Khaladkar, Mugdha, Liu, Jianghui, Wen, Dongrong, Wang, Jason TL, Tian, Bin
Abstract Background UnTranslated Regions (UTRs) of mRNAs contain regulatory elements for various aspects of mRNA metabolism, such as mRNA localization, translation, and mRNA stability. Several RNA...
Prediction of mRNA polyadenylation sites by support vector machine (2008)
Yiming Cheng, Robert M. Miura, Bin Tian
mRNA polyadenylation is responsible for the 3’end formation of most mRNAs in eukaryotic cells and is linked to termination of transcription. Prediction of mRNA polyadenylation sites [poly(A) sites]...
UWB Localization for NLOS under Indoor Multipath Channel: Scheme and TOA Estimation (2008)
XIAO, Zhu, YI, Ke-Chu, TIAN, Bin, WANG, Yong-Chao
This letter proposes a UWB signaling localization scheme for indoor multipath channel. It demonstrates that the proposed method does not require LOS path (LP) and is suitable for severe non...
Lee, Ju Youn, Ji, Zhe, Tian, Bin
mRNA polyadenylation is an essential step for the maturation of almost all eukaryotic mRNAs, and is tightly coupled with termination of transcription in defining the 3′-end of genes. Large numbers...
RADAR: a web server for RNA data analysis and research (2007)
Khaladkar, Mugdha, Bellofatto, Vivian, Wang, Jason T. L., Tian, Bin, Shapiro, Bruce A.
RADAR is a web server that provides a multitude of functionality for RNA data analysis and research. It can align structure-annotated RNA sequences so that both sequence and structure information are...
PolyA_DB 2: mRNA polyadenylation sites in vertebrate genes (2007)
Lee, Ju Youn, Yeh, Ijen, Park, Ji Yeon, Tian, Bin
Polyadenylation of nascent transcripts is one of the key mRNA processing events in eukaryotic cells. A large number of human and mouse genes have alternative polyadenylation sites, or poly(A) sites,...
Tian, Bin, Pan, Zhenhua, Lee, Ju Youn
mRNA polyadenylation and pre-mRNA splicing are two essential steps for the maturation of most human mRNAs. Studies have shown that some genes generate mRNA variants involving both alternative...
Biased alternative polyadenylation in human tissues (2005)
Zhang, Haibo, Lee, Ju, Tian, Bin
Abstract Background Alternative polyadenylation is one of the mechanisms in human cells that give rise to a variety of transcripts from a single gene. More than half of the human genes have multiple...
A method for aligning RNA secondary structures and its application to RNA motif detection (2005)
Liu, Jianghui, Wang, Jason TL, Hu, Jun, Tian, Bin
Abstract Background Alignment of RNA secondary structures is important in studying functional RNA motifs. In recent years, much progress has been made in RNA motif finding and structure alignment....
BMC Bioinformatics BioMed Central Methodology article (2005)
Jianghui Liu, Jason Tl Wang, Jun Hu, Bin Tian
to RNA motif detection
PolyA_DB: a database for mammalian mRNA polyadenylation (2005)
Zhang, Haibo, Hu, Jun, Recce, Michael, Tian, Bin
Messenger RNA polyadenylation is one of the key post-transcriptional events in eukaryotic cells. A large number of genes in mammalian species can undergo alternative polyadenylation, which leads to...
HU, JUN, LUTZ, CAROL S., WILUSZ, JEFFREY, TIAN, BIN
Polyadenylation is an essential step for the maturation of almost all cellular mRNAs in eukaryotes. In human cells, most poly(A) sites are flanked by the upstream AAUAAA hexamer or a close variant,...
A large-scale analysis of mRNA polyadenylation of human and mouse genes (2005)
Tian, Bin, Hu, Jun, Zhang, Haibo, Lutz, Carol S.
mRNA polyadenylation is a critical cellular process in eukaryotes. It involves 3′ end cleavage of nascent mRNAs and addition of the poly(A) tail, which plays important roles in many aspects of the...
HU, JUN, LUTZ, CAROL S., WILUSZ, JEFFREY, TIAN, BIN
Polyadenylation is an essential step for the maturation of almost all cellular mRNAs in eukaryotes. In human cells, most poly(A) sites are flanked by the upstream AAUAAA hexamer or a close variant,...
Alternative polyadenylation of cyclooxygenase-2 (2005)
Hall-Pogar, Tyra, Zhang, Haibo, Tian, Bin, Lutz, Carol S.
A biologically important human gene, cyclooxygenase-2 (COX-2), has been proposed to be regulated at many levels. While COX-1 is constitutively expressed in cells, COX-2 is inducible and is...
PolyA_DB: a database for mammalian mRNA (2004)
Haibo Zhang, Jun Hu, Michael Recce, Bin Tian
polyadenylation
Comparison of two different PNN training approaches for satellite cloud data classification (2001)
Tian, Bin ; Azimi-Sadjadi, Mahmood R.
"This work was supported by the DoD Center for Geosciences/Atmospheric Research (CG/AR) under Contract DAAL01-98-2-0078."
Thesis (Ph. D.)--University of Medicine and Dentistry of New Jersey, Graduate School of Biomedical Sciences.
Thesis (Ph. D.)--Colorado State University, 1998.
Taylor, Deborah R., Tian, Bin, Romano, Patrick R., Hinnebusch, Alan G., Lai, Michael M. C., Mathews, Michael B.
Double-stranded-RNA (dsRNA)-dependent protein kinase PKR is induced by interferon and activated upon autophosphorylation. We previously identified four autophosphorylated amino acids and elucidated...
Lo, Jeng-Fan, Hayashi, Masaaki, Woo-Kim, Sung, Tian, Bin, Huang, Jing-Feng, Fearns, Colleen, ...
Tid1 is the mammalian counterpart of the Drosophila tumor suppressor Tid56 and is also a DnaJ protein containing a conserved J domain through which it interacts with the heat shock protein 70 (Hsp70)...
PolyA_DB: a database for mammalian mRNA polyadenylation
Zhang, Haibo, Hu, Jun, Recce, Michael, Tian, Bin
Messenger RNA polyadenylation is one of the key post-transcriptional events in eukaryotic cells. A large number of genes in mammalian species can undergo alternative polyadenylation, which leads to...
A large-scale analysis of mRNA polyadenylation of human and mouse genes
Tian, Bin, Hu, Jun, Zhang, Haibo, Lutz, Carol S.
mRNA polyadenylation is a critical cellular process in eukaryotes. It involves 3′ end cleavage of nascent mRNAs and addition of the poly(A) tail, which plays important roles in many aspects of the...
Netterwald, James, Yang, Shaojun, Wang, Weijia, Ghanny, Salena, Cody, Michael, Soteropoulos, Patricia, ...
Human cytomegalovirus (HCMV) infection directly initiates a signal transduction pathway that leads to activation of a large number of cellular interferon-stimulated genes (ISGs). Our previous studies...
Alternative polyadenylation of cyclooxygenase-2
Hall-Pogar, Tyra, Zhang, Haibo, Tian, Bin, Lutz, Carol S.
A biologically important human gene, cyclooxygenase-2 (COX-2), has been proposed to be regulated at many levels. While COX-1 is constitutively expressed in cells, COX-2 is inducible and is...
Duttagupta, Radharani, Tian, Bin, Wilusz, Carol J., Khounh, Danny T., Soteropoulos, Patricia, Ouyang, Ming, ...
Regulation of mRNA turnover is an important cellular strategy for posttranscriptional control of gene expression, mediated by the interplay of cis-acting sequences and associated trans-acting...
Biased alternative polyadenylation in human tissues
Zhang, Haibo, Lee, Ju Youn, Tian, Bin
Bioinformatic analyses of the occurrence and mechanism of alternative polyadenylation in different human tissues reveals systematic differences among tissues and suggests the involvement of both...
HU, JUN, LUTZ, CAROL S., WILUSZ, JEFFREY, TIAN, BIN
Polyadenylation is an essential step for the maturation of almost all cellular mRNAs in eukaryotes. In human cells, most poly(A) sites are flanked by the upstream AAUAAA hexamer or a close variant,...
Taylor, Deborah R., Tian, Bin, Romano, Patrick R., Hinnebusch, Alan G., Lai, Michael M. C., Mathews, Michael B.
Double-stranded-RNA (dsRNA)-dependent protein kinase PKR is induced by interferon and activated upon autophosphorylation. We previously identified four autophosphorylated amino acids and elucidated...
Lo, Jeng-Fan, Hayashi, Masaaki, Woo-Kim, Sung, Tian, Bin, Huang, Jing-Feng, Fearns, Colleen, ...
Tid1 is the mammalian counterpart of the Drosophila tumor suppressor Tid56 and is also a DnaJ protein containing a conserved J domain through which it interacts with the heat shock protein 70 (Hsp70)...
PolyA_DB: a database for mammalian mRNA polyadenylation
Zhang, Haibo, Hu, Jun, Recce, Michael, Tian, Bin
Messenger RNA polyadenylation is one of the key post-transcriptional events in eukaryotic cells. A large number of genes in mammalian species can undergo alternative polyadenylation, which leads to...
A large-scale analysis of mRNA polyadenylation of human and mouse genes
Tian, Bin, Hu, Jun, Zhang, Haibo, Lutz, Carol S.
mRNA polyadenylation is a critical cellular process in eukaryotes. It involves 3′ end cleavage of nascent mRNAs and addition of the poly(A) tail, which plays important roles in many aspects of the...
Netterwald, James, Yang, Shaojun, Wang, Weijia, Ghanny, Salena, Cody, Michael, Soteropoulos, Patricia, ...
Human cytomegalovirus (HCMV) infection directly initiates a signal transduction pathway that leads to activation of a large number of cellular interferon-stimulated genes (ISGs). Our previous studies...
Alternative polyadenylation of cyclooxygenase-2
Hall-Pogar, Tyra, Zhang, Haibo, Tian, Bin, Lutz, Carol S.
A biologically important human gene, cyclooxygenase-2 (COX-2), has been proposed to be regulated at many levels. While COX-1 is constitutively expressed in cells, COX-2 is inducible and is...
Duttagupta, Radharani, Tian, Bin, Wilusz, Carol J., Khounh, Danny T., Soteropoulos, Patricia, Ouyang, Ming, ...
Regulation of mRNA turnover is an important cellular strategy for posttranscriptional control of gene expression, mediated by the interplay of cis-acting sequences and associated trans-acting...
HU, JUN, LUTZ, CAROL S., WILUSZ, JEFFREY, TIAN, BIN
Polyadenylation is an essential step for the maturation of almost all cellular mRNAs in eukaryotes. In human cells, most poly(A) sites are flanked by the upstream AAUAAA hexamer or a close variant,...
Biased alternative polyadenylation in human tissues
Zhang, Haibo, Lee, Ju Youn, Tian, Bin
Bioinformatic analyses of the occurrence and mechanism of alternative polyadenylation in different human tissues reveals systematic differences among tissues and suggests the involvement of both...
An HSV-TK Transgenic Mouse Model to Evaluate Elimination of Fibroblasts for Fibrosis Therapy
Tian, Bin, Han, Lei, Kleidon, Jill, Henke, Craig
Pathological fibroproliferation after tissue injury is harmful and may lead to organ dysfunction. Unfortunately, fibroproliferative diseases remain intractable to current therapeutic strategies....
PolyA_DB 2: mRNA polyadenylation sites in vertebrate genes
Lee, Ju Youn, Yeh, Ijen, Park, Ji Yeon, Tian, Bin
Polyadenylation of nascent transcripts is one of the key mRNA processing events in eukaryotic cells. A large number of human and mouse genes have alternative polyadenylation sites, or poly(A) sites,...
Tian, Bin, Pan, Zhenhua, Lee, Ju Youn
mRNA polyadenylation and pre-mRNA splicing are two essential steps for the maturation of most human mRNAs. Studies have shown that some genes generate mRNA variants involving both alternative...
RADAR: a web server for RNA data analysis and research
Khaladkar, Mugdha, Bellofatto, Vivian, Wang, Jason T. L., Tian, Bin, Shapiro, Bruce A.
RADAR is a web server that provides a multitude of functionality for RNA data analysis and research. It can align structure-annotated RNA sequences so that both sequence and structure information are...
Cellular mRNA Activates Transcription Elongation by Displacing 7SK RNA
Young, Tara M., Tsai, Michael, Tian, Bin, Mathews, Michael B., Pe'ery, Tsafi
The positive transcription elongation factor P-TEFb is a pivotal regulator of gene expression in higher cells. Originally identified in Drosophila, attention was drawn to human P-TEFb by the...
Loss of polyadenylation protein τCstF-64 causes spermatogenic defects and male infertility
Dass, Brinda, Tardif, Steve, Park, Ji Yeon, Tian, Bin, Weitlauf, Harry M., Hess, Rex A., ...
Polyadenylation, the process of eukaryotic mRNA 3′ end formation, is essential for gene expression and cell viability. Polyadenylation of male germ cell mRNAs is unusual, exhibiting increased...
Lee, Ju Youn, Ji, Zhe, Tian, Bin
mRNA polyadenylation is an essential step for the maturation of almost all eukaryotic mRNAs, and is tightly coupled with termination of transcription in defining the 3′-end of genes. Large numbers...
Ji, Zhe, Lee, Ju Youn, Pan, Zhenhua, Jiang, Bingjun, Tian, Bin
The 3′ untranslated regions (3′ UTRs) of mRNAs contain cis-acting elements for posttranscriptional regulation of gene expression. Here, we report that mouse genes tend to express mRNAs with...
Distinct roles of GSK-3α and GSK-3β phosphorylation in the heart under pressure overload
Matsuda, Takahisa, Zhai, Peiyong, Maejima, Yasuhiro, Hong, Chull, Gao, Shumin, Tian, Bin, ...
Glycogen synthase kinase-3 (GSK-3) is a master regulator of growth and death in cardiac myocytes. GSK-3 is inactivated by hypertrophic stimuli through phosphorylation-dependent and -independent...
Qiu, Hongyu, Dai, Huacheng, Jain, Komal, Shah, Rina, Hong, Chull, Pain, Jayashree, ...
Myocardial infarction (MI) is often followed by heart failure (HF), but the mechanisms precipitating the transition to HF remain largely unknown. A genomic profile was performed in a monkey model of...