Abstract A019: Autologous patient-derived organoid-immune cell co-culture platform for therapeutics discovery in high-grade endometrial cancer. Chung, C.; Nizam, A.; Yueh, B.; Subhash, S.; Frimer, M.; Goldberg, G. L; and Beyaz, S. Clinical Cancer Research, 30(5_Supplement): A019–A019. 2024. https://doi.org/10.1158/1538-7445.AM2023-2511

The transcription factor Foxp1 regulates aerobic glycolysis in adipocytes and myocytes. Ma, H.; Sukonina, V.; Zhang, W.; Meng, F.; Subhash, S.; Palmgren, H.; Alexandersson, I.; Han, H.; Zhou, S.; Bartesaghi, S.; and others J Biol Chem., 299(6): 104795. 2023. https://doi.org/10.1016/j.jbc.2023.104795 

Gene expression of S100a8/a9 predicts Staphylococcus aureus-induced septic arthritis in mice. Deshmukh, M.; Subhash, S.; Hu, Z.; Mohammad, M.; Jarneborn, A.; Pullerits, R.; Jin, T.; and Kopparapu, P. K. Frontiers in Microbiology, 14: 1868. 2023. https://doi.org/10.3389%2Ffmicb.2023.1146694 

Epigenetic mechanisms of epithelial–immune interactions that shape immune surveillance in the intestinal epithelium. Garipcan, A.; Eskiocak, O.; Subhash, S.; Ozler, K.; Yueh, B.; Chung, C.; Ergin, I.; Gautier, N.; Habel, J.; Rubino, R.; and others The Journal of Immunology, 210(1_Supplement): 150–04. 2023. https://doi.org/10.4049/jimmunol.210.Supp.150.04 

Long non-coding RNA in cancer. Kanduri, C.; Ali, M. M. M.; Statello, L.; Akhade, V. S.; Subhash, S.; and Kosalai, S. T. April 19 2022. US Patent 11,306,311

HnRNPK maintains single strand RNA through controlling double-strand RNA in mammalian cells. Mahale, S.; Setia, M.; Prajapati, B.; Subhash, S.; Yadav, M. P.; Kosalai, S. T.; Deshpande, A.; Kuchlyan, J.; Di Marco, M.; Westerlund, F.; and others Nature Communications, 13(4865): 1–20. 2022. https://doi.org/10.1038/s41467-022-32537-0 

Long non-coding rna in cancer. Kanduri, C.; Ali, M. M. M.; Statello, L.; Akhade, V. S.; Subhash, S.; and Kosalai, S. T. September 8 2022. US Patent App. 17/697,319

Labeling and Purification of Temporally Expressed RNAs During the S-Phase of the Cell Cycle in Living Cells. Meryet-Figuiere, M.; Ali, M. M.; Subhash, S.; and Kanduri, C. Functional Analysis of Long Non-Coding RNAs: Methods and Protocols,239–249. 2021. https://doi.org/10.1007/978-1-0716-1158-6_14 

Subcellular distribution of p53 by the p53-responsive lncRNA NBAT1 determines chemotherapeutic response in neuroblastoma. Mitra, S.; Muralidharan, S. V.; Di Marco, M.; Juvvuna, P. K.; Kosalai, S. T.; Reischl, S.; Jachimowicz, D.; Subhash, S.; Raimondi, I.; Kurian, L.; and others Cancer research, 81(6): 1457–1471. 2021. https://doi.org/10.1158/0008-5472.can-19-3499 

Chromatin and transcriptome-based integrative approaches to profile functional long noncoding RNAs. Subhash, S. . 2020. https://hdl.handle.net/2077/66195 

Sperm originated chromatin imprints and LincRNAs in organismal development and cancer. Subhash, S.; Kanduri, M.; and Kanduri, C. Iscience, 23(6). 2020. https://doi.org/10.1016/j.isci.2020.101165 

FOXK1 and FOXK2 regulate aerobic glycolysis. Sukonina, V.; Ma, H.; Zhang, W.; Bartesaghi, S.; Subhash, S.; Heglind, M.; Foyn, H.; Betz, M. J; Nilsson, D.; Lidell, M. E; and others Nature. 2019. https://doi.org/10.1038/s41586-019-0900-5 

Large expert-curated database for benchmarking document similarity detection in biomedical literature search. Brown, P.; Subhash, S.; members , R. C.; and Zhou, Y.Database: The Journal of Biological Databases and Curation, 2019(2019). 2019. https://doi.org/10.1093/database/baz085 

Transcriptome-wide profiling of cerebral cavernous malformations patients reveal important long noncoding RNA molecular signatures. Subhash, S.; Kalmbach, N.; Wegner, F.; Petri, S.; Glomb, T.; Dittrich-Breiholz, O.; Huang, C.; Bali, K. K.; Kunz, W. S; Samii, A.; and others Scientific reports, 9(1): 18203. 2019. https://doi.org/10.1038/s41598-019-54845-0 

Chromatin RNA Immunoprecipitation (ChRIP). Mondal, T.; Subhash, S.; and Kanduri, C. Chromatin Immunoprecipitation: Methods and Protocols,65–76. 2018. https://doi.org/10.1007/978-1-4939-7380-4_6 

PAN-cancer analysis of S-phase enriched lncRNAs identifies oncogenic drivers and biomarkers. Ali, M. M.; Akhade, V. S.; Kosalai, S. T.; Subhash, S.; Statello, L.; Meryet-Figuiere, M.; Abrahamsson, J.; Mondal, T.; and Kanduri, C. Nature communications, 9(1): 883. 2018. https://doi.org/10.1038/s41467-018-03265-1 

Sense-antisense lncRNA pair encoded by locus 6p22. 3 determines neuroblastoma susceptibility via the USP36-CHD7-SOX9 regulatory axis. Mondal, T.; Juvvuna, P. K.; Kirkeby, A.; Mitra, S.; Kosalai, S. T.; Traxler, L.; Hertwig, F.; Wernig-Zorc, S.; Miranda, C.; Deland, L.; and others Cancer cell, 33(3): 417–434. 2018. https://doi.org/10.1016/j.ccell.2018.01.020 

H3K4me2 and WDR5 enriched chromatin interacting long non-coding RNAs maintain transcriptionally competent chromatin at divergent transcriptional units.Subhash, S.; Mishra, K.; Akhade, V. S.; Kanduri, M.; Mondal, T.; and Kanduri, C. Nucleic acids research, 46(18): 9384–9400. 2018. https://doi.org/10.1093/nar/gky635 

S-phase cancer associated lncRNAs. Subhash, S.; Ali, M. M.; and Kanduri, C. Cell Cycle, 17(23): 2517–2519. 2018. https://doi.org/10.1080%2F15384101.2018.1553356 

Comprehensive DNA methylation analysis using a methyl-CpG-binding domain capture-based method in chronic lymphocytic leukemia patients. Subhash, S.; and Kanduri, M. JoVE (Journal of Visualized Experiments), (124): e55773. 2017. https://doi.org/10.3791/55773 

Global DNA methylation profiling reveals new insights into epigenetically deregulated protein coding and long noncoding RNAs in CLL. Subhash, S.; Andersson, P.; Kosalai, S. T.; Kanduri, C.; and Kanduri, M. Clinical epigenetics, 8: 1–15. 2016. https://doi.org/10.1186/s13148-016-0274-6 

GeneSCF: a real-time based functional enrichment tool with support for multiple organisms. Subhash, S.; and Kanduri, C. BMC bioinformatics, 17: 1–10. 2016. https://doi.org/10.1186/s12859-016-1250-z 

MEG3 long noncoding RNA regulates the TGF-β pathway genes through formation of RNA–DNA triplex structures. Mondal, T.; Subhash, S.; Vaid, R.; Enroth, S.; Uday, S.; Reinius, B.; Mitra, S.; Mohammed, A.; James, A. R.; Hoberg, E.; and others Nature communications, 6(1): 7743. 2015. https://doi.org/10.1038/ncomms8743 

Temporal Separation of Replication and Transcription during S Phase Progression. Meryet-Figuiere, M.; Alaei-Mahabadi, B.; Ali, M. M.; Mitra, S.; Subhash, S.; Pandey, G. K.; Larsson, E.; and Kanduri, C. Cell Cycle, 13(20): 3241–3248. 2014. https://doi.org/10.4161%2F15384101.2014.953876 

The Risk-Associated Long Noncoding RNA NBAT-1 Controls Neuroblastoma Progression by Regulating Cell Proliferation and Neuronal Differentiation. Pandey, G. K.; Mitra, S.; Subhash, S.; Hertwig, F.; Kanduri, M.; Mishra, K.; Fransson, S.; Ganeshram, A.; Mondal, T.; Bandaru, S.; and others Cancer Cell, 26(5): 722–737. 2014. https://doi.org/10.1016/j.ccell.2014.09.014