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Health Science staff profile

 

Dr Aniruddha Chatterjee

PositionSenior Research Fellow and Rutherford Discovery Fellow
DepartmentDepartment of Pathology (Dunedin)
QualificationsMSc PhD
Research summaryEpigenetics
Teaching
  • PATH 301 Applied Pathology (lecture on epigenetics)
  • PATH 302 Cancer Pathology (lectures on epigenetics)
Memberships
  • 2018–present: Executive board member, Genetics Otago, New Zealand
  • 2017–present: NZ representative, Australian Epigenetics Alliance (AEpiA)
  • 2017: Executive board member, New Zealand Society of Oncology (NZSO)
  • 2017–present: Member, International Cancer Epigenetics Society
  • 2016–present: Board member, Otago Medical School for Research Sciences (OMSRS)
  • 2016–present: Member, Research Committee, Departmental of Pathology, Otago
  • 2015–present: Melanoma Network of New Zealand (Melnet)
  • 2017–present: Associate investigator, Maurice Wilkins Centre CoRE, New Zealand
  • 2015–present: Member, Australia and New Zealand Melanoma Trials Group (ANZMTG)
  • 2013–present: Member, Post-doctoral Association, University of Otago.
  • 2012–present: Staff representative, Otago University Post-graduate Society (OUPS).
  • 2010–2013: PhD student representative, Graduate Research Services and Liaison Committee, University of Otago
  • 2009–2015: Member, National Centre for Growth and Development (Gravida),CoRE

Research

I am the head of the Epigenetics, Disease and Phenotype laboratory. We use bioinformatics and experimental approaches to study epigenetic changes in different cellular contexts to achieve a better understanding of the mechanism of disease in cancer. We aim to use these discoveries to develop biomarkers for specific disease states.

We have four themes in our laboratory

  • Researching the origin and consequences of epigenetic alterations in cancer metastasis
  • Developing analytical tools for epigenomic analysis
  • Cellular and tissue specific epigenetics
  • Environmental epigenetics

See the Chatterjee lab web page for more detail

Media highlights, social involvement, and columns on professional matters

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.

  1. Project Title: Investigation of genetic and epigenetic signatures of primary and metastatic melanoma
    Level: Honours/Masters
  2. Project Title: Analysis of cancer genome atlas data to identify epigenetic signature of tumour metastasis
    Level: Masters
  3. Project Title: Single cell epigeneomics to investigate circulating tumour cells
    Level: Honours/Master's/PhD

Publications

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. Advance online publication. doi: 10.1080/15592294.2020.1739797

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

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

Tran, K. B., Gimenez, G., Tsai, P., Kolekar, S., Rodger, E., Chatterjee, A., … Eccles, M. R., … Shepherd, P. R. (2020). 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. Advance online publication. doi: 10.1111/pcmr.12908

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

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.

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Chapter in Book - Research

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

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., 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

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Journal - Research Article

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. Advance online publication. doi: 10.1080/15592294.2020.1739797

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

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

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

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

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

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

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

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., 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

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

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

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., 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

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., 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

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., 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., 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

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

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

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

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

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

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., 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., 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., & 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.

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.

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.

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

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.

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

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.

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

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

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Journal - Research Other

Tran, K. B., Gimenez, G., Tsai, P., Kolekar, S., Rodger, E., Chatterjee, A., … Eccles, M. R., … Shepherd, P. R. (2020). 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. Advance online publication. doi: 10.1111/pcmr.12908

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

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

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

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

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

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

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

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