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Rong-Fong Shen

Research Profile

Occupations

Proteomics

Procedures

Chemicals & Drugs

Anatomy

Physiology

Gene Expression Regulation

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Publications

TOP 3
O I Obolensky; Rong-Fong Shen; Wells W Wu; Yi-Kuo Yu
Using dissociation energies to predict observability of b- and y-peaks in mass spectra of short peptides. II. Results for hexapeptides with non-polar side chains.
Xiaoyan Shen; Angel M Aponte; Eric M Billings; Chun-Chun Li; Joel Moss; Rong-Fong Shen; Martha Vaughan
Brefeldin A-inhibited ADP-ribosylation factor activator BIG2 regulates cell migration via integrin β1 cycling and actin remodeling.
Sung-Soo Park; Rong-Fong Shen; Wells W Wu; Yu Zhou; Bronwen Martin; Stuart Maudsley
Effective correction of experimental errors in quantitative proteomics using stable isotope labeling by amino acids in cell culture (SILAC).

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All Publications

2013: O I Obolensky; Rong-Fong Shen; Wells W Wu; Yi-Kuo Yu
Using dissociation energies to predict observability of b- and y-peaks in mass spectra of short peptides. II. Results for hexapeptides with non-polar side chains.
Rapid communications in mass spectrometry : RCM 2013;27(1):152-6.
2012: Xiaoyan Shen; Angel M Aponte; Eric M Billings; Chun-Chun Li; Joel Moss; Rong-Fong Shen; Martha Vaughan
Brefeldin A-inhibited ADP-ribosylation factor activator BIG2 regulates cell migration via integrin β1 cycling and actin remodeling.
Proceedings of the National Academy of Sciences of the United States of America 2012;109(36):14464-9.
2012: Sung-Soo Park; Rong-Fong Shen; Wells W Wu; Yu Zhou; Bronwen Martin; Stuart Maudsley
Effective correction of experimental errors in quantitative proteomics using stable isotope labeling by amino acids in cell culture (SILAC).
Journal of proteomics 2012;75(12):3720-32.
2012: Wells W Wu; Bronwen Martin; Sung-Soo Park; Rong-Fong Shen; Stuart Maudsley
Precursor ion exclusion for enhanced identification of plasma biomarkers.
Proteomics. Clinical applications 2012;6(5-6):304-8.
2012: O I Obolensky; Rong-Fong Shen; Wells W Wu; Yi-Kuo Yu
Using dissociation energies to predict observability of b- and y-peaks in mass spectra of short peptides.
Rapid communications in mass spectrometry : RCM 2012;26(8):915-20.
2012: Wells W Wu; Sige Zou; Guanghui Wang; Cheng-Te Hsiao; Paul A Insel; Bronwen Martin; Stuart Maudsley; Rong-Fong Shen
Discovery- and target-based protein quantification using iTRAQ and pulsed Q collision induced dissociation (PQD).
Journal of proteomics 2012;75(8):2480-7.
2011: Wells W Wu; Sige Zou; Guanghui Wang; Cheng-Te Hsiao; Paul A Insel; Bronwen Martin; Stuart Maudsley; Rong-Fong Shen
Identification of proteins and phosphoproteins using pulsed Q collision induced dissociation (PQD).
Journal of the American Society for Mass Spectrometry 2011;22(10):1753-62.
2011: Yu Zhou; Tie Yi; Sung-Soo Park; Wayne Chadwick; Rong-Fong Shen; Wells W Wu; Bronwen Martin; Stuart Maudsley
Rapid and enhanced proteolytic digestion using electric-field-oriented enzyme reactor.
Journal of proteomics 2011;74(7):1030-5.
2011: Tianwei Li; Rasa Santockyte; Shiqin Yu; Rong-Fong Shen; Ephrem Tekle; Caroline G L Lee; David C H Yang; P Boon Chock
FAT10 modifies p53 and upregulates its transcriptional activity.
Archives of biochemistry and biophysics 2011;509(2):164-9.
2010: Karthikeshwar Vangala; Michael Yanney; Cheng-Te Hsiao; Wells W Wu; Rong-Fong Shen; Sige Zou; Andrzej Sygula; Dongmao Zhang
Sensitive carbohydrate detection using surface enhanced Raman tagging.
Analytical chemistry 2010;82(24):10164-71.
2010: Richard J Giannone; Hayes W McDonald; Gregory B Hurst; Rong-Fong Shen; Yisong Wang; Yie Liu
The protein network surrounding the human telomere repeat binding factors TRF1, TRF2, and POT1.
PloS one 2010;5(8):e12407.
2010: Margarita Kunin; Natalia I Dmitrieva; Morgan Gallazzini; Rong-Fong Shen; Guanghui Wang; MAURICE BURG; Joan D Ferraris
Mediator of DNA damage checkpoint 1 (MDC1) contributes to high NaCl-induced activation of the osmoprotective transcription factor TonEBP/OREBP.
PloS one 2010;5(8):e12108.
2009: Shang-Yi Tsai; Teruo Hayashi; Brandon K Harvey; Yun Wang; Wells W Wu; Rong-Fong Shen; Yongqing Zhang; Kevin G Becker; Barry J Hoffer; Tsung-Ping Su
Sigma-1 receptors regulate hippocampal dendritic spine formation via a free radical-sensitive mechanism involving Rac1xGTP pathway.
Proceedings of the National Academy of Sciences of the United States of America 2009;106(52):22468-73.
2009: Craig A Eyster; Jason D Higginson; Robert Huebner; Natalie Porat-Shliom; Roberto Weigert; Wells W Wu; Rong-Fong Shen; Julie G Donaldson
Discovery of new cargo proteins that enter cells through clathrin-independent endocytosis.
Traffic (Copenhagen, Denmark) 2009;10(5):590-9.
2009: Susan Yuditskaya; Ashaunta Tumblin; Gerard T Hoehn; Guanghui Wang; Steven K Drake; Xiuli Xu; Saixia Ying; Amy H Chi; Alan T Remaley; Rong-Fong Shen; Peter J Munson; Anthony F Suffredini; Gregory Kato
Proteomic identification of altered apolipoprotein patterns in pulmonary hypertension and vasculopathy of sickle cell disease.
Blood 2009;113(5):1122-8.
2009: Christopher Looze; David Yui; Lester Leung; Matthew Ingham; Maryann Kaler; Xianglan Yao; Wells W Wu; Rong-Fong Shen; Mathew P Daniels; Stewart J Levine
Proteomic profiling of human plasma exosomes identifies PPARgamma as an exosome-associated protein.
Biochemical and biophysical research communications 2009;378(3):433-8.
2009: Guanghui Wang; Wells W Wu; Zheng Zhang; Shyama Masilamani; Rong-Fong Shen
Decoy methods for assessing false positives and false discovery rates in shotgun proteomics.
Analytical chemistry 2009;81(1):146-59.
2008: Ming-Jiun Yu; Trairak Pisitkun; Guanghui Wang; Juan F Aranda; Patricia A Gonzales; Dmitry Tchapyjnikov; Rong-Fong Shen; Miguel A Alonso; Mark A Knepper
Large-scale quantitative LC-MS/MS analysis of detergent-resistant membrane proteins from rat renal collecting duct.
American journal of physiology. Cell physiology 2008;295(3):C661-78.
2008: Gelio Alves; Wells W Wu; Guanghui Wang; Rong-Fong Shen; Yi-Kuo Yu
Enhancing peptide identification confidence by combining search methods.
Journal of proteome research 2008;7(8):3102-13.
2008: Jian-Jiang Hao; Guanghui Wang; Trairak Pisitkun; Genaro Patino-Lopez; Kunio Nagashima; Mark A Knepper; Rong-Fong Shen; Stephen Shaw
Enrichment of distinct microfilament-associated and GTP-binding-proteins in membrane/microvilli fractions from lymphoid cells.
Journal of proteome research 2008;7(7):2911-27.
2008: Wells W Wu; Guanghui Wang; Xing-Jie Liang; John K Park; Rong-Fong Shen
Covalent modification of stathmin by CCNU determined by FTMS analysis of modified proteins and tryptic peptides.
Biochemical and biophysical research communications 2008;367(1):7-13.
2008: Gelio Alves; Aleksey Y Ogurtsov; Siwei Kwok; Wells W Wu; Guanghui Wang; Rong-Fong Shen; Yi-Kuo Yu
Detection of co-eluted peptides using database search methods.
Biology direct 2008;3():27.
2008: Sun Jin Choi; In Sun Song; Ok Hee Ryu; Sung Won Choi; P Suzanne Hart; Wells W Wu; Rong-Fong Shen; Thomas Hart
A 4 bp deletion mutation in DLX3 enhances osteoblastic differentiation and bone formation in vitro.
Bone 2008;42(1):162-71.
2007: Junhui Sun; Meghan Morgan; Rong-Fong Shen; CHARLES STEENBERGEN; Elizabeth Murphy
Preconditioning results in S-nitrosylation of proteins involved in regulation of mitochondrial energetics and calcium transport.
Circulation research 2007;101(11):1155-63.
2007: Yasuko Noda; Barbara S Berlett; Earl R Stadtman; Angel M Aponte; Meghan Morgan; Rong-Fong Shen
Identification of enzymes and regulatory proteins in Escherichia coli that are oxidized under nitrogen, carbon, or phosphate starvation.
Proceedings of the National Academy of Sciences of the United States of America 2007;104(47):18456-60.
2007: Jason D Hoffert; Guanghui Wang; Trairak Pisitkun; Rong-Fong Shen; Mark A Knepper
An automated platform for analysis of phosphoproteomic datasets: application to kidney collecting duct phosphoproteins.
Journal of proteome research 2007;6(9):3501-8.
2007: Xing W Zhou; Malkanthi Mudannayake; Mariah Green; Marisa S Gigena; Guanghui Wang; Rong-Fong Shen; Terry B Rogers
Proteomic studies of PP2A-B56gamma1 phosphatase complexes reveal phosphorylation-regulated partners in cardiac local signaling.
Journal of proteome research 2007;6(9):3433-42.
2007: Wells W Wu; Guanghui Wang; Ming-Jiun Yu; Mark A Knepper; Rong-Fong Shen
Identification and quantification of basic and acidic proteins using solution-based two-dimensional protein fractionation and label-free or 18O-labeling mass spectrometry.
Journal of proteome research 2007;6(7):2447-59.
2007: Teri-T B Ngo; Tien Peng; Xing-Jie Liang; Oluwaseun Akeju; sandra Pastorino; Wei Zhang; Yuri Kotliarov; Jean Claude Zenklusen; Howard A Fine; Dragan Maric; Patrick Y Wen; Umberto De Girolami; Peter Black; Wells W Wu; Rong-Fong Shen; Neal O Jeffries; Dong-Won Kang; John K Park
The 1p-encoded protein stathmin and resistance of malignant gliomas to nitrosoureas.
Journal of the National Cancer Institute 2007;99(8):639-52.
2007: Ye Chen; Michael P Schnetz; Carlos E Irarrazabal; Rong-Fong Shen; Chester K Williams; MAURICE BURG; Joan D Ferraris
Proteomic identification of proteins associated with the osmoregulatory transcription factor TonEBP/OREBP: functional effects of Hsp90 and PARP-1.
American journal of physiology. Renal physiology 2007;292(3):F981-92.
2007: Gelio Alves; Aleksey Y Ogurtsov; Wells W Wu; Guanghui Wang; Rong-Fong Shen; Yi-Kuo Yu
Calibrating E-values for MS2 database search methods.
Biology direct 2007;2():26.
2006: Tianwei Li; Rasa Santockyte; Rong-Fong Shen; Ephrem Tekle; Guanghui Wang; David C H Yang; P Boon Chock
Expression of SUMO-2/3 induced senescence through p53- and pRB-mediated pathways.
The Journal of biological chemistry 2006;281(47):36221-7.
2006: H Zhou; Trairak Pisitkun; Angel M Aponte; Peter S T Yuen; Jason D Hoffert; H Yasuda; Xuzhen Hu; L Chawla; Rong-Fong Shen; Mark A Knepper; robert star
Exosomal Fetuin-A identified by proteomics: a novel urinary biomarker for detecting acute kidney injury.
Kidney international 2006;70(10):1847-57.
2006: Ming-Jiun Yu; Trairak Pisitkun; Guanghui Wang; Rong-Fong Shen; Mark A Knepper
LC-MS/MS analysis of apical and basolateral plasma membranes of rat renal collecting duct cells.
Molecular & cellular proteomics : MCP 2006;5(11):2131-45.
2006: Stefan M Schieke; Darci Phillips; J Philip McCoy; Angel M Aponte; Rong-Fong Shen; Robert Balaban; TOREN FINKEL
The mammalian target of rapamycin (mTOR) pathway regulates mitochondrial oxygen consumption and oxidative capacity.
The Journal of biological chemistry 2006;281(37):27643-52.
2006: Tianwei Li; Rasa Santockyte; Rong-Fong Shen; Ephrem Tekle; Guanghui Wang; David C H Yang; P Boon Chock
A general approach for investigating enzymatic pathways and substrates for ubiquitin-like modifiers.
Archives of biochemistry and biophysics 2006;453(1):70-4.
2006: Guanghui Wang; Wells W Wu; Trairak Pisitkun; Jason D Hoffert; Mark A Knepper; Rong-Fong Shen
Automated quantification tool for high-throughput proteomics using stable isotope labeling and LC-MSn.
Analytical chemistry 2006;78(16):5752-61.
2006: Jason D Hoffert; Trairak Pisitkun; Guanghui Wang; Rong-Fong Shen; Mark A Knepper
Quantitative phosphoproteomics of vasopressin-sensitive renal cells: regulation of aquaporin-2 phosphorylation at two sites.
Proceedings of the National Academy of Sciences of the United States of America 2006;103(18):7159-64.
2006: Guanghui Wang; Wells W Wu; Weihua Zeng; Chung-Lin Chou; Rong-Fong Shen
Label-free protein quantification using LC-coupled ion trap or FT mass spectrometry: Reproducibility, linearity, and application with complex proteomes.
Journal of proteome research 2006;5(5):1214-23.
2006: Trairak Pisitkun; Jared Bieniek; Dmitry Tchapyjnikov; Guanghui Wang; Wells W Wu; Rong-Fong Shen; Mark A Knepper
High-throughput identification of IMCD proteins using LC-MS/MS.
Physiological genomics 2006;25(2):263-76.
2006: Wells W Wu; Guanghui Wang; Seung Joon Baek; Rong-Fong Shen
Comparative study of three proteomic quantitative methods, DIGE, cICAT, and iTRAQ, using 2D gel- or LC-MALDI TOF/TOF.
Journal of proteome research 2006;5(3):651-8.
2006: Rachel K Hopper; Stefanie Carroll; Angel M Aponte; D Thor Johnson; Stephanie French; Rong-Fong Shen; Frank A Witzmann; Robert Harris; Robert Balaban
Mitochondrial matrix phosphoproteome: effect of extra mitochondrial calcium.
Biochemistry 2006;45(8):2524-36.
2006: Glen L Hortin; Rong-Fong Shen; Brian M Martin; Alan T Remaley
Diverse range of small peptides associated with high-density lipoprotein.
Biochemical and biophysical research communications 2006;340(3):909-15.
2006: Brigitte L Simons; Guanghui Wang; Rong-Fong Shen; Mark A Knepper
In vacuo isotope coded alkylation technique (IVICAT); an N-terminal stable isotopic label for quantitative liquid chromatography/mass spectrometry proteomics.
Rapid communications in mass spectrometry : RCM 2006;20(16):2463-77.
2005: Xing W Zhou; Björn F C Kafsack; Robert N Cole; Phil Beckett; Rong-Fong Shen; Vernon Bruce Carruthers
The opportunistic pathogen Toxoplasma gondii deploys a diverse legion of invasion and survival proteins.
The Journal of biological chemistry 2005;280(40):34233-44.
2005: Maria Barile; Trairak Pisitkun; Ming-Jiun Yu; Chung-Lin Chou; Michael J Verbalis; Rong-Fong Shen; Mark A Knepper
Large scale protein identification in intracellular aquaporin-2 vesicles from renal inner medullary collecting duct.
Molecular & cellular proteomics : MCP 2005;4(8):1095-106.
2005: Ok Hee Ryu; Sun Jin Choi; Erhan Firatli; Sung Won Choi; P Suzanne Hart; Rong-Fong Shen; Guanghui Wang; Wells W Wu; Thomas Hart
Proteolysis of macrophage inflammatory protein-1alpha isoforms LD78beta and LD78alpha by neutrophil-derived serine proteases.
The Journal of biological chemistry 2005;280(17):17415-21.
2004: Trairak Pisitkun; Rong-Fong Shen; Mark A Knepper
Identification and proteomic profiling of exosomes in human urine.
Proceedings of the National Academy of Sciences of the United States of America 2004;101(36):13368-73.
2004: Tianwei Li; Evgenij Evdokimov; Rong-Fong Shen; Chien-Chung Chao; Ephrem Tekle; Tao Wang; Earl R Stadtman; David C H Yang; P Boon Chock
Sumoylation of heterogeneous nuclear ribonucleoproteins, zinc finger proteins, and nuclear pore complex proteins: a proteomic analysis.
Proceedings of the National Academy of Sciences of the United States of America 2004;101(23):8551-6.
2004: Kimberly A Carlson; Pawel Ciborowski; Courtney N Schellpeper; Toni M Biskup; Rong-Fong Shen; Xiaoguang Luo; Christopher J Destache; Howard E Gendelman
Proteomic fingerprinting of HIV-1-infected human monocyte-derived macrophages: a preliminary report.
Journal of neuroimmunology 2004;147(1-2):35-42.
2003: Dirk Chelius; Terry Zhang; Guanghui Wang; Rong-Fong Shen
Global protein identification and quantification technology using two-dimensional liquid chromatography nanospray mass spectrometry.
Analytical chemistry 2003;75(23):6658-65.
1998: Rong-Fong Shen; H H Tai
Thromboxanes: synthase and receptors.
Journal of biomedical science 1998;5(3):153-72.
1997: L Zhang; H Xiao; Roger A Schultz; Rong-Fong Shen
Genomic organization, chromosomal localization, and expression of the murine thromboxane synthase gene.
Genomics 1997;45(3):519-28.
1996: K D Lee; S J Baek; Rong-Fong Shen
Multiple factors regulating the expression of human thromboxane synthase gene.
The Biochemical journal 1996;319 ( Pt 3)():783-91.
1996: S J Baek; K D Lee; Rong-Fong Shen
Genomic structure and polymorphism of the human thromboxane synthase-encoding gene.
Gene 1996;173(2):251-6.
1995: Rong-Fong Shen; S J Baek; K D Lee; L Zhang; T Fleischer
Genomic organization and regulation of the human thromboxane synthase gene.
Advances in prostaglandin, thromboxane, and leukotriene research 1995;23():137-9.
1994: K D Lee; S J Baek; Rong-Fong Shen
Cloning and characterization of the human thromboxane synthase gene promoter.
Biochemical and biophysical research communications 1994;201(1):379-87.
1994: Rong-Fong Shen; L Zhang; S J Baek; Hsin-Hsiung Tai; K D Lee
The porcine thromboxane synthase-encoding cDNA: sequence, mRNA expression and enzyme production in Sf9 insect cells.
Gene 1994;140(2):261-5.
1993: Z Xia; Rong-Fong Shen; S J Baek; Hsin-Hsiung Tai
Expression of two different forms of cDNA for thromboxane synthase in insect cells and site-directed mutagenesis of a critical cysteine residue.
The Biochemical journal 1993;295 ( Pt 2)():457-61.
1993: L Zhang; M B Chase; Rong-Fong Shen
Molecular cloning and expression of murine thromboxane synthase.
Biochemical and biophysical research communications 1993;194(2):741-8.
1993: M B Chase; S J Baek; D C Purtell; Stuart Schwartz; Rong-Fong Shen
Mapping of the human thromboxane synthase gene (TBXAS1) to chromosome 7q34-q35 by two-color fluorescence in situ hybridization.
Genomics 1993;16(3):771-3.
1990: T H Lee; M J Finegold; Rong-Fong Shen; J L DeMayo; SL Woo; Janet S Butel
Hepatitis B virus transactivator X protein is not tumorigenic in transgenic mice.
Journal of virology 1990;64(12):5939-47.
1989: Antonia R Sepulveda; M J Finegold; B Smith; Betty L Slagle; J L DeMayo; Rong-Fong Shen; SL Woo; Janet S Butel
Development of a transgenic mouse system for the analysis of stages in liver carcinogenesis using tissue-specific expression of SV40 large T-antigen controlled by regulatory elements of the human alpha-1-antitrypsin gene.
Cancer research 1989;49(21):6108-17.
1989: Richard N Sifers; Rong-Fong Shen; SL Woo
Genetic control of human alpha-1-antitrypsin.
Molecular biology & medicine 1989;6(2):127-35.
1989: Rong-Fong Shen; S M Clift; J L DeMayo; Richard N Sifers; M J Finegold; SL Woo
Tissue-specific regulation of human alpha 1-antitrypsin gene expression in transgenic mice.
DNA (Mary Ann Liebert, Inc.) 1989;8(2):101-8.
1988: H Peng; D Armentano; L MacKenzie-Graham; Rong-Fong Shen; G Darlington; F D Ledley; SL Woo
Retroviral-mediated gene transfer and expression of human phenylalanine hydroxylase in primary mouse hepatocytes.
Proceedings of the National Academy of Sciences of the United States of America 1988;85(21):8146-50.
1988: Y Li; Rong-Fong Shen; Sophia Y Tsai; SL Woo
Multiple hepatic trans-acting factors are required for in vitro transcription of the human alpha-1-antitrypsin gene.
Molecular and cellular biology 1988;8(10):4362-9.
1987: Rong-Fong Shen; Y Li; Richard N Sifers; H Wang; C Hardick; Sophia Y Tsai; SL Woo
Tissue-specific expression of the human alpha 1-antitrypsin gene is controlled by multiple cis-regulatory elements.
Nucleic acids research 1987;15(20):8399-415.
1987: Rong-Fong Shen; Hsin-Hsiung Tai
Immunological studies on thromboxane synthase.
Advances in prostaglandin, thromboxane, and leukotriene research 1987;17A():34-8.
1986: Rong-Fong Shen; H H Tai
Immunoaffinity purification and characterization of thromboxane synthase from porcine lung.
The Journal of biological chemistry 1986;261(25):11592-9.
1986: Rong-Fong Shen; H H Tai
Monoclonal antibodies to thromboxane synthase from porcine lung. Production and application to development of a tandem immunoradiometric assay.
The Journal of biological chemistry 1986;261(25):11585-91.
1985: Y Liu; K Yoden; Rong-Fong Shen; H H Tai
12-L-hydroxy-5,8,10-heptadecatrienoic acid (HHT) is an excellent substrate for NAD+-dependent 15-hydroxyprostaglandin dehydrogenase.
Biochemical and biophysical research communications 1985;129(1):268-74.
1985: H H Tai; Y Liu; C L Tai; K Yoden; Rong-Fong Shen
Molecular, catalytic, and immunological characterization of NAD+-linked 15-hydroxyprostaglandin dehydrogenase.
Advances in prostaglandin, thromboxane, and leukotriene research 1985;15():159-61.