74 Publications (Page 2 of 3)
2018
Large-scale Top-down Proteomics Using Capillary Zone Electrophoresis Tandem Mass Spectrometry
McCool, Elijah N⋅Lubeckyj, Rachele⋅Shen, Xiaojing⋅Kou, Qiang⋅Liu, Xiaowen and Sun, Liangliang
Journal of Visualized Experiments, (no. 140), 10-2018. | Journal Article
 
Native Proteomics in Discovery Mode Using Size-Exclusion Chromatography–Capillary Zone Electrophoresis–Tandem Mass Spectrometry
Shen, Xiaojing⋅Kou, Qiang⋅Guo, Ruiqiong⋅Yang, Zhichang⋅Chen, Daoyang⋅Liu, Xiaowen⋅Hong, Heedeok and Sun, Liangliang
Analytical Chemistry, vol. 90, (no. 17), pp. 10099, 20180904. | Journal Article
 
Systematic Evaluation of Protein Sequence Filtering Algorithms for Proteoform Identification Using Top‐Down Mass Spectrometry
Kou, Qiang⋅Wu, Si and Liu, Xiaowen
PROTEOMICS, vol. 18, (no. 3-4), pp. n/a, February 2018. | Journal Article
2017
A mass graph-based approach for the identification of modified proteoforms using top-down tandem mass spectra.
Kou, Qiang⋅Kou, Qiang⋅Wu, Si⋅Wu, Si⋅Tolic, Nikola⋅Tolic, Nikola⋅Paša-Tolic, Ljiljana⋅Paša-Tolic, Ljiljana⋅Liu, Yunlong⋅Liu, Yunlong⋅Liu, Xiaowen and Liu, Xiaowen
Bioinformatics (Oxford, England), vol. 33, (no. 9), pp. 1309-1316, May 1, 2017. | Journal Article
 
A spectrum graph-based protein sequence filtering algorithm for proteoform identification by top-down mass spectrometry
Yang, Runmin⋅Yang, Runmin⋅Zhu, Daming⋅Zhu, Daming⋅Kou, Qiang⋅Kou, Qiang⋅Bhat-Nakshatri, Poornima⋅Bhat-Nakshatri, Poornima⋅Nakshatri, Harikrishna⋅Nakshatri, Harikrishna⋅Wu, Si⋅Wu, Si⋅Liu, Xiaowen and Liu, Xiaowen
2017 IEEE International Conference on Bioinformatics and Biomedicine (BIBM), vol. 2017, pp. 229, 2017-Nov.. | Journal Article
 
De Novo Sequencing of Peptides from High‐Resolution Bottom‐Up Tandem Mass Spectra using Top‐Down Intended Methods
Vyatkina, Kira⋅Dekker, Lennard J. M⋅Wu, Si⋅VanDuijn, Martijn M⋅Liu, Xiaowen⋅Tolić, Nikola⋅Luider, Theo M and Paša‐Tolić, Ljiljana
PROTEOMICS, vol. 17, (no. 23-24), pp. n/a, December 2017. | Journal Article
 
Filling a Protein Scaffold With a Reference.
Qingge, Letu⋅Liu, Xiaowen⋅Zhong, Farong and Zhu, Binhai
IEEE transactions on nanobioscience, vol. 16, (no. 2), pp. 123-130, March 2017. | Journal Article
 
Single-Shot Top-Down Proteomics with Capillary Zone Electrophoresis-Electrospray Ionization-Tandem Mass Spectrometry for Identification of Nearly 600 Escherichia coli Proteoforms
Lubeckyj, Rachele A⋅McCool, Elijah N⋅Shen, Xiaojing⋅Kou, Qiang⋅Liu, Xiaowen and Sun, Liangliang
Analytical Chemistry, vol. 89, (no. 22), pp. 12067, 20171121. | Journal Article
 
Top-down analysis of immunoglobulin G isotypes 1 and 2 with electron transfer dissociation on a high-field orbitrap mass spectrometer.
Fornelli, Luca⋅Ayoub, Daniel⋅Aizikov, Konstantin⋅Liu, Xiaowen⋅Damoc, Eugen⋅Pevzner, Pavel A⋅Makarov, Alexander⋅Beck, Alain and Tsybin, Yury O
Journal of proteomics, February 24, 2017. | Journal Article
2016
A mass graph-based approach for the identification of modified proteoforms using top-down tandem mass spectra.
Kou, Qiang⋅Kou, Qiang⋅Wu, Si⋅Wu, Si⋅Tolić, Nikola⋅Tolić, Nikola⋅Paša-Tolić, Ljiljana⋅Paša-Tolić, Ljiljana⋅Liu, Yunlong⋅Liu, Yunlong⋅Liu, Xiaowen and Liu, Xiaowen
Bioinformatics (Oxford, England), December 21, 2016. | Journal Article
 
Characterization of Proteoforms with Unknown Post-translational Modifications Using the MIScore.
Kou, Qiang⋅Zhu, Binhai⋅Wu, Si⋅Ansong, Charles⋅Tolić, Nikola⋅Paša-Tolić, Ljiljana and Liu, Xiaowen
Journal of proteome research, vol. 15, (no. 8), pp. 2422-2432, August 5, 2016. | Journal Article
 
Filling a protein scaffold with a reference
Qingge, L.⋅Liu, X.⋅Zhong, F. and Zhu, B.
2016
 
MASH Suite Pro: A Comprehensive Software Tool for Top-Down Proteomics.
Cai, Wenxuan⋅Guner, Huseyin⋅Gregorich, Zachery R⋅Chen, Albert J⋅Ayaz-Guner, Serife⋅Peng, Ying⋅Valeja, Santosh G⋅Liu, Xiaowen and Ge, Ying
Molecular & cellular proteomics : MCP, vol. 15, (no. 2), pp. 703-714, February 2016. | Journal Article
 
Mass graphs and their applications in top-down proteomics
Kou, Q.⋅Wu, S.⋅Toli?, N.⋅Liu, Y.⋅Pa?a-Toli?, L. and Liu, X.
2016
 
Proteomic Characterization Reveals That MMP-3 Correlates With Bronchiolitis Obliterans Syndrome Following Allogeneic Hematopoietic Cell and Lung Transplantation.
Liu, X⋅Yue, Z⋅Yu, J⋅Daguindau, E⋅Kushekhar, K⋅Zhang, Q⋅Ogata, Y⋅Gafken, P R⋅Inamoto, Y⋅Gracon, A⋅Wilkes, D S⋅Hansen, J A⋅Lee, S J⋅Chen, J Y and Paczesny, S
American journal of transplantation : official journal of the American Society of Transplantation and the American Society of Transplant Surgeons, vol. 16, (no. 8), pp. 2342-2351, August 2016. | Journal Article
 
SpectroGene: A Tool for Proteogenomic Annotations Using Top-Down Spectra.
Kolmogorov, Mikhail⋅Liu, Xiaowen and Pevzner, Pavel A
Journal of proteome research, vol. 15, (no. 1), pp. 144-151, January 4, 2016. | Journal Article
 
Top-down analysis of protein samples by de novo sequencing techniques.
Vyatkina, Kira⋅Wu, Si⋅Dekker, Lennard J M⋅VanDuijn, Martijn M⋅Liu, Xiaowen⋅Tolić, Nikola⋅Luider, Theo M⋅Paša-Tolić, Ljiljana and Pevzner, Pavel A
Bioinformatics (Oxford, England), vol. 32, (no. 18), pp. 2753-2759, September 15, 2016. | Journal Article
 
TopPIC: A software tool for top-down mass spectrometry-based proteoform identification and characterization.
Kou, Qiang⋅Xun, Likun and Liu, Xiaowen
Bioinformatics (Oxford, England), July 16, 2016. | Journal Article
2015
An efficient algorithm for the blocked pattern matching problem.
Deng, Fei⋅Wang, Lusheng and Liu, Xiaowen
Bioinformatics (Oxford, England), vol. 31, (no. 4), pp. 532-538, February 15, 2015. | Journal Article
 
De Novo Sequencing of Peptides from Top-Down Tandem Mass Spectra.
Vyatkina, Kira⋅Wu, Si⋅Dekker, Lennard J M⋅VanDuijn, Martijn M⋅Liu, Xiaowen⋅Tolić, Nikola⋅Dvorkin, Mikhail⋅Alexandrova, Sonya⋅Luider, Theo M⋅Paša-Tolić, Ljiljana and Pevzner, Pavel A
Journal of proteome research, vol. 14, (no. 11), pp. 4450-4462, November 6, 2015. | Journal Article
 
Identification of Glycopeptides with Multiple Hydroxylysine O-Glycosylation Sites by Tandem Mass Spectrometry.
Zhang, Yanlin⋅Zhang, Yanlin⋅Yu, Chuan-Yih⋅Yu, Chuan-Yih⋅Song, Ehwang⋅Song, Ehwang⋅Li, Shuai Cheng⋅Li, Shuai Cheng⋅Mechref, Yehia⋅Mechref, Yehia⋅Tang, Haixu⋅Tang, Haixu⋅Liu, Xiaowen and Liu, Xiaowen
Journal of proteome research, vol. 14, (no. 12), pp. 5099-5108, December 4, 2015. | Journal Article
2014
A new scoring function for top-down spectral deconvolution
Kou, Qiang⋅Wu, Si and Liu, Xiaowen
BMC Genomics, vol. 15, 2014. | Journal Article
 
De novo protein sequencing by combining top-down and bottom-up tandem mass spectra.
Liu, Xiaowen⋅Dekker, Lennard J M⋅Wu, Si⋅Vanduijn, Martijn M⋅Luider, Theo M⋅Tolić, Nikola⋅Kou, Qiang⋅Dvorkin, Mikhail⋅Alexandrova, Sonya⋅Vyatkina, Kira⋅Paša-Tolić, Ljiljana and Pevzner, Pavel A
Journal of proteome research, vol. 13, (no. 7), pp. 3241-3248, July 3, 2014. | Journal Article
 
Improving protein order-disorder classification using charge-hydropathy plots
Huang, Fei⋅Oldfield, Christopher⋅Xue, Bin⋅Hsu, Wei-Lun⋅Meng, Jingwei⋅Liu, Xiaowen⋅Shen, Li⋅Romero, Pedro⋅Uversky, Vladimir and Dunker, A
BMC Bioinformatics , vol. 15, 2014. | Journal Article
 
Quantitative analysis of human salivary gland‐derived intact proteome using top‐down mass spectrometry
Wu, Si⋅Wu, Si⋅Brown, Joseph N⋅Brown, Joseph N⋅Tolić, Nikola⋅Tolić, Nikola⋅Meng, Da⋅Meng, Da⋅Liu, Xiaowen⋅Liu, Xiaowen⋅Zhang, Haizhen⋅Zhang, Haizhen⋅Zhao, Rui⋅Zhao, Rui⋅Moore, Ronald J⋅Moore, Ronald J⋅Pevzner, Pavel⋅Pevzner, Pavel⋅Smith, Richard D⋅Smith, Richard D⋅Paša‐Tolić, Ljiljana and Paša-Tolić, Ljiljana
PROTEOMICS, vol. 14, (no. 10), pp. 1222, May 2014. | Journal Article