By Dr Fan Zhang

Journal articles

Little RD; Jayawardana T; Koentgen S; Zhang F; Connor SJ; Boussioutas A; Ward MG; Gibson PR; Sparrow MP; Hold GL, 2024, 'Pathogenesis and precision medicine for predicting response in inflammatory bowel disease: Advances and future directions', eGastroenterology, 2, http://dx.doi.org/10.1136/egastro-2023-100006

Rimmer P; Scott G; Quraishi MN; Hazel K; Cooney R; Zhang F; Hold GL; Gordon M; Iqbal T; Hansen R, 2024, 'Sa1887 IS DIVERSITY IMPORTANT IN THE GUT MICROBIOME AT IBD ONSET? A SYSTEMATIC REVIEW OF THE LITERATURE AND META-ANALYSIS OF ALPHA-DIVERSITY DATA', Gastroenterology, 166, http://dx.doi.org/10.1016/s0016-5085(24)01772-4

Zhang F; Gia A; Chen G; Gong L; Behary J; Hold GL; Zekry A; Tang X; Sun Y; El-Omar E; Jiang XT, 2023, 'Critical Assessment of Whole Genome and Viral Enrichment Shotgun Metagenome on the Characterization of Stool Total Virome in Hepatocellular Carcinoma Patients', Viruses, 15, pp. 53, http://dx.doi.org/10.3390/v15010053

Pandey D; Szczesniak M; Maclean J; Yim HCH; Zhang F; Graham P; El-Omar EM; Wu P, 2022, 'Dysbiosis in Head and Neck Cancer: Determining Optimal Sampling Site for Oral Microbiome Collection', Pathogens, 11, http://dx.doi.org/10.3390/pathogens11121550

Gemikonakli G; Mach J; Zhang F; Bullock M; Tran T; El-Omar E; Hilmer SN, 2022, 'Polypharmacy with high Drug Burden Index (DBI) alters the gut microbiome overriding aging effects and is reversible with deprescribing.', The Journals of Gerontology Series A, 78, http://dx.doi.org/10.1093/gerona/glac195

Chen J; Zhao Y; Zhang F; Li J; Boland JA; Cheng NC; Liu K; Tiffen JC; Bertolino P; Bowen DG; Krueger A; Lisowski L; Alexander IE; Vadas MA; El-Omar E; Gamble JR; McCaughan GW, 2022, 'Liver-specific deletion of miR-181ab1 reduces liver tumour progression via upregulation of CBX7', Cellular and Molecular Life Sciences, 79, http://dx.doi.org/10.1007/s00018-022-04452-6

Li Y; Zhang F; Zheng H; Kalasabail S; Hicks C; Fung KY; Preaudet A; Putoczki T; Beretov J; Millar EKA; El-Omar E; Jiang XT; Yim HCH, 2022, 'Fecal DNA Virome Is Associated with the Development of Colorectal Neoplasia in a Murine Model of Colorectal Cancer', Pathogens, 11, http://dx.doi.org/10.3390/pathogens11040457

Liang ZG; Zhang F; Li Y; Li L; Qu S; Su F; Yu BB; Guan Y; Han L; Li KG; Zhu XD, 2021, 'The Integration of the Pre-Treatment Neutrophil-to-Lymphocyte Ratio in the Eighth Edition of the AJCC Staging System for Nasopharynx Cancer', Frontiers in Oncology, 11, http://dx.doi.org/10.3389/fonc.2021.724467

Liang ZG; Zhang F; Yu BB; Li L; Qu S; Li Y; Guan Y; Liang RB; Han L; Zhu XD, 2020, 'The double-edge role of the addition of adjuvant chemotherapy to concurrent chemoradiotherapy in the treatment of nasopharyngeal carcinoma', Cancer Management and Research, 12, pp. 801 - 812, http://dx.doi.org/10.2147/CMAR.S236128

Liang ZG; Tan HQ; Zhang F; Tan LKR; Lin L; Lenkowicz J; Wang H; Ong EHW; Kusumawidjaja G; Phua JH; Gan SA; Sin SY; Ng YY; Tan TWK; Soong YL; Fong KW; Park SY; Soo KC; Wee JTS; Zhu XD; Valentini V; Boldrini L; Sun Y; Chua MLK, 2019, 'Comparison of radiomics tools for image analyses and clinical prediction in nasopharyngeal carcinoma', British Journal of Radiology, 92, http://dx.doi.org/10.1259/bjr.20190271

Lorenzini PA; Chew RSE; Tan CW; Yong JY; Zhang F; Zheng J; Roca X, 2019, 'Human PRPF40B regulates hundreds of alternative splicing targets and represses a hypoxia expression signature', RNA, 25, pp. 905 - 920, http://dx.doi.org/10.1261/rna.069534.118

Liang ZG; Zhang F; Tan L; Lin L; Lenkowicz J; Wang HT; Ong EHW; Kusumawidjaja G; Phua JH; Tan TWK; Soong YL; Fong KW; Soo KC; Wee J; Zhu XD; Boldrini L; Sun Y; Chua MLK, 2019, 'Radio-Transcriptomic Phenotypes Predict Radioresistance in Nasopharyngeal Carcinoma', International Journal of Radiation Oncology*Biology*Physics, 105, pp. E388 - E389, http://dx.doi.org/10.1016/j.ijrobp.2019.06.1657

Shanmugam R; Zhang F; Srinivasan H; Richard JLC; Liu KI; Zhang X; Woo CWA; Chua ZHM; Buschdorf JP; Meaney MJ; Tan MH, 2018, 'SRSF9 selectively represses ADAR2-mediated editing of brain-specific sites in primates', Nucleic Acids Research, 46, pp. 7379 - 7395, http://dx.doi.org/10.1093/nar/gky615

Liu H; Lorenzini PA; Zhang F; Xu S; Wong MSM; Zheng J; Roca X, 2018, 'Alternative splicing analysis in human monocytes and macrophages reveals MBNL1 as major regulator', Nucleic Acids Research, 46, pp. 6069 - 6086, http://dx.doi.org/10.1093/nar/gky401

Wang Y; Liu KI; Sutrisnoh NAB; Srinivasan H; Zhang J; Li J; Zhang F; Lalith CRJ; Xing H; Shanmugam R; Foo JN; Yeo HT; Ooi KH; Bleckwehl T; Par YYR; Lee SM; Ismail NNB; Sanwari NAB; Lee STV; Lew J; Tan MH, 2018, 'Systematic evaluation of CRISPR-Cas systems reveals design principles for genome editing in human cells', Genome Biology, 19, http://dx.doi.org/10.1186/s13059-018-1445-x

Pek M; Yatim SMJM; Chen Y; Li J; Gong M; Jiang X; Zhang F; Zheng J; Wu X; Yu Q, 2017, 'Oncogenic KRAS-associated gene signature defines co-targeting of CDK4/6 and MEK as a viable therapeutic strategy in colorectal cancer', Oncogene, 36, pp. 4975 - 4986, http://dx.doi.org/10.1038/onc.2017.120

Zhang F; Liu R; Zheng J, 2016, 'Sig2GRN: A software tool linking signaling pathway with gene regulatory network for dynamic simulation', BMC Systems Biology, 10, http://dx.doi.org/10.1186/s12918-016-0365-1

Jiang L; Wu WF; Sun LY; Chen PP; Wang W; Benito-Vicente A; Zhang F; Pan XD; Cui W; Yang SW; Zhou YJ; Martin C; Wang LY, 2016, 'The use of targeted exome sequencing in genetic diagnosis of young patients with severe hypercholesterolemia', Scientific Reports, 6, http://dx.doi.org/10.1038/srep36823

Liu H; Zhang F; Mishra SK; Zhou S; Zheng J, 2016, 'Knowledge-guided fuzzy logic modeling to infer cellular signaling networks from proteomic data', Scientific Reports, 6, http://dx.doi.org/10.1038/srep35652

Zhang F; Wu M; Kwoh CK; Zheng J, 2016, 'Power-law modeling of cancer cell fates driven by signaling data to reveal drug effects', PLoS ONE, 11, http://dx.doi.org/10.1371/journal.pone.0165049

Zhang F; Chen H; Zhao LN; Liu H; Przytycka TM; Zheng J, 2016, 'Generalized logical model based on network topology to capture the dynamical trends of cellular signaling pathways', BMC Systems Biology, 10, http://dx.doi.org/10.1186/s12918-015-0249-9

Zhang F; Wu M; Li XJ; Li XL; Kwoh CK; Zheng J, 2015, 'Predicting essential genes and synthetic lethality via influence propagation in signaling pathways of cancer cell fates', Journal of Bioinformatics and Computational Biology, 13, http://dx.doi.org/10.1142/S0219720015410024

Mishra SK; Bhowmick SS; Chua HE; Zhang F; Zheng J, 2015, 'Computational cell fate modelling for discovery of rewiring in apoptotic network for enhanced cancer drug sensitivity', BMC Systems Biology, 9, http://dx.doi.org/10.1186/1752-0509-9-S1-S4

Wu M; Li X; Zhang F; Li X; Kwoh CK; Zheng J, 2014, 'In silico prediction of synthetic lethality by meta-analysis of genetic interactions, functions, and pathways in yeast and human cancer', Cancer Informatics, 13, pp. 71 - 80, http://dx.doi.org/10.4137/CIN.S14026

Li XJ; Mishra SK; Wu M; Zhang F; Zheng J, 2014, 'Syn-lethality: An integrative knowledge base of synthetic lethality towards discovery of selective anticancer therapies', BioMed Research International, 2014, http://dx.doi.org/10.1155/2014/196034

Conference Papers

Rimmer P; Scott G; Quraishi MN; Hazel K; Cooney R; Hold G; Zhang F; Gordon M; Iqbal T; Hansen R, 2024, 'P107 Is gut microbiome diversity important at IBD onset? A systematic review of the literature and meta-analysis of alpha diversity data', in Poster Presentations, BMJ Publishing Group Ltd and British Society of Gastroenterology, pp. A114 - A115, presented at BSG LIVE’24, 17-20 June 2024, ICC Birmingham, http://dx.doi.org/10.1136/gutjnl-2024-bsg.189

Pandey D; Szcczesniak M; Maclean J; Zhang F; Yim H; El-Omar E; Graham P; Wu P, 2023, 'IDDF2023-ABS-0249 Implications of oro-pharyngeal dysbiosis in head and neck cancer: oral microbiome and chemoradiation-related complications', in Basic Gastroenterology, BMJ Publishing Group Ltd and British Society of Gastroenterology, pp. A114 - A116, presented at Abstracts of the International Digestive Disease Forum (IDDF), Hong Kong, 10–11 June 2023, http://dx.doi.org/10.1136/gutjnl-2023-iddf.101

Zhang F; Kwoh CK; Wu M; Zheng J, 2014, 'Data-driven prediction of cancer cell fates with a nonlinear model of signaling pathways', in ACM BCB 2014 - 5th ACM Conference on Bioinformatics, Computational Biology, and Health Informatics, pp. 436 - 444, http://dx.doi.org/10.1145/2649387.2649425

Li X-J; Mishra SK; Wu M; Zhang F; Zheng J, 2013, 'Syn-Lethality: An integrative knowledge base of synthetic lethality towards discovery of selective anticancer therapies', in 2013 IEEE International Conference on Bioinformatics and Biomedicine, IEEE, pp. 4 - 4, presented at 2013 IEEE International Conference on Bioinformatics and Biomedicine (BIBM), 18 December 2013 - 21 December 2013, http://dx.doi.org/10.1109/bibm.2013.6732609

Wu M; Li X; Zhang F; Li X; Kwoh CK; Zheng J, 2013, 'Meta-analysis of genomic and proteomic features to predict synthetic lethality of yeast and human cancer', in 2013 ACM Conference on Bioinformatics, Computational Biology and Biomedical Informatics, ACM-BCB 2013, pp. 384 - 391, http://dx.doi.org/10.1145/2506583.2506653

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