Protein inference: a review T Huang, J Wang, W Yu, Z He Briefings in bioinformatics 13 (5), 586-614, 2012 | 151 | 2012 |
Comparison of protein quantification in a complex background by DIA and TMT workflows with fixed instrument time J Muntel, J Kirkpatrick, R Bruderer, T Huang, O Vitek, A Ori, L Reiter Journal of proteome research 18 (3), 1340-1351, 2019 | 114 | 2019 |
MSstatsTMT: statistical detection of differentially abundant proteins in experiments with isobaric labeling and multiple mixtures T Huang, M Choi, M Tzouros, S Golling, NJ Pandya, B Banfai, T Dunkley, ... Molecular & Cellular Proteomics 19 (10), 1706-1723, 2020 | 106 | 2020 |
MassIVE. quant: a community resource of quantitative mass spectrometry–based proteomics datasets M Choi, J Carver, C Chiva, M Tzouros, T Huang, TH Tsai, B Pullman, ... Nature methods 17 (10), 981-984, 2020 | 68 | 2020 |
Combining precursor and fragment information for improved detection of differential abundance in data independent acquisition T Huang, R Bruderer, J Muntel, Y Xuan, O Vitek, L Reiter Molecular & Cellular Proteomics 19 (2), 421-430, 2020 | 53 | 2020 |
A linear programming model for protein inference problem in shotgun proteomics T Huang, Z He Bioinformatics 28 (22), 2956-2962, 2012 | 26 | 2012 |
ProteinLasso: A Lasso regression approach to protein inference problem in shotgun proteomics T Huang, H Gong, C Yang, Z He Computational biology and chemistry 43, 46-54, 2013 | 21 | 2013 |
MSstats Version 4.0: statistical analyses of quantitative mass spectrometry-based proteomic experiments with chromatography-based quantification at scale D Kohler, M Staniak, TH Tsai, T Huang, N Shulman, OM Bernhardt, ... Journal of Proteome Research 22 (5), 1466-1482, 2023 | 17 | 2023 |
Protein inference: A protein quantification perspective Z He, T Huang, X Liu, P Zhu, B Teng, S Deng Computational biology and chemistry 63, 21-29, 2016 | 13 | 2016 |
Multiplexed proteomics of autophagy-deficient murine macrophages reveals enhanced antimicrobial immunity via the oxidative stress response T Maculins, E Verschueren, T Hinkle, M Choi, P Chang, C Chalouni, ... Elife 10, e62320, 2021 | 11 | 2021 |
MSstatsTMT: Protein Significance Analysis in shotgun mass spectrometry-based proteomic experiments with tandem mass tag (TMT) labeling T Huang, M Choi, S Hao, O Vitek R package Bioconductor, v1, 2020 | 11 | 2020 |
MSstatsPTM: statistical relative quantification of posttranslational modifications in bottom-up mass spectrometry-based proteomics D Kohler, TH Tsai, E Verschueren, T Huang, T Hinkle, L Phu, M Choi, ... Molecular & Cellular Proteomics 22 (1), 2023 | 8 | 2023 |
Protein inference Z He, T Huang, C Zhao, B Teng Modern Proteomics–Sample Preparation, Analysis and Practical Applications …, 2016 | 6 | 2016 |
Decoy-free protein-level false discovery rate estimation B Teng, T Huang, Z He Bioinformatics 30 (5), 675-681, 2014 | 6 | 2014 |
Protein Coronas on Functionalized Nanoparticles Enable Quantitative and Precise Large-Scale Deep Plasma Proteomics T Huang, J Wang, A Stukalov, MKR Donovan, S Ferdosi, L Williamson, ... bioRxiv, 2023 | 4 | 2023 |
Statistical detection of differentially abundant proteins in experiments with repeated measures designs and isobaric labeling T Huang, M Staniak, F Veiga Leprevost, AM Figueroa-Navedo, AR Ivanov, ... Journal of Proteome Research 22 (8), 2641-2659, 2023 | 4 | 2023 |
MSstatsShiny: a GUI for versatile, scalable, and reproducible statistical analyses of quantitative proteomic experiments D Kohler, M Kaza, C Pasi, T Huang, M Staniak, D Mohandas, E Sabido, ... Journal of Proteome Research 22 (2), 551-556, 2023 | 3 | 2023 |
Deep, unbiased and quantitative mass spectrometry-based plasma proteome analysis of individual responses to mRNA COVID-19 vaccine T Huang, AR Campos, J Wang, A Stukalov, R Diaz, S Maurya, ... bioRxiv, 2024.04. 22.589104, 2024 | | 2024 |
Longitudinal Deep Multi-Omics Profiling in a CLN3Δex7/8 Minipig Model Reveals Novel Biomarker Signatures for Batten Disease MJ Rechtzigel, B Lee, C Neville, T Huang, AR Campos, ... bioRxiv, 2023.09. 20.558629, 2023 | | 2023 |
Multiplexed proteomics of autophagy deficient macrophages reveals enhanced anti-microbial immunity via the oxidative stress response T Maculins, E Verschueren, T Hinkle, P Chang, C Chalouni, J Lim, ... The Journal of Immunology 206 (1_Supplement), 112.01-112.01, 2021 | | 2021 |