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Poly(A)-ClickSeq Publications
Poly(A)-ClickSeq: click-chemistry for next-generation 3΄-end sequencing without RNA enrichment or fragmentation:
A method for sequencing just the 3′ ends of eukaryotic messenger RNAs by priming from poly(A) tails and using AzATP, AzGTP and AzCTP to terminate RT-PCR just upstream of the poly(A) tail in the 3’ UTR was published in Nucleic Acids Research in 2017.
Mukherjee, S.; Graber, J. H.; Moore, C. L.,
Macrophage differentiation is marked by increased abundance of the mRNA 3’end processing machinery, altered poly (A) site usage, and sensitivity to the level of CstF64.
Mimoso, C. A.; Adelman, K.,
U1 snRNP increases RNA Pol II elongation rate to enable synthesis of long genes.
Jonnakuti, V. S.; Ji, P.; Gao, Y.; Lin, A.; Chu, Y.; Elrod, N.; Huang, K.-L.; Li, W.; Yalamanchili, H. K.; Wagner, E. J.,
NUDT21 alters glioma migration through differential alternative polyadenylation of LAMC1.
de Prisco, N.; Ford, C.; Elrod, N. D.; Lee, W.; Tang, L. C.; Huang, K.-L.; Lin, A.; Ji, P.; Jonnakuti, V. S.; Boyle, L.,
Alternative polyadenylation alters protein dosage by switching between intronic and 3′ UTR sites.
Vu, M. N.; Lokugamage, K. G.; Plante, J. A.; Scharton, D.; Bailey, A. O.; Sotcheff, S.; Swetnam, D. M.; Johnson, B. A.; Schindewolf, C.; Alvarado, R. E.,
QTQTN motif upstream of the furin-cleavage site plays a key role in SARS-CoV-2 infection and pathogenesis.
Sotcheff, S. L.; Chen, J. Y.-C.; Elrod, N.; Cao, J.; Jaworski, E.; Kuyumcu-Martinez, M. N.; Shi, P.-Y.; Routh, A. L.,
Zika Virus Infection Alters Gene Expression and Poly-Adenylation Patterns in Placental Cells.
LaForce, G. R.; Farr, J. S.; Liu, J.; Akesson, C.; Gumus, E.; Pinkard, O.; Miranda, H. C.; Johnson, K.; Sweet, T. J.; Ji, P.,
Suppression of premature transcription termination leads to reduced mRNA isoform diversity and neurodegeneration.
Scarborough, A. M.; Flaherty, J. N.; Hunter, O. V.; Liu, K.; Kumar, A.; Xing, C.; Tu, B. P.; Conrad, N. K.,
SAM homeostasis is regulated by CFIm-mediated splicing of MAT2A.
Montalbano, M.; Jaworski, E.; Garcia, S.; Ellsworth, A.; McAllen, S.; Routh, A.; Kayed, R.,
Tau modulates mRNA transcription, alternative polyadenylation profiles of hnRNPs, chromatin remodeling and spliceosome complexes.
Li, L.; Huang, K.-L.; Gao, Y.; Cui, Y.; Wang, G.; Elrod, N. D.; Li, Y.; Chen, Y. E.; Ji, P.; Peng, F.,
An atlas of alternative polyadenylation quantitative trait loci contributing to complex trait and disease heritability.
Enwerem, I. I.; Elrod, N. D.; Chang, C.-T.; Lin, A.; Ji, P.; Bohn, J. A.; Levdansky, Y.; Wagner, E. J.; Valkov, E.; Goldstrohm, A. C.,
Human Pumilio proteins directly bind the CCR4-NOT deadenylase complex to regulate the transcriptome.
Li, L.; Huang, K.-L.; Gao, Y.; Cui, Y.; Wang, G.; Elrod, N. D.; Li, Y.; Chen, Y. E.; Ji, P.; Peng, F.,
An atlas of alternative polyadenylation quantitative trait loci contributing to complex trait and disease heritability.
Cao, J.; Verma, S. K.; Jaworski, E.; Mohan, S.; Nagasawa, C. K.; Rayavara, K.; Sooter, A.; Miller, S. N.; Holcomb, R. J.; Powell, M. J.,
RBFOX2 is critical for maintaining alternative polyadenylation patterns and mitochondrial health in rat myoblasts. Cell reports 2021, 37 (5)
Alcott, C. E.; Yalamanchili, H. K.; Ji, P.; van der Heijden, M. E.; Saltzman, A.; Elrod, N.; Lin, A.; Leng, M.; Bhatt, B.; Hao, S.,
Partial loss of CFIm25 causes learning deficits and aberrant neuronal alternative polyadenylation.
Routh, A.,
DPAC: A Tool for Differential Poly (A)–Cluster Usage from Poly (A)–Targeted RNAseq Data.
Elrod, N. D.; Jaworski, E. A.; Ji, P.; Wagner, E. J.; Routh, A.,
Development of Poly (A)-ClickSeq as a tool enabling simultaneous genome-wide poly (A)-site identification and differential expression analysis.
Chu, Y.; Elrod, N.; Wang, C.; Li, L.; Chen, T.; Routh, A.; Xia, Z.; Li, W.; Wagner, E. J.; Ji, P.,
Nudt21 regulates the alternative polyadenylation of Pak1 and is predictive in the prognosis of glioblastoma patients.
Routh, A.; Ji, P.; Jaworski, E.; Xia, Z.; Li, W.; Wagner, E. J.,
Poly (A)-ClickSeq: click-chemistry for next-generation 3΄-end sequencing without RNA enrichment or fragmentation.