Journals
1. Priyanka Yadav, Raja Tamilselvan, M Harita, Kusum Kumari Singh "MicroRNA-mediated regulation of nonsense-mediated mRNA decay factors: Insights into microRNA prediction tools and profiling techniques", Biochimica et Biophysica Acta (BBA)-Gene Regulatory Mechanisms, DOI.https://doi.org/10.1016/j.bbagrm.2024.195022, Vol.1867, 2, P.P 195022-195032 , (2024)
2. Sweta Kumari, Bhagyashree Deka, and Kusum Kumari Singh "Serine-rich domain of RNPS1 functions in activation of alternative splicing", Genes to Cells, DOI. 10.1111/gtc.13036 , Vol., PMID: 37204171 , P.P - , (2023)
3. Aparajita Dutta , Kusum Kumari Singh , Ashish Anand "Identification of Splice Junctions Across Species Using BLSTM Model", ACM DIGITAL LIBRARY, DOI.https://dl.acm.org/doi/10.1145/3589437.3589438, Vol., , P.P 1-6 , (2023)
4. Sweta Kumari, Ayushi Rehman, Pratap Chandra, Kusum K. Singh "Functional role of SAP18 protein: From transcriptional repression to splicing regulation", Cell Biochemistry and Function, DOI. https://doi.org/10.1002/cbf.3830, Vol., , P.P - , (2023)
5. Bhagyashree Deka, Kusum K Singh "Identification of Candidate RNA Binding Proteins Associated with RNPS1 3’UTR", Healthcare Research and Related Technologies, DOI.10.1007/978-981-99-4056-1_2, Vol., , P.P - , (2023)
6. Bhagyashree Deka, Ayushi Rehman, Kusum Kusum Kumari Singh "miR-6893-3p is a bonafide negative regulator of splicing activator, RNPS1", 3 Biotech, DOI.10.1007/s13205-023-03761-2, Vol.13, 340, P.P - , (2023)
7. Rumela Mitra, Ayushi Rehman, Kusum Kumari Singh*, Bithiah Grace Jaganathan* "Multifaceted Roles of MAGOH Proteins", Molecular Biology Reports, DOI., Vol., MOLE-D-21-06677R1, P.P - , (2022)
8. Bhagyashree Deka, Pratap Chandra, Priyanka Yadav, Ayushi Rehman, Sweta Kumari, Ajaikumar B. Kunnumakkara and Kusum Kumari Singh "RNPS1 functions as an oncogenic splicing factor in cervical cancer cells", International Union of Biochemistry and Molecular Biology, DOI., Vol., , P.P - , (2022)
9. Bhagyashree Deka and Kusum K. Singh "Molecular cloning, expression and generation of a polyclonal antibody specific for RNPS1", Molecular Biology Reports, DOI.10.1007/s11033-022-07676-8, Vol.12, 4, P.P - , (2022)
10. Ayushi Rehman, Pratap Chandra, Kusum Kumari Singh "The MAGOH paralogs - MAGOH, MAGOHB and their multiple isoforms", Gene Reports, DOI.doi.org/10.1016/j.genrep.2021.101214, Vol.24, , P.P - , (2021)
11. Aparajita Dutta, Kusum K Singh, Ashish Anand. "SpliceViNCI: Visualizing the splicing of non-canonical introns through recurrent neural networks", Journal of Bioinformatics and Computational Biology, DOI.doi.org/10.1142/S0219720021500141, Vol.19, 04, P.P -215004 , (2021)
12. Bhagyashree Deka, Pratap Chandra, Kusum K. Singh "Functional roles of human Up-frameshift suppressor 3 (UPF3) proteins: From nonsense-mediated mRNA decay to neurodevelopmental disorders. ", Biochimie, DOI.doi.org/10.1016/j.biochi.2020.10.011, Vol., , P.P - , (2020)
13. Deka B and Singh K.K. "The arginine and serine (RS)-rich domains of Acinus modulate splicing. ", Cell. Bio. International , DOI., Vol., , P.P - , (2019)
14. Aparajita Dutta, AmanDalmia, AthulR., Kusum Kumari Singh, AshishAnand "Using the Chou’s 5-steps rule to predict splice junctions with interpretable bidirectional long short-term memory networks", Computers in Biology and Medicine, DOI., Vol.https://doi.org/10.1016/j.compbiomed.2019.103558, CBM_103558, P.P - , (2019)
15. Dutta A., Dubey T., Singh K. K. and Anand A. "SpliceVec: distributed feature representations for splice junction prediction.", Computational Biology and Chemistry., DOI., Vol., , P.P - , (2018)
16. Boehm V, Britto-Borges T, Steckelberg AL, Singh KK, Gerbracht JV, Gueney E, Blazquez L, Altmueller J, Dieterich C, Gehring NH. " Exon Junction Complexes Suppress Spurious Splice Sites to Safeguard Transcriptome Integrity.", Molecular Cell, DOI., Vol.72, 3, P.P 482-495 , (2018)
17. Deka B., Singh K.K. "Multifaceted Regulation of Gene Expression by the Apoptosis- and Splicing-Associated Protein Complex and Its Components.", International Journal of Biological Sciences. , DOI., Vol.13, 5, P.P 545-560 , (2017)
18. Gromadzka A.M., Steckelberg A.L., Singh K.K., Hofmann K., Gehring N.H. "A short conserved motif in ALYREF directs cap- and EJC-dependent assembly of export complexes on spliced mRNAs.", Nucleic Acid Research. , DOI., Vol.44, , P.P 2348-2361 , (2016)
19. Singh K.K., Wachsmuth L., Kulozik A.E., Gehring N.H. "Two mammalian MAGOH genes contribute to exon junction complex composition and nonsense-mediated decay.", RNA Biology. , DOI., Vol.8, , P.P 1291-1298 , (2013)
20. Uren P.J., Burns S.C., Ruan J., Singh K.K., Smith A.D., Penalva L.O. "Genomic analyses of the RNA binding protein Hu Antigen R (HuR) identify a complex network of target genes and novel characteristics of its binding sites. ", The Journal of Biological Chemistry. , DOI., Vol.43, , P.P 37063-37066 , (2011)
21. Singh K.K., Erkelenz S., Rattay S., Dehof A.K., Hildebrandt A., Schulze-Osthoff K., Schaal H., Schwerk C. "Human SAP18 mediates assembly of a splicing regulatory multiprotein complex via its ubiquitin-like fold. ", RNA, DOI., Vol.16, , P.P 2442-2454 , (2010)
22. Singh K. K., Ueffing N., Christians A., Feller A.C., Fend F., Heikaus S., Marx A., Zotz R.B., Schulz W.A., Schulze-Osthoff K., Schmitz I., Schwerk C. "A single nucleotide polymorphism determines protein isoform production of the human c-FLIP protein.", Blood, DOI., Vol.114, , P.P 572-579 , (2009)
23. Singh K. K., Mathew R., Masih I.E., Bernard P. "ITS region of the rDNA of Pythium rhizosacchurum sp. Nov., isolated from sugarcane roots: taxonomy and comparision with related species.", FEMS Microbiology Letters., DOI., Vol.221, , P.P 233-236 , (2003)
24. Mathew R., Singh K.K., Bernard P. "Pythium campanulatum sp. Nov., isolated from rhizosphere of maze, its taxonomy, ITS region of rDNA, and comparison with related species.", FEMS Microbiology Letters., DOI., Vol.226, , P.P 9-14 , (2003)
Conference Publication
1. Bhagyashree Deka "", participated in a three-day Flow Cytometry workshop on FlowApplications in Basics, Applied and Clinical Biology, organized by the Indian Institute ofTechnology Guwahati and Dr. B. Borooah Cancer Institute, Guwahati. Vol., , P.P - , (2016)
2. Volker Boehm, Thiago Britto-Borges, Anna-Lena Steckelberg, Kusum K. Singh, Jennifer V. Gerbracht, Elif Gueney, Lorea Blazquez, Janine Altmüller, Christoph Dieterich, Niels H. Gehring "Exon Junction Complexes Suppress Spurious Splice Sites to Safeguard Transcriptome Integrity", 9th RNA Group Meeting at BHU. Vol., , P.P - , (2017)
3. Aparajita Dutta, Tushar Dubey, Kusum Kumari Singh, Ashish Anand. "SpliceVec: distributed feature representations for splice junction prediction.", The Sixteenth Asia Pacific Bioinformatics Conference. Vol., , P.P - , (2018)
4. Sweta Kumari, Kusum K Singh . "Comparative transcriptome analysis of SAP18splicing regulator.", Research Conclave, Indian Institute of Technology Guwahati. Vol., , P.P - , (2019)
5. Bhagyashree Deka and Pratap Chandra "", three-day workshop on Genome/Transcriptome Sequence Analysis, organized by ADBS and IBAB, Bangalore. Vol., , P.P - , (2019)
6. Bhagyashree Deka, Kusum K Singh "Elucidating the role of microRNA and RBP-mediated modulation of RNPS1 gene expression.", Research Conclave, Indian Institute ofTechnology Guwahati,. Vol., , P.P - , (2019)
7. Bhagyashree Deka, Kusum K Singh "Understanding the Role of RNA-binding proteins in the Post-transcriptional regulation of RNPS1 gene.", 1st Departmental Retreat(Biotech Express) organized by the Department of Biosciences and Bioengineering, Indian Institute of Technology Guwahati. Vol., , P.P - , (2019)
8. Glory Basumata and Kusum Kumari Singh "Knockdown effect of MAGOHB on Alternative splicing via RNA-Seq Analysis", International Conference on Molecular Basis of Diseases and Therapeutics. Vol., , P.P - , (2019)
9. Glory Basumata and Kusum Kumari Singh "Effects of MAGOHB knockdown on Alternative splicing via RNA-Seq Analysis", Galaxy Community Conference 2019. Vol., , P.P - , (2019)
10. Glory Basumata "Training on RNA-Seq data analysis and gene ontology studies using various tools", International Workshop: Introduction to RNA-Seq and Functional Interpretation, EMBL-EBI, Hinxton, UK. Vol., , P.P - , (2019)
11. Volker Boehm, Thiago Britto-Borges, Anna-Lena Steckelberg, Kusum K. Singh, Jennifer V. Gerbracht, Elif Gueney, Lorea Blazquez, Janine Altmüller, Christoph Dieterich, Niels H. Gehring "Exon Junction Complexes Suppress Spurious Splice Sites to Safeguard Transcriptome Integrity", The 24th Annual Meeting of the RNA Society. Vol., , P.P - , (2019)
12. Pratap Chandra, Kusum K Singh "CRISPR/Cas9-mediated gene-knockout of UPF3Bin HEK-293 cells alters the expression of cell-cycle and axon guidance genes. CRISPR/Cas: From Biology to Technology", . Vol., , P.P - , (2021)
13. Harita M, Bhagyashree Deka, Kusum K Singh . "Identification of candidate RNA binding proteins associated with RNPS1 mRNA.", 11th RNA Group Meeting. Vol., , P.P - , (2022)
14. Raja T "", Hands-on workshop on CRISPR/Cas technology and genome editing, National Center for Biological Sciences, Bangalore. Vol., , P.P - , (2022)
15. Sayan Roy, Pratap Chandra, Kusum K Singh "Proteomic Analysis of CRISPR/Cas9-mediated UPF3B-Knockout HEK293 Cells", 11th RNA Group Meeting. Vol., , P.P - , (2022)
16. Priyanka Yadav, Kusum K Singh "MicroRNA-mediated regulation of UPF3 for the development of novel therapeutics.", 11th RNA Group Meeting. Vol., , P.P - , (2022)
17. Priyanka Yadav, Kusum K Singh "MicroRNA-mediated regulation of UPF3B for the development of novel therapeutics.", Functional nucleic acids: Recent landscapes and therapeutic applications (ielc22-095). Vol., , P.P - , (2022)
18. Ayushi Rehman, Raja Tamilselvan, Kusum K Singh "Et Tu MAGOHB.. The paralog dilemma.", 11th RNA Group Meeting. Vol., , P.P - , (2022)
19. Ayushi Rehman, Anil Mukund Limaye, Kusum K Singh . "Investigating the characteristics and functions of MAGOH paralogs.", North East Research Conclave. Vol., , P.P - , (2022)
20. Sweta Kumari, Kusum K Singh "Proximity-dependent approach to identify novel spliceosomal factors involved in the recruitment of SAP18 protein on pre-mRNA. ", India EMBO Lecture Course RNA binding proteins From RNA binding to condensation and aggregation. Vol., , P.P - , (2022)
21. Sweta Kumari, Kusum K Singh . "Deciphering the Novel spliceosomal interactions ofSAP18 by proximity-dependent approach.", 11th RNA Group Meeting. Vol., , P.P - , (2022)
22. Pratap Chandra, Kusum K Singh "CRISPR/Cas9-mediated gene-knockout of UPF3Bin HEK-293 cells alters the expression of cell-cycle and axon guidance genes.", Systems Biology: Global Regulation of Gene Expression. Vol., , P.P - , (2022)
23. Pratap Chandra, Kusum K Singh "UPF3B-knockout in HEK-293 cells delays cell proliferation and deregulates the expression of neuron-specific genes.", North East Research Conclave . Vol., , P.P - , (2022)
24. Pratap Chandra, Kusum K Singh "Transcriptome-wide analysis of UPF3B-knockoutHEK-293 cells generated by CRISPR/Cas9 gene-editing method", 11th RNA Group Meeting. Vol., , P.P - , (2022)
25. Bhagyashree Deka, Pratap Chandra, Kusum K Singh "RNPS1 functions as an oncogenic splicing factor in cervical carcinoma.", 41st Annual Conference of the Indian Association for Cancer Research, Amity University.. Vol., , P.P - , (2022)
26. Bhagyashree Deka, Ayushi Rehman, Kusum K Singh "Understanding the Role of microRNAs in the Post-Transcriptional Regulation of RNPS1 gene", Cold Spring Harbor meeting: Regulatory & Non-Coding RNAs 2022.. Vol., , P.P - , (2022)
27. Bhagyashree Deka, Ayushi Rehman, Kusum K Singh "Understanding the Role of microRNAs in the Post-Transcriptional Regulation of RNPS1 gene.", North-East Research Conclave, IIT Guwahati.. Vol., , P.P - , (2022)
Book
1. Kusum Kumari Singh "Regulation of alternative splice site selection", Scholar's Press. Vol., 3639514769, P.P 148- , (2015)
Book Chapter
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