Dr Aditi Kanhere PhD

Senior Lecturer Molecular & Physiology Cell Signalling

Publications

2021

Antisense RNAs during early vertebrate development are divided in groups with distinct features (Journal article)

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.262964.120

DOI: 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.2021.01.010

DOI: 10.1016/j.tig.2021.01.010

A long intergenic non-coding RNA regulates nuclear localization of DNA methyl transferase-1 (Journal article)

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.2021.102273

DOI: 10.1016/j.isci.2021.102273

8q24.21 Locus: A Paradigm to Link Non-Coding RNAs, Genome Polymorphisms and Cancer (Journal article)

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/ijms22031094

DOI: 10.3390/ijms22031094

2020

Combined transcriptomic and phosphoproteomic analysis of BMP4 signaling in human embryonic stem cells (Journal article)

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.2020.102133

DOI: 10.1016/j.scr.2020.102133

Autoregulation of JARID2 through PRC2 interaction with its antisense ncRNA (Journal article)

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-z

DOI: 10.1186/s13104-020-05348-z

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. (n.d.). Functional Annotation of Human Long Non-Coding RNAs via Molecular Phenotyping. doi:10.1101/700864

DOI: 10.1101/700864

Functional annotation of human long noncoding RNAs via molecular phenotyping (Journal article)

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.254219.119

DOI: 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. (n.d.). A long intergenic non-coding RNA regulates nuclear localisation of DNA methyl transferase-1. doi:10.1101/2020.03.11.985705

DOI: 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. (n.d.). Antisense ncRNAs during early vertebrate development are divided in groups with distinct features. doi:10.1101/2020.02.08.940148

DOI: 10.1101/2020.02.08.940148

2019

A novel form of JARID2 is required for differentiation in lineage-committed cells (Journal article)

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.201798449

DOI: 10.15252/embj.201798449

2018

Regulation of Leukocytes by TspanC8 Tetraspanins and the “Molecular Scissor” ADAM10 (Journal article)

Matthews, A. L., Koo, C. Z., Szyroka, J., Harrison, N., Kanhere, A., & Tomlinson, M. G. (n.d.). Regulation of Leukocytes by TspanC8 Tetraspanins and the “Molecular Scissor” ADAM10. Frontiers in Immunology, 9. doi:10.3389/fimmu.2018.01451

DOI: 10.3389/fimmu.2018.01451

2017

Exercise and high-fat feeding remodel transcript-metabolite interactive networks in mouse skeletal muscle (Journal article)

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). doi:10.1038/s41598-017-14081-w

DOI: 10.1038/s41598-017-14081-w

2016

Exon junction complex proteins bind nascent transcripts independently of pre-mRNA splicing in Drosophila melanogaster (Journal article)

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.19881

DOI: 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. Unknown Journal, 99-113. doi:10.1007/978-1-4939-6380-5_9

DOI: 10.1007/978-1-4939-6380-5_9

2013

Genome-Wide Regulatory Analysis Reveals That T-bet Controls Th17 Lineage Differentiation through Direct Suppression of IRF4 (Journal article)

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. The Journal of Immunology, 191(12), 5925-5932. doi:10.4049/jimmunol.1202254

DOI: 10.4049/jimmunol.1202254

Modulation of Enhancer Looping and Differential Gene Targeting by Epstein-Barr Virus Transcription Factors Directs Cellular Reprogramming (Journal article)

McClellan, M. J., Wood, C. D., Ojeniyi, O., Cooper, T. J., Kanhere, A., Arvey, A., . . . West, M. J. (n.d.). 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.1003636

DOI: 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/ncomms2260

DOI: 10.1038/ncomms2260

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 article)

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.01705-12

DOI: 10.1128/jvi.01705-12

Downregulation of Integrin Receptor-Signaling Genes by Epstein-Barr Virus EBNA 3C via Promoter-Proximal and -Distal Binding Elements (Journal article)

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.07161-11

DOI: 10.1128/jvi.07161-11

Noncoding RNA localisation mechanisms in chromatin regulation (Journal article)

Kanhere, A., & Jenner, R. G. (2012). Noncoding RNA localisation mechanisms in chromatin regulation. Silence, 3(1), 2. doi:10.1186/1758-907x-3-2

DOI: 10.1186/1758-907x-3-2

T-bet and GATA3 orchestrate Th1 and Th2 differentiation through lineage-specific targeting of distal regulatory elements (Journal article)

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(1). doi:10.1038/ncomms2260

DOI: 10.1038/ncomms2260

2011

IL-2 Regulates Expression of C-MAF in Human CD4 T Cells (Journal article)

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. The Journal of Immunology, 187(7), 3721-3729. doi:10.4049/jimmunol.1002354

DOI: 10.4049/jimmunol.1002354

2010

Short RNAs Are Transcribed from Repressed Polycomb Target Genes and Interact with Polycomb Repressive Complex-2 (Journal article)

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.2010.03.019

DOI: 10.1016/j.molcel.2010.03.019

2009

CpG-depleted promoters harbor tissue-specific transcription factor binding signals—implications for motif overrepresentation analyses (Journal article)

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/gkp682

DOI: 10.1093/nar/gkp682

Horizontal Gene Transfers in prokaryotes show differential preferences for metabolic and translational genes (Journal article)

Kanhere, A., & Vingron, M. (2009). Horizontal Gene Transfers in prokaryotes show differential preferences for metabolic and translational genes. BMC Evolutionary Biology, 9(1), 9. doi:10.1186/1471-2148-9-9

DOI: 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, 23(2), 134-141. doi:10.1093/bioinformatics/btl565

DOI: 10.1093/bioinformatics/btl565

2005

Structural properties of promoters: similarities and differences between prokaryotes and eukaryotes (Journal article)

Kanhere, A. (2005). Structural properties of promoters: similarities and differences between prokaryotes and eukaryotes. Nucleic Acids Research, 33(10), 3165-3175. doi:10.1093/nar/gki627

DOI: 10.1093/nar/gki627

(Journal article)

Kanhere, A., & Bansal, M. (2005). Unknown Title. BMC Bioinformatics, 6(1), 1. doi:10.1186/1471-2105-6-1

DOI: 10.1186/1471-2105-6-1