24</label>
                        <mixed-citation publication-type="journal">[23] Zhou, Y., Zhou, B., Pache, L., et al., “Metascape provides a biologist-oriented resource for the analysis of systems-level datasets.”, Nat Commun, 10, 1523, 2019, https://doi.org/10.1038/s41467-019-09234-6.</mixed-citation>
                    </ref>
                                    <ref id="ref25">
                        <label>25</label>
                        <mixed-citation publication-type="journal">[24] Gov, E., and Arga, K.Y., “Differential co-expression analysis reveals a novel prognostic gene module in ovarian cancer.”, Sci Rep., vol. 7, no. 4996, 2017, doi:10.1038/s41598-017-05298-w</mixed-citation>
                    </ref>
                                    <ref id="ref26">
                        <label>26</label>
                        <mixed-citation publication-type="journal">[25] Saito, R, Smoot, M.E., Ono, K., et al., “A travel guide to Cytoscape plugins.”, Nat Methods, vol. 9, pp. 1069-1076, 2012, doi: 10.1038/nmeth.2212.</mixed-citation>
                    </ref>
                                    <ref id="ref27">
                        <label>27</label>
                        <mixed-citation publication-type="journal">[26] Cline, M.S., Smoot, M., Cerami, E., et al., “Integration of biological networks and gene expression data using Cytoscape”, Nat Protoc, vol. 2, pp. 2366–2382, 2007, doi:10.1038/nprot.2007.324</mixed-citation>
                    </ref>
                                    <ref id="ref28">
                        <label>28</label>
                        <mixed-citation publication-type="journal">[27] Aguirre-Gamboa, R,, Gomez-Rueda, H., Martinez-Ledesma, E., et al., “SurvExpress: An online biomarker validation tool and database for cancer gene expression data using survival analysis.”, PLoS One, vol. 8,  e74250, 2013, doi:10.1371/journal.pone.0074250</mixed-citation>
                    </ref>
                                    <ref id="ref29">
                        <label>29</label>
                        <mixed-citation publication-type="journal">[28] Duan, Q., Reid, S.P., Clark, N.R., et al., “L1000CDS2: LINCSL1000 characteristic direction signatures search engine.”, NPJ Syst Biol Appl, vol. 2, no. 16015, 2016, doi:10.1038/npjsba.2016.15</mixed-citation>
                    </ref>
                                    <ref id="ref30">
                        <label>30</label>
                        <mixed-citation publication-type="journal">[29] Kompier, L.C., Lurkin, I., van der Aa, M.N.M., et al., “FGFR3, HRAS, KRAS, NRAS and PIK3CA mutations in bladder cancer and their potential as biomarkers for surveillance and therapy.” PLoS ONE, 5, vol. 11, e13821, 2010, doi: 10.1371/journal.pone.0013821.</mixed-citation>
                    </ref>
                                    <ref id="ref31">
                        <label>31</label>
                        <mixed-citation publication-type="journal">[30] Lai, W.T., Cheng, K.L., Baruchello, R., et al., “Hemiasterlin derivative (R)(S)(S)-BF65 and Akt inhibitor MK-2206 synergistically inhibit SKOV3 ovarian cancer cell growth.”, Biochem. Pharmacol., vol. 113, pp. 12–23, 2016, doi: 10.1016/j.bcp.2016.06.010.</mixed-citation>
                    </ref>
                                    <ref id="ref32">
                        <label>32</label>
                        <mixed-citation publication-type="journal">[31] Sathe, A., Guerth, F., Cronauer, M.V., et al., “Mutant PIK3CA controls DUSP1-dependent ERK 1/2 activity to confer response to AKT target therapy”, Br. J. Cancer, vol. 111, pp. 2103–2113, 2014, doi: 10.1038/bjc.2014.534.</mixed-citation>
                    </ref>
                                    <ref id="ref33">
                        <label>33</label>
                        <mixed-citation publication-type="journal">[32] Jonasch, E., Hasanov, E., Corn, P.G., et al., “A randomized phase 2 study of MK-2206 versus everolimus in refractory renal cell carcinoma.”, Ann Oncol., vol. 28, pp. 804–808, 2017, doi: 10.1093/annonc/mdw676.</mixed-citation>
                    </ref>
                                    <ref id="ref34">
                        <label>34</label>
                        <mixed-citation publication-type="journal">[33] Lee, E.K., Tan-Wasielewski, Z., Aghajanian, C. et al., “Results of an abbreviated phase II study of AKT inhibitor MK-2206 in the treatment of recurrent platinum-resistant high grade serous ovarian, fallopian tube, or primary peritoneal carcinoma (NCT 01283035)”, Gynecol Oncol Rep., vol. 32, no. 100546, 2020, doi: 10.1016/j.gore.2020.100546</mixed-citation>
                    </ref>
                                    <ref id="ref35">
                        <label>35</label>
                        <mixed-citation publication-type="journal">[34] Stover, E.H., Xiong, N., Myers, A.P., et al., “A phase II study of MK-2206, an AKT inhibitor, in uterine serous carcinoma.”, Gynecol Onc Rep., vol. 40, no. 100974, 2022, doi: 10.1016/j.gore.2022.100974.</mixed-citation>
                    </ref>
                                    <ref id="ref36">
                        <label>36</label>
                        <mixed-citation publication-type="journal">[35] Sun, D., Sawada, A., Nakashima, M., Kobayashi, T., Ogawa, O., and Matsui, Y., “MK2206 potentiates cisplatin-induced cytotoxicity and apoptosis through an interaction of inactivated Akt signaling pathway.”, Urol Oncol: Semin Orig., vol. 33, no. 3, e17-26, 2015, doi: 10.1016/j.urolonc.2014.10.018.</mixed-citation>
                    </ref>
                                    <ref id="ref37">
                        <label>37</label>
                        <mixed-citation publication-type="journal">[36] Sun, D, Wang, J, Zhang, H, et al., “MK2206 Enhances Cisplatin-Induced Cytotoxicity and Apoptosis in Testicular Cancer Through Akt Signaling Pathway Inhibition.”, Transl Oncol., vol. 13, no. 100769, 2020, doi: 10.1016/j.tranon.2020.100769.</mixed-citation>
                    </ref>
                                    <ref id="ref38">
                        <label>38</label>
                        <mixed-citation publication-type="journal">[37] Wang, J., Li, Z., Lin, Z., et al., “17-DMCHAG, a new geldanamycin derivative, inhibits prostate cancer cells through Hsp90 inhibition and survivin downregulation.”, Cancer Lett., vol. 362, pp. 83-96, 2015, doi: 10.1016/j.canlet.2015.03.025.</mixed-citation>
                    </ref>
                                    <ref id="ref39">
                        <label>39</label>
                        <mixed-citation publication-type="journal">[38] Zeynali-Moghaddam, S., Mohammadian, M., Kheradmand, F., et al., “A molecular basis for the synergy between 17‑allylamino‑17‑demethoxy geldanamycin with Capecitabine and Irinotecan in human colorectal cancer cells through VEFG and MMP-9 gene expression.”, Gene, vol. 684, pp. 30–38, 2019, doi: 10.1016/j.gene.2018.10.016.</mixed-citation>
                    </ref>
                                    <ref id="ref40">
                        <label>40</label>
                        <mixed-citation publication-type="journal">[39] Liew, H.Y., Tan, X.Y., Chan, H.H., Khaw, K.Y., and Ong, Y.S., “Natural HSP90 inhibitors as a potential therapeutic intervention in treating cancers: A comprehensive review.”, Pharmacol Res., vol. 181, no. 106260, 2022, doi: 10.1016/j.phrs.2022.106260.</mixed-citation>
                    </ref>
                                    <ref id="ref41">
                        <label>41</label>
                        <mixed-citation publication-type="journal">[40] Parma, B., Wurdak, H., and Ceppi, P., “Harnessing mitochondrial metabolism and drug resistance in non-small cell lung cancer and beyond by blocking heat-shock proteins.”, Drug Resist Updat., vol. 65, no. 100888, 2022, doi: 10.1016/j.drup.2022.100888.</mixed-citation>
                    </ref>
                                    <ref id="ref42">
                        <label>42</label>
                        <mixed-citation publication-type="journal">[41] Germano, S, Barberis, D, Santoro, M.M., et al., “Geldanamycins trigger a novel ron degradative pathway, hampering oncogenic signaling.”, J Biol Chem., vol. 281, no. 31, pp. 21710-21719, 2006, doi:10.1074/jbc.M602014200</mixed-citation>
                    </ref>
                                    <ref id="ref43">
                        <label>43</label>
                        <mixed-citation publication-type="journal">[42] Karkoulis, P.K., Stravopodis, D.J., Konstantakou, E.G., andVoutsinas, G.E., “Targeted inhibition of heat shock protein 90 disrupts multiple oncogenic signaling pathways, thus inducing cell cycle arrest and programmed cell death in human urinary bladder cancer cell lines.”, Cancer Cell Int., vol. 13, no. 11, 2013, doi.org/10.1186/1475-2867-13-11</mixed-citation>
                    </ref>
                                    <ref id="ref44">
                        <label>44</label>
                        <mixed-citation publication-type="journal">[43] Tang, Y., Zhou, Y., Fan, S., Wen, Q., “The multiple roles and therapeutic potential of HSP60 in cancer.”, Biochem Pharmacol., vol. 201, no. 115096, 2022, https://doi.org/10.1016/j.bcp.2022.115096</mixed-citation>
                    </ref>
                                    <ref id="ref45">
                        <label>45</label>
                        <mixed-citation publication-type="journal">[44] Dockx, Y, Vangestel, C, Van den Wyngaert, T., et al., “Early changes in [18F]FDG Uptake as a readout for PI3K/Akt/mTOR targeted drugs in HER-2-positive cancer xenografts.”, Mol Imaging., pp. 1-14, 2021, doi: 10.1155/2021/5594514.</mixed-citation>
                    </ref>
                                    <ref id="ref46">
                        <label>46</label>
                        <mixed-citation publication-type="journal">[45] Tong, Z., Sathe, A., Ebner, B., et al., “Functional genomics identifies predictive markers and clinically actionable resistance mechanisms to CDK4/6 inhibition in bladder cancer.” J Exp Clin Cancer Res., vol. 38, no. 322, 2019, doi.org/10.1186/s13046-019-1322-9.</mixed-citation>
                    </ref>
                                    <ref id="ref47">
                        <label>47</label>
                        <mixed-citation publication-type="journal">[46] Sathe, A., Chalaud, G., Oppolzer, I., et al., “Parallel PI3K, AKT and mTOR inhibition is required to control feedback loops that limit tumor therapy.”, PloS one, 13, 1, e0190854, 2018, doi: 10.1371/journal.pone.0190854.</mixed-citation>
                    </ref>
                                    <ref id="ref48">
                        <label>48</label>
                        <mixed-citation publication-type="journal">[47] Le, V.K.H., Pham, T.P.D., and Truong, D.H., “Delivery systems for vorinostat in cancer treatment: An updated review.”, J Drug Deliv Sci Technol., vol. 61, no. 102334, 2021, https://doi.org/10.1016/j.jddst.2021.102334</mixed-citation>
                    </ref>
                                    <ref id="ref49">
                        <label>49</label>
                        <mixed-citation publication-type="journal">[48] Ma, X., Wang, J., Lıu, J., et al., “Targeting CD146 in combination with vorinostat for the treatment of ovarian cancer cells.” Oncol Lett., vol. 13, pp. 1681-1687, 2017, doi: 10.3892/ol.2017.5630</mixed-citation>
                    </ref>
                                    <ref id="ref50">
                        <label>50</label>
                        <mixed-citation publication-type="journal">[49] Okubo, K., Isono, M., Miyai, K., Asano, T., and Sato, A., “Fluvastatin potentiates anticancer activity of vorinostat in renal cancer cells.”, Cancer Sci., vol. 111, no. 1, pp. 112-126, 2020, doi: 10.1111/cas.14225.</mixed-citation>
                    </ref>
                                    <ref id="ref51">
                        <label>51</label>
                        <mixed-citation publication-type="journal">[50] Wawruszak, A., Borkiewicz, L., Okon, E., Kukula-Koch, W., Afshan, S., and Halasa, M., “Vorinostat (SAHA) and breast cancer: An overview.”, Cancers, vol. 13, no. 18, 2021, doi: 10.3390/cancers13184700.</mixed-citation>
                    </ref>
                                    <ref id="ref52">
                        <label>52</label>
                        <mixed-citation publication-type="journal">[51] Wang, D., Ouyang, S., Tian, Y., et al., “Intravesical treatment with Vorinostat can prevent tumor progression in MNU induced bladder cancer.”, J Cancer Ther., vol. 4, no 6, 2013, DOI: 10.4236/jct.2013.46A3001.</mixed-citation>
                    </ref>
                                    <ref id="ref53">
                        <label>53</label>
                        <mixed-citation publication-type="journal">[52] Kaletsch, A, Pinkerneil, M., Hoffmann, M.J., et al., “Effects of novel HDAC inhibitors on urothelial carcinoma cells.”, Clin Epigenetics., vol. 10, no. 100,  2018, https://doi.org/10.1186/s13148-018-0531-y.</mixed-citation>
                    </ref>
                                    <ref id="ref54">
                        <label>54</label>
                        <mixed-citation publication-type="journal">[53] Quinn, D.I., Tsao-Wei, D.D., Twardowski, P., et al., “Phase II study of the histone deacetylase inhibitor vorinostat (Suberoylanilide Hydroxamic Acid; SAHA) in recurrent or metastatic transitional cell carcinoma of the urothelium – an NCI-CTEP sponsored: California Cancer Consortium trial, NCI 6879.,” Investig New Drugs., no. 39, pp. 812-820, 2021, doi: 10.1007/s10637-020-01038-6.</mixed-citation>
                    </ref>
                                    <ref id="ref55">
                        <label>55</label>
                        <mixed-citation publication-type="journal">[54] Bekele, R.T., Samant, A.S., Nassar, A.H., “RAF1 amplification drives a subset of bladder tumors and confers sensitivity to MAPK-directed therapeutics.”, J Clin Invest., vol. 131, no. 22, 2021, doi: 10.1172/JCI147849.</mixed-citation>
                    </ref>
                                    <ref id="ref56">
                        <label>56</label>
                        <mixed-citation publication-type="journal">[55] Chen, Z., Zhao, Y., Tian, Y., Cao, R., Shang, D., “Pan-cancer analysis of the TRP family, especially TRPV4 and TRPC4, and its expression correlated with prognosis, tumor microenvironment, and treatment sensitivity.” Biomolecules, vol. 13, no. 282, 2023, doi: 10.3390/biom13020282.</mixed-citation>
                    </ref>
                                    <ref id="ref57">
                        <label>57</label>
                        <mixed-citation publication-type="journal">[56] Wang, L., de Oliveira, R.L., Huijberts, et al., “An acquired vulnerability of drug-resistant melanoma with therapeutic potential.” Cell., vol. 173, pp. 1413-1425, 2018, doi: 10.1016/j.cell.2018.04.012.</mixed-citation>
                    </ref>
                                    <ref id="ref58">
                        <label>58</label>
                        <mixed-citation publication-type="journal">[57] Capone, E., Lamolinara, A., D&#039;Agostino, D., et al., “EV20-mediated delivery of cytotoxic auristatin MMAF exhibits potent therapeutic efficacy in cutaneous melanoma.” J Control Release., vol. 277, pp. 48-56, 2018, doi: 10.1016/j.jconrel.2018.03.016.</mixed-citation>
                    </ref>
                                    <ref id="ref59">
                        <label>59</label>
                        <mixed-citation publication-type="journal">[58] Rohde, S., Lindner, T., Polei, S., et al., “Application of in vivo imaging techniques to monitor therapeutic efficiency of PLX4720 in an experimental model of microsatellite instable colorectal cancer.”, Oncotarget., vol. 8, no. 41, pp.  69756-69767, 2017, doi: 10.18632/oncotarget.19263.</mixed-citation>
                    </ref>
                                    <ref id="ref60">
                        <label>60</label>
                        <mixed-citation publication-type="journal">[59] Pili, R., Salumbides, B., Zhao, M., et al., “Phase I study of the histone deacetylase inhibitor entinostat in combination with 13-cis retinoic acid in patients with solid tumours.” Br J Cancer., vol. 106, no. 1, pp. 77-84, 2012, doi: 10.1038/bjc.2011.527.</mixed-citation>
                    </ref>
                                    <ref id="ref61">
                        <label>61</label>
                        <mixed-citation publication-type="journal">[60] Truong, A.S., Zhou, M., Krishnan, B., et al., “Entinostat induces antitumor immune responses through immune editing of tumor neoantigens.” J Clin Invest., vol. 131, no. 6, 2021, doi: 10.1172/JCI138560.</mixed-citation>
                    </ref>
                                    <ref id="ref62">
                        <label>62</label>
                        <mixed-citation publication-type="journal">[61] Wang, C., Hamacher, A., Petzsch, P., et al., “Combination of Decitabine and Entinostat synergistically inhibits urothelial bladder cancer cells via activation of FoxO1.”, Cancers, vol. 12, no. 2, 2020, doi: 10.3390/cancers12020337.</mixed-citation>
                    </ref>
                                    <ref id="ref63">
                        <label>63</label>
                        <mixed-citation publication-type="journal">[62] Leblond, M., Zdimerova, H., Desponds, E., Verdeil, G., “Tumor-Associated Macrophages in Bladder Cancer: Biological Role, Impact on Therapeutic Response and Perspectives for Immunotherapy.”, Cancers, vol. 13, no. 18, 2021, doi: 10.3390/cancers13184712.</mixed-citation>
                    </ref>
                                    <ref id="ref64">
                        <label>64</label>
                        <mixed-citation publication-type="journal">[63] Cui, J., Sun, W., Hao, X., et al., “EHMT2 inhibitor BIX-01294 induces apoptosis through PMAIP1-USP9X-MCL1 axis in human bladder cancer cells.”, Cancer Cell Int., vol. 15, no. 4, 2015, doi: 10.1186/s12935-014-0149-x.</mixed-citation>
                    </ref>
                                    <ref id="ref65">
                        <label>65</label>
                        <mixed-citation publication-type="journal">[64] Cao, Y., Sun, J., Li, M., et al., “Inhibition of G9a by a small molecule inhibitor, UNC0642, induces apoptosis of human bladder cancer cells.”, Acta Pharmacol Sin., vol. 40, pp. 1076-1084, 2019, 
doi:10.1038/s41401-018-0205-5</mixed-citation>
                    </ref>
                                    <ref id="ref66">
                        <label>66</label>
                        <mixed-citation publication-type="journal">[65] Yang, Z., Wang, H., Zhang, N., et al., “Chaetocin Abrogates the self-renewal of bladder cancer stem cells via the suppression of the KMT1A–GATA3–STAT3 circuit.”, Front. Cell Dev. Biol., vol. 8, no. 424, 2020, doi: 10.3389/fcell.2020.00424.</mixed-citation>
                    </ref>
                                    <ref id="ref67">
                        <label>67</label>
                        <mixed-citation publication-type="journal">[66] Li F, Zeng J, Gao Y, Guan Z, Ma Z, Shi Q, et al., “G9a Inhibition Induces Autophagic Cell Death via AMPK/mTOR Pathway in Bladder Transitional Cell Carcinoma.”, PLoS ONE, vol. 10, no. 9, 2015, doi:10.1371/journal.pone.0138390.</mixed-citation>
                    </ref>
                                    <ref id="ref68">
                        <label>68</label>
                        <mixed-citation publication-type="journal">[67] Mourits, V.P., van Puffelen, J.H., Novakovic, B., et al., “Lysine methyltransferase G9a is an important modulator of trained immunity.”, Clin Trans Immunol., vol. 10, 2021, doi: 10.1002/cti2.1253.</mixed-citation>
                    </ref>
                                    <ref id="ref69">
                        <label>69</label>
                        <mixed-citation publication-type="journal">[68] Cirone, P., Andresen, C.J., Eswaraka, J.R., Lappin, P.B., and Bagi, C.M., “Patient derived xenografts reveal limits to PI3K/mTOR and MEK mediated inhibition of bladder cancer.”, Cancer Chemother Pharmacol., vol. 73, pp. 525-538, 2014, doi: 10.1007/s00280-014-2376-1.</mixed-citation>
                    </ref>
                                    <ref id="ref70">
                        <label>70</label>
                        <mixed-citation publication-type="journal">[69] Sim, W.J., Iyengar, P.V., Lama, D., et al., “c-Met activation leads to the establishment of a TGFβ-receptor regulatory network in bladder cancer progression.”, Nat Commun., vol. 10, no. 1, 2019, doi: 10.1038/s41467-019-12241-2.</mixed-citation>
                    </ref>
                                    <ref id="ref71">
                        <label>71</label>
                        <mixed-citation publication-type="journal">[70] Zhang, Y., Zhang, Y., Lı, M., et al., “Combination of SB431542, CHIR99021 and PD0325901 has a synergic effect on abrogating valproic acid‑induced epithelial‑mesenchymal transition and stemness in HeLa, 5637 and SCC‑15 cells.”, Oncol Rep., vol. 41, pp. 3545-3554, 2019, doi: 10.3892/or.2019.7088.</mixed-citation>
                    </ref>
                                    <ref id="ref72">
                        <label>72</label>
                        <mixed-citation publication-type="journal">[71] Campagne, O., Yeo, K.K., Fangusaro, J., Stewart, C.F., “Clinical pharmacokinetics and pharmacodynamics of Selumetinib.”, Clin pharmacokinet., vol. 60, no. 3, pp. 283-303, 2021, doi: 10.1007/s40262-020-00967-y.</mixed-citation>
                    </ref>
                                    <ref id="ref73">
                        <label>73</label>
                        <mixed-citation publication-type="journal">[72] LoRusso, P.M., Infante, J.R., Kim, KB, et al., “A phase I dose-escalation study of selumetinib in combination with docetaxel or dacarbazine in patients with advanced solid tumors.”, BMC Cancer., vol. 17, no. 173, 2017, doi: 10.1186/s12885-017-3143-6.</mixed-citation>
                    </ref>
                                    <ref id="ref74">
                        <label>74</label>
                        <mixed-citation publication-type="journal">[73] Schulz, G.B., Elezkurtaj, S., Börding, T., et al., “Therapeutic and prognostic implications of NOTCH and MAPK signaling in bladder cancer.”, Cancer Sci., vol. 112, pp. 1987-1996, 2021, doi: 10.1111/cas.14878</mixed-citation>
                    </ref>
                                    <ref id="ref75">
                        <label>75</label>
                        <mixed-citation publication-type="journal">[74] Kinoshita, Y., Yoshizawa, K., Hamazaki, K., et al., “Dietary effects of mead acid on N-methyl-N-nitrosourea-induced mammary cancers in female Sprague-Dawley rats.”, Biomed Rep., vol. 4, pp. 33-39, 2016, doi: 10.3892/br.2015.530.</mixed-citation>
                    </ref>
                                    <ref id="ref76">
                        <label>76</label>
                        <mixed-citation publication-type="journal">[75] Kinoshita Y, Yoshizawa K, Hamazaki K, et al., “Mead acid inhibits the growth of KPL-1 human breast cancer cells in vitro and in vivo.”, Oncol Rep., vol. 32, pp. 1385-1394, 2014, DOI: 10.3892/or.2014.3390.</mixed-citation>
                    </ref>
                                    <ref id="ref77">
                        <label>77</label>
                        <mixed-citation publication-type="journal">[76] Farag, M.A., and Gad, M.Z., “Omega‑9 fatty acids: potential roles in inflammation and cancer management.”, J Genet Eng Biotechnol., vol. 20, no. 48, 2022, doi: 10.1186/s43141-022-00329-0.</mixed-citation>
                    </ref>
                                    <ref id="ref78">
                        <label>78</label>
                        <mixed-citation publication-type="journal">[77] Kang, C., Kim, J.S., Kim, C.Y., Kim, E.Y., and Chung, H.M., “The pharmacological inhibition of ERK5 enhances apoptosis in acute myeloid leukemia cells.”, Int J Stem Cells, vol. 11, no. 2, pp. 227-234, 2018, doi: 10.15283/ijsc18053.</mixed-citation>
                    </ref>
                                    <ref id="ref79">
                        <label>79</label>
                        <mixed-citation publication-type="journal">[78] Rovida, E., Di Maira, G., Tusa, I., et al., “The mitogen-activated protein kinase ERK5 regulates the development and growth of hepatocellular carcinoma.”, Eur J Cancer., vol. 64, no. 9, pp. 1454-1465, 2015, doi: 10.1136/gutjnl-2014-306761.</mixed-citation>
                    </ref>
                                    <ref id="ref80">
                        <label>80</label>
                        <mixed-citation publication-type="journal">[79] Sureban, S.M., Maya, R., Weygant, N., et al., “XMD8-92 inhibits pancreatic tumor xenograft growth via a DCLK1-dependent mechanism.”, Cancer Lett., vol. 351, pp. 151-161, 2014, doi: 10.1016/j.canlet.2014.05.011.</mixed-citation>
                    </ref>
                                    <ref id="ref81">
                        <label>81</label>
                        <mixed-citation publication-type="journal">[80] Yang, Q., Deng, X., Lu, B., et al., “Pharmacological inhibition of BMK1 suppresses tumor growth through PML.” Cancer Cell., vol. 18, no. 3, pp. 258-267, 2010, doi: 10.1016/j.ccr.2010.08.008.</mixed-citation>
                    </ref>
                            </ref-list>
                    </back>
    </article>
