Leukemia-initiating HSCs in chronic lymphocytic leukemia reveal clonal leukemogenesis and differential drug sensitivity

Authors: Chiang, Chi-Ling, Hu, Eileen Y., Chang, Lingqian, Labanowska, Jadwiga, Zapolnik, Kevan, Mo, Xiaokui, Shi, Junfeng, Doong, Tzyy-Jye, Lozanski, Arletta, Yan, Pearlly S., Bundschuh, Ralf, Walker, Logan A., Gallego-Perez, Daniel, Lu, Wu, Long, Meixiao, Kim, Sanggu, Heerema, Nyla A., Lozanski, Gerard, Woyach, Jennifer A., Byrd, John C., Lee, Ly James, Muthusamy, Natarajan

Source: In Cell Reports 19 July 2022 40(3)

Dietary omega-3 fatty acid intake impacts peripheral blood DNA methylation -anti-inflammatory effects and individual variability in a pilot study

Authors: Frankhouser, David E, Steck, Sarah, Sovic, Michael G, Belury, Martha A, Wang, Qianben, Clinton, Steven K, Bundschuh, Ralf, Yan, Pearlly S, Yee, Lisa D

Source: In The Journal of Nutritional Biochemistry January 2022 99

Targeting OCT3 attenuates doxorubicin-induced cardiac injury

Authors: Huang, Kevin M., Thomas, Megan Zavorka, Magdy, Tarek, Eisenmann, Eric D., Uddin, Muhammad Erfan, DiGiacomo, Duncan F., Pan, Alexander, Keiser, Markus, Otter, Marcus, Xia, Sherry H., Li, Yang, Jin, Yan, Fu, Qiang, Gibson, Alice A., Bonilla, Ingrid M., Carnes, Cynthia A., Corps, Kara N., Coppola, Vincenzo, Smith, Sakima A., Addison, Daniel, Nies, Anne T., Bundschuh, Ralf, Chen, Taosheng, Lustberg, Maryam B., Wang, Joanne, Oswald, Stefan, Campbell, Moray J., Yan, Pearlly S., Baker, Sharyn D., Hu, Shuiying, Burridge, Paul W., Sparreboom, Alex

Source: Proceedings of the National Academy of Sciences of the United States of America, 2021 Feb 01. 118(5), 1-9.

Access URL: https://www.jstor.org/stable/27006166

ROR1-targeted delivery of miR-29b induces cell cycle arrest and therapeutic benefit in vivo in a CLL mouse model

Authors: Chiang, Chi-Ling, Goswami, Swagata, Frissora, Frank W., Xie, Zhiliang, Yan, Pearlly S., Bundschuh, Ralf, Walker, Logan A., Huang, Xiaomeng, Mani, Rajeswaran, Mo, Xiaokui M., Baskar, Sivasubramanian, Rader, Christoph, Phelps, Mitch A., Marcucci, Guido, Byrd, John C., Lee, L. James, Muthusamy, Natarajan ^*

Source: In Blood 1 August 2019 134(5):432-444

Diverse AR-V7 cistromes in castration-resistant prostate cancer are governed by HoxB13

Authors: Chen, Zhong, Wu, Dayong, Thomas-Ahner, Jennifer M., Lu, Changxue, Zhao, Pei, Zhang, Qingfu, Geraghty, Connor, Yan, Pearlly S., Hankey, William, Sunkel, Benjamin, Cheng, Xiaolong, Antonarakis, Emmanuel S., Wang, Qi-En, Liu, Zhihua, Huang, Tim H.-M., Jin, Victor X., Clinton, Steven K., Luo, Jun, Huang, Jiaoti, Wang, Qianben

Source: Proceedings of the National Academy of Sciences of the United States of America, 2018 Jun . 115(26), 6810-6815.

Access URL: https://www.jstor.org/stable/26510819

TET1 reprograms the epithelial ovarian cancer epigenome and reveals casein kinase 2α as a therapeutic target

Authors: Chen, Lin‐Yu, Huang, Rui‐Lan, Chan, Michael WY, Yan, Pearlly S, Huang, Tien‐Shuo, Wu, Ren‐Chin, Suryo Rahmanto, Yohan, Su, Po‐Hsuan, Weng, Yu‐Chun, Chou, Jian‐Liang, Chao, Tai‐Kuang, Wang, Yu‐Chi, Shih, Ie‐Ming, Lai, Hung‐Cheng

Source: Journal of pathology. 248(3):363-376

Availability: http://explore.bl.uk/primo_library/libweb/action/display.do?tabs=detailsTab&gathStatTab=true&ct=display&fn=search&doc=ETOCvdc_100084202302.0x000001&indx=1&recIds=ETOCvdc_100084202302.0x000001

Chromatin Immunoprecipitation Microarrays for Identification of Genes Silenced by Histone H3 Lysine 9 Methylation

Authors: Kondo, Yutaka, Shen, Lanlan, Yan, Pearlly S., Huang, Tim Hui-Ming, Issa, Jean-Pierre J., Jaenisch, Rudolf

Source: Proceedings of the National Academy of Sciences of the United States of America, 2004 May 01. 101(19), 7398-7403.

Access URL: https://www.jstor.org/stable/3371877

Expression and prognostic impact of IncRNAs in acute myeloid leukemia

Authors: Garzón, Ramiro, Volinia, Stefano, Papaioannou, Dimitrios, Nicolet, Deedra, Kohlschmidt, Jessica, Yan, Pearlly S., Mrózek, Krzysztof, Bucci, Donna, Carroll, Andrew J., Baer, Maria R., Wetzler, Meir, Carter, Thomas H., Powell, Bayard L, Kolitz, Jonathan E., Moore, Joseph O., Eisfeld, Ann-Kathrin, Blachly, James S., Blum, William, Caligiuri, Michael A., Stone, Richard M., Marcucci, Guido, Croce, Carlo M., Byrd, John C., Bloomfield, Clara D.

Source: Proceedings of the National Academy of Sciences of the United States of America, 2014 Dec . 111(52), 18679-18684.

Access URL: https://www.jstor.org/stable/43278904

A new method for stranded whole transcriptome RNA-seq

Authors: Miller, David F.B., Yan, Pearlly S., Buechlein, Aaron, Rodriguez, Benjamin A., Yilmaz, Ayse S., Goel, Shokhi, Lin, Hai, Collins-Burow, Bridgette, Rhodes, Lyndsay V., Braun, Chris, Pradeep, Sunila, Rupaimoole, Rajesha, Dalkilic, Mehmet, Sood, Anil K., Burow, Matthew E., Tang, Haixu, Huang, Tim H., Liu, Yunlong, Rusch, Douglas B., Nephew, Kenneth P.

Source: In Methods 15 September 2013 63(2):126-134

Amplification of Distant Estrogen Response Elements Deregulates Target Genes Associated with Tamoxifen Resistance in Breast Cancer

Authors: Hsu, Pei-Yin, Hsu, Hang-Kai, Lan, Xun, Juan, Liran, Yan, Pearlly S., Labanowska, Jadwiga, Heerema, Nyla, Hsiao, Tzu-Hung, Chiu, Yu-Chiao, Chen, Yidong, Liu, Yunlong, Li, Lang, Li, Rong, Thompson, Ian M., Nephew, Kenneth P., Sharp, Zelton D., Kirma, Nameer B., Jin, Victor X., Huang, Tim H.-M.

Source: In Cancer Cell 12 August 2013 24(2):197-212

Bacteria pathogens drive host colonic epithelial cell promoter hypermethylation of tumor suppressor genes in colorectal cancer

Authors: Xia, Xiaoxuan, Wu, William Ka Kei, Wong, Sunny Hei, Liu, Dabin, Kwong, Thomas Ngai Yeung, Nakatsu, Geicho, Yan, Pearlly S., Chuang, Yu-Ming, Chan, Michael Wing-Yan, Coker, Olabisi Oluwabukola, Chen, Zigui, Yeoh, Yun Kit, Zhao, Liuyang, Wang, Xiansong, Cheng, Wing Yin, Chan, Matthew Tak Vai, Chan, Paul Kay Sheung, Sung, Joseph Jao Yiu, Wang, Maggie Haitian, Yu, Jun

Source: Microbiome. 8(1)

Availability: http://explore.bl.uk/primo_library/libweb/action/display.do?tabs=detailsTab&gathStatTab=true&ct=display&fn=search&doc=ETOCvdc_100172401713.0x000001&indx=1&recIds=ETOCvdc_100172401713.0x000001

Tcl1 protein functions as an inhibitor of de novo DNA methylation in B-cell chronic lymphocytic leukemia (CLL)

Authors: Palamarchuk, Alexey, Yan, Pearlly S., Zanesi, Nicola, Wang, Linan, Rodrigues, Benjamin, Murphy, Mark, Balatti, Veronica, Bottoni, Arianna, Nazaryan, Natalya, Alder, Hansjuerg, Rassenti, Laura, Kipps, Thomas J., Freitas, Michael, Croce, Carlo M., Pekarsky, Yuri

Source: Proceedings of the National Academy of Sciences of the United States of America, 2012 Feb . 109(7), 2555-2560.

Access URL: https://www.jstor.org/stable/41477511

RANK (TNFRSF11A) Is Epigenetically Inactivated and Induces Apoptosis in Gliomas

Authors: von dem Knesebeck, Anna, Felsberg, Jörg, Waha, Anke, Hartmann, Wolfgang, Scheffler, Björn, Glas, Martin, Hammes, Jennifer, Mikeska, Thomas, Yan, Pearlly S., Endl, Elmar, Simon, Matthias, Reifenberger, Guido, Pietsch, Torsten, Waha, Andreas

Source: In Neoplasia June 2012 14(6):526

Promoter hypermethylation of FBXO32, a novel TGF-β/SMAD4 target gene and tumor suppressor, is associated with poor prognosis in human ovarian cancer

Authors: Chou, Jian-Liang, Su, Her-Young, Chen, Lin-Yu, Liao, Yu-Ping, Hartman-Frey, Corinna, Lai, Yi-Hui, Yang, Hui-Wen, Deatherage, Daniel E, Kuo, Chieh-Ti, Huang, Yi-Wen, Yan, Pearlly S, Hsiao, Shu-Huei, Tai, Chien-Kuo, Lin, Huey-Jen L, Davuluri, Ramana V, Chao, Tai-Kuang, Nephew, Kenneth P, Huang, Tim H-M, Lai, Hung-Cheng, Chan, Michael W-Y

Source: In Laboratory Investigation March 2010 90(3):414-425

Aberrant TGFβ/SMAD4 signaling contributes to epigenetic silencing of a putative tumor suppressor, RunX1T1 in ovarian cancer

Authors: Yeh, Kun-Tu, Chen, Tze-Ho, Yang, Hui-Wen, Chou, Jian-Liang, Chen, Lin-Yu, Yeh, Chia-Ming, Chen, Yu-Hsin, Lin, Ru-Inn, Su, Her-Young, Chen, Gary C.-W., Deatherage, Daniel E., Huang, Yi-Wen, Yan, Pearlly S., Lin, Huey-Jen, Nephew, Kenneth P., Huang, Tim H.-M., Lai, Hung-Cheng, Chan, Michael W.Y.

Source: Epigenetics. 6(6):727-739

Availability: http://explore.bl.uk/primo_library/libweb/action/display.do?tabs=detailsTab&gathStatTab=true&ct=display&fn=search&doc=ETOCvdc_100056844444.0x000001&indx=1&recIds=ETOCvdc_100056844444.0x000001

FuSpot: a web-based tool for visual evaluation of fusion candidates

Authors: Killian, Jackson A., Topiwala, Taha M., Pelletier, Alex R., Frankhouser, David E., Yan, Pearlly S., Bundschuh, Ralf

Source: BMC genomics. 19(1)

Availability: http://explore.bl.uk/primo_library/libweb/action/display.do?tabs=detailsTab&gathStatTab=true&ct=display&fn=search&doc=ETOCvdc_100127150652.0x000001&indx=1&recIds=ETOCvdc_100127150652.0x000001

Aberrant Transforming Growth Factor β1 Signaling and SMAD4 Nuclear Translocation Confer Epigenetic Repression of ADAM19 in Ovarian Cancer

Authors: Chan, Michael W.Y., Huang, Yi-Wen, Hartman-Frey, Corinna, Kuo, Chieh-Ti, Deatherage, Daniel, Qin, Huaxia, Cheng, Alfred S.L., Yan, Pearlly S., Davuluri, Ramana V., Huang, Tim H.-M., Nephew, Kenneth P., Lin, Huey-Jen L.

Source: In Neoplasia September 2008 10(9):908

T-bet Binding to Newly Identified Target Gene Promoters Is Cell Type-independent but Results in Variable Context-dependent Functional Effects

Authors: Beima, Kristin M., Miazgowicz, Michael M., Lewis, Megan D., Yan, Pearlly S., Huang, Tim H-M., Weinmann, Amy S.

Source: In Journal of Biological Chemistry 28 April 2006 281(17):11992-12000

Combinatorial Analysis of Transcription Factor Partners Reveals Recruitment of c-MYC to Estrogen Receptor-α Responsive Promoters

Authors: Cheng, Alfred S.L., Jin, Victor X., Fan, Meiyun, Smith, Laura T., Liyanarachchi, Sandya, Yan, Pearlly S., Leu, Yu-Wei, Chan, Michael W.Y., Plass, Christoph, Nephew, Kenneth P., Davuluri, Ramana V., Huang, Tim H.-M.

Source: In Molecular Cell 2006 21(3):393-404

High-throughput methylation profiling by MCA coupled to CpG island microarray.

Authors: Estécio, Marcos R. H., Yan, Pearlly S., Ibrahim, Ashraf E. K.

Source: Genome Research; October 2007, Vol. 17 Issue 10, p1529-1536, 8p