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Page 1
CRUP: a comprehensive framework to predict condition-specific regulatory units.
Ramisch A, Heinrich V, Glaser LV, Fuchs A, Yang X, Benner P, Schöpflin R, Li N, Kinkley S, Römer-Hillmann A, Longinotto J, Heyne S, Czepukojc B, Kessler SM, Kiemer AK, Cadenas C, Arrigoni L, Gasparoni N, Manke T, Pap T, Pospisilik JA, Hengstler J, Walter J, Meijsing SH, Chung HR, Vingron M. Ramisch A, et al. Among authors: gasparoni n. Genome Biol. 2019 Nov 8;20(1):227. doi: 10.1186/s13059-019-1860-7. Genome Biol. 2019. PMID: 31699133 Free PMC article.
Epigenomic Profiling of Human CD4+ T Cells Supports a Linear Differentiation Model and Highlights Molecular Regulators of Memory Development.
Durek P, Nordström K, Gasparoni G, Salhab A, Kressler C, de Almeida M, Bassler K, Ulas T, Schmidt F, Xiong J, Glažar P, Klironomos F, Sinha A, Kinkley S, Yang X, Arrigoni L, Amirabad AD, Ardakani FB, Feuerbach L, Gorka O, Ebert P, Müller F, Li N, Frischbutter S, Schlickeiser S, Cendon C, Fröhler S, Felder B, Gasparoni N, Imbusch CD, Hutter B, Zipprich G, Tauchmann Y, Reinke S, Wassilew G, Hoffmann U, Richter AS, Sieverling L; DEEP Consortium; Chang HD, Syrbe U, Kalus U, Eils J, Brors B, Manke T, Ruland J, Lengauer T, Rajewsky N, Chen W, Dong J, Sawitzki B, Chung HR, Rosenstiel P, Schulz MH, Schultze JL, Radbruch A, Walter J, Hamann A, Polansky JK. Durek P, et al. Among authors: gasparoni n. Immunity. 2016 Nov 15;45(5):1148-1161. doi: 10.1016/j.immuni.2016.10.022. Immunity. 2016. PMID: 27851915 Free article.
Combining transcription factor binding affinities with open-chromatin data for accurate gene expression prediction.
Schmidt F, Gasparoni N, Gasparoni G, Gianmoena K, Cadenas C, Polansky JK, Ebert P, Nordström K, Barann M, Sinha A, Fröhler S, Xiong J, Dehghani Amirabad A, Behjati Ardakani F, Hutter B, Zipprich G, Felder B, Eils J, Brors B, Chen W, Hengstler JG, Hamann A, Lengauer T, Rosenstiel P, Walter J, Schulz MH. Schmidt F, et al. Among authors: gasparoni n. Nucleic Acids Res. 2017 Jan 9;45(1):54-66. doi: 10.1093/nar/gkw1061. Epub 2016 Nov 29. Nucleic Acids Res. 2017. PMID: 27899623 Free PMC article.
Integrative analysis of single-cell expression data reveals distinct regulatory states in bidirectional promoters.
Behjati Ardakani F, Kattler K, Nordström K, Gasparoni N, Gasparoni G, Fuchs S, Sinha A, Barann M, Ebert P, Fischer J, Hutter B, Zipprich G, Imbusch CD, Felder B, Eils J, Brors B, Lengauer T, Manke T, Rosenstiel P, Walter J, Schulz MH. Behjati Ardakani F, et al. Among authors: gasparoni n. Epigenetics Chromatin. 2018 Nov 10;11(1):66. doi: 10.1186/s13072-018-0236-7. Epigenetics Chromatin. 2018. PMID: 30414612 Free PMC article.
Unique and assay specific features of NOMe-, ATAC- and DNase I-seq data.
Nordström KJV, Schmidt F, Gasparoni N, Salhab A, Gasparoni G, Kattler K, Müller F, Ebert P, Costa IG; DEEP consortium; Pfeifer N, Lengauer T, Schulz MH, Walter J. Nordström KJV, et al. Among authors: gasparoni n. Nucleic Acids Res. 2019 Nov 18;47(20):10580-10596. doi: 10.1093/nar/gkz799. Nucleic Acids Res. 2019. PMID: 31584093 Free PMC article.
Lasp1 regulates adherens junction dynamics and fibroblast transformation in destructive arthritis.
Beckmann D, Römer-Hillmann A, Krause A, Hansen U, Wehmeyer C, Intemann J, de Gorter DJJ, Dankbar B, Hillen J, Heitzmann M, Begemann I, Galic M, Weinhage T, Foell D, Ai R, Kremerskothen J, Kiener HP, Müller S, Kamradt T, Schröder C, Leitão E, Horsthemke B, Rosenstiel P, Nordström K, Gasparoni G, Gasparoni N, Walter J, Li N, Yang X, Chung HR, Pavenstädt H, Lindemann N, Schnittler HJ, Wang W, Firestein GS, Pap T, Korb-Pap A. Beckmann D, et al. Among authors: gasparoni n. Nat Commun. 2021 Jun 15;12(1):3624. doi: 10.1038/s41467-021-23706-8. Nat Commun. 2021. PMID: 34131132 Free PMC article.
Epigenomic and transcriptional profiling identifies impaired glyoxylate detoxification in NAFLD as a risk factor for hyperoxaluria.
Gianmoena K, Gasparoni N, Jashari A, Gabrys P, Grgas K, Ghallab A, Nordström K, Gasparoni G, Reinders J, Edlund K, Godoy P, Schriewer A, Hayen H, Hudert CA, Damm G, Seehofer D, Weiss TS, Boor P, Anders HJ, Motrapu M, Jansen P, Schiergens TS, Falk-Paulsen M, Rosenstiel P, Lisowski C, Salido E, Marchan R, Walter J, Hengstler JG, Cadenas C. Gianmoena K, et al. Among authors: gasparoni n. Cell Rep. 2021 Aug 24;36(8):109526. doi: 10.1016/j.celrep.2021.109526. Cell Rep. 2021. PMID: 34433051 Free article.
Alterations in the hepatocyte epigenetic landscape in steatosis.
Maji RK, Czepukojc B, Scherer M, Tierling S, Cadenas C, Gianmoena K, Gasparoni N, Nordström K, Gasparoni G, Laggai S, Yang X, Sinha A, Ebert P, Falk-Paulsen M, Kinkley S, Hoppstädter J, Chung HR, Rosenstiel P, Hengstler JG, Walter J, Schulz MH, Kessler SM, Kiemer AK. Maji RK, et al. Among authors: gasparoni n. Epigenetics Chromatin. 2023 Jul 6;16(1):30. doi: 10.1186/s13072-023-00504-8. Epigenetics Chromatin. 2023. PMID: 37415213 Free PMC article.