Clark K, Seyedsayamdost M. Bioinformatic Atlas of Radical SAM Enzyme-Modified RiPP Natural Products Reveals an Isoleucine-Tryptophan Crosslink. J Am Chem Soc. 2022;144(39):17876–17888. PMID: 36128669

Covington B, Seyedsayamdost M. Vitamin B3 Triggers Biosynthesis of Secondary Metabolite Dormancy Signals in . J Am Chem Soc. 2022;144(33):14997–15001. PMID: 35969232

Do T, Link J. Protein Engineering in Ribosomally Synthesized and Post-translationally Modified Peptides (RiPPs). Biochemistry. 2023;62(2):201–209. PMCID: PMC9454058

Burton A, Hamza G, Zhang A, Muir T. Chemical biology approaches to study histone interactors. Biochem Soc Trans. 2021;49(5):2431–2441. PMCID: PMC9785950

Zhao S, Chuh K, Zhang B, Dul B, Thompson R, Farrelly L, Liu X, Xu N, Xue Y, Roeder R, Maze I, Muir T, Li H. Histone H3Q5 serotonylation stabilizes H3K4 methylation and potentiates its readout. Proc Natl Acad Sci U S A. 2021;118(6). PMCID: PMC8017887

Cao L, Beiser M, Koos J, Orlova M, Elashal H, Schröder H, Link J. Cellulonodin-2 and Lihuanodin: Lasso Peptides with an Aspartimide Post-Translational Modification. J Am Chem Soc. 2021;143(30):11690–11702. PMCID: PMC9206484

Murray-Nerger L, Cristea I. Lamin post-translational modifications: emerging toggles of nuclear organization and function. Trends Biochem Sci. 2021;46(10):832–847. PMCID: PMC8793286

Cao L, Do T, Link J. Mechanisms of action of ribosomally synthesized and posttranslationally modified peptides (RiPPs). J Ind Microbiol Biotechnol. 2021;48(3-4). PMCID: PMC8183687

Song B, Liu D, Greco T, Cristea I. Post-translational modification control of viral DNA sensors and innate immune signaling. Adv Virus Res. 2021;109:163–199. PMCID: PMC8489191

Kloosterman A, Cimermancic P, Elsayed S, Du C, Hadjithomas M, Donia M, Fischbach M, van Wezel G, Medema M. Expansion of RiPP biosynthetic space through integration of pan-genomics and machine learning uncovers a novel class of lanthipeptides. PLoS Biol. 2020;18(12):e3001026. PMCID: PMC7794033

Montalbán-López M, Scott T, Ramesh S, Rahman I, van Heel A, Viel J, Bandarian V, Dittmann E, Genilloud O, Goto Y, Burgos M, Hill C, Kim S, Koehnke J, Latham J, Link J, Martínez B, Nair S, Nicolet Y, Rebuffat S, Sahl H-G, Sareen D, Schmidt E, Schmitt L, Severinov K, Süssmuth R, Truman A, Wang H, Weng J-K, van Wezel G, Zhang Q, Zhong J, Piel J, Mitchell D, Kuipers O, van der Donk W. New developments in RiPP discovery, enzymology and engineering. Nat Prod Rep. 2021;38(1):130–239. PMCID: PMC7864896

Tareen A, Wingreen N, Mukhopadhyay R. Asymmetry between Activators and Deactivators in Functional Protein Networks. Sci Rep. 2020;10(1):10131. PMCID: PMC7311538

Betsinger C, Cristea I. Mitochondrial Function, Metabolic Regulation, and Human Disease Viewed through the Prism of Sirtuin 4 (SIRT4) Functions. J Proteome Res. 2019;18(5):1929–1938. PMCID: PMC6889813

Caruso A, Bushin L, Clark K, Martinie R, Seyedsayamdost M. Radical Approach to Enzymatic β-Thioether Bond Formation. J Am Chem Soc. 2019;141(2):990–997. PMID: 30521328

Diehl K, Muir T. Chromatin as a key consumer in the metabolite economy. Nat Chem Biol. 2020;16(6):620–629. PMCID: PMC7258299

Burton A, Haugbro M, Gates L, Bagert J, Allis D, Muir T. In situ chromatin interactomics using a chemical bait and trap approach. Nat Chem. 2020;12(6):520–527. PMCID: PMC7331920

Song B, Greco T, Lum K, Taber C, Cristea I. The DNA Sensor cGAS is Decorated by Acetylation and Phosphorylation Modifications in the Context of Immune Signaling. Mol Cell Proteomics. 2020;19(7):1193–1208. PMCID: PMC7338091

Zhang C, Seyedsayamdost M. CanE, an Iron/2-Oxoglutarate-Dependent Lasso Peptide Hydroxylase from . ACS Chem Biol. 2020;15(4):890–894. PMID: 32191027

Albig C, Wang C, Dann G, Wojcik F, Schauer T, Krause S, Maenner S, Cai W, Li Y, Girton J, Muir T, Johansen J, Johansen K, Becker P, Regnard C. JASPer controls interphase histone H3S10 phosphorylation by chromosomal kinase JIL-1 in Drosophila. Nat Commun. 2019;10(1):5343. PMCID: PMC6877644

Bushin L, Clark K, Pelczer I, Seyedsayamdost M. Charting an Unexplored Streptococcal Biosynthetic Landscape Reveals a Unique Peptide Cyclization Motif. J Am Chem Soc. 2018;140(50):17674–17684. PMID: 30398325

Murray L, Combs A, Rekapalli P, Cristea I. Methods for characterizing protein acetylation during viral infection. Methods Enzymol. 2019;626:587–620. PMCID: PMC6889803

Thompson R, Stevens A, Muir T. Protein engineering through tandem transamidation. Nat Chem. 2019;11(8):737–743. PMCID: PMC6711197

Clark K, Bushin L, Seyedsayamdost M. Aliphatic Ether Bond Formation Expands the Scope of Radical SAM Enzymes in Natural Product Biosynthesis. J Am Chem Soc. 2019;141(27):10610–10615. PMID: 31246011

Kachaev Z, Lebedeva L, Shaposhnikov A, Moresco J, Yates J, Schedl P, Shidlovskii Y. Paip2 cooperates with Cbp80 at an active promoter and participates in RNA Polymerase II phosphorylation in Drosophila. FEBS Lett. 2019;593(10):1102–1112. PMCID: PMC6538421

Farrelly L, Thompson R, Zhao S, Lepack A, Lyu Y, Bhanu N, Zhang B, Loh Y-H, Ramakrishnan A, Vadodaria K, Heard K, Erikson G, Nakadai T, Bastle R, Lukasak B, Zebroski H, Alenina N, Bader M, Berton O, Roeder R, Molina H, Gage F, Shen L, Garcia B, Li H, Muir T, Maze I. Histone serotonylation is a permissive modification that enhances TFIID binding to H3K4me3. Nature. 2019;567(7749):535–539. PMCID: PMC6557285

Nacev B, Feng L, Bagert J, Lemiesz A, Gao J, Soshnev A, Kundra R, Schultz N, Muir T, Allis D. The expanding landscape of ’oncohistone’ mutations in human cancers. Nature. 2019;567(7749):473–478. PMCID: PMC6512987

Hashimoto Y, Kinoshita N, Greco T, Federspiel J, Beltran P, Ueno N, Cristea I. Mechanical Force Induces Phosphorylation-Mediated Signaling that Underlies Tissue Response and Robustness in Xenopus Embryos. Cell Syst. 2019;8(3):226–241.e7. PMCID: PMC6453581

Carabetta V, Greco T, Cristea I, Dubnau D. YfmK is an N-lysine acetyltransferase that directly acetylates the histone-like protein HBsu in . Proc Natl Acad Sci U S A. 2019;116(9):3752–3757. PMCID: PMC6397556

Jeon J, McGinty R, Muir T, Kim J-A, Kim J. Crosstalk among Set1 complex subunits involved in H2B ubiquitylation-dependent H3K4 methylation. Nucleic Acids Res. 2018;46(21):11129–11143. PMCID: PMC6265457

Bushin L, Seyedsayamdost M. Guidelines for Determining the Structures of Radical SAM Enzyme-Catalyzed Modifications in the Biosynthesis of RiPP Natural Products. Methods Enzymol. 2018;606:439–460. PMID: 30097102

Aguilera-Gomez A, Zacharogianni M, van Oorschot M, Genau H, Grond R, Veenendaal T, Sinsimer K, Gavis E, Behrends C, Rabouille C. Phospho-Rasputin Stabilization by Sec16 Is Required for Stress Granule Formation upon Amino Acid Starvation. Cell Rep. 2017;20(4):935–948. PMCID: PMC6064189

Bos J, Muir T. A Chemical Probe for Protein Crotonylation. J Am Chem Soc. 2018;140(14):4757–4760. PMCID: PMC6505473

Wojcik F, Dann G, Beh L, Debelouchina G, Hofmann R, Muir T. Functional crosstalk between histone H2B ubiquitylation and H2A modifications and variants. Nat Commun. 2018;9(1):1394. PMCID: PMC5895630

Davis K, Schramma K, Hansen W, Bacik J, Khare S, Seyedsayamdost M, Ando N. Structures of the peptide-modifying radical SAM enzyme SuiB elucidate the basis of substrate recognition. Proc Natl Acad Sci U S A. 2017;114(39):10420–10425. PMCID: PMC5625900

Presler M, Van Itallie E, Klein A, Kunz R, Coughlin M, Peshkin L, Gygi S, Wühr M, Kirschner M. Proteomics of phosphorylation and protein dynamics during fertilization and meiotic exit in the egg. Proc Natl Acad Sci U S A. 2017;114(50):E10838-E10847. PMCID: PMC5740657

Aebersold R, Agar J, Amster J, Baker M, Bertozzi C, Boja E, Costello C, Cravatt B, Fenselau C, Garcia B, Ge Y, Gunawardena J, Hendrickson R, Hergenrother P, Huber C, Ivanov A, Jensen O, Jewett M, Kelleher N, Kiessling L, Krogan N, Larsen M, Loo J, Loo R, Lundberg E, MacCoss M, Mallick P, Mootha V, Mrksich M, Muir T, Patrie S, Pesavento J, Pitteri S, Rodriguez H, Saghatelian A, Sandoval W, Schlüter H, Sechi S, Slavoff S, Smith L, Snyder M, Thomas P, Uhlén M, Van Eyk J, Vidal M, Walt D, White F, Williams E, Wohlschlager T, Wysocki V, Yates N, Young N, Zhang B. How many human proteoforms are there?. Nat Chem Biol. 2018;14(3):206–214. PMCID: PMC5837046

Zong C, Cheung-Lee W, Elashal H, Raj M, Link J. Albusnodin: an acetylated lasso peptide from Streptomyces albus. Chem Commun (Camb). 2018;54(11):1339–1342. PMCID: PMC5835390

Rowland E, Snowden C, Cristea I. Protein lipoylation: an evolutionarily conserved metabolic regulator of health and disease. Curr Opin Chem Biol. 2018;42:76–85. PMCID: PMC5965299

Carabetta V, Cristea I. Regulation, Function, and Detection of Protein Acetylation in Bacteria. J Bacteriol. 2017;199(16). PMCID: PMC5527388

Beltran P, Federspiel J, Sheng X, Cristea I. Proteomics and integrative omic approaches for understanding host-pathogen interactions and infectious diseases. Mol Syst Biol. 2017;13(3):922. PMCID: PMC5371729

Jin L, Chun J, Pan C, Alesi G, Li D, Magliocca K, Kang Y, Chen Z, Shin D, Khuri F, Fan J, Kang S. Phosphorylation-mediated activation of LDHA promotes cancer cell invasion and tumour metastasis. Oncogene. 2017;36(27):3797–3806. PMCID: PMC5501759

Konovalova A, Silhavy T. Outer membrane lipoprotein biogenesis: Lol is not the end. Philos Trans R Soc Lond B Biol Sci. 2015;370(1679). PMCID: PMC4632606

Guise A, Cristea I. Approaches for Studying the Subcellular Localization, Interactions, and Regulation of Histone Deacetylase 5 (HDAC5). Methods Mol Biol. 2016;1436:47–84. PMCID: PMC5644287

Chekan J, Koos J, Zong C, Maksimov M, Link J, Nair S. Structure of the Lasso Peptide Isopeptidase Identifies a Topology for Processing Threaded Substrates. J Am Chem Soc. 2016;138(50):16452–16458. PMCID: PMC5245167

Holt M, David Y, Pollock S, Tang Z, Jeon J, Kim J, Roeder R, Muir T. Identification of a functional hotspot on ubiquitin required for stimulation of methyltransferase activity on chromatin. Proc Natl Acad Sci U S A. 2015;112(33):10365–70. PMCID: PMC4547310

Crow M, Lum K, Sheng X, Song B, Cristea I. Diverse mechanisms evolved by DNA viruses to inhibit early host defenses. Crit Rev Biochem Mol Biol. 2016;51(6):452–481. PMCID: PMC5285405

Di Talia S, She R, Blythe S, Lu X, Zhang Q, Wieschaus E. Posttranslational control of Cdc25 degradation terminates Drosophila’s early cell-cycle program. Curr Biol. 2013;23(2):127–32. PMCID: PMC3622868

Jonikas M, Collins S, Denic V, Oh E, Quan E, Schmid V, Weibezahn J, Schwappach B, Walter P, Weissman J, Schuldiner M. Comprehensive characterization of genes required for protein folding in the endoplasmic reticulum. Science. 2009;323(5922):1693–7. PMCID: PMC2877488

Link J. Biosynthesis: Leading the way to RiPPs. Nat Chem Biol. 2015;11(8):551–2. PMCID: PMC4794250

Zong C, Maksimov M, Link J. Construction of Lasso Peptide Fusion Proteins. ACS Chem Biol. 2016;11(1):61–8. PMCID: PMC4795474