Research Associate Professor Aniruddha Chatterjee
Contact Details
- Phone
- 64 21 070 1558
- aniruddha.chatterjee@otago.ac.nz
University Links
- Position
- Research Associate Professor and Rutherford Discovery Fellow
- Department
- Department of Pathology (Dunedin)
- Qualifications
- MSc PhD
- Research summary
- Epigenetics
- 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
- January 2018: Sunday Star Times (Stuff) article New Zealand's got talent: Meet the up-and-comers making big strides in 2018
Read the article on the Sunday Star website - 9 October 2017: Interviewed on Mike Hosking’s Newstalk ZB breakfast show about my recent research on how cancer spreads
Learn more at the Newstalk ZB website - 9 October 2017: Rutherford Fellowship research on cancer metastasis was covered in several media outlets
Read a representative report on the New Zealand Herald website - December 2016: My research on cancer epigenetics on metastasis was highlighted by several media outlets worldwide (in reference to an article published in Oncotarget in December 2016)
Read or download the full article at the Oncotarget website
Read a representative report on Otago Daily Times website - Epigenie articles: Five of Aniruddha's articles were highlighted and covered as key papers. Read or download the articles at the links below.
- Two 'suite' tools for tackling big data in cancer epigenomics analyses (2016)
- Epigenetic diversity teams up with genetics to explain complex phenotypes (2015)
- Take the BS out of bisulfite data analysis with the DMAP analysis suite (2014)
- RRBS dives deep into zebrafish brain methylomes (2013)
- New and improved: Multiplexed reduced representation bisulfite sequencing (RRBS) (2012)
- 25 September 2016: Interviewed by Southern Television (Channel 39) for the programme Melanoma, the burning issue
Stream 'Melanoma, the burning issue' on the Southern Television website (29 minutes, 30 seconds) - 13 July 2016: Aniruddha’s research on zebrafish epigenetics was highlighted in EpiBeat
Read the article on the EpiBeat website - 14 May 2016: Interviewed on This Way Up (RNZ National) on melanoma genetics and epigenetics
Listen on the RNZ National website - 9 September 2015: Aniruddha was awarded the Illumina Emerging Researcher Award
Read the coverage on the Otago Daily Times website - 2012: Customer success story on work done for Agilent on DNA methylation in Professor Ian Morison’s laboratory
Read or download the story on the Agilent website (PDF 408 kb) - 22 February 2012: Aniruddha’s work was highlighted in the Editor’s Choice article on the genomeweb blog
Read the article on the genomeweb website - 8 February 2012: Aniruddha Chatterjee was interviewed by Radio One (Dunedin) on the postgraduate show Rush Hour to talk about epigenetics and inter-individual variation of DNA methylation
(This interview is no longer available online)
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.
- Project Title: Investigation of genetic and epigenetic signatures of primary and metastatic melanoma
Level: Honours/Masters - Project Title: Analysis of cancer genome atlas data to identify epigenetic signature of tumour metastasis
Level: Masters - Project Title: Single cell epigeneomics to investigate circulating tumour cells
Level: Honours/Master's/PhD
Publications
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
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
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
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
Zhang, X., Barnett, E., Smith, J., Wilkinson, E., Subramaniam, R. M., Zarrabi, A., Rodger, E. J., & Chatterjee, A. (2023). Genetic and epigenetic features of neuroendocrine prostate cancer and their emerging applications. In International review of cell and molecular biology. Elsevier. doi: 10.1016/bs.ircmb.2023.06.002
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.
Authored 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
Chapter in Book - Research
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
Chapter in Book - Research
Zhang, X., Barnett, E., Smith, J., Wilkinson, E., Subramaniam, R. M., Zarrabi, A., Rodger, E. J., & Chatterjee, A. (2023). Genetic and epigenetic features of neuroendocrine prostate cancer and their emerging applications. In International review of cell and molecular biology. Elsevier. doi: 10.1016/bs.ircmb.2023.06.002
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
Chapter in Book - Research
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
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
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
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
Chapter in Book - Research
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
Chapter in Book - Research
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
Journal - Research Article
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
Journal - Research Article
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
Journal - Research Article
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. Advance online publication. doi: 10.1007/s00438-023-02033-1
Journal - Research Article
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 Article
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
Journal - Research Article
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
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
Journal - Research Article
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
Journal - Research Article
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
Journal - Research Article
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
Journal - Research Article
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 Article
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
Journal - Research Article
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
Journal - Research Article
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
Journal - Research Article
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
Journal - Research Article
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
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
Journal - Research Article
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
Journal - Research Article
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 Article
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
Journal - Research Article
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
Journal - Research Article
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
Journal - Research Article
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
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
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, 15(9), 949-958. doi: 10.1080/15592294.2020.1739797
Journal - Research Article
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
Journal - Research Article
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
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
Journal - Research Article
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 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
Journal - Research Article
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
Journal - Research Article
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
Journal - Research Article
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
Journal - Research Article
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
Journal - Research Article
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
Journal - Research Article
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 Article
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
Journal - Research Article
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
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
Journal - Research Article
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
Journal - Research Article
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
Journal - Research Article
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
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
Journal - Research Article
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
Journal - Research Article
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 - Research Article
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
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
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
Journal - Research Article
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 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
Journal - Research Article
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
Journal - Research Article
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 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
Journal - Research Article
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
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.
Journal - Research Article
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 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.
Journal - Research Article
Chatterjee, A., & Pan, A. (2010). Horizontal gene transfer: A genomic perspective. Online Journal of BioTechnology Research, 1(4), 167-169.
Journal - Research Article
Laskar, A., Mandal, C. N., & Chatterjee, A. (2010). Protease-inhibitor interactions: A structural insight. International Journal of Biotechnology & Biochemistry, 6(2), 231-258.
Journal - Research Article
Chatterjee, A. (2009). Bdellovibrio bacteriovorus: Life cycle and potential as a predatory renaissance. Advanced Biotech, 8(9), 27-29.
Journal - Research Article
Chatterjee, A. (2009). John's wort (Hypericum perforatum): A review on pharmacodynamics and therapeutic potential. Herbal Tech Industry, 5(5), 18-22.
Journal - Research Article
Laskar, A., & Chatterjee, A. (2009). Computer aided molecular modeling and its implications. Bioinformatics Trends, 4(1), 85-92.
Journal - Research Article
Laskar, A., & Chatterjee, A. (2009). Protease: Revisiting the types and potential. Online Journal of BioTechnology Research, 1(1), 55-61.
Journal - Research Article
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.
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.
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.
Journal - Research Article
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
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
Journal - Research Other
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
Journal - Research Other
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
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
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
Journal - Research Other
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
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
Journal - Research Other
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
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
Journal - Research Other
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 - 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
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
Journal - Research Other
Chatterjee, A. (2012). Epigenetic regulation: From mechanism to intervention. Epigenomics, 4(5), 487-490. doi: 10.2217/epi.12.47
Journal - Research Other
Chatterjee, A., & Morison, I. M. (2011). Monozygotic twins: Genes are not the destiny? [Views and challenges]. Bioinformation, 7(7), 369-370.
Journal - Research Other