2021
Pillay, S., Takahashi, H., Carninci, P., & Kanhere, A. (2021). Antisense RNAs during early vertebrate development are divided in groups with distinct features.. Genome research, 31(6), 995-1010. doi:10.1101/gr.262964.120DOI: 10.1101/gr.262964.120
The Missing Link Between Cancer-Associated Variants and LncRNAs (Journal article)
Wilson, C., & Kanhere, A. (2021). The Missing Link Between Cancer-Associated Variants and LncRNAs. TRENDS IN GENETICS, 37(5), 410-413. doi:10.1016/j.tig.2021.01.010DOI: 10.1016/j.tig.2021.01.010
Jones, R., Wijesinghe, S., Wilson, C., Halsall, J., Liloglou, T., & Kanhere, A. (2021). A long intergenic non-coding RNA regulates nuclear localization of DNA methyl transferase-1. ISCIENCE, 24(4). doi:10.1016/j.isci.2021.102273DOI: 10.1016/j.isci.2021.102273
Wilson, C., & Kanhere, A. (2021). 8q24.21 Locus: A Paradigm to Link Non-Coding RNAs, Genome Polymorphisms and Cancer. INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES, 22(3). doi:10.3390/ijms22031094DOI: 10.3390/ijms22031094
2020
Papadopoulos, A., Chalmantzi, V., Mikhaylichenko, O., Hyvonen, M., Stellas, D., Kanhere, A., . . . Murphy, C. (2021). Combined transcriptomic and phosphoproteomic analysis of BMP4 signaling in human embryonic stem cells. STEM CELL RESEARCH, 50. doi:10.1016/j.scr.2020.102133DOI: 10.1016/j.scr.2020.102133
Al Raawi, D., & Kanhere, A. (2020). Autoregulation of JARID2 through PRC2 interaction with its antisense ncRNA. BMC Research Notes, 13. doi:10.1186/s13104-020-05348-zDOI: 10.1186/s13104-020-05348-z
Ramilowski, J. A., Yip, C. W., Agrawal, S., Chang, J. -C., Ciani, Y., Kulakovskiy, I. V., . . . Carninci, P. (2020). Functional annotation of human long noncoding RNAs via molecular phenotyping.. Genome research, 30(7), 1060-1072. doi:10.1101/gr.254219.119DOI: 10.1101/gr.254219.119
A long intergenic non-coding RNA regulates nuclear localisation of DNA methyl transferase-1 (Journal article)
Jones, R., Wijesinghe, S., Halsall, J., & Kanhere, A. (2020). A long intergenic non-coding RNA regulates nuclear localisation of DNA methyl transferase-1. doi:10.1101/2020.03.11.985705DOI: 10.1101/2020.03.11.985705
Antisense ncRNAs during early vertebrate development are divided in groups with distinct features (Journal article)
Pillay, S., Takahashi, H., Carninci, P., & Kanhere, A. (2020). Antisense ncRNAs during early vertebrate development are divided in groups with distinct features. doi:10.1101/2020.02.08.940148DOI: 10.1101/2020.02.08.940148
2019
Functional Annotation of Human Long Non-Coding RNAs via Molecular Phenotyping (Journal article)
Ramilowski, J. A., Yip, C. W., Agrawal, S., Chang, J. -C., Ciani, Y., Kulakovskiy, I. V., . . . Carninci, P. (2019). Functional Annotation of Human Long Non-Coding RNAs via Molecular Phenotyping. doi:10.1101/700864DOI: 10.1101/700864
Al-Raawi, D., Jones, R., Wijesinghe, S., Halsall, J., Petric, M., Roberts, S., . . . Kanhere, A. (2019). A novel form of JARID2 is required for differentiation in lineage-committed cells. The EMBO Journal, 38(3). doi:10.15252/embj.201798449DOI: 10.15252/embj.201798449
2018
Matthews, A. L., Koo, C. Z., Szyroka, J., Harrison, N., Kanhere, A., & Tomlinson, M. G. (2018). Regulation of Leukocytes by TspanC8 Tetraspanins and the "Molecular Scissor" ADAM10.. Frontiers in immunology, 9, 1451. doi:10.3389/fimmu.2018.01451DOI: 10.3389/fimmu.2018.01451
2017
Pérez-Schindler, J., Kanhere, A., Edwards, L., Allwood, J. W., Dunn, W. B., Schenk, S., & Philp, A. (2017). Exercise and high-fat feeding remodel transcript-metabolite interactive networks in mouse skeletal muscle.. Scientific reports, 7(1), 13485. doi:10.1038/s41598-017-14081-wDOI: 10.1038/s41598-017-14081-w
2016
Choudhury, S. R., Singh, A. K., McLeod, T., Blanchette, M., Jang, B., Badenhorst, P., . . . Brogna, S. (n.d.). Exon junction complex proteins bind nascent transcripts independently of pre-mRNA splicing in Drosophila melanogaster. Elife, 5. doi:10.7554/eLife.19881DOI: 10.7554/eLife.19881
Identification of RNA-Protein Interactions Through In Vitro RNA Pull-Down Assays. (Journal article)
Barnes, C., & Kanhere, A. (2016). Identification of RNA-Protein Interactions Through In Vitro RNA Pull-Down Assays.. Methods in molecular biology (Clifton, N.J.), 1480, 99-113. doi:10.1007/978-1-4939-6380-5_9DOI: 10.1007/978-1-4939-6380-5_9
2013
Gökmen, M. R., Dong, R., Kanhere, A., Powell, N., Perucha, E., Jackson, I., . . . Lord, G. M. (2013). Genome-wide regulatory analysis reveals that T-bet controls Th17 lineage differentiation through direct suppression of IRF4.. Journal of immunology (Baltimore, Md. : 1950), 191(12), 5925-5932. doi:10.4049/jimmunol.1202254DOI: 10.4049/jimmunol.1202254
McClellan, M. J., Wood, C. D., Ojeniyi, O., Cooper, T. J., Kanhere, A., Arvey, A., . . . West, M. J. (2013). Modulation of enhancer looping and differential gene targeting by Epstein-Barr virus transcription factors directs cellular reprogramming.. PLoS pathogens, 9(9), e1003636. doi:10.1371/journal.ppat.1003636DOI: 10.1371/journal.ppat.1003636
2012
T-bet and GATA3 orchestrate Th1 and Th2 differentiation through lineage-specific targeting of distal regulatory elements. (Journal article)
Kanhere, A. S. (2012). T-bet and GATA3 orchestrate Th1 and Th2 differentiation through lineage-specific targeting of distal regulatory elements.. Nature Communications. doi:10.1038/ncomms2260DOI: 10.1038/ncomms2260
Ramasubramanyan, S., Kanhere, A., Osborn, K., Flower, K., Jenner, R. G., & Sinclair, A. J. (2012). Genome-wide analyses of Zta binding to the Epstein-Barr virus genome reveals interactions in both early and late lytic cycles and an epigenetic switch leading to an altered binding profile.. Journal of virology, 86(23), 12494-12502. doi:10.1128/jvi.01705-12DOI: 10.1128/jvi.01705-12
McClellan, M. J., Khasnis, S., Wood, C. D., Palermo, R. D., Schlick, S. N., Kanhere, A. S., . . . West, M. J. (2012). Downregulation of integrin receptor-signaling genes by Epstein-Barr virus EBNA 3C via promoter-proximal and -distal binding elements.. Journal of virology, 86(9), 5165-5178. doi:10.1128/jvi.07161-11DOI: 10.1128/jvi.07161-11
Kanhere, A., & Jenner, R. G. (2012). Noncoding RNA localisation mechanisms in chromatin regulation.. Silence, 3(1), 2. doi:10.1186/1758-907x-3-2DOI: 10.1186/1758-907x-3-2
Kanhere, A., Hertweck, A., Bhatia, U., Gökmen, M. R., Perucha, E., Jackson, I., . . . Jenner, R. G. (2012). T-bet and GATA3 orchestrate Th1 and Th2 differentiation through lineage-specific targeting of distal regulatory elements.. Nature communications, 3, 1268. doi:10.1038/ncomms2260DOI: 10.1038/ncomms2260
2011
Rani, A., Afzali, B., Kelly, A., Tewolde-Berhan, L., Hackett, M., Kanhere, A. S., . . . John, S. (2011). IL-2 regulates expression of C-MAF in human CD4 T cells.. Journal of immunology (Baltimore, Md. : 1950), 187(7), 3721-3729. doi:10.4049/jimmunol.1002354DOI: 10.4049/jimmunol.1002354
2010
Kanhere, A., Viiri, K., Araújo, C. C., Rasaiyaah, J., Bouwman, R. D., Whyte, W. A., . . . Jenner, R. G. (2010). Short RNAs are transcribed from repressed polycomb target genes and interact with polycomb repressive complex-2.. Molecular cell, 38(5), 675-688. doi:10.1016/j.molcel.2010.03.019DOI: 10.1016/j.molcel.2010.03.019
2009
Roider, H. G., Lenhard, B., Kanhere, A., Haas, S. A., & Vingron, M. (2009). CpG-depleted promoters harbor tissue-specific transcription factor binding signals--implications for motif overrepresentation analyses.. Nucleic acids research, 37(19), 6305-6315. doi:10.1093/nar/gkp682DOI: 10.1093/nar/gkp682
Kanhere, A., & Vingron, M. (2009). Horizontal Gene Transfers in prokaryotes show differential preferences for metabolic and translational genes.. BMC evolutionary biology, 9, 9. doi:10.1186/1471-2148-9-9DOI: 10.1186/1471-2148-9-9
2007
Predicting transcription factor affinities to DNA from a biophysical model. (Journal article)
Roider, H. G., Kanhere, A., Manke, T., & Vingron, M. (2007). Predicting transcription factor affinities to DNA from a biophysical model.. Bioinformatics (Oxford, England), 23(2), 134-141. doi:10.1093/bioinformatics/btl565DOI: 10.1093/bioinformatics/btl565
2005
Kanhere, A., & Bansal, M. (2005). Structural properties of promoters: similarities and differences between prokaryotes and eukaryotes.. Nucleic acids research, 33(10), 3165-3175. doi:10.1093/nar/gki627DOI: 10.1093/nar/gki627
Kanhere, A., & Bansal, M. (2005). A novel method for prokaryotic promoter prediction based on DNA stability.. BMC bioinformatics, 6, 1. doi:10.1186/1471-2105-6-1DOI: 10.1186/1471-2105-6-1