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Your Environment. Your Health.

Benedict Anchang, Ph.D.

Biostatistics & Computational Biology Branch

Benedict Anchang, Ph.D.
Benedict N. Anchang, Ph.D.
Stadtman Investigator
Tel 984-287-3350
benedict.anchang@nih.gov
P.O. Box 12233
Mail Drop A3-03
Durham, N.C. 27709

Research Summary

Benedict Anchang, Ph.D. is a Stadtman Tenure-Track Investigator in the Biostatistics and Computational Biology Branch. He also holds a joint appointment at the National Cancer Institute in Bethesda, Maryland. Anchang's Computational and Systems Biology Group performs multi-scale modeling, visualization, and integration of dynamic perturbation effects of complex systems, such as cancer or toxicity. These studies are done in human and non-human systems at a multi- and nested-scale level using single-cell analysis, with personalized and precision medicine as a desired goal.

Single-cell technologies are being used to generate a massive amount of data to characterize the biological complexity of the normal and diseased microenvironment. Anchang’s recent work has helped improve understanding of the role of intratumor heterogeneity in drug resistance, with the goal of optimizing combination therapy based on single cell drug response data for individual patients. He was able to address this computational challenge by developing a drug nested effects model (DRUG-NEM) on single-cell CyTOF drug perturbation data to examine drug combination effects that account for intratumor heterogeneity. He has also developed and applied sophisticated computational tools, e.g. PHENOtypic STAte MaP (PHENOSTAMP) and Dynamic Spanning Forest mixture (DSFMix), to visualize mass cytometry and scRNA-seq data to improve general understanding of normal and disease progression.

Currently, Anchang is interested in developing innovative, robust and scalable methods for:

  • Visualizing and modelling temporal and spatial high-dimensional single-cell data.
  • Perturbation network analysis including optimizing drug synergy in mixtures.
  • Integration of molecular and pathological features to differentiate between chemically-induced, adverse biological processes in neoplastic and non-neoplastic lesions, as well as discrimination of spontaneous and chemically-induced lesions.

Selected Publications

  1. Green AJ, Anchang B, Akhtari FS, Reif DM, Motsinger-Reif A. 2021. Extending the lymphoblastoid cell line model for drug combination pharmacogenomics. Pharmacogenomics. Jun. 22(9):543-551. doi:10.2217/pgs-2020-0160. Epub 2021 May 28. PMID: 34044623. [Abstract Green AJ, Anchang B, Akhtari FS, Reif DM, Motsinger-Reif A. 2021. Extending the lymphoblastoid cell line model for drug combination pharmacogenomics. Pharmacogenomics. Jun. 22(9):543-551. doi:10.2217/pgs-2020-0160. Epub 2021 May 28. PMID: 34044623.]
  2. Salahudeen A, Choi S, Rustagi A, Zhu J, van Unen V, de la O S, Flynn R, Margalef-Català M, Santos A, Ju J, Batish A, Usui T, Zheng G, Edwards C, Wagar L, Luca V, Anchang B, Nagendran M, Nguyen K, Hart D, Terry J, Belgrader P, Ziraldo S, Mikkelsen T, Harbury P, Glenn J, Garcia K, Davis M, Baric R, Sabatti C, Amieva M, Blish C, Desai T, Kuo C. 2020. Progenitor identification and SARS-CoV-2 infection in human distal lung organoids. Nature. Nov 25. doi: 10.1038/s41586-020-3014-1. [Abstract Salahudeen A, Choi S, Rustagi A, Zhu J, van Unen V, de la O S, Flynn R, Margalef-Català M, Santos A, Ju J, Batish A, Usui T, Zheng G, Edwards C, Wagar L, Luca V, Anchang B, Nagendran M, Nguyen K, Hart D, Terry J, Belgrader P, Ziraldo S, Mikkelsen T, Harbury P, Glenn J, Garcia K, Davis M, Baric R, Sabatti C, Amieva M, Blish C, Desai T, Kuo C. 2020. Progenitor identification and SARS-CoV-2 infection in human distal lung organoids. Nature. Nov 25. doi: 10.1038/s41586-020-3014-1.]
  3. Karacosta LG, Anchang B, Ignatiadis N, Kimmey SC, Benson JA, Shrager JB, Tibshirani R, Bendall SC, Plevritis SK. 2019. Mapping Lung Cancer Epithelial-mesenchymal Transition States and Trajectories With Single-cell Resolution. Nature Communications 10, 5587 doi:10.1038/s41467-019-13441-6. [Abstract Karacosta LG, Anchang B, Ignatiadis N, Kimmey SC, Benson JA, Shrager JB, Tibshirani R, Bendall SC, Plevritis SK. 2019. Mapping Lung Cancer Epithelial-mesenchymal Transition States and Trajectories With Single-cell Resolution. Nature Communications 10, 5587 doi:10.1038/s41467-019-13441-6.]
  4. Menden MP, Wang D, Mason MJ, Szalai B, Bulusu KC, Guan Y, Yu T, Kang J, Jeon M, Wolfinger R, Nguyen T, Zaslaskiy M, AstraZeneca-Sanger Drug Combination DREAM Consortium, Jang IS, Ghazoui Z, Ahsen ME, Vogel R, Neto EC, Norman T, Tang EKY, Garnett MJ, Veroli GYD, Fawell S, Stolovitzky G, Guinney J, Dry JR, Saez-Rodriguez J. 2019. Community Assessment to Advance Computational Prediction of Cancer Drug Combinations in a Pharmacogenomic Screen. Nature Communications 10(1):2674. [Abstract Menden MP, Wang D, Mason MJ, Szalai B, Bulusu KC, Guan Y, Yu T, Kang J, Jeon M, Wolfinger R, Nguyen T, Zaslaskiy M, AstraZeneca-Sanger Drug Combination DREAM Consortium, Jang IS, Ghazoui Z, Ahsen ME, Vogel R, Neto EC, Norman T, Tang EKY, Garnett MJ, Veroli GYD, Fawell S, Stolovitzky G, Guinney J, Dry JR, Saez-Rodriguez J. 2019. Community Assessment to Advance Computational Prediction of Cancer Drug Combinations in a Pharmacogenomic Screen. Nature Communications 10(1):2674.]
  5. Anchang B, Davis KL, Fienberg HG, Williamson BD, Bendall SC, Karacosta LG, Tibshirani R, Nolan GP, Plevritis SK. 2018. DRUG-NEM: Optimizing Drug Combinations Using Single-cell Perturbation Response to Account for Intratumoral Heterogeneity. Proceedings of the National Academy of Sciences of the USA 115(18):E4294-E4303. [Abstract Anchang B, Davis KL, Fienberg HG, Williamson BD, Bendall SC, Karacosta LG, Tibshirani R, Nolan GP, Plevritis SK. 2018. DRUG-NEM: Optimizing Drug Combinations Using Single-cell Perturbation Response to Account for Intratumoral Heterogeneity. Proceedings of the National Academy of Sciences of the USA 115(18):E4294-E4303.]
  6. Yan KS, Gevaert O, Zheng GXY, Anchang B, Probert CS, Larkin KA, Davies PS, Cheng ZF, Kaddis JS, Han A, Roelf K, Calderon RI, Cynn E, Hu X, Mandleywala K, Wilhelmy J, Grimes SM, Corney DC, Boutet SC, Terry JM, Belgrader P, Ziraldo SB, Mikkelsen TS, Wang F, von Furstenberg RJ, Smith NR, Chandrakesan P, May R, Chrissy MAS, Jain R, Cartwright CA, Niland JC, Hong YK, Carrington J, Breault DT, Epstein J, Houchen CW, Lynch JP, Martin MG, Plevritis SK, Curtis C, Ji HP, Li L, Henning SJ, Wong MH, Kuo CJ. 2017. Intestinal Enteroendocrine Lineage Cells Possess Homeostatic and Injury-Inducible Stem Cell Activity. Cell Stem Cell 21(1):78-90.e6. [Abstract Yan KS, Gevaert O, Zheng GXY, Anchang B, Probert CS, Larkin KA, Davies PS, Cheng ZF, Kaddis JS, Han A, Roelf K, Calderon RI, Cynn E, Hu X, Mandleywala K, Wilhelmy J, Grimes SM, Corney DC, Boutet SC, Terry JM, Belgrader P, Ziraldo SB, Mikkelsen TS, Wang F, von Furstenberg RJ, Smith NR, Chandrakesan P, May R, Chrissy MAS, Jain R, Cartwright CA, Niland JC, Hong YK, Carrington J, Breault DT, Epstein J, Houchen CW, Lynch JP, Martin MG, Plevritis SK, Curtis C, Ji HP, Li L, Henning SJ, Wong MH, Kuo CJ. 2017. Intestinal Enteroendocrine Lineage Cells Possess Homeostatic and Injury-Inducible Stem Cell Activity. Cell Stem Cell 21(1):78-90.e6.]
  7. Anchang B, Sylvia K. Plevritis. Systems and Methods for Targeted Therapy Based on Single-Cell Stimulus Perturbation Response. Patent, PCT/US2017/026243, 12/10/2017.
  8. Anchang B, Hart TD, Bendall SC, Qiu P, Bjornson Z, Linderman M, Nolan GP, Plevritis SK. 2016. Visualization and Cellular Hierarchy Inference of Single-cell Data Using SPADE. Nature Protocols 11(7):1264-1279. [Abstract Anchang B, Hart TD, Bendall SC, Qiu P, Bjornson Z, Linderman M, Nolan GP, Plevritis SK. 2016. Visualization and Cellular Hierarchy Inference of Single-cell Data Using SPADE. Nature Protocols 11(7):1264-1279.]
  9. Kearney AY, Anchang B, Plevritis S, Felsher DW. 2015. ARF: Connecting Senescence and Innate Immunity for Clearance. Aging (Albany NY) 7(9):613-615. [Abstract Kearney AY, Anchang B, Plevritis S, Felsher DW. 2015. ARF: Connecting Senescence and Innate Immunity for Clearance. Aging (Albany NY) 7(9):613-615.]
  10. Yetil A, Anchang B, Gouw AM, Adam SJ, Zabuawala T, Parameswaran R, van Riggelen J, Plevritis S, Felsher DW. 2015. p19ARF Is a Critical Mediator of Both Cellular Senescence and an Innate Immune Response Associated with Myc Inactivation in Mouse Model of Acute Leukemia. Oncotarget 6(6):3563-3577. [Abstract Yetil A, Anchang B, Gouw AM, Adam SJ, Zabuawala T, Parameswaran R, van Riggelen J, Plevritis S, Felsher DW. 2015. p19ARF Is a Critical Mediator of Both Cellular Senescence and an Innate Immune Response Associated with Myc Inactivation in Mouse Model of Acute Leukemia. Oncotarget 6(6):3563-3577.]
  11. Anchang B, Do MT, Zhao X, Plevritis SK. 2014. CCAST: A Model-based Gating Strategy to Isolate Homogeneous Subpopulations in a Heterogeneous Population of Single Cells. PLoS Computational Biology 10(7): e1003664. [Abstract Anchang B, Do MT, Zhao X, Plevritis SK. 2014. CCAST: A Model-based Gating Strategy to Isolate Homogeneous Subpopulations in a Heterogeneous Population of Single Cells. PLoS Computational Biology 10(7): e1003664.]
  12. Dümcke S, Bräuer J, Anchang B, Spang R, Beerenwinkel N, Tresch A. 2014. Exact Likelihood Computation in Boolean Networks with Probabilistic Time Delays, and Its Application in Signal Network Reconstruction. Bioinformatics 30(3):414-419. [Abstract Dümcke S, Bräuer J, Anchang B, Spang R, Beerenwinkel N, Tresch A. 2014. Exact Likelihood Computation in Boolean Networks with Probabilistic Time Delays, and Its Application in Signal Network Reconstruction. Bioinformatics 30(3):414-419.]
  13. Voloshanenko O, Erdmann G, Dubash TD, Augustin I, Metzig M, Moffa G, Hundsrucker C, Kerr G, Sandmann T, Anchang B, Demir K, Boehm C, Leible S, Ball CR, Glimm H, Spang R, Boutros M. 2013. Wnt Secretion Is Required to Maintain High Levels of Wnt Activity in Colon Cancer Cells. Nature Communications; doi: 10.1038/ncomms3610 [Online 28 October 2013]. [Abstract Voloshanenko O, Erdmann G, Dubash TD, Augustin I, Metzig M, Moffa G, Hundsrucker C, Kerr G, Sandmann T, Anchang B, Demir K, Boehm C, Leible S, Ball CR, Glimm H, Spang R, Boutros M. 2013. Wnt Secretion Is Required to Maintain High Levels of Wnt Activity in Colon Cancer Cells. Nature Communications; doi: 10.1038/ncomms3610 [Online 28 October 2013].]
  14. Anchang B, Sadeh MJ, Jacob J, Tresch A, Vlad MO, Oefner PJ, Spang R. 2009. Modeling the Temporal Interplay of Molecular Signaling and Gene Expression by Using Dynamic Nested Effects Models. Proceedings of the National Academy of Sciences of the USA 106(16):6447-6452. [Abstract Anchang B, Sadeh MJ, Jacob J, Tresch A, Vlad MO, Oefner PJ, Spang R. 2009. Modeling the Temporal Interplay of Molecular Signaling and Gene Expression by Using Dynamic Nested Effects Models. Proceedings of the National Academy of Sciences of the USA 106(16):6447-6452.]
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