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|  Bacterial interactomes: interacting protein partners share similar function and are validated in independent assays more frequently than previously reported | Desulfovibrio vulgaris str. Hildenborough | LTQ Orbitrap Velos,LTQ XL,QSTAR XL | No | 1 | | M. Shatsky, S. Allen, B.L. Gold, N.L. Liu, T.R.... | |
| Differential light-dependent phosphorylation of Ser and Thr residues regulates plant STN7 kinase | Arabidopsis thaliana | TSQ Vantage | No | 14 | | Trotta A, Suorsa M, Rantala M, Lundin B, Aro EM... | |
| Targeted proteomics coming of age - SRM, PRM and DIA performance evaluated from a core facility perspective | Homo sapiens | TSQ Vantage,QTRAP 5500,Q Exactive,Q Exactive HF,TripleTOF 5600 | Yes | 12 | | Tobias Kockmann, Christian Trachsel, Christian ... | |
| Optimized protocol for quantitative multiple reaction monitoring-based proteomic analysis of formalin-fixed, paraffin embedded tissues | Homo sapiens | QTRAP 5500 | Yes | 7 | | Kennedy JJ, Whiteaker JR, Schoenherr RM, Yan P,... | |
| Annexin A5 is the Most-Abundant Membrane-Associated Protein in Stereocilia but is Dispensable | Mus musculus | Orbitrap Fusion | No | 2 | | Krey JF, Drummond M, Foster S, Porsov E, Vijaya... | |
| Conserved protein abundance pattern of the EGFR-MAPK pathway reveals its regulatory architecture | Homo sapiens | TSQ Vantage | Yes | 20 | | Tujin Shi, Mario Niepel, Jason E. McDermott, Yu... | |
| In vitro kinase assay of human and mouse FLNc domain 23-24 | Homo sapiens, Mus musculus | Obritrap Velos Elite,Q Exactive Plus | No | 1 | | Lena Reimann, Heike Wiese, Yvonne Leber, Anja N... | |
| In vivo kinase assay of mouse FLNc | C2C12 mouse myotubes | Thermo Scientific Orbitrap Velos Elite | No | 1 | | Lena Reimann, Heike Wiese, Yvonne Leber, Anja N... | |
| Development, Validation, and Application of a MRM with SIS Peptide Strategy to Quantify Multiplexed Panels of Proteins in Mouse Plasma and Heart Tissues | Mus musculus | 6490 Triple Quadrupole LC/MS | Yes | 2 | | | |
| Quantifiable peptide tags for targeted proteomics. | Homo sapiens | TSQ Vantage | Yes | 9 | | Giel Vandemoortele, An Staes, Giulia Gonnelli, ... | |
| PRM analysis of EC uterine aspirate | Homo sapiens | Q Exactive Plus | Yes | 1 | | Martinez-Garcia E, Lesur A, Devis L, Campos AR,... | |
| Robust temporal profiling of GRB2 protein complexes in primary T cells using SWATH mass spectrometry | Mus musculus | TripleTOF 5600 | No | 4 | | Etienne Caron, Romain Roncagalli, Takeshi Hase,... | |
| Identification and characterization of protein acetylation in Neisseria gonorrhoeae | Neisseria gonorrhoeae | TripleTOF 5600 | No | 1 | | Post DMB, Schilling B, Reinders LM, D'Souza AK,... | |
| Gadd45a Promotes Skeletal Muscle Atrophy by Forming a Complex with the Protein Kinase MEKK4 | Mus musculus | TripleTOF 5600 | No | 1 | | Bullard, S.A., Seo, S., Schilling, B., Dyle, M.... | |
| SELECTIVE AND SENSITIVE QUANTIFICATION OF THE CYTOCHROME P450 3A4 PROTEIN IN HUMAN LIVER HOMOGENATES THROUGH MULTIPLE REACTION MONITORING MASS SPECTROMETRY | Homo sapiens | QTRAP 5500 | Yes | 2 | | Cieślak A, Kelly I, Trottier J, Verreault M, Wu... | |
| Detection of Low Abundance Ocean Bacteria Peptides | Ruegeria pomeroyi | TSQ Vantage | No | 2 | | | |
| A general method for targeted quantitative cross-linking mass spectrometry | Homo sapiens, Bos taurus | Q-Exactive Plus HF,Q Exactive Plus | No | 2 | | Juan D. Chavez, Jimmy K. Eng, Devin K. Schweppe... | |
| Dynamic phosphorylation of apoptosis signal regulating kinase 1 (ASK1) in response to oxidative and electrophilic stress | | Q Exactive Plus | No | 2 | | Carlos Morales Betanzos, Joel D. Federspiel, Am... | |
| ABRF Proteome Informatics Research Group (iPRG) 2015 Study: Detection of differentially abundant proteins in label-free quantitative LC-MS/MS experiments | Saccharomyces cerevisiae | Q Exactive | Yes | 9 | | Choi M, Eren-Dogu ZF, Colangelo CM, Cottrell JS... | |
| FLNc Calpain GluC SRM Analysis | Homo sapiens | Q Exactive Plus | No | 1 | | Lena Reimann, Heike Wiese, Yvonne Leber, Anja N... | |
| Acclimation of oxygenic photosynthesis to iron starvation is controlled by the sRNA IsaR1 in cyanobacteria | Synechocystis sp. PCC 6803 | TSQ Vantage | No | 2 | | Georg J, Kostova G, Vuorijoki L, Schön V, Kadow... | |
| Robust Label-Free, Quantitative Profiling of Circulating Plasma Microparticle Associated Proteins | Homo sapiens | Q Exactive | No | 2 | | Braga-Lagache S, Buchs N, Iacovache MI, Zuber B... | |
| PECAN - A Library Free Peptide Detection Tool for DIA Data | Homo sapiens, Saccharomyces cerevisiae | Q Exactive,Q Exactive HF,TSQ Vantage,TSQ Quantiva | No | 5 | | | |
| Osmolality/ salinity responsive enhancers (OSREs) control induction of osmoprotective genes in euryhaline fish | Oreochromis mossambicus | ImpactHD UHR-QTOF | No | 2 | | Wang X. and Kültz D | |
| Plastin 1 widens stereocilia by transforming actin filament packing from hexagonal to liquid | Mus musculus | Orbitrap Fusion | Yes | 3 | | Krey JF, Krystofiak ES, Dumont RA, Vijayakumar ... | |
| Time-resolved proteomics vs. ribosome profiling reveals translation dynamics under stress | Homo sapiens | QTRAP 5500 | No | 9 | | Tzu-Yu Liu, Hector H. Huang,
Diamond Wheeler, ... | |
| Impact of cystinosin glycosylation on protein stability by differential dynamic SILAC | Homo sapiens | Q Exactive Plus | No | 6 | | Nathalie Nevo, Lucie Thomas, Cerina Chhuon, Zuz... | |
| Photosynthesis-related phosphopeptides in Synechocystis 6803 | Synechocystis sp. PCC 6803 | TSQ Vantage | Yes | 3 | | Martina Angeleri, Dorota Muth-Pawlak, Eva-Mari ... | |