-
Baranasic, Damir; Oppermann, Timo; Cheaib, Miriam; Cullum, John; Schmidt, Helmut; Simon, Martin | Genomic Characterization of Variable Surface Antigens Reveals a Telomere Position Effect as a Prerequisite for RNA Interference-Mediated Silencing in <i>Paramecium tetraurelia</i> // mBio, 5 (2014), 6; e01328-14, 16. doi: 10.1128/mbio.01328-14
doi
-
Khan, Aziz; Fornes, Oriol; Stigliani, Arnaud; Gheorghe, Marius; Castro-Mondragon, Jaime A; van der Lee, Robin; Bessy, Adrien; Chèneby, Jeanne; Kulkarni, Shubhada R; Tan, Ge et al. | JASPAR 2018: update of the open-access database of transcription factor binding profiles and its web framework // Nucleic acids research, 46 (2017), D1; D1284-D1284. doi: 10.1093/nar/gkx1188
doi
-
Miranda, Antonio M. A.; McAllan, Liam; Mazzei, Guianfranco; Andrew, Ivan; Davies, Iona; Ertugrul, Meryem; Kenkre, Julia; Kudo, Hiromi; Carrelha, Joana; Patel, Bhavik et al. | Selective remodelling of the adipose niche in obesity and weight loss // Nature, 644 (2025), 8077; 769-779. doi: 10.1038/s41586-025-09233-2
doi
-
Naseer, Shahmir; Clark, Thomas C; Collet, Bertrand; Dewari, Pooran; Baranasic, Damir; Macqueen, Daniel J; Boudinot, Pierre; Martin, Samuel A.M. | Genomic regulatory landscape underlying the antiviral response of Atlantic salmon // Genome research, gr.280579.125 (2025), -; 1-47. doi: 10.1101/gr.280579.125
doi
-
Ovek Baydar, Damla; Rauluseviciute, Ieva; Aronsen, Dina R; Blanc-Mathieu, Romain; Bonthuis, Ine; de Beukelaer, Herman; Ferenc, Katalin; Jegou, Alice; Kumar, Vipin; Lemma, Roza Berhanu et al. | JASPAR 2026: expansion of transcription factor binding profiles and integration of deep learning models // Nucleic acids research, gkaf1209 (2025), gkaf1209; gkaf1209, 10. doi: 10.1093/nar/gkaf1209
doi
-
Amblard, Irène; Baranašić, Damir; Xie, Sheila Q.; Moyon, Benjamin; Percharde, Michelle; Lenhard, Boris; Metzis, Vicki | A dual enhancer-attenuator element ensures transient Cdx2 expression during mouse posterior body formation // Developmental cell, 60 (2025), 18; 2407-2419.e6. doi: 10.1016/j.devcel.2025.06.006
doiwww.cell.comwww.sciencedirect.comfulir.irb.hr
-
Phan, Mai H. Q.; Zehnder, Tobias; Puntieri, Fiona; Magg, Andreas; Majchrzycka, Blanka; Antonović, Milan; Wieler, Hannah; Lo, Bai-Wei; Baranašić, Damir; Lenhard, Boris et al. | Conservation of regulatory elements with highly diverged sequences across large evolutionary distances // Nature genetics, 57 (2025), 6; 1524-1534. doi: 10.1038/s41588-025-02202-5
doiwww.nature.comfulir.irb.hr
-
Fornes, Oriol; Castro-Mondragon, Jaime A; Khan, Aziz; van der Lee, Robin; Zhang, Xi; Richmond, Phillip A; Modi, Bhavi P; Correard, Solenne; Gheorghe, Marius; Baranašić, Damir et al. | JASPAR 2020: update of the open-access database of transcription factor binding profiles // Nucleic acids research, 48 (2019), D1; D87-D92. doi: 10.1093/nar/gkz1001
doiacademic.oup.comacademic.oup.com
-
Castro-Mondragon, Jaime A; Riudavets-Puig, Rafael; Rauluseviciute, Ieva; Berhanu Lemma, Roza; Turchi, Laura; Blanc-Mathieu, Romain; Lucas, Jeremy; Boddie, Paul; Khan, Aziz; Manosalva Pérez, Nicolás et al. | JASPAR 2022: the 9th release of the open-access database of transcription factor binding profiles // Nucleic acids research, 50 (2021), D1; D165-D173. doi: 10.1093/nar/gkab1113
doiacademic.oup.comacademic.oup.com
-
Slemc, Lucija; Jakše, Jernej; Filisetti, Alessandro; Baranasic, Damir; Rodríguez-García, Antonio; Del Carratore, Francesco; Marino, Stefano Maria; Zucko, Jurica; Starcevic, Antonio; Šala, Martin et al. | Reference-Grade Genome and Large Linear Plasmid of Streptomyces rimosus: Pushing the Limits of Nanopore Sequencing // Microbiology spectrum, 10 (2022), 2; ---. doi: 10.1128/spectrum.02434-21
doijournals.asm.orgjournals.asm.org
-
Slemc, Lucija; Jakše, Jernej; Filisetti, Alessandro; Baranasic, Damir; Rodríguez-García, Antonio; Del Carratore, Francesco; Marino, Stefano Maria; Zucko, Jurica; Starcevic, Antonio; Šala, Martin et al. | Reference-Grade Genome and Large Linear Plasmid of Streptomyces rimosus: Pushing the Limits of Nanopore Sequencing // Microbiology spectrum, 10 (2022), 2; ---. doi: 10.1128/spectrum.02434-21
doijournals.asm.orgjournals.asm.org
-
Baranasic, Damir; Hörtenhuber, Matthias; Balwierz, Piotr J.; Zehnder, Tobias; Mukarram, Abdul Kadir; Nepal, Chirag; Várnai, Csilla; Hadzhiev, Yavor; Jimenez-Gonzalez, Ada; Li, Nan et al. | Multiomic atlas with functional stratification and developmental dynamics of zebrafish cis-regulatory elements // Nature genetics, 54 (2022), 7; 1037-1050. doi: 10.1038/s41588-022-01089-w
doiwww.nature.comwww.nature.com
-
McAllan, Liam; Baranasic, Damir; Villicaña, Sergio; Brown, Scarlett; Zhang, Weihua; Lehne, Benjamin; Adamo, Marco; Jenkinson, Andrew; Elkalaawy, Mohamed; Mohammadi, Borzoueh et al. | Integrative genomic analyses in adipocytes implicate DNA methylation in human obesity and diabetes // Nature communications, 14 (2023), 1; 2784, 20. doi: 10.1038/s41467-023-38439-z
doiwww.nature.comwww.nature.com
-
Rauluseviciute, Ieva; Riudavets-Puig, Rafael; Blanc-Mathieu, Romain; Castro-Mondragon, Jaime A; Ferenc, Katalin; Kumar, Vipin; Lemma, Roza Berhanu; Lucas, Jérémy; Chèneby, Jeanne; Baranasic, Damir et al. | JASPAR 2024: 20th anniversary of the open-access database of transcription factor binding profiles // Nucleic acids research, 52 (2023), D1; D174-D182. doi: 10.1093/nar/gkad1059
doiacademic.oup.comfulir.irb.hr
-
Baranašić, Damir ; Zucko, Jurica ; Diminic, Janko ; Gacesa, Ranko ; Long, F Paul ; Cullum, John ; Hranueli, Daslav ; Starcevic, Antonio | Prediction of the substrate specificity of adenylation domains of non-ribosomal peptide synthetases and other protein properties by latent semantic indexing // Journal of industrial microbiology & biotechnology, 41 (2013), 2; 461-467. doi: 10.1007/s10295-013-1322-2
doi
-
Blažić, Marko ; Starčević, Antonio ; Lisfi, Mohamed ; Baranašić, Damir ; Goranovič, Dušan ; Fujs, Štefan ; Kuščer, Enej ; Kosec, Gregor ; Petković, Hrvoje ; Cullum, John et al. | Annotation of the modular polyketide synthase and nonribosomal peptide synthetase gene clusters in the genome of Streptomyces tsukubaensis NRRL18488 // Applied and environmental microbiology, 78 (2012), 23; 8183-8190. doi: 10.1128/AEM.01891-12
doiaem.asm.orgaem.asm.org