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Laboratory
of RNA Biology
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1.
Joyce W, He K, Zhang M, Ogunsola S, Wu X,
Joseph KT, Bogomolny D, Yu W, Springer MS, Xie J,
Signore AV, Campbell KL: Genetic excision of the
regulatory cardiac troponin I extension in high heart
rate mammal clades. Science, in press
2024:2023.05.19.541292. https://doi.org/10.1101/2023.05.19.541292
2.
Liu L, Nguyen H, Das U, Ogunsola S, Yu J,
Lei L, Kung M, Pejhan S, Rastegar M, Xie J: Epigenetic
Control of Adaptive or Homeostatic Splicing During
Interval-Training Activities. Nucleic Acids
Res. (2024)1-12, https://doi.org/10.1093/nar/gkae311.
3.
Xie,
J., Wang, L. & Lin, RJ. Variations of intronic
branchpoint motif: identification and functional
implications in splicing and disease. Commun.
Biol. 6, 1142 (2023). https://doi.org/10.1038/s42003-023-05513-7.
4.
Xie
J and Friedman R, Editorial: Evolution in
Neurogenomics. Front.
Genet. (2023)14:1220750. doi:
10.3389/fgene.2023.1220750.
5.
Liu
L, Das U, Ogunsola S, Xie J. Transcriptome-Wide
Detection of Intron/Exon Definition in the
Endogenous Pre-mRNA Transcripts of Mammalian Cells
and its Regulation by Depolarization, Int. J.
Mol. Sci. (2022) 23, 10157. https://
doi.org/10.3390/ijms231710157
6.
Tian
L, Xie X, Das U, Chen Y, Sun Y, Liu F, Lu H, Peng N,
Zhu Y, Gu X, Deng H, Xie J, Zhao X. Forming
cytoplasmic stress granules PURα suppresses mRNA
translation initiation of IGFBP3 to promote
esophageal squamous cell carcinoma progression, Oncogene,
41, 4336–4348
(2022),
https://www.nature.com/articles/s41388-022-02426-3.
7.
Ling
Liu, Jinghua Feng, Julian Polimeni, Manli Zhang, Hai
Nguyen, Urmi Das, Xu Zhang, Harminder Singh,
Xiao-Jian Yao, Etienne Leygue, Sam K.P. Kung, and
Xie J. Characterization of cell free plasma
methyl-DNA from xenografted tumours to guide the
selection of diagnostic markers for early-stage
cancers. Frontiers in
Oncology,
11:615821 (2021) Feb. 5. DOI: 10.3389/fonc.2021.615821.
8.
Xie
J, Weiskirchen R. What does the 'AKT' stand for
in the name 'AKT kinase'?: some historical
comments. Frontiers in Oncology,
10:1329. June, 2020, https://www.frontiersin.org/articles/10.3389/fonc.2020.01329/full.
9.
Nguyen
H,
Das U, Xie J. Genome-wide evolution of wobble
base-pairing nucleotides of branchpoint motifs with
increasing organismal complexity. RNA
Biology, 17:3,
311-324, Dec.
2019, http://dx.doi.org/10.1080/15476286.2019.1697548.
10.
Nguyen
H,
Xie J. Widespread
separation of the polypyrimidine tract from 3' AG by
G tracts in association with alternative exons in
metazoa and plants. Frontiers
in Genetics, 9:741, published: 14
January 2019, doi: 10.3389/fgene.2018.00741. |PDF|
11.
Das
U, Nguyen H, Xie J. Transcriptome protection by
the expanded family of hnRNPs. RNA
Biology, 16:2,
155-159, 2018 Dec
30. PMID: 30596342 DOI:
10.1080/15476286.2018.1564617.
12.
Lei
L, Cao W, Liu L, Das U, Wu Y, Liu G, Sohail M, Chen
Y, Xie J. Multi-level
differential control of hormone gene expression
programs by hnRNP L and LL in pituitary cells. Mol.
Cell. Biol., 2018 May
29;38(12):e00651-17.(MCB Most-Read'04-05'18).
|PDF|
13.
Nguyen
H,
Das U, Wang B, Xie J. The
matrices and constraints of GT/AG splice sites of
more than 1000 species/lineages. Gene,
2018, 660:92-101. ------ *UPDATE splice site
matrices/constraints from recent
Ensembl releases. **A
list of alternative exons differentially spliced
between male and hermaphrodite ('female') C.
elegans ('sex'-specific
alternative splicing in C. elegans)
from this study (Raw RNA-seq reads from 'Kramer et al, Genetics 204 (2016) 355-69'
in the NCBI SRA database)
Keywords: molecular
biology, RNA, processing, alternative splicing,
cryptic splicing, transcriptome integrity, hnRNP, gene
regulation, gene expression, evolution, proteomic
diversity, complexity, splicing factors, protein
kinases, cell signaling, neurons, endocrine cells,
SNP, mutation, cancer, GWAS, human health/genetic
diseases
Molecular basis of the depolarization-regulated alternative splicing of the STREX exon of the Slo1 gene.
The
REPAG element specifically among mammals (Sohail M., and Xie J. Molecular &
Cellular Biology, 2015, 35(12): 2203-2214)
A new group of introns: REPA element 'inserted' between the Py and 3'AG and its effects on alternative splicing.
Opinions about the term non-coding RNA