| Year |
Citation |
Score |
| 2025 |
Stransky S, Saskya-Joseph J, Sun Y, Sidoli S. Identification of Chromatin Readers Using a Peptide Pull-Down and Mass Spectrometry Integrated Approach. Methods in Molecular Biology (Clifton, N.J.). 2919: 251-266. PMID 40257567 DOI: 10.1007/978-1-0716-4486-7_14 |
0.543 |
|
| 2025 |
Graff S, Cutler R, Sidoli S. Automated Sample Preparation for the Unbiased Analysis of Histone Posttranslational Modifications Via Mass Spectrometry. Methods in Molecular Biology (Clifton, N.J.). 2919: 67-82. PMID 40257557 DOI: 10.1007/978-1-0716-4486-7_4 |
0.542 |
|
| 2025 |
Singh B, Fredriksson Sundbom M, Muthukrishnan U, Natarajan B, Stransky S, Görgens A, Nordin JZ, Wiklander OPB, Sandblad L, Sidoli S, El Andaloussi S, Haney M, Gilthorpe JD. Extracellular Histones as Exosome Membrane Proteins Regulated by Cell Stress. Journal of Extracellular Vesicles. 14: e70042. PMID 39976275 DOI: 10.1002/jev2.70042 |
0.457 |
|
| 2025 |
Kuwik J, Scott V, Chedid S, Stransky S, Hinkelman K, Kavoosi S, Calderon M, Watkins S, Sidoli S, Islam K. Analogue-Sensitive Inhibition of Histone Demethylases Uncovers Member-Specific Function in Ribosomal Protein Synthesis. Journal of the American Chemical Society. PMID 39808475 DOI: 10.1021/jacs.4c13870 |
0.375 |
|
| 2025 |
Zheng Q, Weekley BH, Vinson DA, Zhao S, Bastle RM, Thompson RE, Stransky S, Ramakrishnan A, Cunningham AM, Dutta S, Chan JC, Di Salvo G, Chen M, Zhang N, Wu J, ... ... Sidoli S, et al. Bidirectional histone monoaminylation dynamics regulate neural rhythmicity. Nature. PMID 39779849 DOI: 10.1038/s41586-024-08371-3 |
0.397 |
|
| 2024 |
Akhlaq R, Ahmed T, Khan T, Yaseen Jeelani SU, Joseph-Chowdhury JN, Sidoli S, Musharraf SG, Ali A. PX-12 modulates vorinostat-induced acetylation and methylation marks in CAL 27 cells. Epigenomics. 1-9. PMID 39716806 DOI: 10.1080/17501911.2024.2441652 |
0.321 |
|
| 2024 |
Liu Y, Hrit JA, Chomiak AA, Stransky S, Hoffman JR, Tiedemann RL, Wiseman AK, Kariapper LS, Dickson BM, Worden EJ, Fry CJ, Sidoli S, Rothbart SB. DNA hypomethylation promotes UHRF1-and SUV39H1/H2-dependent crosstalk between H3K18ub and H3K9me3 to reinforce heterochromatin states. Molecular Cell. PMID 39631394 DOI: 10.1016/j.molcel.2024.11.009 |
0.341 |
|
| 2024 |
Hamilton AK, Radaoui AB, Tsang M, Martinez D, Conkrite KL, Patel K, Sidoli S, Delaidelli A, Modi A, Rokita JL, Lane MV, Hartnett N, Lopez RD, Zhang B, Zhong C, et al. A proteogenomic surfaceome study identifies DLK1 as an immunotherapeutic target in neuroblastoma. Cancer Cell. PMID 39454577 DOI: 10.1016/j.ccell.2024.10.003 |
0.396 |
|
| 2024 |
Mews P, Van der Zee Y, Gurung A, Estill M, Futamura R, Kronman H, Ramakrishnan A, Ryan M, Reyes AA, Garcia BA, Browne CJ, Sidoli S, Shen L, Nestler EJ. Cell type-specific epigenetic priming of gene expression in nucleus accumbens by cocaine. Science Advances. 10: eado3514. PMID 39365860 DOI: 10.1126/sciadv.ado3514 |
0.453 |
|
| 2024 |
Malla S, Kumari K, García-Prieto CA, Caroli J, Nordin A, Phan TTT, Bhattarai DP, Martinez-Gamero C, Dorafshan E, Stransky S, Álvarez-Errico D, Saiki PA, Lai W, Lyu C, Lizana L, ... ... Sidoli S, et al. The scaffolding function of LSD1 controls DNA methylation in mouse ESCs. Nature Communications. 15: 7758. PMID 39237615 DOI: 10.1038/s41467-024-51966-7 |
0.359 |
|
| 2024 |
Cutler R, Corveleyn L, Ctortecka C, Cantlon J, Jacome Vaca SA, Deforce D, Vijg J, Dhaenens M, Papanastasiou M, Carr SA, Sidoli S. Mass Spectrometry-based Profiling of Single-cell Histone Post-translational Modifications to Dissect Chromatin Heterogeneity. Biorxiv : the Preprint Server For Biology. PMID 39211145 DOI: 10.1101/2024.07.05.602213 |
0.508 |
|
| 2024 |
DeAngelo JD, Maron MI, Roth JS, Silverstein AM, Gupta V, Stransky S, Basken J, Azofeifa J, Sidoli S, Gamble MJ, Shechter D. Productive mRNA Chromatin Escape is Promoted by PRMT5 Methylation of SNRPB. Biorxiv : the Preprint Server For Biology. PMID 39149374 DOI: 10.1101/2024.08.09.607355 |
0.324 |
|
| 2024 |
Orlandini M, Bonacini A, Favero A, Secchi A, Lazzarini L, Verucchi R, Dalcanale E, Pedrini A, Sidoli S, Pinalli R. Enrichment of histone tail methylated lysine residues cavitand-decorated magnetic nanoparticles for ultra-sensitive proteomics. Chemical Science. 15: 13102-13110. PMID 39148787 DOI: 10.1039/d4sc02076f |
0.442 |
|
| 2024 |
Aguilan JT, Lim J, Racine-Brzostek S, Fischer J, Silvescu C, Cornett S, Nieves E, Mendu DR, Aliste CM, Semple S, Angeletti R, Weiss LM, Cole A, Prystowsky M, Pullman J, ... Sidoli S, et al. Effect of dynamic exclusion and the use of FAIMS, DIA and MALDI-mass spectrometry imaging with ion mobility on amyloid protein identification. Clinical Proteomics. 21: 47. PMID 38961380 DOI: 10.1186/s12014-024-09500-w |
0.338 |
|
| 2024 |
Torres-Berrío A, Estill M, Patel V, Ramakrishnan A, Kronman H, Minier-Toribio A, Issler O, Browne CJ, Parise EM, van der Zee YY, Walker DM, Martínez-Rivera FJ, Lardner CK, Durand-de Cuttoli R, Russo SJ, ... ... Sidoli S, et al. Mono-methylation of lysine 27 at histone 3 confers lifelong susceptibility to stress. Neuron. PMID 38959894 DOI: 10.1016/j.neuron.2024.06.006 |
0.307 |
|
| 2024 |
Corveleyn L, Sen P, Adams P, Sidoli S. Linking Aging to Cancer: The Role of Chromatin Biology. The Journals of Gerontology. Series a, Biological Sciences and Medical Sciences. PMID 38761362 DOI: 10.1093/gerona/glae133 |
0.35 |
|
| 2024 |
Uboveja A, Huang Z, Buj R, Amalric A, Wang H, Tangudu NK, Cole AR, Megill E, Kantner D, Chatoff A, Ahmad H, Marcinkiewicz MM, Disharoon JA, Graff S, Dahl ES, ... ... Sidoli S, et al. αKG-mediated carnitine synthesis promotes homologous recombination via histone acetylation. Biorxiv : the Preprint Server For Biology. PMID 38370789 DOI: 10.1101/2024.02.06.578742 |
0.341 |
|
| 2024 |
Bandau S, Alvarez V, Jiang H, Graff S, Sundaramoorthy R, Gierlinski M, Toman M, Owen-Hughes T, Sidoli S, Lamond A, Alabert C. RNA polymerase II promotes the organization of chromatin following DNA replication. Embo Reports. PMID 38347224 DOI: 10.1038/s44319-024-00085-x |
0.388 |
|
| 2024 |
Caeiro LD, Nakata Y, Borges RL, Zha M, Garcia-Martinez L, Bañuelos CP, Stransky S, Liu T, Chan HL, Brabson J, Domínguez D, Zhang Y, Lewis PW, Aznar Benitah S, Cimmino L, ... ... Sidoli S, et al. Methylation of histone H3 lysine 36 is a barrier for therapeutic interventions of head and neck squamous cell carcinoma. Genes & Development. PMID 38286657 DOI: 10.1101/gad.351408.123 |
0.356 |
|
| 2024 |
Sung PJ, Selvam M, Riedel SS, Xie HM, Bryant K, Manning B, Wertheim GB, Kulej K, Pham L, Bowman RL, Peresie J, Nemeth MJ, Levine RL, Garcia BA, Meyer SE, ... Sidoli S, et al. FLT3 tyrosine kinase inhibition modulates PRC2 and promotes differentiation in acute myeloid leukemia. Leukemia. PMID 38182819 DOI: 10.1038/s41375-023-02131-4 |
0.416 |
|
| 2023 |
Weiner AK, Radaoui AB, Tsang M, Martinez D, Sidoli S, Conkrite KL, Delaidelli A, Modi A, Rokita JL, Patel K, Lane MV, Zhang B, Zhong C, Ennis B, Miller DP, et al. A proteogenomic surfaceome study identifies DLK1 as an immunotherapeutic target in neuroblastoma. Biorxiv : the Preprint Server For Biology. PMID 38106022 DOI: 10.1101/2023.12.06.570390 |
0.784 |
|
| 2023 |
Caeiro LD, Nakata Y, Borges RL, Garcia-Martinez L, Bañuelos CP, Stransky S, Chan HL, Brabson J, Domínguez D, Zhang Y, Lewis PW, Aznar-Benitah S, Cimmino L, Bilbao D, Sidoli S, et al. Methylation of histone H3 lysine 36 is a barrier for therapeutic interventions of head and neck squamous cell carcinoma. Biorxiv : the Preprint Server For Biology. PMID 38076924 DOI: 10.1101/2023.11.06.565847 |
0.341 |
|
| 2023 |
Kuwik J, Hinkelman K, Waldman M, Stepler KE, Wagner S, Arora S, Chernenkoff S, Cabalteja C, Sidoli S, Robinson RA, Islam K. Activity Guided Azide-methyllysine Photo-trapping for Substrate Profiling of Lysine Demethylases. Journal of the American Chemical Society. 145: 21066-21076. PMID 37703462 DOI: 10.1021/jacs.3c07299 |
0.376 |
|
| 2023 |
Gaggioli V, Lo CSY, Reverón-Gómez N, Jasencakova Z, Domenech H, Nguyen H, Sidoli S, Tvardovskiy A, Uruci S, Slotman JA, Chai Y, Gonçalves JGSCS, Manolika EM, Jensen ON, Wheeler D, et al. Dynamic de novo heterochromatin assembly and disassembly at replication forks ensures fork stability. Nature Cell Biology. PMID 37414849 DOI: 10.1038/s41556-023-01167-z |
0.8 |
|
| 2023 |
Young D, Guha C, Sidoli S. The role of histone H3 lysine demethylases in glioblastoma. Cancer Metastasis Reviews. PMID 37286866 DOI: 10.1007/s10555-023-10114-1 |
0.421 |
|
| 2023 |
Agustinus AS, Al-Rawi D, Dameracharla B, Raviram R, Jones BSCL, Stransky S, Scipioni L, Luebeck J, Di Bona M, Norkunaite D, Myers RM, Duran M, Choi S, Weigelt B, Yomtoubian S, ... ... Sidoli S, et al. Epigenetic dysregulation from chromosomal transit in micronuclei. Nature. PMID 37286593 DOI: 10.1038/s41586-023-06084-7 |
0.328 |
|
| 2023 |
Lauman R, Kim HJ, Pino LK, Scacchetti A, Xie Y, Robison F, Sidoli S, Bonasio R, Garcia BA. Expanding the Epitranscriptomic RNA Sequencing and Modification Mapping Mass Spectrometry Toolbox with Field Asymmetric Waveform Ion Mobility and Electrochemical Elution Liquid Chromatography. Analytical Chemistry. PMID 36916610 DOI: 10.1021/acs.analchem.2c04114 |
0.794 |
|
| 2023 |
Yheskel M, Sidoli S, Secombe J. Proximity labeling reveals a new in vivo network of interactors for the histone demethylase KDM5. Epigenetics & Chromatin. 16: 8. PMID 36803422 DOI: 10.1186/s13072-023-00481-y |
0.364 |
|
| 2023 |
Montalbano S, Raboni S, Sidoli S, Mozzarelli A, Bettati S, Buschini A. Post-Translational Modifications of Histone Variants in the Absence and Presence of a Methionine-Depleting Enzyme in Normal and Cancer Cells. Cancers. 15. PMID 36672476 DOI: 10.3390/cancers15020527 |
0.383 |
|
| 2022 |
Joseph-Chowdhury JN, Stransky S, Graff S, Cutler R, Young D, Kim JS, Madrid-Aliste C, Aguilan JT, Nieves E, Sun Y, Yoo EJ, Sidoli S. Global Level Quantification of Histone Post-Translational Modifications in a 3D Cell Culture Model of Hepatic Tissue. Journal of Visualized Experiments : Jove. PMID 35604167 DOI: 10.3791/63606 |
0.44 |
|
| 2022 |
Chaves-Moreira D, Mitchell MA, Arruza C, Rawat P, Sidoli S, Nameki R, Reddy J, Corona RI, Afeyan LK, Klein IA, Ma S, Winterhoff B, Konecny GE, Garcia BA, Brady DC, et al. The transcription factor PAX8 promotes angiogenesis in ovarian cancer through interaction with SOX17. Science Signaling. 15: eabm2496. PMID 35380877 DOI: 10.1126/scisignal.abm2496 |
0.411 |
|
| 2022 |
Huo D, Yu Z, Li R, Gong M, Sidoli S, Lu X, Hou Y, Dai Z, Kong Y, Liu G, Jensen O, Xie W, Helin K, Xiong C, Li G, et al. CpG island reconfiguration for the establishment and synchronization of polycomb functions upon exit from naive pluripotency. Molecular Cell. PMID 35202573 DOI: 10.1016/j.molcel.2022.01.027 |
0.502 |
|
| 2022 |
Mendoza M, Egervari G, Sidoli S, Donahue G, Alexander DC, Sen P, Garcia BA, Berger SL. Enzymatic transfer of acetate on histones from lysine reservoir sites to lysine activating sites. Science Advances. 8: eabj5688. PMID 35061542 DOI: 10.1126/sciadv.abj5688 |
0.838 |
|
| 2022 |
von Grüning H, Coradin M, Mendoza MR, Reader J, Sidoli S, Garcia BA, Birkholtz LM. A dynamic and combinatorial histone code drives malaria parasite asexual and sexual development. Molecular & Cellular Proteomics : McP. 100199. PMID 35051657 DOI: 10.1016/j.mcpro.2022.100199 |
0.832 |
|
| 2022 |
Kori Y, Lund PJ, Trovato M, Sidoli S, Yuan ZF, Noh KM, Garcia BA. Multi-omic profiling of histone variant H3.3 lysine 27 methylation reveals a distinct role from canonical H3 in stem cell differentiation. Molecular Omics. PMID 35044400 DOI: 10.1039/d1mo00352f |
0.833 |
|
| 2021 |
Sun Y, Stransky S, Aguilan J, Brenowitz M, Sidoli S. DNA methylation and hydroxymethylation analysis using a high throughput and low bias direct injection mass spectrometry platform. Methodsx. 8: 101585. PMID 35004218 DOI: 10.1016/j.mex.2021.101585 |
0.371 |
|
| 2021 |
Trefely S, Huber K, Liu J, Noji M, Stransky S, Singh J, Doan MT, Lovell CD, von Krusenstiern E, Jiang H, Bostwick A, Pepper HL, Izzo L, Zhao S, Xu JP, ... ... Sidoli S, et al. Quantitative subcellular acyl-CoA analysis reveals distinct nuclear metabolism and isoleucine-dependent histone propionylation. Molecular Cell. PMID 34856123 DOI: 10.1016/j.molcel.2021.11.006 |
0.344 |
|
| 2021 |
Raboni S, Montalbano S, Stransky S, Garcia BA, Buschini A, Bettati S, Sidoli S, Mozzarelli A. A Key Silencing Histone Mark on Chromatin Is Lost When Colorectal Adenocarcinoma Cells Are Depleted of Methionine by Methionine γ-Lyase. Frontiers in Molecular Biosciences. 8: 735303. PMID 34660696 DOI: 10.3389/fmolb.2021.735303 |
0.569 |
|
| 2021 |
Lund PJ, Lopes M, Sidoli S, Coradin M, Vitorino FNL, da Cunha JPC, Garcia BA. FGF-2 induces a failure of cell cycle progression in cells harboring amplified K-Ras, revealing new insights into oncogene-induced senescence. Molecular Omics. 17: 725-739. PMID 34636387 DOI: 10.1039/d1mo00019e |
0.798 |
|
| 2021 |
Sun Y, Stransky S, Aguilan J, Koul S, Garforth SJ, Brenowitz M, Sidoli S. High throughput and low bias DNA methylation and hydroxymethylation analysis by direct injection mass spectrometry. Analytica Chimica Acta. 1180: 338880. PMID 34538324 DOI: 10.1016/j.aca.2021.338880 |
0.332 |
|
| 2021 |
Maron MI, Lehman SM, Gayatri S, DeAngelo JD, Hegde S, Lorton BM, Sun Y, Bai DL, Sidoli S, Gupta V, Marunde MR, Bone JR, Sun ZW, Bedford MT, Shabanowitz J, et al. Independent transcriptomic and proteomic regulation by type I and II protein arginine methyltransferases. Iscience. 24: 102971. PMID 34505004 DOI: 10.1016/j.isci.2021.102971 |
0.791 |
|
| 2021 |
Kronman H, Torres-Berrío A, Sidoli S, Issler O, Godino A, Ramakrishnan A, Mews P, Lardner CK, Parise EM, Walker DM, van der Zee YY, Browne CJ, Boyce BF, Neve R, Garcia BA, et al. Author Correction: Long-term behavioral and cell-type-specific molecular effects of early life stress are mediated by H3K79me2 dynamics in medium spiny neurons. Nature Neuroscience. PMID 33833436 DOI: 10.1038/s41593-021-00848-y |
0.342 |
|
| 2021 |
Lu C, Coradin M, Janssen KA, Sidoli S, Garcia BA. Combinatorial Histone H3 Modifications Are Dynamically Altered in Distinct Cell Cycle Phases. Journal of the American Society For Mass Spectrometry. PMID 33818074 DOI: 10.1021/jasms.0c00451 |
0.84 |
|
| 2021 |
Kronman H, Torres-Berrío A, Sidoli S, Issler O, Godino A, Ramakrishnan A, Mews P, Lardner CK, Parise EM, Walker DM, van der Zee YY, Browne CJ, Boyce BF, Neve R, Garcia BA, et al. Long-term behavioral and cell-type-specific molecular effects of early life stress are mediated by H3K79me2 dynamics in medium spiny neurons. Nature Neuroscience. PMID 33723435 DOI: 10.1038/s41593-021-00814-8 |
0.5 |
|
| 2020 |
Bhanu NV, Sidoli S, Garcia BA. A Workflow for Ultra-rapid Analysis of Histone Post-translational Modifications with Direct-injection Mass Spectrometry. Bio-Protocol. 10: e3756. PMID 33659415 DOI: 10.21769/BioProtoc.3756 |
0.836 |
|
| 2020 |
Willcockson MA, Healton SE, Weiss CN, Bartholdy BA, Botbol Y, Mishra LN, Sidhwani DS, Wilson TJ, Pinto HB, Maron MI, Skalina KA, Toro LN, Zhao J, Lee CH, Hou H, ... ... Sidoli S, et al. H1 histones control the epigenetic landscape by local chromatin compaction. Nature. PMID 33299182 DOI: 10.1038/s41586-020-3032-z |
0.531 |
|
| 2020 |
Rabiee A, Plucińska K, Isidor MS, Brown EL, Tozzi M, Sidoli S, Stephanie S Petersen P, Agueda-Oyarzabal M, Torsetnes SB, Chehabi GN, Lundh M, Altıntaş A, Barrès R, Jensen ON, Gerhart-Hines Z, et al. White adipose remodeling during browning in mice involves YBX1 to drive thermogenic commitment. Molecular Metabolism. 101137. PMID 33285300 DOI: 10.1016/j.molmet.2020.101137 |
0.373 |
|
| 2020 |
Nativio R, Lan Y, Donahue G, Sidoli S, Berson A, Srinivasan AR, Shcherbakova O, Amlie-Wolf A, Nie J, Cui X, He C, Wang LS, Garcia BA, Trojanowski JQ, Bonini NM, et al. Author Correction: An integrated multi-omics approach identifies epigenetic alterations associated with Alzheimer's disease. Nature Genetics. PMID 33033384 DOI: 10.1038/s41588-020-00733-7 |
0.402 |
|
| 2020 |
Nativio R, Lan Y, Donahue G, Sidoli S, Berson A, Srinivasan AR, Shcherbakova O, Amlie-Wolf A, Nie J, Cui X, He C, Wang LS, Garcia BA, Trojanowski JQ, Bonini NM, et al. An integrated multi-omics approach identifies epigenetic alterations associated with Alzheimer's disease. Nature Genetics. PMID 32989324 DOI: 10.1038/s41588-020-0696-0 |
0.494 |
|
| 2020 |
Aguilan JT, Kulej K, Sidoli S. Guide for protein fold change and -value calculation for non-experts in proteomics. Molecular Omics. PMID 32968743 DOI: 10.1039/d0mo00087f |
0.712 |
|
| 2020 |
Tahir M, Arshid S, Fontes B, S Castro M, Sidoli S, Schwämmle V, Luz IS, Roepstorff P, Fontes W. Phosphoproteomic Analysis of Rat Neutrophils Shows the Effect of Intestinal Ischemia/Reperfusion and Preconditioning on Kinases and Phosphatases. International Journal of Molecular Sciences. 21. PMID 32823483 DOI: 10.3390/Ijms21165799 |
0.331 |
|
| 2020 |
Schwartz-Orbach L, Zhang C, Sidoli S, Amin R, Kaur D, Zhebrun A, Ni J, Gu SG. nuclear RNAi factor SET-32 deposits the transgenerational histone modification, H3K23me3. Elife. 9. PMID 32804637 DOI: 10.7554/eLife.54309 |
0.423 |
|
| 2020 |
Kolovos P, Nishimura K, Sankar A, Sidoli S, Cloos PA, Helin K, Christensen J. PR-DUB maintains expression of critical genes through FOXK1/2 and ASXL1/2/3-dependent recruitment to chromatin and H2AK119ub1 deubiquitination. Genome Research. PMID 32747411 DOI: 10.1101/gr.261016.120 |
0.318 |
|
| 2020 |
Weis-Banke SE, Lerdrup M, Kleine-Kohlbrecher D, Mohammad F, Sidoli S, Jensen ON, Yanase T, Nakamura T, Iwase A, Stylianou A, Abu-Rustum NR, Aghajanian C, Soslow R, Da Cruz Paula A, Koche RP, et al. Mutant FOXL2C134W highjacks SMAD4 and SMAD2/3 to drive adult granulosa cell tumors. Cancer Research. PMID 32641411 DOI: 10.1158/0008-5472.CAN-20-0259 |
0.408 |
|
| 2020 |
Stransky S, Aguilan J, Lachowicz J, Madrid-Aliste C, Nieves E, Sidoli S. Mass Spectrometry to Study Chromatin Compaction. Biology. 9. PMID 32604817 DOI: 10.3390/biology9060140 |
0.374 |
|
| 2020 |
Ren W, Medeiros N, Warneford-Thomson R, Wulfridge P, Yan Q, Bian J, Sidoli S, Garcia BA, Skordalakes E, Joyce E, Bonasio R, Sarma K. Disruption of ATRX-RNA interactions uncovers roles in ATRX localization and PRC2 function. Nature Communications. 11: 2219. PMID 32376827 DOI: 10.1038/S41467-020-15902-9 |
0.482 |
|
| 2020 |
Chen M, Yan T, Ji L, Yu D, Sidoli S, Yuan Z, Cai C, Chen J, Tang Y, Shen Q, Pan Q, Fu X, Xin K, Liao L, Garcia BA, et al. Comprehensive Map of the Artemisia annua Proteome and Quantification of Differential Protein Expression in Chemotypes Producing High vs Low Content of Artemisinin. Proteomics. e1900310. PMID 32311217 DOI: 10.1002/Pmic.201900310 |
0.482 |
|
| 2020 |
Gehre M, Bunina D, Sidoli S, Lübke MJ, Diaz N, Trovato M, Garcia BA, Zaugg JB, Noh KM. Lysine 4 of histone H3.3 is required for embryonic stem cell differentiation, histone enrichment at regulatory regions and transcription accuracy. Nature Genetics. 52: 273-282. PMID 32139906 DOI: 10.1038/S41588-020-0586-5 |
0.603 |
|
| 2020 |
Coradin M, Mendoza MR, Sidoli S, Alpert AJ, Lu C, Garcia BA. Bullet points to evaluate the performance of the middle-down proteomics workflow for histone modification analysis. Methods (San Diego, Calif.). PMID 32070774 DOI: 10.1016/J.Ymeth.2020.01.013 |
0.849 |
|
| 2020 |
Bhanu N, Sidoli S, Garcia B. A Workflow for Ultra-rapid Analysis of Histone Post-translational Modifications with Direct-injection Mass Spectrometry Bio-Protocol. 10. DOI: 10.21769/BIOPROTOC.3756 |
0.477 |
|
| 2019 |
Janssen KA, Coradin M, Lu C, Sidoli S, Garcia BA. Quantitation of Single and Combinatorial Histone Modifications by Integrated Chromatography of Bottom-up Peptides and Middle-down Polypeptide Tails. Journal of the American Society For Mass Spectrometry. 30: 2449-2459. PMID 31944722 DOI: 10.1021/jasms.8b06274 |
0.694 |
|
| 2019 |
Agosto LM, Gazzara MR, Radens CM, Sidoli S, Baeza J, Garcia BA, Lynch KW. Deep profiling and custom databases improve detection of proteoforms generated by alternative splicing. Genome Research. PMID 31727681 DOI: 10.1101/Gr.248435.119 |
0.803 |
|
| 2019 |
Mews P, Egervari G, Nativio R, Sidoli S, Donahue G, Lombroso SI, Alexander DC, Riesche SL, Heller EA, Nestler EJ, Garcia BA, Berger SL. Alcohol metabolism contributes to brain histone acetylation. Nature. PMID 31645761 DOI: 10.1038/S41586-019-1700-7 |
0.372 |
|
| 2019 |
Klein BJ, Jang SM, Lachance C, Mi W, Lyu J, Sakuraba S, Krajewski K, Wang WW, Sidoli S, Liu J, Zhang Y, Wang X, Warfield BM, Kueh AJ, Voss AK, et al. Histone H3K23-specific acetylation by MORF is coupled to H3K14 acylation. Nature Communications. 10: 4724. PMID 31624313 DOI: 10.1038/S41467-019-12551-5 |
0.664 |
|
| 2019 |
Sidoli S, Lopes M, Lund PJ, Goldman N, Fasolino M, Coradin M, Kulej K, Bhanu NV, Vahedi G, Garcia BA. A mass spectrometry-based assay using metabolic labeling to rapidly monitor chromatin accessibility of modified histone proteins. Scientific Reports. 9: 13613. PMID 31541121 DOI: 10.1038/S41598-019-49894-4 |
0.868 |
|
| 2019 |
Janssen KA, Coradin M, Lu C, Sidoli S, Garcia BA. Quantitation of Single and Combinatorial Histone Modifications by Integrated Chromatography of Bottom-up Peptides and Middle-down Polypeptide Tails. Journal of the American Society For Mass Spectrometry. PMID 31512222 DOI: 10.1007/S13361-019-02303-6 |
0.871 |
|
| 2019 |
Saha-Shah A, Esmaeili M, Sidoli S, Hwang H, Yang J, Klein PS, Garcia BA. Single Cell Proteomics to Study Embryonic Asymmetry in Xenopus laevis Embryos. Analytical Chemistry. PMID 31194517 DOI: 10.1021/Acs.Analchem.9B00327 |
0.809 |
|
| 2019 |
Sidoli S, Kori Y, Lopes M, Yuan ZF, Kim HJ, Kulej K, Janssen KA, Agosto LM, Cunha JPC, Andrews AJ, Garcia BA. One minute analysis of 200 histone post-translational modifications by direct injection mass spectrometry. Genome Research. PMID 31123082 DOI: 10.1101/Gr.247353.118 |
0.864 |
|
| 2019 |
Lund PJ, Kori Y, Zhao X, Sidoli S, Yuan ZF, Garcia BA. Isotopic Labeling and Quantitative Proteomics of Acetylation on Histones and Beyond. Methods in Molecular Biology (Clifton, N.J.). 1977: 43-70. PMID 30980322 DOI: 10.1007/978-1-4939-9232-4_5 |
0.862 |
|
| 2019 |
Behera V, Stonestrom AJ, Hamagami N, Hsiung CC, Keller CA, Giardine B, Sidoli S, Yuan ZF, Bhanu NV, Werner MT, Wang H, Garcia BA, Hardison RC, Blobel GA. Interrogating Histone Acetylation and BRD4 as Mitotic Bookmarks of Transcription. Cell Reports. 27: 400-415.e5. PMID 30970245 DOI: 10.1016/J.Celrep.2019.03.057 |
0.801 |
|
| 2019 |
Wojcik JB, Marchione DM, Sidoli S, Djedid A, Lisby A, Majewski J, Garcia BA. Epigenomic reordering induced by Polycomb loss drives oncogenesis but leads to therapeutic vulnerabilities in malignant peripheral nerve sheath tumors. Cancer Research. PMID 30898839 DOI: 10.1158/0008-5472.Can-18-3704 |
0.805 |
|
| 2019 |
Bhanu NV, Sidoli S, Yuan ZF, Molden RC, Garcia BA. Regulation of proline-directed kinases and the trans-histone code H3K9me3/H4K20me3 during human myogenesis. The Journal of Biological Chemistry. PMID 30872405 DOI: 10.1074/Jbc.Ra118.004977 |
0.859 |
|
| 2019 |
Sen P, Lan Y, Li CY, Sidoli S, Donahue G, Dou Z, Frederick B, Chen Q, Luense LJ, Garcia BA, Dang W, Johnson FB, Adams PD, Schultz DC, Berger SL. Histone Acetyltransferase p300 Induces De Novo Super-Enhancers to Drive Cellular Senescence. Molecular Cell. PMID 30773298 DOI: 10.1016/J.Molcel.2019.01.021 |
0.597 |
|
| 2019 |
Lu C, Sidoli S, Kulej K, Ross K, Wu CH, Garcia BA. Coordination between TGF-β cellular signaling and epigenetic regulation during epithelial to mesenchymal transition. Epigenetics & Chromatin. 12: 11. PMID 30736855 DOI: 10.1186/S13072-019-0256-Y |
0.783 |
|
| 2019 |
Sidoli S, Trefely S, Garcia BA, Carrer A. Integrated Analysis of Acetyl-CoA and Histone Modification via Mass Spectrometry to Investigate Metabolically Driven Acetylation. Methods in Molecular Biology (Clifton, N.J.). 1928: 125-147. PMID 30725455 DOI: 10.1007/978-1-4939-9027-6_9 |
0.701 |
|
| 2019 |
Carrer A, Trefely S, Zhao S, Campbell S, Norgard RJ, Schultz KC, Sidoli S, Parris JLD, Affronti HC, Sivanand S, Egolf S, Sela Y, Trizzino M, Gardini A, Garcia BA, et al. Acetyl-CoA metabolism supports multi-step pancreatic tumorigenesis. Cancer Discovery. PMID 30626590 DOI: 10.1158/2159-8290.Cd-18-0567 |
0.591 |
|
| 2019 |
Nicetto D, Donahue G, Jain T, Peng T, Sidoli S, Sheng L, Montavon T, Becker JS, Grindheim JM, Blahnik K, Garcia BA, Tan K, Bonasio R, Jenuwein T, Zaret KS. H3K9me3-heterochromatin loss at protein-coding genes enables developmental lineage specification. Science (New York, N.Y.). PMID 30606806 DOI: 10.1126/Science.Aau0583 |
0.546 |
|
| 2019 |
Carrer A, Trefely S, Zhao S, Campbell S, Sela Y, Sidoli S, Garcia BA, Snyder NW, Stanger BZ, Wellen KE. Abstract A03: All the roads bring to Rome: How acetyl-CoA metabolism supports multistep pancreatic carcinogenesis Cancer Research. 79. DOI: 10.1158/1538-7445.Panca19-A03 |
0.401 |
|
| 2019 |
Weiner AK, Radaoui AB, Kendsersky NM, Harenza-Rokita JL, Sidoli S, Conkrite KL, Vaksman Z, Rathi K, Raman P, Martinez D, Bhatti T, Tsang M, Pawel B, Garcia BA, Maris JM, et al. Abstract 3650: Integrative mass spectrometry and RNA-sequencing identifies DLK1 as a candidate immunotherapeutic target in neuroblastoma Cancer Research. 79: 3650-3650. DOI: 10.1158/1538-7445.Am2019-3650 |
0.811 |
|
| 2018 |
Wimmer ME, Vassoler FM, White SL, Schmidt HD, Sidoli S, Han Y, Garica BA, Pierce RC. Impaired cocaine-induced behavioral plasticity in the male offspring of cocaine-experienced sires. The European Journal of Neuroscience. PMID 30565761 DOI: 10.1111/Ejn.14310 |
0.722 |
|
| 2018 |
Tahir M, Arshid S, Fontes B, Castro MS, Luz IS, Botelho KLR, Sidoli S, Schwämmle V, Roepstorff P, Fontes W. Analysis of the Effect of Intestinal Ischemia and Reperfusion on the Rat Neutrophils Proteome. Frontiers in Molecular Biosciences. 5: 89. PMID 30555831 DOI: 10.3389/Fmolb.2018.00089 |
0.311 |
|
| 2018 |
Kreher J, Takasaki T, Cockrum C, Sidoli S, Garcia BA, Jensen ON, Strome S. Distinct Roles of Two Histone Methyltransferases in Transmitting H3K36me3-Based Epigenetic Memory Across Generations in . Genetics. PMID 30217796 DOI: 10.1534/Genetics.118.301353 |
0.622 |
|
| 2018 |
Greer SM, Sidoli S, Coradin M, Schack Jespersen M, Schwämmle V, Jensen ON, Garcia BA, Brodbelt JS. Extensive Characterization of Heavily Modified Histone Tails by 193 nm Ultraviolet Photodissociation Mass Spectrometry via a Middle-Down Strategy. Analytical Chemistry. PMID 30063333 DOI: 10.1021/Acs.Analchem.8B02320 |
0.879 |
|
| 2018 |
Grevet JD, Lan X, Hamagami N, Edwards CR, Sankaranarayanan L, Ji X, Bhardwaj SK, Face CJ, Posocco DF, Abdulmalik O, Keller CA, Giardine B, Sidoli S, Garcia BA, Chou ST, et al. Domain-focused CRISPR screen identifies HRI as a fetal hemoglobin regulator in human erythroid cells. Science (New York, N.Y.). 361: 285-290. PMID 30026227 DOI: 10.1126/Science.Aao0932 |
0.329 |
|
| 2018 |
Weissmann S, Cloos PA, Sidoli S, Jensen ON, Pollard S, Helin K. The tumor suppressor CIC directly regulates MAPK pathway genes via histone deacetylation. Cancer Research. PMID 29844126 DOI: 10.1158/0008-5472.Can-18-0342 |
0.553 |
|
| 2018 |
Yuan ZF, Sidoli S, Marchione DM, Simithy J, Janssen KA, Szurgot MR, Garcia BA. EpiProfile 2.0: A Computational Platform for Processing Epi-Proteomics Mass Spectrometry Data. Journal of Proteome Research. PMID 29790754 DOI: 10.1021/Acs.Jproteome.8B00133 |
0.859 |
|
| 2018 |
Sidoli S. Middle-Down MS is Ready to Answer Complex Questions in Chromatin Biology. Proteomics. 18: e1800131. PMID 29745061 DOI: 10.1002/Pmic.201800131 |
0.623 |
|
| 2018 |
Simithy J, Sidoli S, Garcia BA. Integrating Proteomics and Targeted Metabolomics to Understand Global Changes in Histone Modifications. Proteomics. PMID 29512899 DOI: 10.1002/Pmic.201700309 |
0.865 |
|
| 2018 |
Wojcik JB, Sidoli S, Cooper K, Garcia BA. Abstract A10: Integrated proteome and epigenetic analysis reveals crosstalk between chromatin and cancer pathways in malignant peripheral nerve sheath tumors Clinical Cancer Research. 24. DOI: 10.1158/1557-3265.Sarcomas17-A10 |
0.501 |
|
| 2018 |
Chaves-Moreira D, Mitchell M, Sidoli S, Garcia B, Drapkin R. Abstract 5416: Isolation of the PAX8 transcriptional complex to identify novel therapeutic vulnerabilities for ovarian cancer Cancer Research. 78: 5416-5416. DOI: 10.1158/1538-7445.Am2018-5416 |
0.499 |
|
| 2017 |
Becker JS, McCarthy RL, Sidoli S, Donahue G, Kaeding KE, He Z, Lin S, Garcia BA, Zaret KS. Genomic and Proteomic Resolution of Heterochromatin and Its Restriction of Alternate Fate Genes. Molecular Cell. 68: 1023-1037.e15. PMID 29272703 DOI: 10.1016/J.Molcel.2017.11.030 |
0.694 |
|
| 2017 |
Di Marcantonio D, Martinez E, Sidoli S, Vadaketh J, Nieborowska-Skorska M, Gupta A, Meadows JM, Ferraro F, Masselli E, Challen GA, Milsom MD, Scholl C, Froehling S, Balachandran S, Skorski T, et al. PKC epsilon is a Key Regulator of Mitochondrial Redox Homeostasis in Acute Myeloid Leukemia. Clinical Cancer Research : An Official Journal of the American Association For Cancer Research. PMID 29127121 DOI: 10.1158/1078-0432.Ccr-17-2684 |
0.445 |
|
| 2017 |
Guo Q, Sidoli S, Garcia BA, Zhao X. Assessment of quantification precision of histone post-translational modifications by using an ion trap and down to 50,000 cells as starting material. Journal of Proteome Research. PMID 29121770 DOI: 10.1021/Acs.Jproteome.7B00544 |
0.716 |
|
| 2017 |
Weiner AK, Sidoli S, Diskin SJ, Garcia B. GiaPronto: a one-click graph visualization software for proteomics datasets. Molecular & Cellular Proteomics : McP. PMID 29118029 DOI: 10.1074/Mcp.Tir117.000438 |
0.793 |
|
| 2017 |
Simithy J, Sidoli S, Yuan ZF, Coradin M, Bhanu NV, Marchione DM, Klein BJ, Bazilevsky GA, McCullough CE, Magin RS, Kutateladze TG, Snyder NW, Marmorstein R, Garcia BA. Characterization of histone acylations links chromatin modifications with metabolism. Nature Communications. 8: 1141. PMID 29070843 DOI: 10.1038/S41467-017-01384-9 |
0.84 |
|
| 2017 |
Warneford-Thomson R, He C, Sidoli S, Garcia BA, Bonasio R. Sample Preparation for Mass Spectrometry-based Identification of RNA-binding Regions. Journal of Visualized Experiments : Jove. PMID 28994809 DOI: 10.3791/56004 |
0.488 |
|
| 2017 |
Armour SM, Remsberg JR, Damle M, Sidoli S, Ho WY, Li Z, Garcia BA, Lazar MA. An HDAC3-PROX1 corepressor module acts on HNF4α to control hepatic triglycerides. Nature Communications. 8: 549. PMID 28916805 DOI: 10.1038/S41467-017-00772-5 |
0.525 |
|
| 2017 |
Shinde MY, Sidoli S, Kulej K, Mallory MJ, Radens CM, Reicherter A, Myers RL, Barash Y, Lynch KW, Garcia BA, Klein PS. Phosphoproteomics reveals that glycogen synthase kinase-3 phosphorylates multiple splicing factors and is associated with alternative splicing. The Journal of Biological Chemistry. PMID 28916722 DOI: 10.1074/Jbc.M117.813527 |
0.783 |
|
| 2017 |
Kori Y, Sidoli S, Yuan ZF, Lund PJ, Zhao X, Garcia BA. Proteome-wide acetylation dynamics in human cells. Scientific Reports. 7: 10296. PMID 28860605 DOI: 10.1038/S41598-017-09918-3 |
0.823 |
|
| 2017 |
Alečković M, Wei Y, LeRoy G, Sidoli S, Liu DD, Garcia BA, Kang Y. Identification of Nidogen 1 as a lung metastasis protein through secretome analysis. Genes & Development. PMID 28827399 DOI: 10.1101/Gad.301937.117 |
0.696 |
|
| 2017 |
Sidoli S, Lu C, Coradin M, Wang X, Karch KR, Ruminowicz C, Garcia BA. Metabolic labeling in middle-down proteomics allows for investigation of the dynamics of the histone code. Epigenetics & Chromatin. 10: 34. PMID 28683815 DOI: 10.1186/S13072-017-0139-Z |
0.86 |
|
| 2017 |
Sidoli S, Garcia BA. Middle-down proteomics: a still unexploited resource for chromatin biology. Expert Review of Proteomics. 1-10. PMID 28649883 DOI: 10.1080/14789450.2017.1345632 |
0.727 |
|
| 2017 |
Coetzee N, Sidoli S, van Biljon R, Painter H, Llinás M, Garcia BA, Birkholtz LM. Quantitative chromatin proteomics reveals a dynamic histone post-translational modification landscape that defines asexual and sexual Plasmodium falciparum parasites. Scientific Reports. 7: 607. PMID 28377601 DOI: 10.1038/S41598-017-00687-7 |
0.668 |
|
| 2017 |
Wang W, Sidoli S, Zhang W, Wang Q, Wang L, Jensen ON, Guo L, Zhao X, Zheng L. Abnormal levels of histone methylation in the retinas of diabetic rats are reversed by minocycline treatment. Scientific Reports. 7: 45103. PMID 28338045 DOI: 10.1038/Srep45103 |
0.567 |
|
| 2017 |
Wimmer ME, Briand LA, Fant B, Guercio LA, Arreola AC, Schmidt HD, Sidoli S, Han Y, Garcia BA, Pierce RC. Paternal cocaine taking elicits epigenetic remodeling and memory deficits in male progeny. Molecular Psychiatry. PMID 28220045 DOI: 10.1038/Mp.2017.8 |
0.738 |
|
| 2017 |
Feist PE, Sidoli S, Liu X, Schroll MM, Rahmy S, Fujiwara R, Garcia BA, Hummon AB. Multicellular Tumor Spheroids Combined with Mass Spectrometric Histone Analysis to Evaluate Epigenetic Drugs. Analytical Chemistry. PMID 28194967 DOI: 10.1021/Acs.Analchem.6B03602 |
0.614 |
|
| 2017 |
Kulej K, Avgousti DC, Sidoli S, Herrmann C, Della Fera AN, Kim ET, Garcia BA, Weitzman MD. Time-resolved global and chromatin proteomics during herpes simplex virus (HSV-1) infection. Molecular & Cellular Proteomics : McP. PMID 28179408 DOI: 10.1074/Mcp.M116.065987 |
0.798 |
|
| 2017 |
Janssen KA, Sidoli S, Garcia BA. Recent Achievements in Characterizing the Histone Code and Approaches to Integrating Epigenomics and Systems Biology. Methods in Enzymology. 586: 359-378. PMID 28137571 DOI: 10.1016/Bs.Mie.2016.10.021 |
0.849 |
|
| 2017 |
Juan AH, Wang S, Ko KD, Zare H, Tsai PF, Feng X, Vivanco KO, Ascoli AM, Gutierrez-Cruz G, Krebs J, Sidoli S, Knight AL, Pedersen RA, Garcia BA, Casellas R, et al. Roles of H3K27me2 and H3K27me3 Examined during Fate Specification of Embryonic Stem Cells. Cell Reports. 18: 297. PMID 28052258 DOI: 10.1016/j.celrep.2016.12.036 |
0.391 |
|
| 2017 |
Sidoli S, Garcia BA. Characterization of Individual Histone Posttranslational Modifications and Their Combinatorial Patterns by Mass Spectrometry-Based Proteomics Strategies. Methods in Molecular Biology (Clifton, N.J.). 1528: 121-148. PMID 27854019 DOI: 10.1007/978-1-4939-6630-1_8 |
0.717 |
|
| 2017 |
Arshid S, Tahir M, Fontes B, de Souza Montero EF, Castro MS, Sidoli S, Roepstorff P, Fontes W. High performance mass spectrometry based proteomics reveals enzyme and signaling pathway regulation in neutrophils during the early stage of surgical trauma. Proteomics. Clinical Applications. 11. PMID 27672009 DOI: 10.1002/Prca.201600001 |
0.333 |
|
| 2017 |
Grevet JD, Hamagami N, Lan X, Sankaranarayanan L, Bhardwaj S, Face C, Posocco D, Abdulmalik O, Keller CA, Giardine B, Sidoli S, Garcia B, Chou ST, Hardison RC, Vakoc C, et al. Domain-Focused CRISPR-Cas9 Screen Identifies Hri Kinase As a Regulator of Fetal Hemoglobin in Adult Human Erythroid Cells Blood. 130: 536-536. DOI: 10.1182/Blood.V130.Suppl_1.536.536 |
0.365 |
|
| 2017 |
Weiner AK, Sidoli S, Glisovic-Aplenc T, Maris JM, Garcia BA, Diskin SJ. Abstract 684: Integrative proteomics and transcriptomics to define the cell surface landscape of neuroblastoma Cancer Research. 77: 684-684. DOI: 10.1158/1538-7445.Am2017-684 |
0.798 |
|
| 2016 |
Sidoli S, Kulej K, Garcia BA. Why proteomics is not the new genomics and the future of mass spectrometry in cell biology. The Journal of Cell Biology. PMID 27956468 DOI: 10.1083/Jcb.201612010 |
0.798 |
|
| 2016 |
Juan AH, Wang S, Ko KD, Zare H, Tsai PF, Feng X, Vivanco KO, Ascoli AM, Gutierrez-Cruz G, Krebs J, Sidoli S, Knight AL, Pedersen RA, Garcia BA, Casellas R, et al. Roles of H3K27me2 and H3K27me3 Examined during Fate Specification of Embryonic Stem Cells. Cell Reports. 17: 1369-1382. PMID 27783950 DOI: 10.1016/J.Celrep.2016.09.087 |
0.597 |
|
| 2016 |
He C, Sidoli S, Warneford-Thomson R, Tatomer DC, Wilusz JE, Garcia BA, Bonasio R. High-Resolution Mapping of RNA-Binding Regions in the Nuclear Proteome of Embryonic Stem Cells. Molecular Cell. 64: 416-430. PMID 27768875 DOI: 10.1016/J.Molcel.2016.09.034 |
0.489 |
|
| 2016 |
Rabiee A, Schwämmle V, Sidoli S, Dai J, Rogowska-Wrzesinska A, Mandrup S, Jensen ON. Nuclear phosphoproteome analysis of 3T3-L1 preadipocyte differentiation reveals system-wide phosphorylation of transcriptional regulators. Proteomics. PMID 27717184 DOI: 10.1002/Pmic.201600248 |
0.552 |
|
| 2016 |
Karch KR, Sidoli S, Garcia BA. Identification and Quantification of Histone PTMs Using High-Resolution Mass Spectrometry. Methods in Enzymology. 574: 3-29. PMID 27423855 DOI: 10.1016/Bs.Mie.2015.12.007 |
0.625 |
|
| 2016 |
Schwämmle V, Sidoli S, Ruminowicz C, Wu X, Lee CF, Helin K, Jensen ON. Systems level analysis of histone H3 post-translational modifications reveals features of PTM crosstalk in chromatin regulation. Molecular & Cellular Proteomics : McP. PMID 27302890 DOI: 10.1074/Mcp.M115.054460 |
0.69 |
|
| 2016 |
Sidoli S, Fujiwara R, Kulej K, Garcia BA. Differential quantification of isobaric phosphopeptides using data-independent acquisition mass spectrometry. Molecular Biosystems. PMID 27301801 DOI: 10.1039/C6Mb00385K |
0.807 |
|
| 2016 |
Sidoli S, Bhanu NV, Karch KR, Wang X, Garcia BA. Complete Workflow for Analysis of Histone Post-translational Modifications Using Bottom-up Mass Spectrometry: From Histone Extraction to Data Analysis. Journal of Visualized Experiments : Jove. PMID 27286567 DOI: 10.3791/54112 |
0.873 |
|
| 2016 |
Arshid S, Tahir M, Fontes B, Montero EF, Castro MS, Sidoli S, Schwämmle V, Roepstorff P, Fontes W. Neutrophil proteomic analysis reveals the participation of antioxidant enzymes, motility and ribosomal proteins in the prevention of ischemic effects by preconditioning. Journal of Proteomics. 151: 162-173. PMID 27208787 DOI: 10.1016/J.Jprot.2016.05.016 |
0.351 |
|
| 2016 |
Sidoli S, Fujiwara R, Garcia BA. Multiplexed data independent acquisition (MSX-DIA) applied by high resolution mass spectrometry improves quantification quality for the analysis of histone peptides. Proteomics. PMID 27193262 DOI: 10.1002/Pmic.201500527 |
0.66 |
|
| 2016 |
Gonzales-Cope M, Sidoli S, Bhanu NV, Won KJ, Garcia BA. Histone H4 acetylation and the epigenetic reader Brd4 are critical regulators of pluripotency in embryonic stem cells. Bmc Genomics. 17: 95. PMID 26847871 DOI: 10.1186/S12864-016-2414-Y |
0.793 |
|
| 2016 |
Anderson LC, Karch KR, Ugrin SA, Coradin M, English AM, Sidoli S, Shabanowitz J, Garcia BA, Hunt DF. Analyses of Histone Proteoforms Using Front-End Electron Transfer Dissociation-Enabled Orbitrap Instruments. Molecular & Cellular Proteomics : McP. PMID 26785730 DOI: 10.1074/Mcp.O115.053843 |
0.844 |
|
| 2016 |
Karch KR, Sidoli S, Garcia BA. Identification and Quantification of Histone PTMs Using High-Resolution Mass Spectrometry Methods in Enzymology. DOI: 10.1016/bs.mie.2015.12.007 |
0.834 |
|
| 2015 |
Bhanu NV, Sidoli S, Garcia BA. Histone modification profiling reveals differential signatures associated with human embryonic stem cell self-renewal and differentiation. Proteomics. PMID 26631989 DOI: 10.1002/Pmic.201500231 |
0.749 |
|
| 2015 |
Jamieson K, Wiles ET, McNaught KJ, Sidoli S, Leggett N, Shao Y, Garcia BA, Selker EU. Loss of HP1 causes depletion of H3K27me3 from facultative heterochromatin and gain of H3K27me2 at constitutive heterochromatin. Genome Research. PMID 26537359 DOI: 10.1101/Gr.194555.115 |
0.592 |
|
| 2015 |
Sidoli S, Vandamme J, Salcini AE, Jensen ON. Dynamic changes of histone H3 marks during Caenorhabditis elegans lifecycle revealed by middle-down proteomics. Proteomics. PMID 26508544 DOI: 10.1002/Pmic.201500285 |
0.652 |
|
| 2015 |
Sidoli S, Simithy J, Karch KR, Kulej K, Garcia BA. Low Resolution Data-Independent Acquisition in an LTQ-Orbitrap Allows for Simplified and Fully Untargeted Analysis of Histone Modifications. Analytical Chemistry. 87: 11448-54. PMID 26505526 DOI: 10.1021/Acs.Analchem.5B03009 |
0.836 |
|
| 2015 |
Vandamme J, Sidoli S, Mariani L, Friis C, Christensen J, Helin K, Jensen ON, Salcini AE. H3K23me2 is a new heterochromatic mark in Caenorhabditis elegans. Nucleic Acids Research. PMID 26476455 DOI: 10.1093/Nar/Gkv1063 |
0.672 |
|
| 2015 |
Wu X, Bekker-Jensen IH, Christensen J, Rasmussen KD, Sidoli S, Qi Y, Kong Y, Wang X, Cui Y, Xiao Z, Xu G, Williams K, Rappsilber J, Sønderby CK, Winther O, et al. Tumor suppressor ASXL1 is essential for the activation of INK4B expression in response to oncogene activity and anti-proliferative signals. Cell Research. PMID 26470845 DOI: 10.1038/Cr.2015.121 |
0.51 |
|
| 2015 |
Chen S, Yang Z, Wilkinson AW, Deshpande AJ, Sidoli S, Krajewski K, Strahl BD, Garcia BA, Armstrong SA, Patel DJ, Gozani O. The PZP Domain of AF10 Senses Unmodified H3K27 to Regulate DOT1L-Mediated Methylation of H3K79. Molecular Cell. PMID 26439302 DOI: 10.1016/J.Molcel.2015.08.019 |
0.53 |
|
| 2015 |
Tvardovskiy A, Wrzesinski K, Sidoli S, Fey SJ, Rogowska-Wrzesinska A, Jensen ON. Top-down and middle-down protein analysis reveals that intact and clipped human histones differ in post-translational modification patterns. Molecular & Cellular Proteomics : McP. PMID 26424599 DOI: 10.1074/Mcp.M115.048975 |
0.842 |
|
| 2015 |
Önder Ö, Sidoli S, Carroll M, Garcia BA. Progress in epigenetic histone modification analysis by mass spectrometry for clinical investigations. Expert Review of Proteomics. 12: 499-517. PMID 26400466 DOI: 10.1586/14789450.2015.1084231 |
0.686 |
|
| 2015 |
Sidoli S, Garcia BA. Properly reading the histone code by MS based proteomics. Proteomics. PMID 26223514 DOI: 10.1002/Pmic.201500298 |
0.712 |
|
| 2015 |
Won KJ, Choi I, LeRoy G, Zee BM, Sidoli S, Gonzales-Cope M, Garcia BA. Proteogenomics analysis reveals specific genomic orientations of distal regulatory regions composed by non-canonical histone variants. Epigenetics & Chromatin. 8: 13. PMID 25878728 DOI: 10.1186/S13072-015-0005-9 |
0.861 |
|
| 2015 |
Yuan ZF, Lin S, Molden RC, Cao XJ, Bhanu NV, Wang X, Sidoli S, Liu S, Garcia BA. EpiProfile Quantifies Histone Peptides With Modifications by Extracting Retention Time and Intensity in High-resolution Mass Spectra. Molecular & Cellular Proteomics : McP. 14: 1696-707. PMID 25805797 DOI: 10.1074/Mcp.M114.046011 |
0.849 |
|
| 2015 |
Alabert C, Barth TK, Reverón-Gómez N, Sidoli S, Schmidt A, Jensen ON, Imhof A, Groth A. Two distinct modes for propagation of histone PTMs across the cell cycle. Genes & Development. 29: 585-90. PMID 25792596 DOI: 10.1101/Gad.256354.114 |
0.657 |
|
| 2015 |
Sidoli S, Lin S, Karch KR, Garcia BA. Bottom-up and middle-down proteomics have comparable accuracies in defining histone post-translational modification relative abundance and stoichiometry. Analytical Chemistry. 87: 3129-33. PMID 25719549 DOI: 10.1021/Acs.Analchem.5B00072 |
0.864 |
|
| 2015 |
Sidoli S, Yuan ZF, Lin S, Karch K, Wang X, Bhanu N, Arnaudo AM, Britton LM, Cao XJ, Gonzales-Cope M, Han Y, Liu S, Molden RC, Wein S, Afjehi-Sadat L, et al. Drawbacks in the use of unconventional hydrophobic anhydrides for histone derivatization in bottom-up proteomics PTM analysis. Proteomics. 15: 1459-69. PMID 25641854 DOI: 10.1002/Pmic.201400483 |
0.801 |
|
| 2015 |
Sidoli S, Lin S, Xiong L, Bhanu NV, Karch KR, Johansen E, Hunter C, Mollah S, Garcia BA. SWATH Analysis for Characterization and Quantification of Histone Post-translational Modifications. Molecular & Cellular Proteomics : McP. PMID 25636311 DOI: 10.1074/Mcp.O114.046102 |
0.869 |
|
| 2015 |
Garrigues JM, Sidoli S, Garcia BA, Strome S. Defining heterochromatin in C. elegans through genome-wide analysis of the heterochromatin protein 1 homolog HPL-2. Genome Research. 25: 76-88. PMID 25467431 DOI: 10.1101/Gr.180489.114 |
0.524 |
|
| 2015 |
Kulej K, Sidoli S, Palmisano G, Edwards AVG, Robinson PJ, Larsen MR. Optimization of calmodulin-affinity chromatography for brain and organelles Eupa Open Proteomics. DOI: 10.1016/J.Euprot.2015.05.004 |
0.742 |
|
| 2014 |
Sidoli S, Schwämmle V, Ruminowicz C, Hansen TA, Wu X, Helin K, Jensen ON. Middle-down hybrid chromatography/tandem mass spectrometry workflow for characterization of combinatorial post-translational modifications in histones. Proteomics. 14: 2200-11. PMID 25073878 DOI: 10.1002/Pmic.201400084 |
0.725 |
|
| 2014 |
Siersbæk R, Rabiee A, Nielsen R, Sidoli S, Traynor S, Loft A, La Cour Poulsen L, Rogowska-Wrzesinska A, Jensen ON, Mandrup S. Transcription factor cooperativity in early adipogenic hotspots and super-enhancers. Cell Reports. 7: 1443-55. PMID 24857652 DOI: 10.1016/J.Celrep.2014.04.042 |
0.502 |
|
| 2014 |
Schwämmle V, Aspalter CM, Sidoli S, Jensen ON. Large scale analysis of co-existing post-translational modifications in histone tails reveals global fine structure of cross-talk. Molecular & Cellular Proteomics : McP. 13: 1855-65. PMID 24741113 DOI: 10.1074/Mcp.O113.036335 |
0.713 |
|
| 2014 |
Zhao X, Sidoli S, Wang L, Wang W, Guo L, Jensen ON, Zheng L. Comparative proteomic analysis of histone post-translational modifications upon ischemia/reperfusion-induced retinal injury. Journal of Proteome Research. 13: 2175-86. PMID 24628298 DOI: 10.1021/Pr500040A |
0.63 |
|
| 2014 |
Such-SanmartÃn G, Sidoli S, Ventura-Espejo E, Jensen ON. KYSS: mass spectrometry data quality assessment for protein analysis and large-scale proteomics. Biochemical and Biophysical Research Communications. 445: 702-7. PMID 24480439 DOI: 10.1016/J.Bbrc.2014.01.066 |
0.599 |
|
| 2013 |
Jung HR, Sidoli S, Haldbo S, Sprenger RR, Schwämmle V, Pasini D, Helin K, Jensen ON. Precision mapping of coexisting modifications in histone H3 tails from embryonic stem cells by ETD-MS/MS. Analytical Chemistry. 85: 8232-9. PMID 23889513 DOI: 10.1021/Ac401299W |
0.712 |
|
| 2013 |
Bignardi C, Mattarozzi M, Penna A, Sidoli S, Elviri L, Careri M, Mangia A. A Rapid Size-Exclusion Solid-Phase Extraction Step for Enhanced Sensitivity in Multi-Allergen Determination in Dark Chocolate and Biscuits by Liquid Chromatography-Tandem Mass Spectrometry Food Analytical Methods. 6: 1144-1152. DOI: 10.1007/S12161-012-9521-4 |
0.378 |
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| 2012 |
Vandamme J, Lettier G, Sidoli S, Di Schiavi E, Nørregaard Jensen O, Salcini AE. The C. elegans H3K27 demethylase UTX-1 is essential for normal development, independent of its enzymatic activity. Plos Genetics. 8: e1002647. PMID 22570628 DOI: 10.1371/Journal.Pgen.1002647 |
0.411 |
|
| 2012 |
Sidoli S, Cheng L, Jensen ON. Proteomics in chromatin biology and epigenetics: Elucidation of post-translational modifications of histone proteins by mass spectrometry. Journal of Proteomics. 75: 3419-33. PMID 22234360 DOI: 10.1016/J.Jprot.2011.12.029 |
0.711 |
|
| 2010 |
Sidoli S, Elviri L, Careri M, Mangia A, Rizzi F, Bettuzzi S. AA Sequencing, Glycosylation and Phosphorylation Site Characterization of Human Serum Clusterin using Liquid Chromatography-High Resolution Mass Spectrometry Journal of Biotechnology. 150: 470-471. DOI: 10.1016/J.Jbiotec.2010.09.703 |
0.321 |
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