Current proteomics methods applicable to dissecting the DNA damage response
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[1] David H Perlman,et al. Prioritized mass spectrometry increases the depth, sensitivity and data completeness of single-cell proteomics , 2023, Nature Methods.
[2] R. Rowntree,et al. TEAD Proteins Associate With DNA Repair Proteins to Facilitate Cellular Recovery From DNA Damage , 2023, Molecular & cellular proteomics : MCP.
[3] M. Kanehisa,et al. KEGG for taxonomy-based analysis of pathways and genomes , 2022, Nucleic Acids Res..
[4] J. Gutkind,et al. Structural/functional studies of Trio provide insights into its configuration and show that conserved linker elements enhance its activity for Rac1 , 2022, The Journal of biological chemistry.
[5] N. Krogan,et al. Integrative structure determination of histones H3 and H4 using genetic interactions , 2022, The FEBS journal.
[6] J. Nordman,et al. Identification of replication fork-associated proteins in Drosophila embryos and cultured cells using iPOND coupled to quantitative mass spectrometry , 2022, Scientific Reports.
[7] Gary D Bader,et al. The reactome pathway knowledgebase 2022 , 2021, Nucleic Acids Res..
[8] C. Ihling,et al. Native mass spectrometry identifies the HybG chaperone as carrier of the Fe(CN)2CO group during maturation of E. coli [NiFe]-hydrogenase 2 , 2021, Scientific Reports.
[9] A. Gingras,et al. ATRX proximal protein associations boast roles beyond histone deposition , 2021, PLoS genetics.
[10] T. Ideker,et al. A protein interaction landscape of breast cancer , 2021, Science.
[11] A. Heck,et al. High-Resolution Native Mass Spectrometry , 2021, Chemical reviews.
[12] A. Sali. From integrative structural biology to cell biology , 2021, The Journal of biological chemistry.
[13] Anushya Muruganujan,et al. The Gene Ontology resource: enriching a GOld mine , 2020, Nucleic Acids Res..
[14] N. Krogan,et al. Genetic Screens Identify Host Factors for SARS-CoV-2 and Common Cold Coronaviruses , 2020, Cell.
[15] Alexander R. Pico,et al. WikiPathways: connecting communities , 2020, Nucleic Acids Res..
[16] Cristina Núñez,et al. SWATH-MS Protocols in Human Diseases. , 2021, Methods in molecular biology.
[17] K. Thalassinos,et al. Developments in tandem ion mobility mass spectrometry , 2020, Biochemical Society transactions.
[18] Guowei Zhang,et al. Comprehensive Profiling of Proteome and Ubiquitome Changes in Human Lens Epithelial Cell Line after Ultraviolet-B Irradiation , 2020, ACS omega.
[19] Ben C. Collins,et al. diaPASEF: parallel accumulation–serial fragmentation combined with data-independent acquisition , 2020, Nature Methods.
[20] A. Heck,et al. Releasing Nonperipheral Subunits from Protein Complexes in the Gas Phase. , 2020, Analytical chemistry.
[21] Samuel A. Myers,et al. Proximity labeling in mammalian cells with TurboID and split-TurboID , 2020, Nature Protocols.
[22] E. Antony,et al. Hydrogen-deuterium exchange reveals a dynamic DNA binding map of Replication Protein A , 2020, bioRxiv.
[23] M. Westphall,et al. Mapping Physiological ADP-Ribosylation Using Activated Ion Electron Transfer Dissociation , 2020, bioRxiv.
[24] P. Kastritis,et al. Structural analysis of 70S ribosomes by cross-linking/mass spectrometry reveals conformational plasticity , 2020, Scientific Reports.
[25] Benjamin J. Polacco,et al. A SARS-CoV-2 Protein Interaction Map Reveals Targets for Drug-Repurposing , 2020, Nature.
[26] Xue Cai,et al. Data‐Independent Acquisition Mass Spectrometry‐Based Proteomics and Software Tools: A Glimpse in 2020 , 2020, Proteomics.
[27] M. Feng,et al. Threonine ADP-Ribosylation of Ubiquitin by a Bacterial Effector Family Blocks Host Ubiquitination. , 2020, Molecular cell.
[28] S. Carr,et al. Split-TurboID enables contact-dependent proximity labeling in cells , 2020, Proceedings of the National Academy of Sciences.
[29] Shana O. Kelley,et al. Single-cell analysis targeting the proteome , 2020, Nature Reviews Chemistry.
[30] Ilan E. Chemmama,et al. Structural dynamics of the human COP9 signalosome revealed by cross-linking mass spectrometry and integrative modeling , 2020, Proceedings of the National Academy of Sciences.
[31] A. Heck,et al. Missing regions within the molecular architecture of human fibrin clots structurally resolved by XL-MS and integrative structural modeling , 2020, Proceedings of the National Academy of Sciences.
[32] Ruedi Aebersold,et al. Complex‐centric proteome profiling by SEC‐SWATH‐MS , 2019, Nature Protocols.
[33] Claudio Iacobucci,et al. Cross-linking/mass spectrometry to get a closer view on protein interaction networks. , 2019, Current opinion in biotechnology.
[34] Mario Leutert,et al. R2‐P2 rapid‐robotic phosphoproteomics enables multidimensional cell signaling studies , 2019, Molecular systems biology.
[35] Andy M. Lau,et al. Integrating hydrogen–deuterium exchange mass spectrometry with molecular dynamics simulations to probe lipid-modulated conformational changes in membrane proteins , 2019, Nature Protocols.
[36] Jie Zheng,et al. Recommendations for performing, interpreting and reporting hydrogen deuterium exchange mass spectrometry (HDX-MS) experiments , 2019, Nature Methods.
[37] A. Hoelz,et al. The Structure of the Nuclear Pore Complex (An Update). , 2019, Annual review of biochemistry.
[38] A. Sali,et al. Principles for Integrative Structural Biology Studies , 2019, Cell.
[39] Ruedi Aebersold,et al. A Global Screen for Assembly State Changes of the Mitotic Proteome by SEC-SWATH-MS , 2019, bioRxiv.
[40] I. Ahel,et al. ADP-ribosylation signalling and human disease , 2019, Open Biology.
[41] C. Schild-Poulter,et al. Mapping the Ku Interactome Using Proximity-Dependent Biotin Identification in Human Cells. , 2018, Journal of proteome research.
[42] Z. Balázs,et al. Mass spectrometry‐based analysis of macromolecular complexes of Staphylococcus aureus uracil‐DNA glycosylase and its inhibitor reveals specific variations due to naturally occurring mutations , 2019, FEBS open bio.
[43] L. Konermann,et al. Protein Ions Generated by Native Electrospray Ionization: Comparison of Gas Phase, Solution, and Crystal Structures. , 2019, The journal of physical chemistry. B.
[44] Juan D Chavez,et al. Chemical cross-linking with mass spectrometry: a tool for systems structural biology. , 2019, Current opinion in chemical biology.
[45] K. Cimprich,et al. PPARγ Interaction with UBR5/ATMIN Promotes DNA Repair to Maintain Endothelial Homeostasis. , 2019, Cell reports.
[46] R. Grandori,et al. Conformational Characterization and Classification of Intrinsically Disordered Proteins by Native Mass Spectrometry and Charge‐State Distribution Analysis , 2018, Proteomics.
[47] Damian Szklarczyk,et al. STRING v11: protein–protein association networks with increased coverage, supporting functional discovery in genome-wide experimental datasets , 2018, Nucleic Acids Res..
[48] Zachary L. VanAernum,et al. Surface-Induced Dissociation: An Effective Method for Characterization of Protein Quaternary Structure. , 2018, Analytical chemistry.
[49] Yonghao Yu,et al. Site-specific analysis of the Asp- and Glu-ADP-ribosylated proteome by quantitative mass spectrometry. , 2019, Methods in enzymology.
[50] Priya S. Shah,et al. Comparative Flavivirus-Host Protein Interaction Mapping Reveals Mechanisms of Dengue and Zika Virus Pathogenesis , 2018, Cell.
[51] J. Rappsilber,et al. Cross-linking mass spectrometry: methods and applications in structural, molecular and systems biology , 2018, Nature Structural & Molecular Biology.
[52] Mark Ellisman,et al. Directed Evolution of Split APEX2 Peroxidase. , 2019, ACS chemical biology.
[53] Trey Ideker,et al. Multiple Routes to Oncogenesis Are Promoted by the Human Papillomavirus-Host Protein Network. , 2018, Cancer discovery.
[54] S. Radford,et al. Mass spectrometry-enabled structural biology of membrane proteins. , 2018, Methods.
[55] L. Jensen,et al. Systems-wide Analysis of Serine ADP-Ribosylation Reveals Widespread Occurrence and Site-Specific Overlap with Phosphorylation. , 2018, Cell reports.
[56] Ludovic C. Gillet,et al. Data‐independent acquisition‐based SWATH‐MS for quantitative proteomics: a tutorial , 2018, Molecular systems biology.
[57] Richard A. Scheltema,et al. Histone Interaction Landscapes Visualized by Crosslinking Mass Spectrometry in Intact Cell Nuclei , 2018, Molecular & Cellular Proteomics.
[58] N. Perrimon,et al. Efficient proximity labeling in living cells and organisms with TurboID , 2018, Nature Biotechnology.
[59] Lars Malmström,et al. Comprehensive ADP‐ribosylome analysis identifies tyrosine as an ADP‐ribose acceptor site , 2018, EMBO reports.
[60] Sheng Yin,et al. Native Top-Down Mass Spectrometry and Ion Mobility MS for Characterizing the Cobalt and Manganese Metal Binding of α-Synuclein Protein , 2018, Journal of The American Society for Mass Spectrometry.
[61] L. Eberlin,et al. Desorption Electrospray Ionization Mass Spectrometry Imaging of Proteins Directly from Biological Tissue Sections. , 2018, Analytical chemistry.
[62] Chunaram Choudhary,et al. DNA Repair Network Analysis Reveals Shieldin as a Key Regulator of NHEJ and PARP Inhibitor Sensitivity , 2018, Cell.
[63] David L. Stokes,et al. Integrative Structure and Functional Anatomy of a Nuclear Pore Complex , 2018, Nature.
[64] Juri Rappsilber,et al. Protein Tertiary Structure by Crosslinking/Mass Spectrometry , 2018, Trends in biochemical sciences.
[65] S. Mohammed,et al. Doxorubicin-induced DNA Damage Causes Extensive Ubiquitination of Ribosomal Proteins Associated with a Decrease in Protein Translation* , 2018, Molecular & Cellular Proteomics.
[66] A. Politis,et al. Structural characterisation of medically relevant protein assemblies by integrating mass spectrometry with computational modelling. , 2017, Journal of proteomics.
[67] C. Piotrowski,et al. Structural Investigation of Proteins and Protein Complexes by Chemical Cross-Linking/Mass Spectrometry. , 2018, Advances in experimental medicine and biology.
[68] R. Elkon,et al. BRCA 1 185 delAG tumors may acquire therapy resistance through expression of RINGless BRCA 1 , 2018 .
[69] Benjamin J. Raphael,et al. Network propagation: a universal amplifier of genetic associations , 2017, Nature Reviews Genetics.
[70] J. Béthune,et al. Split-BioID a conditional proteomics approach to monitor the composition of spatiotemporally defined protein complexes , 2017, Nature Communications.
[71] A. Burlingame,et al. Regulation of Rvb1/Rvb2 by a Domain within the INO80 Chromatin Remodeling Complex Implicates the Yeast Rvbs as Protein Assembly Chaperones. , 2017, Cell reports.
[72] Rosa Viner,et al. Optimized fragmentation schemes and data analysis strategies for proteome-wide cross-link identification , 2017, Nature Communications.
[73] Nevan J. Krogan,et al. An Approach to Spatiotemporally Resolve Protein Interaction Networks in Living Cells , 2017, Cell.
[74] I. Matic,et al. Serine ADP-Ribosylation Depends on HPF1 , 2017, Molecular cell.
[75] G. Degliesposti,et al. Crystal structure of the N-terminal domain of human Timeless and its interaction with Tipin , 2017, Nucleic acids research.
[76] Lucy R Forrest,et al. Conformational dynamics of a neurotransmitter:sodium symporter in a lipid bilayer , 2017, Proceedings of the National Academy of Sciences.
[77] A. Heck,et al. High-fidelity mass analysis unveils heterogeneity in intact ribosomal particles , 2017, Nature Methods.
[78] J. Burke,et al. Using Hydrogen-Deuterium Exchange Mass Spectrometry to Examine Protein-Membrane Interactions. , 2017, Methods in enzymology.
[79] D. Cortez. Proteomic Analyses of the Eukaryotic Replication Machinery. , 2017, Methods in enzymology.
[80] John R Engen,et al. Conformational insight into multi-protein signaling assemblies by hydrogen-deuterium exchange mass spectrometry. , 2016, Current opinion in structural biology.
[81] Seung Joong Kim,et al. Structure and Function of the Nuclear Pore Complex Cytoplasmic mRNA Export Platform , 2016, Cell.
[82] M. L. Nielsen,et al. Proteome-wide identification of the endogenous ADP-ribosylome of mammalian cells and tissue , 2016, Nature Communications.
[83] R. Elkon,et al. BRCA1185delAG tumors may acquire therapy resistance through expression of RING-less BRCA1. , 2016, The Journal of clinical investigation.
[84] E. Swisher,et al. RING domain-deficient BRCA1 promotes PARP inhibitor and platinum resistance. , 2016, The Journal of clinical investigation.
[85] N. Mailand,et al. Regulation of DNA double-strand break repair by ubiquitin and ubiquitin-like modifiers , 2016, Nature Reviews Molecular Cell Biology.
[86] Michael A. Ewing,et al. Hybrid ion mobility and mass spectrometry as a separation tool. , 2016, Journal of chromatography. A.
[87] E. Lecona,et al. USP7 is a SUMO deubiquitinase essential for DNA replication , 2016, Nature Structural &Molecular Biology.
[88] William Stafford Noble,et al. Technical advances in proteomics: new developments in data-independent acquisition , 2016, F1000Research.
[89] Jamin D Steffen,et al. PARP-1 Activation Requires Local Unfolding of an Autoinhibitory Domain. , 2015, Molecular cell.
[90] Charles H. Greenberg,et al. Molecular architecture of the yeast Mediator complex , 2015, eLife.
[91] D. Cortez,et al. The Replication Checkpoint Prevents Two Types of Fork Collapse without Regulating Replisome Stability. , 2015, Molecular cell.
[92] Ramin Rad,et al. Generation of multiple reporter ions from a single isobaric reagent increases multiplexing capacity for quantitative proteomics. , 2015, Analytical chemistry.
[93] Charles H. Greenberg,et al. Architecture of the Human and Yeast General Transcription and DNA Repair Factor TFIIH. , 2015, Molecular cell.
[94] Edward L. Huttlin,et al. Quantitative Proteomic Atlas of Ubiquitination and Acetylation in the DNA Damage Response. , 2015, Molecular cell.
[95] Edward L. Huttlin,et al. The BioPlex Network: A Systematic Exploration of the Human Interactome , 2015, Cell.
[96] Derek J. Wilson,et al. Hyperphosphorylation of Intrinsically Disordered Tau Protein Induces an Amyloidogenic Shift in Its Conformational Ensemble , 2015, PloS one.
[97] Andrej Sali,et al. Scoring Large‐Scale Affinity Purification Mass Spectrometry Datasets with MiST , 2015, Current protocols in bioinformatics.
[98] Oliver M. Bernhardt,et al. Extending the Limits of Quantitative Proteome Profiling with Data-Independent Acquisition and Application to Acetaminophen-Treated Three-Dimensional Liver Microtissues* , 2015, Molecular & Cellular Proteomics.
[99] H. Dyson,et al. Intrinsically disordered proteins in cellular signalling and regulation , 2014, Nature Reviews Molecular Cell Biology.
[100] C. MacPhee,et al. A mass-spectrometry-based framework to define the extent of disorder in proteins. , 2014, Analytical chemistry.
[101] J. Yates,et al. Isobaric Labeling-Based Relative Quantification in Shotgun Proteomics , 2014, Journal of proteome research.
[102] L. Mayne,et al. The nature of protein folding pathways , 2014, Proceedings of the National Academy of Sciences.
[103] Derek J. Wilson,et al. Changes in Signal Transducer and Activator of Transcription 3 (STAT3) Dynamics Induced by Complexation with Pharmacological Inhibitors of Src Homology 2 (SH2) Domain Dimerization* , 2014, The Journal of Biological Chemistry.
[104] A. Sali,et al. Cys-scanning disulfide crosslinking and bayesian modeling probe the transmembrane signaling mechanism of the histidine kinase, PhoQ. , 2014, Structure.
[105] Brendan MacLean,et al. MSstats: an R package for statistical analysis of quantitative mass spectrometry-based proteomic experiments , 2014, Bioinform..
[106] Seung Joong Kim,et al. Structural Characterization by Cross-linking Reveals the Detailed Architecture of a Coatomer-related Heptameric Module from the Nuclear Pore Complex* , 2014, Molecular & Cellular Proteomics.
[107] K. Caldecott,et al. Protein ADP-ribosylation and the cellular response to DNA strand breaks. , 2014, DNA repair.
[108] S. Carr,et al. Proteomic mapping of the human mitochondrial intermembrane space in live cells via ratiometric APEX tagging. , 2014, Molecular cell.
[109] Sejal Vyas,et al. New PARP targets for cancer therapy , 2014, Nature Reviews Cancer.
[110] P. Ernfors,et al. Identification of a large protein network involved in epigenetic transmission in replicating DNA of embryonic stem cells , 2014, Nucleic acids research.
[111] Guomin Liu,et al. SAINTexpress: improvements and additional features in Significance Analysis of INTeractome software. , 2014, Journal of proteomics.
[112] A. Venkitaraman. Cancer Suppression by the Chromosome Custodians, BRCA1 and BRCA2 , 2014, Science.
[113] P. Ménard,et al. Nascent chromatin capture proteomics determines chromatin dynamics during DNA replication and identifies unknown fork components , 2014, Nature Cell Biology.
[114] V. Wysocki,et al. Surface induced dissociation: dissecting noncovalent protein complexes in the gas phase. , 2014, Accounts of chemical research.
[115] Stéphanie Panier,et al. Double-strand break repair: 53BP1 comes into focus , 2013, Nature Reviews Molecular Cell Biology.
[116] I. Ahel,et al. Poly(ADP-ribosyl)ation in regulation of chromatin structure and the DNA damage response , 2014, Chromosoma.
[117] R. Ohki,et al. Identification of telomere-associated molecules by engineered DNA-binding molecule-mediated chromatin immunoprecipitation (enChIP) , 2013, Scientific Reports.
[118] Derek J. Wilson,et al. Characterizing rapid, activity‐linked conformational transitions in proteins via sub‐second hydrogen deuterium exchange mass spectrometry , 2013, The FEBS journal.
[119] Michael L Nielsen,et al. Proteome-wide identification of poly(ADP-Ribosyl)ation targets in different genotoxic stress responses. , 2013, Molecular cell.
[120] S. Carr,et al. Large-scale identification of ubiquitination sites by mass spectrometry , 2013, Nature Protocols.
[121] W. McDonald,et al. Identification of Proteins at Active, Stalled, and Collapsed Replication Forks Using Isolation of Proteins on Nascent DNA (iPOND) Coupled with Mass Spectrometry* , 2013, The Journal of Biological Chemistry.
[122] Elizabeth A Komives,et al. Hydrogen-exchange mass spectrometry for the study of intrinsic disorder in proteins. , 2013, Biochimica et biophysica acta.
[123] A. Konijnenberg,et al. Native ion mobility-mass spectrometry and related methods in structural biology. , 2013, Biochimica et biophysica acta.
[124] Yuan He,et al. Structural visualization of key steps in human transcription initiation , 2013, Nature.
[125] M. Warmoes,et al. Proteomics of Genetically Engineered Mouse Mammary Tumors Identifies Fatty Acid Metabolism Members as Potential Predictive Markers for Cisplatin Resistance* , 2013, Molecular & Cellular Proteomics.
[126] S. Elledge,et al. Chromatin proteins captured by ChIP–mass spectrometry are linked to dosage compensation in Drosophila , 2013, Nature Structural &Molecular Biology.
[127] Lars Konermann,et al. Unraveling the mechanism of electrospray ionization. , 2013, Analytical chemistry.
[128] T. Veenstra,et al. Phosphopeptide enrichment using offline titanium dioxide columns for phosphoproteomics. , 2013, Methods in molecular biology.
[129] R. Greenberg,et al. Links between genome integrity and BRCA1 tumor suppression. , 2012, Trends in biochemical sciences.
[130] Edward L. Huttlin,et al. Increasing the multiplexing capacity of TMTs using reporter ion isotopologues with isobaric masses. , 2012, Analytical chemistry.
[131] J. Egly,et al. TFIIH: when transcription met DNA repair , 2012, Nature Reviews Molecular Cell Biology.
[132] Chunaram Choudhary,et al. Proteomic investigations reveal a role for RNA processing factor THRAP3 in the DNA damage response. , 2012, Molecular cell.
[133] Brian Burke,et al. A promiscuous biotin ligase fusion protein identifies proximal and interacting proteins in mammalian cells , 2012, The Journal of cell biology.
[134] R. Aebersold,et al. Molecular architecture of the 26S proteasome holocomplex determined by an integrative approach , 2012, Proceedings of the National Academy of Sciences.
[135] D. Bushnell,et al. Subunit architecture of general transcription factor TFIIH , 2012, Proceedings of the National Academy of Sciences.
[136] Ludovic C. Gillet,et al. Targeted Data Extraction of the MS/MS Spectra Generated by Data-independent Acquisition: A New Concept for Consistent and Accurate Proteome Analysis* , 2012, Molecular & Cellular Proteomics.
[137] John H. Morris,et al. Global landscape of HIV–human protein complexes , 2011, Nature.
[138] Dong-Hyun Lee,et al. What goes on must come off: phosphatases gate-crash the DNA damage response. , 2011, Trends in biochemical sciences.
[139] J. Olsen,et al. Global Phosphoproteome Profiling Reveals Unanticipated Networks Responsive to Cisplatin Treatment of Embryonic Stem Cells , 2011, Molecular and Cellular Biology.
[140] R. Grandori,et al. Charge-surface correlation in electrospray ionization of folded and unfolded proteins. , 2011, Analytical chemistry.
[141] Serge X. Cohen,et al. Native mass spectrometry provides direct evidence for DNA mismatch-induced regulation of asymmetric nucleotide binding in mismatch repair protein MutS , 2011, Nucleic acids research.
[142] D. Cortez,et al. Analysis of protein dynamics at active, stalled, and collapsed replication forks. , 2011, Genes & development.
[143] Ronald J. Moore,et al. Reversed‐phase chromatography with multiple fraction concatenation strategy for proteome profiling of human MCF10A cells , 2011, Proteomics.
[144] Lars Konermann,et al. Hydrogen exchange mass spectrometry for studying protein structure and dynamics. , 2011, Chemical Society reviews.
[145] Scott A. Busby,et al. Differential hydrogen/deuterium exchange mass spectrometry analysis of protein–ligand interactions , 2011, Expert review of proteomics.
[146] Hyungwon Choi,et al. SAINT: Probabilistic Scoring of Affinity Purification - Mass Spectrometry Data , 2010, Nature Methods.
[147] Gary D. Bader,et al. Pathway Commons, a web resource for biological pathway data , 2010, Nucleic Acids Res..
[148] David J. Chen,et al. ATM-Dependent and -Independent Dynamics of the Nuclear Phosphoproteome After DNA Damage , 2010, Science Signaling.
[149] E. Williams,et al. Real-time hydrogen/deuterium exchange kinetics via supercharged electrospray ionization tandem mass spectrometry. , 2010, Analytical chemistry.
[150] F. Koch-Nolte,et al. ADP-ribosylation of arginine , 2010, Amino Acids.
[151] L. Stein,et al. A human functional protein interaction network and its application to cancer data analysis , 2010, Genome Biology.
[152] R. Cooks,et al. Desorption electrospray ionization and other ambient ionization methods: current progress and preview. , 2010, The Analyst.
[153] D. H. Larsen,et al. Site-specific Phosphorylation Dynamics of the Nuclear Proteome during the DNA Damage Response* , 2010, Molecular & Cellular Proteomics.
[154] R. Nussinov,et al. The role of dynamic conformational ensembles in biomolecular recognition. , 2009, Nature chemical biology.
[155] S. Gygi,et al. Defining the Human Deubiquitinating Enzyme Interaction Landscape , 2009, Cell.
[156] M. Altmeyer,et al. Poly(ADP-ribose) polymerase 1 at the crossroad of metabolic stress and inflammation in aging , 2009, Aging.
[157] Simon Messner,et al. Molecular mechanism of poly(ADP-ribosyl)ation by PARP1 and identification of lysine residues as ADP-ribose acceptor sites , 2009, Nucleic acids research.
[158] Yinsheng Wang,et al. Exploring DNA-binding proteins with in vivo chemical cross-linking and mass spectrometry. , 2009, Journal of proteome research.
[159] M. Murphy,et al. ARF Induces Autophagy by Virtue of Interaction with Bcl-xl* , 2009, Journal of Biological Chemistry.
[160] Ole N Jensen,et al. Electron transfer dissociation facilitates the measurement of deuterium incorporation into selectively labeled peptides with single residue resolution. , 2008, Journal of the American Chemical Society.
[161] Fan Wang,et al. DNA Repair Gene XPD Polymorphisms and Cancer Risk: A Meta-analysis Based on 56 Case-Control Studies , 2008, Cancer Epidemiology Biomarkers & Prevention.
[162] Kasper D Rand,et al. Electron capture dissociation proceeds with a low degree of intramolecular migration of peptide amide hydrogens. , 2008, Journal of the American Chemical Society.
[163] Michal Sharon,et al. Mass Spectrometry Reveals the Missing Links in the Assembly Pathway of the Bacterial 20 S Proteasome*♦ , 2007, Journal of Biological Chemistry.
[164] J. Qin,et al. A Proteomic Analysis of Ataxia Telangiectasia-mutated (ATM)/ATM-Rad3-related (ATR) Substrates Identifies the Ubiquitin-Proteasome System as a Regulator for DNA Damage Checkpoints* , 2007, Journal of Biological Chemistry.
[165] B. A. Ballif,et al. ATM and ATR Substrate Analysis Reveals Extensive Protein Networks Responsive to DNA Damage , 2007, Science.
[166] Peter Bühlmann,et al. Analyzing gene expression data in terms of gene sets: methodological issues , 2007, Bioinform..
[167] Kai A. Reidegeld,et al. Protein labeling by iTRAQ: A new tool for quantitative mass spectrometry in proteome research , 2007, Proteomics.
[168] Steven P. Gygi,et al. Large-scale phosphorylation analysis of mouse liver , 2007, Proceedings of the National Academy of Sciences.
[169] Derek J. Wilson,et al. Hydrogen/deuterium scrambling during quadrupole time-of-flight MS/MS analysis of a zinc-binding protein domain. , 2007, Analytical chemistry.
[170] P. Vineis,et al. Human Genome Epidemiology (huge) Review Xrcc3 and Xpd/ercc2 Single Nucleotide Polymorphisms and the Risk of Cancer: a Huge Review , 2022 .
[171] C. Chiang,et al. The General Transcription Machinery and General Cofactors , 2006, Critical reviews in biochemistry and molecular biology.
[172] Pablo Tamayo,et al. Gene set enrichment analysis: A knowledge-based approach for interpreting genome-wide expression profiles , 2005, Proceedings of the National Academy of Sciences of the United States of America.
[173] Igor A Kaltashov,et al. Estimates of protein surface areas in solution by electrospray ionization mass spectrometry. , 2005, Analytical chemistry.
[174] Derek J. Wilson,et al. Pulsed hydrogen exchange and electrospray charge-state distribution as complementary probes of protein structure in kinetic experiments: implications for ubiquitin folding. , 2005, Biochemistry.
[175] Guilong Cheng,et al. Mass spectrometry of peptides and proteins. , 2005, Methods.
[176] P. Roepstorff,et al. Intramolecular migration of amide hydrogens in protonated peptides upon collisional activation. , 2005, Journal of the American Chemical Society.
[177] K. Parker,et al. Multiplexed Protein Quantitation in Saccharomyces cerevisiae Using Amine-reactive Isobaric Tagging Reagents*S , 2004, Molecular & Cellular Proteomics.
[178] A. D’Andrea,et al. ATR couples FANCD2 monoubiquitination to the DNA-damage response. , 2004, Genes & development.
[179] A. Lehmann,et al. Interaction of human DNA polymerase eta with monoubiquitinated PCNA: a possible mechanism for the polymerase switch in response to DNA damage. , 2004, Molecular cell.
[180] L. J. McDonald,et al. Enzymatic and nonenzymatic ADP-ribosylation of cysteine , 1994, Molecular and Cellular Biochemistry.
[181] M. King,et al. Breast and Ovarian Cancer Risks Due to Inherited Mutations in BRCA1 and BRCA2 , 2003, Science.
[182] Steven P Gygi,et al. A proteomics approach to understanding protein ubiquitination , 2003, Nature Biotechnology.
[183] Virgil L. Woods,et al. Protein structure change studied by hydrogen-deuterium exchange, functional labeling, and mass spectrometry , 2003, Proceedings of the National Academy of Sciences of the United States of America.
[184] Andrew H. Thompson,et al. Tandem mass tags: a novel quantification strategy for comparative analysis of complex protein mixtures by MS/MS. , 2003, Analytical chemistry.
[185] M. Mann,et al. Stable Isotope Labeling by Amino Acids in Cell Culture, SILAC, as a Simple and Accurate Approach to Expression Proteomics* , 2002, Molecular & Cellular Proteomics.
[186] S. Gygi,et al. Proteomics: the move to mixtures. , 2001, Journal of mass spectrometry : JMS.
[187] Wei-Hau Chang,et al. Electron Crystal Structure of the Transcription Factor and DNA Repair Complex, Core TFIIH , 2000, Cell.
[188] D. Moras,et al. Molecular Structure of Human TFIIH , 2000, Cell.
[189] D. N. Perkins,et al. Probability‐based protein identification by searching sequence databases using mass spectrometry data , 1999, Electrophoresis.
[190] G. Poirier,et al. Poly(ADP-ribosyl)ation reactions in the regulation of nuclear functions. , 1999, The Biochemical journal.
[191] J. Yates,et al. An approach to correlate tandem mass spectral data of peptides with amino acid sequences in a protein database , 1994, Journal of the American Society for Mass Spectrometry.
[192] M. Skolnick,et al. BRCA1 mutations in primary breast and ovarian carcinomas. , 1994, Science.
[193] Steven E. Bayer,et al. A strong candidate for the breast and ovarian cancer susceptibility gene BRCA1. , 1994, Science.
[194] N. Kallenbach,et al. Hydrogen exchange and structural dynamics of proteins and nucleic acids , 1983, Quarterly Reviews of Biophysics.
[195] A. Hvidt,et al. Hydrogen exchange in proteins. , 1966, Advances in protein chemistry.