26. Embree, CM, Alhasan RA, and Singh G. (2022) Features and factors that dictate if terminating ribosomes cause or counteract nonsense-mediated mRNA decay. Journal of Biological Chemistry. 2022 Oct 13; 298(11):102592. [PMID: 36244451]
25. Yi Z, Arvola RM, Myers S, Dilsavor CN, Alhasan RA, Carter BN, Patton RD, Bundschuh R, and Singh G. (2022) Mammalian UPF3A and UPF3B can activate NMD independently of their EJC binding. EMBO J. 2022 May 16;41(10):e109202. [PMID: 35451102] (bioRxiv pre-print: https://doi.org/10.1101/2021.07.02.450872)
24. Yi Z and Singh G. (2021) RIPiT-Seq: A tandem immunoprecipitation approach to reveal global binding landscape of multisubunit ribonucleoproteins. Methods Enzymol. 2021;655:401-425. [PMID: 34183131]
23. Yi Z., Sanjeev M. and Singh G. (2021) The branched nature of nonsense-mediated mRNA decay pathway. Trends in Genetics. 2021 Feb;37(2):143-159. [PMID: 33008628]
22. Patton R.D., Sanjeev M., Woodward L.A., Mabin J.W., Bundschuh R., Singh G. (2020) Chemical Crosslinking Enhances RNA Immunoprecipitation for Efficient Identification of Binding Sites of Proteins That Photo-Crosslink Poorly With RNA. RNA. 2020 Sep;26(9):1216-1233. [PMID: 32467309]
21. Gangras P, Gallagher TL, Parthun MA, Yi Z, Patton RD, Tietz KT, Deans NC, Bundschuh R, Amacher SL, Singh G. (2020) Zebrafish rbm8a and magoh Mutants Reveal EJC Developmental Functions and New 3’UTR Intron-Containing NMD Targets. PLOS Genetics. 2020 Jun 5;16(6):e1008830. [PMID: 32502192] (bioRxiv preprint: https://doi.org/10.1101/677666.)
20. Papaioannou D., Petri A., Dovey O., Terreri S., Wang E., Collins F., Woodward L. , Walker A., Nicolet D., Pepe F., Kumchala P., Bill M., Walker C., Karunasiri M., Mrózek K., Gardner M., Camilotto V., Zitzer N., Cooper J., Cai X., Rong-Mullins X., Kohlschmidt J., Archer K., Freitas M., Zheng Y., Lee R., Aifantis I., Vassiliou G., Singh G., Kauppinen S., Bloomfield C., Dorrance A., and Garzon R. (2019) The long non-coding RNA HOXB-AS3 regulates ribosomal RNA transcription in NPM1-mutated acute myeloid leukemia. Nature Communications 10, 5351 [PMID: 31767858]
19. Woodward L.A., Gangras, P., Singh G.(2019) Identification of Footprints of RNA:Protein Complexes via RNA Immunoprecipitation in Tandem Followed by Sequencing (RIPiT-Seq). JoVE. 149.[PMC:6697708] [PMID: 31355789]
18. Mabin J.W.*, Woodward L.A.*, Patton R.D.*, Yi Z., Jia M., Wysocki V.H., Bundschuh R., Singh G.(2018) The Exon Junction Complex Undergoes a Compositional Switch that Alters mRNP Structure and Nonsense-Mediated mRNA Decay Activity. Cell Reports. 25(9):2431-2446.e7. [*equal contribution] [PMID: 30466796]
17. Gangras, P., Dayeh, D., Mabin, J., Nakanishi, K., and Singh, G. (2018) Cloning and identification of recombinant-Argonaute bound small RNAs using next-generation sequencing. Methods in Molecular Biology. 1680:1-28. [PMID: 29030838]
16. Woodward, L., Mabin, J., Gangras, P., Singh, G. (2017) The Exon Junction Complex: A life-long guardian of mRNA fate. WIREs RNA. 8(3) [PMID: 28008720]
15. Singh G., Pratt G., Yeo G.W., Moore M.J. (2015) The Clothes Make the mRNA: Past and Present Trends in mRNP Fashion. Ann. Rev. Biochem., 84:325-354 [PMID: 25784054]
Pre-OSU publications
14. Cenik C., Chua H.N., Singh G., Akef A., Snyder M.P., Palazzo A.F., Moore M.J., Roth F.P. (2017) A common class of transcripts with 5′-intron depletion, distinct early coding sequence features, and N1-methyladenosine modification. RNA. Mar;23(3):270-283 [PMID: 27994090]
13. Ricci E.P., Kucukural A., Cenik C., Mercier B.C., Singh G., Heyer E.E., Ashar-Patel A., Peng L., Moore M.J. (2014) Staufen1 senses overall transcript secondary structure to regulate translation. Nat. Struct. Mol. Biol., 21(1): 26-35 [PMID: 24336223]
12. Singh G., Ricci E. P. and Moore M. J. (2014) RIPiT-Seq: A high-throughput approach for footprinting RNA:protein complexes. Methods, 65(3): 320-332 [PMID: 24096052]
11. Kucukural A., Özadam H., Singh G., Moore M. J. and Cenik C. (2013) ASPeak: an abundance sensitive peak detection algorithm for RIP-Seq. Bioinformatics, doi: 10.1093/bioinformatics/btt428 [PMID: 23929032]
10. *Singh G., *Kucukural A., Cenik C., Leszyk, J. D., Shaffer, S. A., Weng Z. and Moore M. J. (2012) The cellular EJC interactome reveals higher order mRNP structure and an EJC-SR protein nexus. Cell, 151(4):750-764 [*equal contribution] [PMID: 23084401]
Highlighted in: Muhlemann O. (2012) Intimate liaison with SR proteins brings exon junction complexes to unexpected places. Nat Struct Mol Biol., 19(12):1209-1211 [PMID: 23211765]
9. Morello L. G., Coltri P. P., Quaresma A. J., Simabuco F. M., Silva T. C., Singh G., Nickerson J. A., Oliveira, C. C., Moore M. J., and Zanchin, N. I. (2011) The human nucleolar protein FTSJ3 associates with NIP7 and functions in pre-rRNA processing. PLoS One, 2011;6(12):e29174 [PMID: 22195017]
8. Franks T. M., Singh G., and Lykke-Andersen J. (2010) Upf1 ATPase-dependent mRNP disassembly is required for completion of nonsense-mediated mRNA decay. Cell, 143(6): 938-950 [PMID: 21145460]
Highlighted in: Wilusz C. J. and Wilusz J. (2010) Consequences of mRNA wardrobe malfunctions. Cell, 143(6): 863-865 [PMID: 21145451]
7. Singh G., Rebbapragada I., and Lykke-Andersen J. (2008) A competition between stimulators and antagonists of Upf complex recruitment governs human nonsense-mediated mRNA decay. PLoS Biology, 2008 Apr 29;6(4):e111 [PMID: 18447585]
6. Singh G., Jakob S., Kleedehn M., and Lykke-Andersen J. (2007) Communication with the exon junction complex and activation of nonsense mediated decay by the human Upf proteins occur in the cytoplasm. Molecular Cell, 27: 780-792 [PMID: 17803942]
5. Mondal K., Dastidar A., Singh G., Madhusudhanan S., Gande S., Vijayraghavan K., and Varadarajan R. (2007) Design and isolation of temperature-sensitive mutants of Gal4 in yeast and Drosophila. Journal of Molecular Biology, 370(5):939-50
[PMID: 17553522]
4. Singh G. and Lykke-Andersen J. (2006) Human Upf Proteins in NMD. Nonsense-Mediated mRNA Decay, Lynne E. Maquat, ed. (Landis Biosciences: www.eurakah.com.) pp. 59-69 [NCBI bookshelf]
3. Chakshusmathi G., Mondal K., Santosh Lakshmi G., Singh G., Roy A., Babu Ch. R., Madhusudhanan S., and Varadarajan R. (2004) Design of temperature-sensitive mutants solely from amino acid sequence. Proceedings of the National Academy of Sciences,101: 7925-7930 [PMID: 15148363]
2. Singh G. and Lykke-Andersen J. (2003) New insights into the formation of active nonsense-mediated decay complexes. Trends in Biochemical Sciences, 28, 464-466 [PMID: 13678954]
1. Nair J., Singh G. and Sekar V. (2002) Isolation and characterization of a novel Bacillus strain from coffee phyllosphere showing antifungal activity. Journal of Applied Microbiology, 93(5):772-80 [PMID: 12392522]