Research Associate Professor Aniruddha Chatterjee

Contact Details

Phone: 64 21 070 1558
Email: aniruddha.chatterjee@otago.ac.nz

University Links

Position

Research Associate Professor, Sir Charles Hercus Fellow (HRC), Rutherford Discovery Fellow (2018-2024) and Associate Dean (International), Division of Health Sciences

Department

Department of Pathology and Molecular Medicine (Dunedin)

Qualifications

MSc (VIT, India) PhD (Otago, New Zealand), CLM (Wharton, USA)

Research summary

Epigenetics, Cancer, Bioinformatics, Multi-omics

Teaching

PATH 301 Applied Pathology
PATH 302 Cancer Pathology (Co-convener)
BINF 701 Introduction to Clinical Bioinformatics (Co-convener)
GENE 412 Current Topics in Genetics

Research

I lead the Epigenetics, Disease and Phenotype Laboratory, where we investigate how epigenetic alterations, particularly changes in DNA methylation. DNA methylation play a major role to shape cellular phenotypes and contribute to the development and progression of cancer.

Our multidisciplinary research integrates next-generation sequencing, bioinformatics, molecular and cellular biology, liquid biopsy technologies, machine learning and artificial intelligence. By combining computational discovery with experimental validation, we aim to define the biological functions of disease-associated epigenetic changes and translate these discoveries into clinically useful tools.

Our ultimate goal is to advance precision oncology by developing robust biomarkers for early cancer detection, treatment selection, therapeutic response prediction and disease monitoring, and improve outcomes for patients.

See the Chatterjee lab website for more details

Media highlights, social involvement, and columns on professional matters:

Chatterjee lab: Science Through Collaboration (Video)

Additional details

These are the current research projects available ranging from Honours/Masters to PhD. We warmly encourage prospective postgraduate students to directly contact to discuss the projects and/or your career goals.

Discovery of novel epigenetic biomarkers for solid cancers
Level: Honours, Master’s or PhD
Bioinformatics and artificial intelligence in cancer research
Level: Honours, Master’s or PhD
Functional investigation of DNA methylation changes in cancer
Level: Honours, Master’s or PhD

Publications

Lynch-Sutherland, C., Stockwell, P., Chatterjee, A., Eccles, M. R., & Macaulay, E. (2026). Epigenetic deregulation of transposable elements links developmental processes and tumorigenesis [Review]. International Journal of Molecular Sciences, 27(6), 2690. doi: 10.3390/ijms27062690 Journal - Research Article

Dalal, M., Joshi, R., Ajithkumar, P., Singh, J., Suri, V., Chatterjee, A., & Kulshreshtha, R. (2025). Novel insights into hypoxia-driven transcriptomic and epigenetic landscapes in grade 3 meningioma. Journal of Translational Medicine. Advance online publication. doi: 10.1186/s12967-025-07606-9 Journal - Research Article

Kabekkodu, S. P., Chatterjee, A., & Chakrabarty, S. (Eds.). (2025). Epigenetics of cervical cancer. Singapore: Springer, 185p. doi: 10.1007/978-981-96-3985-4 Edited Book - Research

Sharma, S., Hodges, L. D., Peppercorn, K., Davis, J., Edgar, C. D., Rodger, E. J., Chatterjee, A., & Tate, W. P. (2025). Precision medicine study of post-exertional malaise epigenetic changes in myalgic encephalomyelitis/chronic fatigue patients during exercise. International Journal of Molecular Sciences, 26, 8563. doi: 10.3390/ijms26178563 Journal - Research Article

Peppercorn, K., Sharma, S., Edgar, C. D., Stockwell, P. A., Rodger, E. J., Chatterjee, A., & Tate, W. P. (2025). Comparing DNA methylation landscapes in peripheral blood from Myalgic Encephalomyelitis/Chronic Fatigue Syndrome and Long COVID patients. International Journal of Molecular Sciences, 26, 6631. doi: 10.3390/ijms26146631 Journal - Research Article

2026

Journal - Research Article

2025

Edited Book - Research

Kabekkodu, S. P., Chatterjee, A., & Chakrabarty, S. (Eds.). (2025). Epigenetics of cervical cancer. Singapore: Springer, 185p. doi: 10.1007/978-981-96-3985-4

Chapter in Book - Research

Peppercorn, K., Edgar, C. D., Al Momani, S., Rodger, E. J., Tate, W. P., & Chatterjee, A. (2025). Application of DNA methylome analysis to patients with ME/CFS. In W. P. Tate & K. Peppercorn (Eds.), Myalgic Encephalomyelitis/Chronic Fatigue Syndrome (ME/CFS): Methods and protocols: Methods in molecular biology (Vol. 2920). (pp. 141-160). New York, NY: Humana Press. doi: 10.1007/978-1-0716-4498-0_9

Yassi, M., Moattar, M. H., Parry, M., & Chatterjee, A. (2025). Enhancing robust and stable feature selection through the integration of ranking methods and wrapper techniques in genetic data classification. In N. Raghavachari & N. Garcia-Reyero (Eds.), Methods in molecular biology: Gene expression analysis: Methods and protocols (Vol. 2880). (2nd ed.) (pp. 243-254). New York, NY: Humana Press. doi: 10.1007/978-1-0716-4276-4_12

Journal - Research Article

Hossain, S. M., Gimenez, G., Stockwell, P., Weeks, R., Almomani, S., Jones, G. T., Ratajska, M., Shuen, M., Bhat, B., … Rodger, E., Jackson, C., Chatterjee, A., & Eccles, M. R. (2025). Pre-treatment DNA methylome and transcriptome profiles correlate with melanoma response to anti-PD1 immunotherapy. Cancer Letters, 618, 217638. doi: 10.1016/j.canlet.2025.217638

Conference Contribution - Published proceedings: Abstract

Sharma, S., Peppercorn, K., Rodger, E., Tate, W. P., & Chatterjee, A. (2025). Developing a blood-based epigenomic signature for ME/CFS and Long COVID using Peripheral Blood Mononuclear Cells (PBMCs). Proceedings of the Genetics Otago (GO) Annual Symposium. Retrieved from https://blogs.otago.ac.nz/go

Griffiths, B. W. C., Peppercorn, K., Rodger, E., Chatterjee, A., & Tate, W. P. (2025). A genetic characterisation of Myalgic Encephalomyelitis/Chronic Fatigue Syndrome predisposition. Proceedings of the Genetics Otago (GO) Annual Symposium. Retrieved from https://blogs.otago.ac.nz/go

Dutta, A., Yee, A., Ghosh, A., Zarrabi, A., Gimenez, G., Smith, J., Rodger, E., & Chatterjee, A. (2025). Liquid biopsy based DNA methylation biomarker panel for facilitating minimally invasive prostate cancer detection. Proceedings of the Genetics Otago (GO) Annual Symposium. Retrieved from https://blogs.otago.ac.nz/go

Tate, W. P., Peppercorn, K., Griffiths, B. W. C., Sharma, S., Rodger, E., & Chatterjee, A. (2025). Understanding the genetics and epigenetics of the post-viral fatigue syndromes, Myalgic Encephalomyelitis/Chronic Fatigue Syndrome, and Long COVID. Proceedings of the Genetics Otago (GO) Annual Symposium. Retrieved from https://blogs.otago.ac.nz/go

Conference Contribution - Poster Presentation (not in published proceedings)

Sharma, S., Peppercorn, K., Rodger, E., Tate, W., & Chatterjee, A. (2025, February). Developing a blood-based epigenomic signature for ME/CFS and Long COVID using Peripheral Blood Mononuclear Cells (PBMCs). Poster session presented at the Maurice Wilkins Centre (MWC) Research Symposium, Auckland, New Zealand.

Conference Contribution - Verbal presentation and other Conference outputs

Chatterjee, A. (2025, February). Clinical DNA methylome for solid tumors. Verbal presentation at the Maurice Wilkins Centre (MWC) Research Symposium, Auckland, New Zealand.

2024

Chapter in Book - Research

Zhang, X., Barnett, E., Smith, J., Wilkinson, E., Subramaniam, R. M., Zarrabi, A., Rodger, E. J., & Chatterjee, A. (2024). Genetic and epigenetic features of neuroendocrine prostate cancer and their emerging applications. In S. Spada & L. Galluzzi (Eds.), International review of cell and molecular biology (Vol. 383): Epigenetic regulation of cancer (Part B). (pp. 41-66). London, UK: Elsevier. doi: 10.1016/bs.ircmb.2023.06.002

Journal - Research Article

Davis, W. J. H., Drummond, C., Gimenez, G., Rodger, E., Chatterjee, A., & Reid, G. (2024). MALAT1 And NEAT1 contribute to adaptive mutability in the transition from drug tolerance to drug resistance in lung cancer. Journal of Thoracic Oncology, 19(Suppl. 10), s436-S437. doi: 10.1016/j.jtho.2024.09.795

Stockwell, P. A., Rodger, E. J., Gimenez, G., Morison, I. M., & Chatterjee, A. (2024). DMAP2: A pipeline for analysis of whole-genome-scale DNA methylation sequencing data. Current Protocols, 4, 370003. doi: 10.1002/cpz1.70003

Gupta, P., O'Neill, H., Wolvetang, E. J., Chatterjee, A., & Gupta, I. (2024). Advances in single-cell long-read sequencing technologies. NAR Genomics & Bioinformatics, 6, lqae047. doi: 10.1093/nargab/lqae047

Banerjee, R., Ajithkumar, P., Keestra, N., Smith, J., Gimenez, G., Rodger, E. J., Eccles, M. R., Antony, J., Weeks, R. J., & Chatterjee, A. (2024). Targeted DNA methylation editing using an all-in-one system establishes paradoxical activation of EBF3. Cancers, 16, 898. doi: 10.3390/cancers16050898

Srinath, S., Jishnu, P. V., Varghese, V. K., Shukla, V., Adiga, D., Mallya, S., … Chatterjee, A., & Kabekkodu, S. P. (2024). Regulation and tumor-suppressive function of the miR-379/miR-656 (C14MC) cluster in cervical cancer. Molecular Oncology, 18, 1608-1630. doi: 10.1002/1878-0261.13611

Ajithkumar, P., Gimenez, G., Stockwell, P. A., Almomani, S., Bowden, S. A., Leichter, A. L., … Pattison, S., … Frizelle, F. A., Eccles, M. R., Purcell, R. V., Rodger, E. J., & Chatterjee, A. (2024). DNA methylome and transcriptome maps of primary colorectal cancer and matched liver metastasis. Data, 9(1), 8. doi: 10.3390/data9010008

Journal - Research Other

Smith, J., Ajithkumar, P., Wilkinson, E. J., Dutta, A., Vasantharajan, S. S., Yee, A., Gimenez, G., Subramaniam, R. M., Lau, M., Zarrabi, A. D., Rodger, E. J., & Chatterjee, A. (2024). Genome-scale DNA methylome and transcriptome profiles of prostate cancer recurrence after prostatectomy [Data descriptor]. Data, 9, 150. doi: 10.3390/data9120150

Ezegbogu, M., Wilkinson, E., Reid, G., Rodger, E. J., Brockway, B., Russell-Camp, T., Kumar, R., & Chatterjee, A. (2024). Cell-free DNA methylation in the clinical management of lung cancer. Trends in Molecular Medicine, 30(5), 499-515. doi: 10.1016/j.molmed.2024.03.007

Wei, H., Zhang, Y., Jia, Y., Chen, X., Niu, T., Chatterjee, A., … Hou, G. (2024). Heat shock protein 90: Biological functions, diseases, and therapeutic targets. MedComm, 5, e470. doi: 10.1002/mco2.470

Ajithkumar, P., Vasantharajan, S. S., Pattison, S., McCall, J. L., Rodger, E. J., & Chatterjee, A. (2024). Exploring potential epigenetic biomarkers for colorectal cancer metastasis. International Journal of Molecular Sciences, 25, 874. doi: 10.3390/ijms25020874

Conference Contribution - Published proceedings: Abstract

Roy, J., Lithander, E., Chatterjee, A., & Jones, A. (2024). Decoding India: Partnerships & beyond [Panel]. Proceedings of the New Zealand International Education Conference (NZIEC): Ki Tua. Retrieved from https://www.nziec.co.nz/programme

Damiano, O. M., Stevens, A. J., Seddon, A. R., & Chatterjee, A. (2024). Altered DNA methylation patterns in colorectal cancer associated with immune cell oxidants. Proceedings of the 17th GeneMappers Conference. Retrieved from https://www.genemappersconference.org

Conference Contribution - Poster Presentation (not in published proceedings)

Chatterjee, A. (2024, August-September). Epigenetic drivers of early onset of cancer. Poster session presented at the Queenstown Research Week (QRW) Cancer Meeting, Queenstown, New Zealand.

Conference Contribution - Verbal presentation and other Conference outputs

Davis, W. J. H., Drummond, C. J., Gimenez, G., Rodger, E., Chatterjee, A., & Reid, G. (2024, August-September). A dark matter: The lncRNA MALAT1 contributes to the transition from drug tolerance to drug resistance in lung adenocarcinoma. Verbal presentation at the Queenstown Research Week (QRW) Cancer Meeting, Queenstown, New Zealand.

Other Research Output

Chatterjee, A. (2024, April). DNA methylome profiling to understand disease and phenotype. Department of Microbiology & Immunology Seminar, University of Otago, Dunedin, New Zealand. [Department Seminar].

2023

Chapter in Book - Research

Gimenez, G., Stockwell, P. A., Rodger, E. J., & Chatterjee, A. (2023). Strategy for RNA-seq experimental design and data analysis. In G. J. Seymour, M. P. Cullinan, N. C. K. Heng & P. R. Cooper (Eds.), Oral biology: Molecular techniques and applications: Methods in molecular biology (Vol. 2588). (3rd ed.) (pp. 249-278). New York, NY: Springer. doi: 10.1007/978-1-0716-2780-8_16

Vasantharajan, S. S., Barnett, E., Gray, E. S., Rodger, E. J., Eccles, M. R., Pattison, S., Munro, F., & Chatterjee, A. (2023). Size-based method for enrichment of circulating tumor cells from blood of colorectal cancer patients. In G. J. Seymour, M. P. Cullinan, N. C. K. Heng & P. R. Cooper (Eds.), Oral biology: Molecular techniques and applications: Methods in molecular biology (Vol. 2588). (3rd ed.) (pp. 231-248). New York, NY: Springer. doi: 10.1007/978-1-0716-2780-8_15

Journal - Research Article

Verduin, M., Hoosemans, L., Vanmechelen, M., van Heumen, M., Piepers, J. A. F., Astuti, G., … Gimenez, G., Chatterjee, A., … Vooijs, M. A. (2023). Patient-derived glioblastoma organoids reflect tumor heterogeneity and treatment sensitivity. Neuro-Oncology Advances, 5(1), vdad152. doi: 10.1093/noajnl/vdad152

Hou, G., Niu, T., Jia, A., Zhang, Y., Chen, X., Wei, H., … Chatterjee, A. (2023). NRG1 promotes tumorigenesis and metastasis and afatinib treatment efficiency is enhanced by NRG1 inhibition in esophageal squamous cell carcinoma. Biochemical Pharmacology, 218, 115920. doi: 10.1016/j.bcp.2023.115920

Bararia, A., Sikdar, N., Das, A., Mitra, S., Banerjee, S., Chatterjee, A., & Sikdar, N. (2023). Deoxyribonucleic acid methylation driven aberrations in pancreatic cancer-related pathways. World Journal of Gastrointestinal Oncology, 15(9), 1505-1519. doi: 10.4251/wjgo.v15.i9.1505

Lynch-Sutherland, C. F., McDougall, L. I., Stockwell, P. A., Almomani, S. N., Weeks, R. J., Ludgate, J. L., … Chatterjee, A., … Eccles, M. R., & Macaulay, E. C. (2023). The transposable element-derived transcript of LIN28B has a placental origin and is not specific to tumours. Molecular Genetics & Genomics, 298, 1045-1058. doi: 10.1007/s00438-023-02033-1

Rodger, E. J., Gimenez, G., Ajithkumar, P., Stockwell, P. A., Almomani, S., Bowden, S. A., Leichter, A. L., Ahn, A., Pattison, S., McCall, J. L., … Frizelle, F. A., Eccles, M. R., Purcell, R. V., & Chatterjee, A. (2023). An epigenetic signature of advanced colorectal cancer metastasis. iScience, 26(6), 106986. doi: 10.1016/j.isci.2023.106986

Bararia, A., Chakraborty, P., Roy, P., Chattopadhay, B. K., Das, A., Chatterjee, A., & Sikdar, N. (2023). Emerging role of non-invasive and liquid biopsy biomarkers in pancreatic cancer. World Journal of Gastroenterology, 29(15), 2241-2260. doi: 10.3748/wjg.v29.i15.2241

Smith, J., Barnett, E., Rodger, E. J., Chatterjee, A., & Subramaniam, R. M. (2023). Neuroendocrine neoplasms: Genetics and epigenetics. PET Clinics, 18, 169-187. doi: 10.1016/j.cpet.2022.11.003

Ramesh, A., Chatterjee, A., & Subramaniam, R. M. (2023). Neuroendocrine neoplasms: Epidemiology, diagnosis, and management. PET Clinics, 18, 161-168. doi: 10.1016/j.cpet.2022.10.002

Journal - Research Other

Yassi, M., Chatterjee, A., & Parry, M. (2023). Application of deep learning in cancer epigenetics through DNA methylation analysis. Briefings in Bioinformatics, 24(6). doi: 10.1093/bib/bbad411

Rodger, E. J., Stockwell, P. A., Almomani, S., Eccles, M. R., & Chatterjee, A. (2023). Protocol for generating high-quality genome-scale DNA methylation sequencing data from human cancer biospecimens. STAR Protocols, 4, 102714. doi: 10.1016/j.xpro.2023.102714

Conference Contribution - Poster Presentation (not in published proceedings)

Chatterjee, A. (2023, August). Generating genome-scale cell free DNA methylome in solid cancers. Poster session presented at the 33rd Queenstown Molecular Biology Meeting (QMB), Queenstown, New Zealand.

2022

Chapter in Book - Research

Al Momani, S., Rodger, E. J., Stockwell, P. A., Eccles, M. R., & Chatterjee, A. (2022). Generating sequencing-based DNA methylation maps from low DNA input samples. In J. Horsfield & J. Marsman (Eds.), Chromatin: Methods and protocols: Methods in molecular biology (Vol. 2458). (pp. 3-21). New York, NY: Springer. doi: 10.1007/978-1-0716-2140-0_1

Smith, J., Banerjee, R., Weeks, R. J., & Chatterjee, A. (2022). Editing of DNA methylation patterns using CRISPR-based tools. In J. Horsfield & J. Marsman (Eds.), Chromatin: Methods and protocols: Methods in molecular biology (Vol. 2458). (pp. 63-74). New York, NY: Springer. doi: 10.1007/978-1-0716-2140-0_4

Journal - Research Article

Chatterjee, A., Bararia, A., Ganguly, D., Mondal, P. K., Roy, P., Banerjee, S., … Chatterjee, A., & Sikdar, N. (2022). DNA methylome in pancreatic cancer identified novel promoter hyper-methylation in NPY and FAIM2 genes associated with poor prognosis in Indian patient cohort. Cancer Cell International, 22, 334. doi: 10.1186/s12935-022-02737-1

Hossain, S. M., Gimenez, G., Stockwell, P. A., Tsai, P., Print, C. G., Rys, J., … Jackson, C., Chatterjee, A., & Eccles, M. R. (2022). Innate immune checkpoint inhibitor resistance is associated with melanoma sub-types exhibiting invasive and de-differentiated gene expression signatures. Frontiers in Immunology, 13, 955063. doi: 10.3389/fimmu.2022.955063

Helliwell, A. M., Stockwell, P. A., Edgar, C. D., Chatterjee, A., & Tate, W. P. (2022). Dynamic epigenetic changes during a relapse and recovery cycle in myalgic encephalomyelitis/chronic fatigue ayndrome. International Journal of Molecular Sciences, 23(19), 11852. doi: 10.3390/ijms231911852

Vasantharajan, S. S., Barnett, E., Gray, E. S., McCall, J. L., Rodger, E. J., Eccles, M. R., Munro, F., Pattison, S., & Chatterjee, A. (2022). Assessment of a size-based method for enriching circulating tumour cells in colorectal cancer. Cancers, 14, 3446. doi: 10.3390/cancers14143446

Ghosh, N., Fenton, S., van Hout, I., Jones, G. T., Coffey, S., Williams, M. J. A., Sugunesegran, R., Parry, D., … Schwenke, D. O., Chatterjee, A., & Katare, R. (2022). Therapeutic knockdown of miR-320 improves deteriorated cardiac function in a pre-clinical model of non-ischemic diabetic heart disease. Molecular Therapy: Nucleic Acids, 29, 330-342. doi: 10.1016/j.omtn.2022.07.007

Tate, W., Walker, M., Sweetman, E., Helliwell, A., Peppercorn, K., Edgar, C., Blair, A., & Chatterjee, A. (2022). Molecular mechanisms of neuroinflammation in ME/CFS and long COVID to sustain disease and promote relapses. Frontiers in Neurology, 13, 877772. doi: 10.3389/fneur.2022.877772

Journal - Research Other

O'Neill, H., Lee, H., Gupta, I., Rodger, E. J., & Chatterjee, A. (2022). Single-cell DNA methylation analysis in cancer. Cancers, 14, 6171. doi: 10.3390/cancers14246171

Chatterjee, A., & Kulshreshtha, R. (2022). Role of epigenetic regulators in the initiation, progression, and metastasis of cancer. Frontiers in Genetics, 13, 978097. doi: 10.3389/fgene.2022.978097

Banerjee, R., Smith, J., Eccles, M. R., Weeks, R. J., & Chatterjee, A. (2022). Epigenetic basis and targeting of cancer metastasis. Trends in Cancer, 8(3), 226-241. doi: 10.1016/j.trecan.2021.11.008

Conference Contribution - Published proceedings: Abstract

Ghosh, N., Fenton, S., Chatterjee, A., Schwenke, D., & Katare, R. (2022). In vivo knockdown of pro-apoptotic miR-320 restores cardiac function and angiogenesis in a mouse model of type 2 diabetes. Circulation, 146(Suppl. 1), 13062. doi: 10.1161/circ.146.suppl_1.13062

Conference Contribution - Poster Presentation (not in published proceedings)

Keestra, N., Weeks, R., Rodger, E., & Chatterjee, A. (2022, August). CRISPR methylation-editing screen to identify drivers of tumour metastasis. Poster session presented at the CRISPR Technologies Satellite Meeting: Queenstown Research Week, Queenstown, New Zealand.

Conference Contribution - Verbal presentation and other Conference outputs

Vasantharajan, S. S., Barnett, E., Eccles, M. R., Pattison, S., Rodger, E. J., McCall, J. L., … Munro, F., & Chatterjee, A. (2022, September). Evaluation of a membrane-based method for enriching circulating tumour cells from the blood of colorectal cancer patients. Verbal presentation at the Postgraduate & Early Career Researchers Committee (PERC) & Division of Health Sciences Early & Mid-Career Researcher (EMCR) Joint Research Symposium, Dunedin, New Zealand.

Shyam, S., Eccles, M. R., Pattison, S., Rodger, E. J., McCall, J. L., Gray, E. S., & Chatterjee, A. (2022, August). Evaluation of a membrane-based method for enriching circulating tumour cells from the blood of colorectal cancer patients. Verbal presentation at the Cancer Satellite Meeting: Queenstown Research Week, Queenstown, New Zealand.

Smith, J., Banerjee, R., Waly, R., Keestra, N., Gimenez, G., Day, R., Weeks, R. J., & Chatterjee, A. (2022, August). Editing DNA methylation in cancer cells. Verbal presentation at the CRISPR Technologies Satellite Meeting: Queenstown Research Week, Queenstown, New Zealand.

Banerjee, R., Smith, J., Eccles, M. R., Weeks, R. J., Antony, J., & Chatterjee, A. (2022, August). Investigating DNA methylation as a mechanism for paradoxical gene activation using targeted epigenetic editing. Verbal presentation at the CRISPR Technologies Satellite Meeting: Queenstown Research Week, Queenstown, New Zealand.

Chatterjee, A. (2022, August-September). Insights from DNA methylome. Verbal presentation at the 31st Queenstown Molecular Biology Meeting (QMB), Queenstown, New Zealand.

2021

Journal - Research Article

Smith, J., Banerjee, R., Waly, R., Urbano, A., Gimenez, G., Day, R., Eccles, M. R., Weeks, R. J., & Chatterjee, A. (2021). Locus-specific DNA methylation editing in melanoma cell lines using a CRISPR-based system. Cancers, 13, 5433. doi: 10.3390/cancers13215433

Tschirley, A. M., Stockwell, P. A., Rodger, E. J., Eltherington, O., Morison, I. M., Christensen, N., Chatterjee, A., & Hibma, M. (2021). The mouse papillomavirus epigenetic signature is characterised by DNA hypermethylation after lesion regression. Viruses, 13, 2045. doi: 10.3390/v13102045

Ahn, A., Rodger, E. J., Motwani, J., Gimenez, G., Stockwell, P. A., Parry, M., … Chatterjee, A., & Eccles, M. R. (2021). Transcriptional reprogramming and constitutive PD-L1 expression in melanoma are associated with dedifferentiation and activation of interferon and tumour necrosis factor signalling pathways. Cancers, 13, 4250. doi: 10.3390/cancers13174250

Stockwell, P. A., Lynch-Sutherland, C. F., Chatterjee, A., Macaulay, E. C., & Eccles, M. R. (2021). RepExpress: A novel pipeline for the quantification and characterization of transposable element expression from RNA-seq data. Current Protocols, 1(8), e206. doi: 10.1002/cpz1.206

Almomani, S. N., Alsaleh, A. A., Weeks, R. J., Chatterjee, A., Day, R. C., Honda, I., … Fukuzawa, R., Slatter, T. L., Hung, N. A., Devenish, C., Morison, I. M., & Macaulay, E. C. (2021). Identification and validation of DNA methylation changes in pre-eclampsia. Placenta, 110, 16-23. doi: 10.1016/j.placenta.2021.05.005

Voisin, A.-S., Ulloa, V. S., Stockwell, P., Chatterjee, A., & Silvestre, F. (2021). Genome-wide DNA methylation of the liver reveals delayed effects of early-life exposure to 17-α-ethinylestradiol in the self-fertilizing mangrove rivulus. Epigenetics, 17(5), 473-497. doi: 10.1080/15592294.2021.1921337

Shyam, S., Eccles, M. R., Rodger, E. J., Pattison, S., McCall, J. L., Gray, E. S., … Chatterjee, A. (2021). The epigenetic landscape of circulating tumour cells. Biochimica et Biophysica Acta: Reviews on Cancer, 1875(188514). doi: 10.1016/j.bbcan.2021.188514

Dsouza, V. L., Adiga, D., Sriharikrishnaa, S., Suresh, P. S., Chatterjee, A., & Kabekkodu, S. P. (2021). Small nucleolar RNA and its potential role in breast cancer: A comprehensive review. Biochimica et Biophysica Acta: Reviews on Cancer, 1875(1). doi: 10.1016/j.bbcan.2020.188501

Tran, K. B., Gimenez, G., Tsai, P., Kolekar, S., Rodger, E., Chatterjee, A., … Eccles, M. R., … Shepherd, P. R. (2021). Genomic and signalling pathway characterisation of the NZM panel of melanoma cell lines: A valuable model for studying the impact of genetic diversity in melanoma. Pigment Cell & Melanoma Research, 34(1), 136-143. doi: 10.1111/pcmr.12908

Journal - Research Other

Bowden, S. A., Rodger, E. J., Chatterjee, A., Eccles, M. R., & Stayner, C. (2021). Recent discoveries in epigenetic modifications of polycystic kidney disease. International Journal of Molecular Sciences, 22(24), 13327. doi: 10.3390/ijms222413327

Hossain, S. M., Lynch-Sutherland, C., Chatterjee, A., Macaulay, E. C., & Eccles, M. R. (2021). Can immune suppression and epigenome regulation in placenta offer novel insights into cancer immune evasion and immunotherapy resistance? Epigenomes, 5, 16. doi: 10.3390/epigenomes5030016

Conference Contribution - Published proceedings: Abstract

Shyam, S., Eccles, M., Pattison, S., Rodger, E., McCall, J., Gray, E., & Chatterjee, A. (2021). Identification of tumour specific-epigenetic signatures in circulating tumour cells to understand their role in colorectal cancer metasis. Proceedings of the Genetics Otago (GO) Annual Symposium. Retrieved from https://blogs.otago.ac.nz/go

Conference Contribution - Poster Presentation (not in published proceedings)

Banerjee, R., Smith, J., Waly, R., Antony, J., Eccles, M., Weeks, R., & Chatterjee, A. (2021, September). Investigating DNA methylation as a mechanism for paradoxical gene activation using targeted epigenetic editing. Poster session presented at the Achieving Health Equity from Research Conference [Otago Spotlight Series], Wellington, New Zealand.

Other Research Output

Chatterjee, A. (2021, March). Insights from DNA methylomes and cancer metastasis. Department of Microbiology & Immunology Seminar. University of Otago, Dunedin, New Zealand. [Department Seminar].

2020

Journal - Research Article

Honda, S., Chatterjee, A., Leichter, A. L., Miyagi, H., Minato, M., Fujiyoshi, S., … Eccles, M. R. (2020). A microRNA cluster in the DLK1-DIO3 imprinted region on chromosome 14q32.2 is dysregulated in metastatic hepatoblastomas. Frontiers in Oncology, 10, 513601. doi: 10.3389/fonc.2020.513601

Helliwell, A. M., Sweetman, E. C., Stockwell, P. A., Edgar, C. D., Chatterjee, A., & Tate, W. P. (2020). Changes in DNA methylation profiles of myalgic encephalomyelitis/chronic fatigue syndrome patients reflect systemic dysfunctions. Clinical Epigenetics, 12(1), 167. doi: 10.1186/s13148-020-00960-z

Lynch-Sutherland, C. F., Chatterjee, A., Stockwell, P. A., Eccles, M. R., & Macaulay, E. C. (2020). Reawakening the developmental origins of cancer through transposable elements. Frontiers in Oncology, 10, 468. doi: 10.3389/fonc.2020.00468

Tiffen, J., Gallagher, S., Filipp, F., Gunatilake, D., Al Emran, A., Cullinane, C., … Chatterjee, A., Rodger, E. J., Eccles, M. R., & Hersey, P. (2020). EZH2 cooperates with DNA methylation to downregulate key tumour suppressors and IFN signatures in melanoma. Journal of Investigative Dermatology, 140, 2442-2454.e5. doi: 10.1016/j.jid.2020.02.042

Bowden, S. A., Stockwell, P. A., Rodger, E. J., Parry, M. F., Eccles, M. R., Stayner, C., & Chatterjee, A. (2020). Extensive inter-cyst DNA methylation variation in autosomal dominant polycystic kidney disease revealed by genome scale sequencing. Frontiers in Genetics, 11, 348. doi: 10.3389/fgene.2020.00348

Jones, G. T., Marsman, J., Bhat, B., Phillips, V. L., Chatterjee, A., Rodger, E. J., Williams, M. J. A., van Rij, A. M., & McCormick, S. P. A. (2020). DNA methylation profiling identifies a high effect genetic variant for lipoprotein(a) levels. Epigenetics, 15(9), 949-958. doi: 10.1080/15592294.2020.1739797

Journal - Research Other

Smith, J., Sen, S., Weeks, R. J., Eccles, M. R., & Chatterjee, A. (2020). Promoter DNA hypermethylation and paradoxical gene activation. Trends in Cancer, 6(5), 392-406. doi: 10.1016/j.trecan.2020.02.007

Conference Contribution - Published proceedings: Abstract

Smith, J., Banerjee, R., Weeks, R., & Chatterjee, A. (2020). Technical aspects of CRISPR-methylation editing. Proceedings of the Genetics Otago (GO) Epigenetics User Group (EUG) Symposium. Retrieved from https://blogs.otago.ac.nz/go/2020-3/

Vasantharajan, S. S., Chatterjee, A., Eccles, M., Pattison, S., McCall, J., Gray, E., & Warkiani, M. (2020). Circulating tumour cells (CTCs) as a model to identify tumour-specific epigenetic signatures of metastasis in colorectal cancer. Proceedings of the Genetics Otago (GO) Epigenetics User Group (EUG) Symposium. Retrieved from https://blogs.otago.ac.nz/go/2020-3/

Lynch-Sutherland, C. F., Stockwell, P. A., Eccles, M. R., Chatterjee, A., & Macaulay, E. C. (2020). Reawakening the developmental origins of cancer through transposable elements. Proceedings of the Genetics Otago (GO) Epigenetics User Group (EUG) Symposium. Retrieved from https://blogs.otago.ac.nz/go/2020-3/

Ghosh, N., Weeks, R., Day, R., van Hout, I., Coffey, S., Williams, M. J., Davis, P., Chatterjee, A., & Katare, R. (2020). Therapeutic modulation of microRNA-320 using CRISPR/Cas9 to prevent apoptosis in high glucose cultured human ventricular cardiomyocytes. Proceedings of the Genetics Otago (GO) Epigenetics User Group (EUG) Symposium. Retrieved from https://blogs.otago.ac.nz/go/2020-3/

Banerjee, R., Smith, J., Stockwell, P., Eccles, M., Weeks, R., & Chatterjee, A. (2020). Investigating DNA methylation as a mechanism for gene activation using gene editing technology. Proceedings of the Genetics Otago (GO) Epigenetics User Group (EUG) Symposium. Retrieved from https://blogs.otago.ac.nz/go/2020-3/

Ajithkumar, P., McCall, J., Guilford, P., Pattison, S., Rodger, E., & Chatterjee, A. (2020). Epigenetic profiling of colorectal cancer to predict patients at high risk of metastasis. Proceedings of the Genetics Otago (GO) Epigenetics User Group (EUG) Symposium. Retrieved from https://blogs.otago.ac.nz/go/2020-3/

Ahn, A., Rodger, E. J., Stockwell, P. A., Parry, M., Motwani, J., Gallagher, S. J., … Chatterjee, A., & Eccles, M. R. (2020). mRNA and long non-coding RNA expression defines constitutive and inducible PD-L1 expression in melanoma and associated with treatment resistance and response. Proceedings of the Genetics Otago (GO) Epigenetics User Group (EUG) Symposium. Retrieved from https://blogs.otago.ac.nz/go/2020-3/

Weeks, R. J., Smith, J., Banerjee, R., Ahn, A., Day, R., Chatterjee, A., & Eccles, M. (2020). Using novel CRISPR technology to edit DNA methylation [Invited]. Proceedings of the Genetics Otago (GO) Epigenetics User Group (EUG) Symposium. Retrieved from https://blogs.otago.ac.nz/go/2020-3/

Macaulay, E. C., Almomani, S., Lynch-Sutherland, C. F., Bessemer, B., Chatterjee, A., Alsaleh, A. A., Stockwell, P. A., Ludgate, J. L., Weeks, R. J., Jones, G. T., Day, R. C., Fukazawa, R., Slatter, T. L., Hung, N. A., Devenish, C., Morison, I. M., & Eccles, M. R. (2020). The potential power of placental epigenetics [Invited]. Proceedings of the Genetics Otago (GO) Epigenetics User Group (EUG) Symposium. Retrieved from https://blogs.otago.ac.nz/go/2020-3/

Waly, R., Weeks, R. J., & Chatterjee, A. (2020). Investigating the role of DNA methylation in paradoxical gene expression using a CRISPR-based system. Proceedings of the Genetics Otago (GO) Zoom Symposium. Retrieved from https://blogs.otago.ac.nz/go/2020-3/

Shyam, S., Eccles, M., Pattison, S., McCall, J., Gray, E., & Chatterjee, A. (2020). Circulating tumour cells as a model to identify tumour-speciﬁc epigenetic signatures of colorectal cancer metastasis. Proceedings of the Genetics Otago (GO) Zoom Symposium. Retrieved from https://blogs.otago.ac.nz/go/2020-3/

Banerjee, R., Smith, J., Stockwell, P., Eccles, M., Weeks, R., & Chatterjee, A. (2020). Investigating DNA methylation as a mechanism for paradoxical gene activation using epigenomic editing technology. Proceedings of the Genetics Otago (GO) Zoom Symposium. Retrieved from https://blogs.otago.ac.nz/go/2020-3/

Chatterjee, A., McCall, J., Guilford, P., Pattison, S., Rodger, E., & Ajithkumar, P. (2020). Epigenomic profiling of colorectal cancer to predict patients at high risk of metastasis. Cancer Research, 80(16, Suppl.), 2434. doi: 10.1158/1538-7445.Am2020-2434

Silvestre, F., Carion, A., Chapelle, V., Voisin, A.-S., Fellous, A., Suarez-Ulloa, V., … Chatterjee, A., & Earley, R. L. (2020). The self-fertilizing mangrove rivulus as a model species in environmental epigenetics. Integrative & Comparative Biology, 60(Suppl. 1), (pp. E215). doi: 10.1093/icb/icaa006

2019

Journal - Research Article

Rodger, E. J., Chatterjee, A., Stockwell, P. A., & Eccles, M. R. (2019). Characterisation of DNA methylation changes in EBF3 and TBC1D16 associated with tumour progression and metastasis in multiple cancer types. Clinical Epigenetics, 11, 114. doi: 10.1186/s13148-019-0710-5

Roy, R., Chatterjee, A., Das, D., Ray, A., Singh, R., Chattopadhyay, E., … Eccles, M., … Roy, B. (2019). Genome-wide miRNA methylome analysis in oral cancer: Possible biomarkers associated with patient survival. Epigenomics, 11(5), 473-487. doi: 10.2217/epi-2018-0078

Journal - Research Other

Urbano, A., Smith, J., Weeks, R. J., & Chatterjee, A. (2019). Gene-specific targeting of DNA methylation in the mammalian genome. Cancers, 11(10), 1515. doi: 10.3390/cancers11101515

Al Emran, A., Chatterjee, A., Rodger, E. J., Tiffen, J. C., Gallagher, S. J., Eccles, M. R., & Hersey, P. (2019). Targeting DNA methylation and EZH2 activity to overcome melanoma resistance to immunotherapy. Trends in Immunology, 40(4), 328-344. doi: 10.1016/j.it.2019.02.004

Conference Contribution - Published proceedings: Abstract

Lynch-Sutherland, C., Stockwell, P. A., Eccles, M. R., Chatterjee, A., & Macaulay, E. C. (2019). Good genes gone bad: Are placental genes hijacked by cancer cells to facilitate invasion? Proceedings of the 16th Asian Conference on Transcription. (pp. 77). Retrieved from https://act2019.p.events4you.currinda.com/days/2019-12-02

Chatterjee, A., Rodger, E. J., Ahn, A., Stockwell, P. A., Parry, M., Gallagher, S., … Eccles, M. (2019). Methylome and transcriptome programme segregates PD-L1 expressing and non-expressing melanoma. Proceedings of the 16th Asian Conference on Transcription. (pp. 38-39). Retrieved from http://act2019.p.events4you.currinda.com/days/2019-12-02/

Chatterjee, A., Ahn, A., Rodger, E. J., Stockwell, P. A., Parry, M., Motwani, J., … Eccles, M. R. (2019). Global DNA methylation levels regulate PD-L1 expression in melanoma. Cancer Research, 79(13, Suppl.). doi: 10.1158/1538-7445.Am2019-826

Bowden, S., Rodger, E. J., Bates, M., Chatterjee, A., Eccles, M. R., & Stayner, C. (2019). Global methylome analysis of single cysts in human ADPKD. Kidney International Reports, 4(7, Suppl.), (pp. S47). doi: 10.1016/j.ekir.2019.05.125

Conference Contribution - Poster Presentation (not in published proceedings)

Stayner, C., Bowden, S., Rodger, E. J., Bates, M., McDougall, L., Perreau, T., Chatterjee, A., & Eccles, M. R. (2019, August-September). Do epigenetic events underpin potential new treatment targets in cystic kidney disease? Poster session presented at the Queenstown Molecular Biology (QMB) Meetings, Queenstown, New Zealand.

Conference Contribution - Verbal presentation and other Conference outputs

Lynch-Sutherland, C. F., Stockwell, P. A., Eccles, M. R., Chatterjee, A., & Macaulay, E. C. (2019, August-September). Good genes gone bad: Are placental genes hijacked by cancer cells to facilitate invasion? Verbal presentation at the Queenstown Molecular Biology (QMB) Meetings, Queenstown, New Zealand.

Macaulay, E. C., Almomani, S., Lynch-Sutherland, C. F., Chatterjee, A. C., Stockwell, P. A., Alsaleh, A. A., Wilson, J. L., Weeks, R. J., Day, R. C., Fukuzawa, R., Slatter, T. L., Hung, N. A., Devenish, C., Morison, I. M., & Eccles, M. R. (2019, August-September). The placental potential: Harnessing insights from placental epigenetics to predict disease. Verbal presentation at the Queenstown Molecular Biology (QMB) Meetings, Queenstown, New Zealand.

Helliwell, A. M., Chatterjee, A., Stockwell, P. A., & Tate, W. P. (2019, August-September). DNA methylation changes in myalgic encephalomyelitis/chronic fatigue syndrome. Verbal presentation at the Queenstown Molecular Biology (QMB) Meetings, Queenstown, New Zealand.

2018

Chapter in Book - Research

Askarian-Amiri, M. E., Rodger, E. J., Chatterjee, A., Finlay, G., & Baguley, B. C. (2018). Epigenetics in melanoma. In A. I. Riker (Ed.), Melanoma: A modern multidisciplinary approach. (pp. 115-132). Cham, Switzerland: Springer. doi: 10.1007/978-3-319-78310-9_7

Chatterjee, A., Ahn, A., Rodger, E. J., Stockwell, P. A., & Eccles, M. R. (2018). A guide for designing and analyzing RNA-Seq data. In N. Raghavachari & N. Garcia-Reyero (Eds.), Gene expression analysis: Methods in molecular biology (Vol. 1783). (pp. 35-80). New York, NY: Humana Press. doi: 10.1007/978-1-4939-7834-2_3

Journal - Research Article

Bowden, S. A., Rodger, E. J., Bates, M., Chatterjee, A., Eccles, M. R., & Stayner, C. (2018). Genome-scale single nucleotide resolution analysis of DNA methylation in human autosomal dominant polycystic kidney disease. American Journal of Nephrology, 48(6), 415-424. doi: 10.1159/000494739

Falisse, E., Ducos, B., Stockwell, P. A., Morison, I. M., Chatterjee, A., & Silvestre, F. (2018). DNA methylation and gene expression alterations in zebrafish early-life stages exposed to the antibacterial agent triclosan. Environmental Pollution, 243(Part B), 1867-1877. doi: 10.1016/j.envpol.2018.10.004

Chatterjee, A., Rodger, E. J., Ahn, A., Stockwell, P. A., Parry, M., Motwani, J., … Eccles, M. R., & Hersey, P. (2018). Marked global DNA hypomethylation is associated with constitutive PD-L1 expression in melanoma. iScience, 4, 312-325. doi: 10.1016/j.isci.2018.05.021

Chatterjee, A., Rodger, E. J., & Eccles, M. R. (2018). Epigenetic drivers of tumourigenesis and cancer metastasis. Seminars in Cancer Biology, 51, 149-159. doi: 10.1016/j.semcancer.2017.08.004

Rajendiran, A., Chatterjee, A., & Pan, A. (2018). Computational approaches and related tools to identify microRNAs in a species: A bird's eye view. Interdisciplinary Sciences, 10(3), 616-635. doi: 10.1007/s12539-017-0223-x

Conference Contribution - Poster Presentation (not in published proceedings)

Ahn, A., Rodger, E. J., Stockwell, P. A., Parry, M., Motwani, J., Gallagher, S. J., … Chatterjee, A., & Eccles, M. R. (2018, August). Investigating the role of DNA methylation, gene expression, long non-coding RNA and transposable elements in constitutive PD-L1 expression in melanoma cell lines. Poster session presented at the Queenstown Molecular Biology (QMB) Meetings, Queenstown, New Zealand.

Eccles, M., Rodger, E., Chatterjee, A., & Stockwell, P. (2018, August). Is EBF3 promotor hypermethylation an oncogenic epi-mutation in multiple cancer types? Poster session presented at the Queenstown Molecular Biology (QMB) Meetings, Queenstown, New Zealand.

Henderson, L., Mehta, S., Fleming, N., Eccles, M., Chatterjee, A., Print, C., … Braithwaite, A. (2018, August). p63 promotes proliferation in melanoma cell lines via regulation of AQP3. Poster session presented at the Queenstown Molecular Biology (QMB) Meetings, Queenstown, New Zealand.

Conference Contribution - Verbal presentation and other Conference outputs

Chatterjee, A., Rodger, E., Ahn, A., Stockwell, P., Parry, M., Motwani, J., … Eccles, M., & Hersey, P. (2018, August). Striking loss of global DNA methylation levels and constitutive PD-L1 expression in melanoma. Verbal presentation at the Queenstown Molecular Biology (QMB) Meetings, Queenstown, New Zealand.

2017

Chapter in Book - Research

Chatterjee, A., Rodger, E. J., Morison, I. M., Eccles, M. R., & Stockwell, P. A. (2017). Tools and strategies for analysis of genome-wide and gene-specific DNA methylation patterns. In G. J. Seymour, M. P. Cullinan & N. C. K. Heng (Eds.), Oral biology: Molecular techniques and applications: Methods in molecular biology (Vol. 1537). (2nd ed.) (pp. 249-277). New York, NY: Springer. doi: 10.1007/978-1-4939-6685-1_15

Chatterjee, A., Rodger, E. J., Stockwell, P. A., Le Mée, G., & Morison, I. M. (2017). Generating multiple base-resolution DNA methylomes using reduced representation bisulfite sequencing. In G. J. Seymour, M. P. Cullinan & N. C. K. Heng (Eds.), Oral biology: Molecular techniques and applications: Methods in molecular biology (Vol. 1537). (2nd ed.) (pp. 279-298). New York, NY: Springer. doi: 10.1007/978-1-4939-6685-1_16

Journal - Research Article

Macaulay, E. C., Chatterjee, A., Cheng, X., Baguley, B. C., Eccles, M. R., & Morison, I. M. (2017). The genes of life and death: A potential role for placental-specific genes in cancer: Active retrotransposons in the placenta encode unique functional genes that may also be used by cancer cells to promote malignancy. BioEssays, 39(11), 1700091. doi: 10.1002/bies.201700091

Ludgate, J. L., Wright, J., Stockwell, P. A., Morison, I. M., Eccles, M. R., & Chatterjee, A. (2017). A streamlined method for analysing genome-wide DNA methylation patterns from low amounts of FFPE DNA. BMC Medical Genomics, 10, 54. doi: 10.1186/s12920-017-0290-1

Chatterjee, A., Macaulay, E. C., Ahn, A., Ludgate, J. L., Stockwell, P. A., Weeks, R. J., Parry, M. F., Foster, T. J., … Eccles, M. R., & Morison, I. M. (2017). Comparative assessment of DNA methylation patterns between reduced representation bisulfite sequencing and Sequenom EpiTyper methylation analysis. Epigenomics, 9(6), 823-832. doi: 10.2217/epi-2016-0176

Leichter, A. L., Sullivan, M. J., Eccles, M. R., & Chatterjee, A. (2017). MicroRNA expression patterns and signalling pathways in the development and progression of childhood solid tumours. Molecular Cancer, 16(1), 15. doi: 10.1186/s12943-017-0584-0

Chatterjee, A., Stockwell, P. A., Ahn, A., Rodger, E. J., Leichter, A. L., & Eccles, M. R. (2017). Genome-wide methylation sequencing of paired primary and metastatic cell lines identifies common DNA methylation changes and a role for EBF3 as a candidate epigenetic driver of melanoma metastasis. Oncotarget, 8(4), 6085-6101. doi: 10.18632/oncotarget.14042

Journal - Research Other

Eccles, M. R., Chatterjee, A., & Rodger, E. J. (2017). Identifying drivers of metastasis; towards a systematic approach. Translational Cancer Research, 6(Suppl. 7), S1273-S1276. doi: 10.21037/tcr.2017.09.52

Ahn, A., Chatterjee, A., & Eccles, M. R. (2017). The slow cycling phenotype: A growing problem for treatment resistance in melanoma. Molecular Cancer Therapeutics, 16(6), 1002-1009. doi: 10.1158/1535-7163.mct-16-0535

Journal - Professional & Other Non-Research Articles

Rodger, E. J., & Chatterjee, A. (2017). The epigenomic basis of common diseases. Clinical Epigenetics, 9(1), 5. doi: 10.1186/s13148-017-0313-y

Conference Contribution - Poster Presentation (not in published proceedings)

Eccles, M. R., Chatterjee, A., Rodger, E. J., Ahn, A., Leichter, A., Motwani, J., Stockwell, P., & Parry, M. (2017, September). Epigenetic drivers of melanoma metastasis identified by genome-wide reduced-representation bisulphite sequencing (RRBS) analysis. Poster session presented at the Queenstown Molecular Biology (QMB) Meetings, Queenstown, New Zealand.

Ahn, A., Rodger, E. J., Eccles, M. R., & Chatterjee, A. (2017, September). Stratification of melanoma patients according to PD-L1 expression, CpG methylation and presence of tumourinfiltrating lymphocytes. Poster session presented at the Queenstown Molecular Biology (QMB) Meetings, Queenstown, New Zealand.

Eccles, M. R., Chatterjee, A., Rodger, E. J., Ahn, A., Leichter, A., Motwani, J., Stockwell, P., & Parry, M. (2017, September). Epigenetic driver of melanoma metastasis identified by genome-wide analysis. Poster session presented at the Queenstown Molecular Biology (QMB) Meetings, Queenstown, New Zealand.

Leichter, A. L., Day, R. C., Stockwell, P. A., Wilson, M., Guilford, P., Eccles, M. R., & Chatterjee, A. (2017, September). Development of single-cell methodologies to interrogate DNA methylation patterns at a whole genome scale. Poster session presented at the Queenstown Molecular Biology (QMB) Meetings, Queenstown, New Zealand.

Conference Contribution - Verbal presentation and other Conference outputs

Eccles, M. R., Chatterjee, A., Rodger, E. J., Ahn, A., Leichter, A., Motwani, J., Stockwell, P., Parry, M., … Gardner, J., … Sarwar, M., … multiple other members of The Maurice Wilkins Centre. (2017, September). Can research involving NZ melanoma patient participation and extensive networking by researchers help reduce the melanoma burden in NZ? Verbal presentation at the Queenstown Molecular Biology (QMB) Meetings, Queenstown, New Zealand.

Stockwell, P. A., & Chatterjee, A. (2017, September). The DMAP package for DNA methylation analysis. Verbal presentation at the Queenstown Molecular Biology (QMB) Meetings, Queenstown, New Zealand.

Chatterjee, A., Stockwell, P. A., Leichter, A. L., Ahn, A., Rodger, E. J., & Eccles, M. R. (2017, September). Epigenetic driver of melanoma metastasis and a clue for novel methylation mediated gene activation mechanism? Verbal presentation at the Queenstown Molecular Biology (QMB) Meetings, Queenstown, New Zealand.

Ahn, A., Euan, R. J., Chatterjee, A., & Eccles, M. (2017, September). Stratification of TCGA melanoma patients according to TIL and PD-L1 expression using RNA-seq data. Verbal presentation at the Queenstown Molecular Biology (QMB) Meetings, Queenstown, New Zealand.

2016

Journal - Research Article

Chatterjee, A., Stockwell, P. A., Rodger, E. J., Parry, M. F., & Eccles, M. R. (2016). scan_tcga tools for integrated epigenomic and transcriptomic analysis of tumor subgroups. Epigenomics, 8(10), 1315-1330. doi: 10.2217/epi-2016-0063

Chatterjee, A., Lagisz, M., Rodger, E. J., Zhen, L., Stockwell, P. A., Duncan, E. J., Horsfield, J. A., … Nakagawa, S. (2016). Sex differences in DNA methylation and expression in zebrafish brain: A test of an extended ‘male sex drive’ hypothesis. Gene, 590, 307-316. doi: 10.1016/j.gene.2016.05.042

Jones, A. M., Ferguson, P., Gardner, J., Rooker, S., Sutton, T., Ahn, A., Chatterjee, A., … Sarwar, M., Emanuel, P., Kenwright, D., … Eccles, M. R. (2016). NRAS and EPHB6 mutation rates differ in metastatic melanomas of patients in the North Island versus South Island of New Zealand. Oncotarget, 7(27), 41017-41030. doi: 10.18632/oncotarget.9351

Chatterjee, A., Macaulay, E. C., Rodger, E. J., Stockwell, P. A., Parry, M. F., Roberts, H. E., Slatter, T. L., Hung, N. A., Devenish, C. J., & Morison, I. M. (2016). Placental hypomethylation is more pronounced in genomic loci devoid of retroelements. Genes Genomes Genetics, 6(7), 1911-1921. doi: 10.1534/g3.116.030379

Chatterjee, A., Stockwell, P. A., Rodger, E. J., & Morison, I. M. (2016). Genome-scale DNA methylome and transcriptome profiling of human neutrophils. Scientific Data, 3, 160019. doi: 10.1038/sdata.2016.19

Conference Contribution - Published proceedings: Abstract

Quon, J., Chatterjee, A., & Eccles, M. (2016). Effect of DNA methylation on expression of genes related to PD-L1 expression in melanoma. New Zealand Medical Journal, 129(1441), (pp. 107). Retrieved from http://www.nzma.org.nz/journal

Conference Contribution - Poster Presentation (not in published proceedings)

Macaulay, E. C., Chatterjee, A., Rodger, E. J., Stockwell, P. A., Parry, M. F., Roberts, H. E., Slatter, T. L., Hung, N. A., & Morison, I. M. (2016, March). Placental hypomethylation is more pronounced in genomic loci devoid of retroelements. Poster session presented at the Keystone Symposia on Molecular and Cellular Biology: Chromatin and Epigenetics, Whistler, Canada.

Bowden, S., Bates, M., Chatterjee, A., Rodger, E. J., Eccles, M. R., & Stayner, C. (2016, August-September). CpG DNA hypomethylation occurs in human Autosomal Dominant Polycystic Kidney Disease. Poster session presented at the Queenstown Molecular Biology (QMB) Meetings, Nelson, New Zealand.

Conference Contribution - Verbal presentation and other Conference outputs

Bowden, S., Bates, M., Chatterjee, A., Rodger, E. J., Eccles, M. R., & Stayner, C. (2016, August-September). CpG DNA hypomethylation occurs in human Autosomal Dominant Polycystic Kidney Disease. Verbal presentation at the Queenstown Molecular Biology (QMB) Meetings, Nelson, New Zealand.

Chatterjee, A., Stockwell, P. A., Ahn, A., Rodger, E. J., Leichter, A., & Eccles, M. R. (2016, August-September). A framework and example for identifying epigenetic drivers of cancer metastasis. Verbal presentation at the Queenstown Molecular Biology (QMB) Meetings, Nelson, New Zealand.

2015

Journal - Research Article

Leichter, A. L., Purcell, R. V., Sullivan, M. J., Eccles, M. R., & Chatterjee, A. (2015). Multi-platform microRNA profiling of hepatoblastoma patients using formalin fixed paraffin embedded archival samples. GigaScience, 4, 54. doi: 10.1186/s13742-015-0099-9

Chatterjee, A., Stockwell, P. A., Rodger, E. J., Duncan, E. J., Parry, M. F., Weeks, R. J., & Morison, I. M. (2015). Genome-wide DNA methylation map of human neutrophils reveals widespread inter-individual epigenetic variation. Scientific Reports, 5, 17328. doi: 10.1038/srep17328

Chatterjee, A., Leichter, A. L., Fan, V., Tsai, P., Purcell, R. V., Sullivan, M. J., & Eccles, M. R. (2015). A cross comparison of technologies for the detection of microRNAs in clinical FFPE samples of hepatoblastoma patients. Scientific Reports, 5, 10438. doi: 10.1038/srep10438

Journal - Professional & Other Non-Research Articles

Chatterjee, A., & Eccles, M. R. (2015). DNA methylation and epigenomics: New technologies and emerging concepts. Genome Biology, 16(1), 103. doi: 10.1186/s13059-015-0674-5

Conference Contribution - Poster Presentation (not in published proceedings)

Chatterjee, A., Stockwell, P. A., Rodger, E. J., & Eccles, M. R. (2015, August-September). Flexible analysis of TCGA DNA methylation and gene expression data using UNIX tools. Poster session presented at the Queenstown Molecular Biology (QMB) Meetings, Queenstown, New Zealand.

Conference Contribution - Verbal presentation and other Conference outputs

Chatterjee, A., Stockwell, P. A., Ahn, A., Rodger, E. J., Leichter, A. L., & Eccles, M. R. (2015, November). The epigenetic basis of melanoma metastasis. Verbal presentation at the Toxicology Symposium: Toxicology for the Modern Researcher, Dunedin, New Zealand.

Chatterjee, A., Ahn, A., Stockwell, P. A., Rodger, E. J., Leichter, A., & Eccles, M. R. (2015, August-September). Analysis of paired primary and metastatic cell lines identifies common DNA methylation changes in melanoma metastasis. Verbal presentation at the Queenstown Molecular Biology (QMB) Meetings, Queenstown, New Zealand.

Morison, I. M., Macaulay, E. C., & Chatterjee, A. (2015, August-September). Patterns of placental methylation and implications for placental disease and cancer. Verbal presentation at the Queenstown Molecular Biology (QMB) Meetings, Queenstown, New Zealand.

Chatterjee, A. (2015, August-September). Insights from mining DNA methylomes in human and zebrafish. Verbal presentation at the Queenstown Molecular Biology (QMB) Meetings, Queenstown, New Zealand.

2014

Journal - Research Article

Rodger, E. J., Chatterjee, A., & Morison, I. M. (2014). 5-hydroxymethylcytosine: A potential therapeutic target in cancer. Epigenomics, 6(5), 503-514. doi: 10.2217/epi.14.39

Stockwell, P. A., Chatterjee, A., Rodger, E. J., & Morison, I. M. (2014). DMAP: Differential methylation analysis package for RRBS and WGBS data. Bioinformatics, 30(13), 1814-1822. doi: 10.1093/bioinformatics/btu126

Journal - Research Other

Chatterjee, A., Stockwell, P. A., Horsfield, J. A., Morison, I. M., & Nakagawa, S. (2014). Base-resolution DNA methylation landscape of zebrafish brain and liver [Data in brief]. Genomics Data, 2, 342-344. doi: 10.1016/j.gdata.2014.10.008

Conference Contribution - Published proceedings: Abstract

Rodger, E., Chatterjee, A., Stockwell, P., & Morison, I. (2014). DNA methylation markers of myedysplastic syndrome. New Zealand Medical Journal, 127(1398). Retrieved from http://www.nzma.org.nz/journal

Conference Contribution - Poster Presentation (not in published proceedings)

Leichter, A. L., Chatterjee, A., & Eccles, M. R. (2014, August). A cross comparison of technologies to investigate microRNA expression patterns in hepatoblastoma. Poster session presented at the Queenstown Molecular Biology (QMB) Meetings, Queenstown, New Zealand.

Conference Contribution - Verbal presentation and other Conference outputs

Chatterjee, A. (2014, August). Genome-wide DNA methylation map of human neutrophils reveals widespread inter-individual epigenetic variation. Verbal presentation at the Queenstown Molecular Biology (QMB) Meetings, Queenstown, New Zealand.

2013

Journal - Research Article

Chatterjee, A., Ozaki, Y., Stockwell, P. A., Horsfield, J. A., Morison, I. M., & Nakagawa, S. (2013). Mapping the zebrafish brain methylome using reduced representation bisulfite sequencing. Epigenetics, 8(9), 979-989. doi: 10.4161/epi.25797

Conference Contribution - Verbal presentation and other Conference outputs

Morison, I. M., Chatterjee, A., & Stockwell, P. (2013, August). Epigenetic variation in healthy persons: Where is it and what does it mean? Verbal presentation at the Queenstown Molecular Biology (QMB) Meetings, Queenstown, New Zealand.

Awarded Doctoral Degree

Chatterjee, A. (2013). Reduced representation bisulfite sequencing of human neutrophils reveals widespread inter-individual epigenetic variation (PhD). University of Otago, Dunedin, New Zealand. Retrieved from http://hdl.handle.net/10523/4344

2012

Authored Book - Research

Chatterjee, A., & Pan, A. (2012). Genome and proteome composition of Bdellovibrio bacteriovorus: Indications of recent horizontal gene transfer in Bdellovibrio bacteriovorus. Saarbrücken, Germany: Lambert Academic, 112p.

Journal - Research Article

Laskar, A., Chatterjee, A., Chatterjee, S., & Rodger, E. J. (2012). Three-dimensional molecular modeling of a diverse range of SC clan serine proteases. Molecular Biology International, 2012, 580965. doi: 10.1155/2012/580965

Chatterjee, A., Rodger, E. J., Stockwell, P. A., Weeks, R. J., & Morison, I. M. (2012). Technical considerations for reduced representation bisulfite sequencing with multiplexed libraries. Journal of Biomedicine & Biotechnology, 2012, 741542. doi: 10.1155/2012/741542

Laskar, A., Rodger, E. J., Chatterjee, A., & Mandal, C. (2012). Modeling and structural analysis of PA clan serine proteases. BMC Research Notes, 5, 256. doi: 10.1186/1756-0500-5-256

Chatterjee, A., Stockwell, P. A., Rodger, E. J., & Morison, I. M. (2012). Comparison of alignment software for genome-wide bisulphite sequence data. Nucleic Acids Research, 40(10), e79. doi: 10.1093/nar/gks150

Journal - Research Other

Chatterjee, A. (2012). Epigenetic regulation: From mechanism to intervention. Epigenomics, 4(5), 487-490. doi: 10.2217/epi.12.47

Conference Contribution - Poster Presentation (not in published proceedings)

Chatterjee, A., Stockwell, P. A., Rodger, E. J., & Morison, I. M. (2012, September). Base-pair resolution DNA methylation map of neutrophils indicates widespread epigenetic variation among normal individuals. Poster session presented at the Division of Health Sciences Research Forum: Health Matters: Research Excellence at Otago, Dunedin, New Zealand.

Chatterjee, A., Stockwell, P. A., Rodger, E. J., & Morison, I. M. (2012, August). Base-pair resolution DNA methylation map of neutrophils indicates widespread epigenetic variation among normal individuals. Poster session presented at the Queenstown Molecular Biology (QMB) Meetings, Queenstown, New Zealand.

Conference Contribution - Verbal presentation and other Conference outputs

Chatterjee, A., Stockwell, P. A., Rodger, E. J., & Morison, I. M. (2012, November). Genome-wide DNA methylation map indicates widespread epigenetic variation in normal individuals. Verbal presentation at the Gravida Annual Science Symposium: What Makes the Best Start for a Healthy Life? Palmerston North, New Zealand.

2011

Journal - Research Article

Chatterjee, A., & Basu, A. (2011). Rubisco: Limitations and re-engineering for a better enzyme. International Research Journal of Plant Science, 2(2), 022-024.

Laskar, A., Rodger, E. J., Chatterjee, A., & Mandal, C. (2011). Modeling and structural analysis of evolutionarily diverse S8 family serine proteases. Bioinformation, 7(5), 239-245.

Journal - Research Other

Chatterjee, A., & Morison, I. M. (2011). Monozygotic twins: Genes are not the destiny? [Views and challenges]. Bioinformation, 7(7), 369-370.

Conference Contribution - Verbal presentation and other Conference outputs

Chatterjee, A., Stockwell, P. A., Rodger, E. J., & Morison, I. M. (2011, September). Genome-scale DNA methylation mapping: Unraveling inter-individual variation. Verbal presentation at the Queenstown Molecular Biology (QMB) Meetings, Queenstown, New Zealand.

Rodger, E. J., Chatterjee, A., & Morison, I. M. (2011, September). Mapping the methylome of myelodysplasia. Verbal presentation at the Queenstown Molecular Biology (QMB) Meetings, Queenstown, New Zealand.

2010

Journal - Research Article

Basu, A., Chatterjee, A., & Kottalil, D. M. (2010). Helicobacter pylori: Revisiting the role of host genetics in susceptibility to infectious diseases. Journal of Computational Intelligence in Bioinformatics, 3(1), 1-9.

Laskar, A., Mandal, C. N., & Chatterjee, A. (2010). Protease-inhibitor interactions: A structural insight. International Journal of Biotechnology & Biochemistry, 6(2), 231-258.

Chatterjee, A., & Pan, A. (2010). Horizontal gene transfer: A genomic perspective. Online Journal of BioTechnology Research, 1(4), 167-169.

Conference Contribution - Poster Presentation (not in published proceedings)

Chatterjee, A., Rodger, E. J., & Morison, I. M. (2010, September). Genome-scale DNA methylation mapping in normal population. Poster session presented at the Fourth Annual Division of Health Sciences Research Forum, Dunedin, New Zealand.

Conference Contribution - Verbal presentation and other Conference outputs

Chatterjee, A. (2010, November). Genome-scale DNA methylation mapping: Unravelling inter-individual variation. Verbal presentation at the Genetics Otago Symposium, Dunedin, New Zealand.

2009

Journal - Research Article

Shrivastava, R., Sarkar, R., Chatterjee, A., & Khadikar, P. V. (2009). QSAR studies on the action of an algicide from a cyanobacterium: Oscillatoria laetevirens, on photosystem II activity. Advanced Biotech, 8(8), 16-18.

Shrivastava, R., Chauhan, U. K., Sarkar, R., & Chatterjee, A. (2009). Observation on the reaction rate kinetics in cellulosic paper waste. Advanced Biotech, 8(7), 21-25.

Chatterjee, A. (2009). Bdellovibrio bacteriovorus: Life cycle and potential as a predatory renaissance. Advanced Biotech, 8(9), 27-29.

Chatterjee, A. (2009). John's wort (Hypericum perforatum): A review on pharmacodynamics and therapeutic potential. Herbal Tech Industry, 5(5), 18-22.

Laskar, A., & Chatterjee, A. (2009). Computer aided molecular modeling and its implications. Bioinformatics Trends, 4(1), 85-92.

Laskar, A., & Chatterjee, A. (2009). Protease: Revisiting the types and potential. Online Journal of BioTechnology Research, 1(1), 55-61.

2008

Journal - Research Article

Chatterjee, A., & Sarkar, R. (2008). RNA interference (RNA i): A novel strategy in health care and crop improvement. Advanced Biotech, 7(3), 36-38.