gghic: A Versatile R Package for Exploring and Visualizing 3D Genome Organization

Authors: Jiang, Minghao, Jing, Duohui, Wong, Jason W. H.

Subject Terms: Quantitative Biology - Genomics

Access URL: http://arxiv.org/abs/2412.03005

Hematopoietic stem cell quiescence and DNA replication dynamics maintained by the resilient β-catenin/Hoxa9/Prmt1 axis

Authors: Lynch, Jennifer, Troadec, Estelle, Fung, Tsz Kan, Gladysz, Kornelia, Virely, Clemence, Lau, Priscilla Nga Ieng, Cheung, Ngai, Zeisig, Bernd, Wong, Jason W. H., Lopes, Massimo, Huang, Suming, So, Chi Wai Eric

Source: In Blood 18 April 2024 143(16):1586-1598

Genome-wide transcription factor–binding maps reveal cell-specific changes in the regulatory architecture of human HSPCs

Authors: Subramanian, Shruthi, Thoms, Julie A. I., Huang, Yizhou, Cornejo-Páramo, Paola, Koch, Forrest C., Jacquelin, Sebastien, Shen, Sylvie, Song, Emma, Joshi, Swapna, Brownlee, Chris, Woll, Petter S., Chacon-Fajardo, Diego, Beck, Dominik, Curtis, David J., Yehson, Kenneth, Antonenas, Vicki, O'Brien, Tracey, Trickett, Annette, Powell, Jason A., Lewis, Ian D., Pitson, Stuart M., Gandhi, Maher K., Lane, Steven W., Vafaee, Fatemeh, Wong, Emily S., Göttgens, Berthold, Alinejad-Rokny, Hamid, Wong, Jason W. H., Pimanda, John E.

Source: In Blood 26 October 2023 142(17):1448-1462

Developing a named entity framework for thyroid cancer staging and risk level classification using large language models.

Authors: Fung, Matrix M. H., Tang, Eric H. M., Wu, Tingting, Luk, Yan, Au, Ivan C. H., Liu, Xiaodong, Lee, Victor H. F., Wong, Chun Ka, Wei, Zhili, Cheng, Wing Yiu, Tai, Isaac C. Y., Ho, Joshua W. K., Wong, Jason W. H., Lang, Brian H. H., Leung, Kathy S. M., Wong, Zoie S. Y., Wu, Joseph T., Wong, Carlos K. H.

Source: NPJ Digital Medicine; 3/1/2025, Vol. 8 Issue 1, p1-11, 11p

Subject Terms: RISK assessment, THYROID gland tumors, RESEARCH funding, NATURAL language processing, CONCEPTUAL structures, TUMOR classification, DISEASE risk factors

Poor mobilization of autologous CD34+ peripheral blood stem cells in haematology patients undergoing autologous stem cell transplantation is associated with the presence of variants in genes implicated in clonal haematopoiesis of indeterminant potential

Authors: Gifford, Grace, Hesson, Luke, Wong, Jason W. H., Carroll, Adam, Gabrielli, Sara, Bai, LiJun, Xia, Wei, Stevenson, William, Greenwood, Matthew

Source: British journal of haematology. 193(4):841-844

Availability: http://explore.bl.uk/primo_library/libweb/action/display.do?tabs=detailsTab&gathStatTab=true&ct=display&fn=search&doc=ETOCvdc_100128758805.0x000001&indx=1&recIds=ETOCvdc_100128758805.0x000001

Proteogenomic interrogation of cancer cell lines: an overview of the field

Authors: Tsang, Olson, Wong, Jason W. H.

Source: Expert review of proteomics. 18(3):221-232

Availability: http://explore.bl.uk/primo_library/libweb/action/display.do?tabs=detailsTab&gathStatTab=true&ct=display&fn=search&doc=ETOCvdc_100120691668.0x000001&indx=1&recIds=ETOCvdc_100120691668.0x000001

Assessing the Evolutionary Conservation of Protein Disulphide Bonds

Authors: Wong, Jason W. H.

Source: Methods in molecular biology. 1967:9-20

Availability: http://explore.bl.uk/primo_library/libweb/action/display.do?tabs=detailsTab&gathStatTab=true&ct=display&fn=search&doc=ETOCRN620223989&indx=1&recIds=ETOCRN620223989

Gene expression is a poor predictor of steady‐state metabolite abundance in cancer cells

Authors: Li, Huaping, Barbour, Jayne A., Zhu, Xiaoqiang, Wong, Jason W. H.

Source: FASEB journal. 36(5)

Availability: http://explore.bl.uk/primo_library/libweb/action/display.do?tabs=detailsTab&gathStatTab=true&ct=display&fn=search&doc=ETOCvdc_100154933533.0x000001&indx=1&recIds=ETOCvdc_100154933533.0x000001

Finding cancer driver mutations in the era of big data research

Authors: Poulos, Rebecca C., Wong, Jason W. H.

Source: Biophysical reviews. 11(1):21-29

Availability: http://explore.bl.uk/primo_library/libweb/action/display.do?tabs=detailsTab&gathStatTab=true&ct=display&fn=search&doc=ETOCvdc_100127133187.0x000001&indx=1&recIds=ETOCvdc_100127133187.0x000001

PDGF-AB and 5-Azacytidine induce conversion of somatic cells into tissue-regenerative multipotent stem cells

Authors: Chandrakanthan, Vashe, Yeola, Avani, Kwan, Jair C., Oliver, Rema A., Qiao, Qiao, Kang, Young Chan, Zarzour, Peter, Beck, Dominik, Boelen, Lies, Unnikrishnan, Ashwin, Villanueva, Jeanette E., Nunez, Andrea C., Knezevic, Kathy, Palu, Cintia, Nasrallah, Rabab, Carnell, Michael, Macmillan, Alex, Whan, Renee, Yu, Yan, Hardy, Philip, Grey, Shane T., Gladbach, Amadeus, Delerue, Fabien, Ittner, Lars, Mobbs, Ralph, Walkley, Carl R., Purton, Louise E., Ward, Robyn L., Wong, Jason W. H., Hesson, Luke B., Walsh, William, Pimanda, John E.

Source: Proceedings of the National Academy of Sciences of the United States of America, 2016 Apr . 113(16), E2306-E2315.

Access URL: https://www.jstor.org/stable/26469374

BloodChIP Xtra: an expanded database of comparative genome-wide transcription factor binding and gene-expression profiles in healthy human stem/progenitor subsets and leukemic cells.

Authors: Thoms, Julie A I, Koch, Forrest C, Raei, Alireza, Subramanian, Shruthi, Wong, Jason W H, Vafaee, Fatemeh, Pimanda, John E

Source: Nucleic Acids Research; 1/5/2024, Vol. 52 Issue D1, pD1131-D1137, 7p

Neuropathological Applications of Microscopy with Ultraviolet Surface Excitation (MUSE): A Concordance Study of Human Primary and Metastatic Brain Tumors.

Authors: Lechpammer, Mirna, Todd, Austin, Tang, Vivian, Morningstar, Taryn, Borowsky, Alexander, Shahlaie, Kiarash, Kintner, John A., McPherson, John D., Bishop, John W., Fereidouni, Farzad, Harmany, Zachary T., Coley, Nicholas, Zagzag, David, Wong, Jason W. H., Tao, Jiang, Hesson, Luke B., Burnett, Leslie, Levenson, Richard

Source: Brain Sciences (2076-3425); Jan2024, Vol. 14 Issue 1, p108, 12p

Subject Terms: BRAIN tumors, MICROSCOPY, HIGH resolution imaging, DNA analysis, DNA microarrays, HUMAN experimentation, HEMATOXYLIN & eosin staining

Phylogenetic Analysis Using Protein Mass Spectrometry

Authors: Ma, Shiyong, Downard, Kevin M., Wong, Jason W. H.

Source: Methods in molecular biology. 1549:135-146

Availability: http://explore.bl.uk/primo_library/libweb/action/display.do?tabs=detailsTab&gathStatTab=true&ct=display&fn=search&doc=ETOCRN609432984&indx=1&recIds=ETOCRN609432984

JMJD6 is a tumorigenic factor and therapeutic target in neuroblastoma

Authors: Wong, Matthew, Sun, Yuting, Xi, Zhichao, Milazzo, Giorgio, Poulos, Rebecca C., Bartenhagen, Christoph, Bell, Jessica L., Mayoh, Chelsea, Ho, Nicholas, Tee, Andrew E., Chen, Xiaoqiong, Li, Yang, Ciaccio, Roberto, Liu, Pei Y., Jiang, Chen C., Lan, Qing, Jayatilleke, Nisitha, Cheung, Belamy B., Haber, Michelle, Norris, Murray D., Zhang, Xu D., Marshall, Glenn M., Wang, Jenny Y., Hüttelmaier, Stefan, Fischer, Matthias, Wong, Jason W. H., Xu, Hongxi, Perini, Giovanni, Dong, Qihan, George, Rani E., Liu, Tao

Source: Nature communications. 10(1)

Availability: http://explore.bl.uk/primo_library/libweb/action/display.do?tabs=detailsTab&gathStatTab=true&ct=display&fn=search&doc=ETOCvdc_100130634919.0x000001&indx=1&recIds=ETOCvdc_100130634919.0x000001

Mutational processes of distinct POLE exonuclease domain mutants drive an enrichment of a specific TP53 mutation in colorectal cancer.

Authors: Fang, Hu¹, Barbour, Jayne A.^1,2, Poulos, Rebecca C.³, Katainen, Riku^4,5, Aaltonen, Lauri A.^4,5, Wong, Jason W. H.^1,2, jwhwong@hku.hk

Source: PLoS Genetics; 2/3/2020, Vol. 16 Issue 2, p1-20, 20p

Rapid Differentiation of Seasonal and Pandemic H1N1 Influenza through Proteotyping of Viral Neuraminidase with Mass Spectrometry.

Authors: Schwann, Alexander B., Wong, Jason W. H., Downard, Kevin M.

Source: Analytical Chemistry; June 1 2010, Vol. 82 Issue 11, p4584-4590, 7p

Subtyping of the Influenza Virus by High Resolution Mass Spectrometry.

Authors: Schwahn, Alexander B., Wong, Jason W. H., Downard, Kevin M.

Source: Analytical Chemistry; May 1 2009, Vol. 81 Issue 9, p3500-3506, 7p

Application of Fast Fourier Transform Cross-Correlation for the Alignment of Large Chromatographic and Spectral Datasets.

Authors: Wong, Jason W. H., Durante, Caterina, Cartwright, Hugh M.

Source: Analytical Chemistry; September 1 2005, Vol. 77 Issue 17, p5655-5661, 7p

Study of the Ribonuclease-S-Protein-Peptide Complex Using a Radical Probe and Electrospray Ionization Mass Spectrometry.

Authors: Wong, Jason W. H., Maleknia, Simin D., Downard, Kevin M.

Source: Analytical Chemistry; April 1 2003, Vol. 75 Issue 7, p1557-1563, 7p

Analysis of 7,815 cancer exomes reveals associations between mutational processes and somatic driver mutations.

Authors: Poulos, Rebecca C.^1,2, Wong, Yuen T.¹, Ryan, Regina¹, Pang, Herbert³, Wong, Jason W. H.^1,4, jwhwong@hku.hk

Source: PLoS Genetics; 11/9/2018, Vol. 14 Issue 11, p1-20, 20p