Bruggmann, Rémy

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Barreto de Albuquerque, Juliana; Altenburger, Lukas M; Abe, Jun; von Werdt, Diego; Wissmann, Stefanie; Martínez Magdaleno, Jose; Francisco, David; van Geest, Geert; Ficht, Xenia; Iannacone, Matteo; Bruggmann, Remy; Mueller, Christoph; Stein, Jens V (2022). Microbial uptake in oral mucosa-draining lymph nodes leads to rapid release of cytotoxic CD8+ T cells lacking a gut-homing phenotype. Science immunology, 7(72), eabf1861. American Association for the Advancement of Science 10.1126/sciimmunol.abf1861

Ryser, Lorenz Timo; Arias-Roth, Emmanuelle; Berthoud, Hélène; Delbès-Paus, Céline; Chassard, Christophe; Bruggmann, Rémy; Imler, Stefan (2022). Cadaverine, putrescine, and histamine formation of Morganella morganii in raclette-type cheese. International dairy journal, 129, p. 105362. Elsevier 10.1016/j.idairyj.2022.105362

Walter, Justin D; Scherer, Melanie; Hutter, Cedric A J; Garaeva, Alisa A; Zimmermann, Iwan; Wyss, Marianne; Rheinberger, Jan; Ruedin, Yelena; Earp, Jennifer C; Egloff, Pascal; Sorgenfrei, Michèle; Hürlimann, Lea M; Gonda, Imre; Meier, Gianmarco; Remm, Sille; Thavarasah, Sujani; van Geest, Geert; Bruggmann, Rémy; Zimmer, Gert; Slotboom, Dirk J; ... (2022). Biparatopic sybodies neutralize SARS-CoV-2 variants of concern and mitigate drug resistance. EMBO reports, 23(4), e54199. EMBO press 10.15252/embr.202154199

Marchetti, Luca; Francisco, David; Soldati, Sasha; Haghayegh Jahromi, Neda; Barcos, Sara; Gruber, Isabelle; Pareja R., Javier; Thiriot, Aude; von Andrian, Ulrich; Deutsch, Urban; Lyck, Ruth; Bruggmann, Rémy; Engelhardt, Britta (2022). ACKR1 favors transcellular over paracellular T-cell diapedesis across the blood-brain barrier in neuroinflammation in vitro. European journal of immunology, 52(1), pp. 161-177. Wiley 10.1002/eji.202149238

García-Martín, Ana Bélen; Roder, Thomas; Schmitt, Sarah; Zeeh, Friederike; Bruggmann, Rémy; Perreten, Vincent (2022). Whole-genome analyses reveal a novel prophage and cgSNPs-derived sublineages of Brachyspira hyodysenteriae ST196. BMC Genomics, 23(1), p. 131. BioMed Central 10.1186/s12864-022-08347-5


Hashemi Gheinani, Ali; Akshay, Akshay; Besic, Mustafa; Kuhn, Annette; Keller, Irene; Bruggmann, Rémy; Rehrauer, Hubert; Adam, Rosalyn M; Burkhard, Fiona C.; Monastyrskaya, Katia (2021). Integrated mRNA-miRNA transcriptome analysis of bladder biopsies from patients with bladder pain syndrome identifies signaling alterations contributing to the disease pathogenesis. BMC urology, 21(1), p. 172. BMC 10.1186/s12894-021-00934-0

Ryser, Lorenz Timo; Arias-Roth, Emmanuelle; Perreten, Vincent; Irmler, Stefan; Bruggmann, Rémy (2021). Genetic and Phenotypic Diversity of Morganella morganii Isolated From Cheese. Frontiers in Microbiology, 12(738492), p. 738492. Frontiers 10.3389/fmicb.2021.738492

Hallal, Mahmoud Malek; Braga-Lagache, Sophie; Jankovic, Jovana; Simillion, Cedric; Bruggmann, Rémy; Uldry, Anne-Christine; Allam, Ramanjaneyulu; Heller, Manfred; Bonadies, Nicolas (2021). Inference of kinase-signaling networks in human myeloid cell line models by Phosphoproteomics using kinase activity enrichment analysis (KAEA). BMC cancer, 21(1), p. 789. BioMed Central 10.1186/s12885-021-08479-z

Yang, Zhang; Liang, Shun-Qing; Yang, Haitang; Xu, Duo; Bruggmann, Rémy; Gao, Yanyun; Deng, Haibin; Berezowska, Sabina; Hall, Sean R R; Marti, Thomas M; Kocher, Gregor J; Zhou, Qinghua; Schmid, Ralph A; Peng, Ren-Wang (2021). CRISPR-Mediated Kinome Editing Prioritizes a Synergistic Combination Therapy for FGFR1-Amplified Lung Cancer. Cancer research, 81(11), pp. 3121-3133. American Association for Cancer Research AACR 10.1158/0008-5472.CAN-20-2276

Xu, Duo; Liang, Shun-Qing; Yang, Zhang; Yang, Haitang; Bruggmann, Rémy; Oberhaensli, Simone; Berezowska, Sabina; Marti, Thomas M; Hall, Sean R R; Dorn, Patrick; Kocher, Gregor J; Schmid, Ralph A; Peng, Ren-Wang (2021). Malignant pleural mesothelioma co-opts BCL-XL and autophagy to escape apoptosis. Cell death & disease, 12(4), p. 406. Nature Publishing Group 10.1038/s41419-021-03668-x

Werren, Joel P.; Troxler, Lukas J.; Oyewole, Oluwaseun Rume-Abiola; Ramette, Alban; Brugger, Silvio D.; Bruggmann, Rémy; van der Linden, Mark; Nahm, Moon H.; Gjuroski, Ilche; Casanova, Carlo; Furrer, Julien; Hilty, Markus (2021). Carbon Source-Dependent Changes of the Structure of Streptococcus pneumoniae Capsular Polysaccharide with Serotype 6F. International journal of molecular sciences, 22(9) MDPI 10.3390/ijms22094580

Valente, Luca G.; Pitton, Melissa; Fürholz, Monika; Oberhaensli, Simone; Bruggmann, Rémy; Leib, Stephen L.; Jakob, Stephan M.; Resch, Grégory; Que, Yok-Ai; Cameron, David R. (2021). Isolation and characterization of bacteriophages from the human skin microbiome that infect Staphylococcus epidermidis. FEMS Microbes, 2 Oxford University Press 10.1093/femsmc/xtab003


Muri, Lukas; Oberhänsli, Simone; Buri, Michelle; Le, Ngoc Dung; Grandgirard, Denis; Bruggmann, Rémy; Müri, René M.; Leib, Stephen L. (2020). Repetitive transcranial magnetic stimulation activates glial cells and inhibits neurogenesis after pneumococcal meningitis. PLoS ONE, 15(9), e0232863. Public Library of Science 10.1371/journal.pone.0232863

Riether, Carsten; Pabst, Thomas; Höpner, Sabine; Bacher, Ulrike; Hinterbrandner, Magdalena; Banz, Yara; Müller, Rouven; Manz, Markus G.; Gharib, Walid H.; Francisco, David; Bruggmann, Remy; van Rompaey, Luc; Moshir, Mahan; Delahaye, Tim; Gandini, Domenica; Erzeel, Ellen; Hultberg, Anna; Fung, Samson; de Haard, Hans; Leupin, Nicolas; ... (2020). Targeting CD70 with cusatuzumab eliminates acute myeloid leukemia stem cells in patients treated with hypomethylating agents. Nature medicine, 26(9), pp. 1459-1467. Springer Nature 10.1038/s41591-020-0910-8

Francisco, David M F; Marchetti, Luca; Rodríguez-Lorenzo, Sabela; Frías-Anaya, Eduardo; Figueiredo, Ricardo M; Winter, Peter; Romero, Ignacio Andres; de Vries, Helga E; Engelhardt, Britta; Bruggmann, Rémy (2020). Advancing brain barriers RNA sequencing: guidelines from experimental design to publication. Fluids and barriers of the CNS, 17(1), p. 51. BioMed Central 10.1186/s12987-020-00207-2

Heymans, Marjolein; Figueiredo, Ricardo; Dehouck, Lucie; Francisco, David; Sano, Yasuteru; Shimizu, Fumitaka; Kanda, Takashi; Bruggmann, Rémy; Engelhardt, Britta; Winter, Peter; Gosselet, Fabien; Culot, Maxime (2020). Contribution of brain pericytes in blood-brain barrier formation and maintenance: a transcriptomic study of cocultured human endothelial cells derived from hematopoietic stem cells. Fluids and barriers of the CNS, 17(1), p. 48. BioMed Central 10.1186/s12987-020-00208-1

Roder, Thomas; Wüthrich, Daniel; Bär, Cornelia; Sattari, Zahra; Ah, Ueli von; Ronchi, Francesca; Macpherson, Andrew; Ganal-Vonarburg, Stephanie C.; Bruggmann, Rémy; Vergères, Guy (2020). In Silico Comparison Shows that the Pan-Genome of a Dairy-Related Bacterial Culture Collection Covers Most Reactions Annotated to Human Microbiomes. Microorganisms, 8(7) MDPI 10.3390/microorganisms8070966

Machado, Ricardo A. R.; Thönen, Lisa; Arce, Carla C. M.; Theepan, Vanitha; Prada, Fausto; Wüthrich, Daniel; Robert, Christelle A. M.; Vogiatzaki, Evangelia; Shi, Yi-Ming; Schaeren, Olivier P.; Notter, Matheus; Bruggmann, Rémy; Hapfelmeier, Siegfried; Bode, Helge B.; Erb, Matthias (2020). Engineering bacterial symbionts of nematodes improves biocontrol potential of the western corn rootworm. Nature biotechnology, 38(5), pp. 600-608. Nature America 10.1038/s41587-020-0419-1

Xu, Duo; Shun-Qing, Liang; Yang, Haitang; Bruggmann, Rémy; Berezowska, Sabina; Zhang, Yang; Marti, Thomas; Hall, Sean Ralph Robert; Gao, Yanyun; Kocher, Gregor J.; Schmid, Ralph A.; Peng, Ren-Wang (2020). CRISPR screening identifies WEE1 as a combination target for standard chemotherapy in malignant pleural mesothelioma. Molecular cancer therapeutics, 19(2), pp. 661-672. American Association for Cancer Research AACR 10.1158/1535-7163.MCT-19-0724

Cvitas, Iva; Oberhänsli, Simone; Leeb, Tosso; Dettwiler, Martina; Müller, Eliane Jasmine; Bruggmann, Rémy; Marti, Eliane Isabelle (2020). Investigating the epithelial barrier and immune signatures in the pathogenesis of equine insect bite hypersensitivity. PLoS ONE, 15(4), e0232189. Public Library of Science 10.1371/journal.pone.0232189

Mc Gee, Matthew D.; Borstein, Samuel R.; Meier, Joana I.; Marques, David A.; Mwaiko, Salome; Taabu, Anthony; Kishe, Mary A.; O’Meara, Brian; Bruggmann, Rémy; Excoffier, Laurent; Seehausen, Ole (2020). The ecological and genomic basis of explosive adaptive radiation. Nature, 586(7827), pp. 75-79. Springer Nature 10.1038/s41586-020-2652-7

Auray, Gael; Talker, Stephanie; Keller, Irene; Python, Sylvie; Gerber, Markus; Liniger, Matthias; Ganges, Llilianne; Bruggmann, Rémy; Ruggli, Nicolas; Summerfield, Artur (2020). High-Resolution Profiling of Innate Immune Responses by Porcine Dendritic Cell Subsets in vitro and in vivo. Frontiers in immunology, 11, p. 1429. Frontiers Research Foundation 10.3389/fimmu.2020.01429

Barut, G. Tuba; Lischer, Heidi E. L.; Bruggmann, Rémy; Summerfield, Artur; Talker, Stephanie C. (2020). Transcriptomic profiling of bovine blood dendritic cells and monocytes following TLR stimulation. European journal of immunology, 50(11), pp. 1691-1711. Wiley-VCH 10.1002/eji.202048643


Brunet Avalos, Clarisse; Maier, G Larisa; Bruggmann, Rémy; Sprecher, Simon G (2019). Single cell transcriptome atlas of the Drosophila larval brain. eLife, 8 eLife Sciences Publications 10.7554/eLife.50354

Troxler, Lukas J.; Werren, Joel P.; Schaffner, Thierry O.; Mostacci, Nadezda; Vermathen, Peter; Vermathen, Martina; Wüthrich, Daniel; Simillion, Cedric; Brugger, Silvio D.; Bruggmann, Rémy; Hathaway, Lucy J.; Furrer, Julien; Hilty, Markus (2019). Carbon source regulates polysaccharide capsule biosynthesis in Streptococcus pneumoniae. Journal of biological chemistry, 294(46), pp. 17224-17238. American Society for Biochemistry and Molecular Biology 10.1074/jbc.RA119.010764

Liechti, Nicole; Schürch, Nadia; Bruggmann, Rémy; Wittwer, Matthias (2019). Nanopore sequencing improves the draft genome of the human pathogenic amoeba Naegleria fowleri. Scientific reports, 9(16040), pp. 1-10. Springer Nature 10.1038/s41598-019-52572-0

Radpour, Ramin; Riether, Carsten; Simillion, Cedric; Höpner, Sabine; Bruggmann, Rémy; Ochsenbein, Adrian (2019). CD8+ T cells expand stem and progenitor cells in favorable but not adverse risk acute myeloid leukemia. Leukemia, 33(10), pp. 2379-2392. Nature Publishing Group 10.1038/s41375-019-0441-9

Castro Dias, Mariana; Coisne, Caroline; Lazarevic, Ivana; Baden, Pascale; Hata, Masaki; Iwamoto, Noriko; Ferreira Francisco, David Miguel; Vanlandewijck, Michael; He, Liqun; Baier, Felix A.; Stroka, Deborah; Bruggmann, Rémy; Lyck, Ruth; Enzmann, Gaby; Deutsch, Urban; Betsholtz, Christer; Furuse, Mikio; Tsukita, Shoichiro; Engelhardt, Britta (2019). Publisher Correction: Claudin-3-deficient C57BL/6J mice display intact brain barriers. Scientific reports, 9(1), p. 10702. Springer Nature 10.1038/s41598-019-43511-0

Machado, Ricardo A. R.; Bruno, Pamela; Arce, Carla C. M.; Liechti, Nicole; Köhler, Angela; Bernal, Julio; Bruggmann, Rémy; Turlings, Ted C. J. (2019). Photorhabdus khanii subsp. guanajuatensis subsp. nov., isolated from Heterorhabditis atacamensis, and Photorhabdus luminescens subsp. mexicana subsp. nov., isolated from Heterorhabditis mexicana entomopathogenic nematodes. International journal of systematic and evolutionary microbiology, 69(3), pp. 652-661. Society for General Microbiology SGM 10.1099/ijsem.0.003154

Frazão, Josias B; Colombo, Martino; Simillion, Cedric; Bilican, Adem; Keller, Irene; Wüthrich, Daniel; Zhu, Zhiqing; Okoniewski, Michal J; Bruggmann, Rémy; Condino-Neto, Antonio; Newburger, Peter E (2019). Gene expression in chronic granulomatous disease and interferon-γ receptor-deficient cells treated in vitro with interferon-γ. Journal of cellular biochemistry, 120(3), pp. 4321-4332. Wiley-Blackwell 10.1002/jcb.27718

Tièche, Colin; Gao, Yanyun; Bührer, Elias; Hobi, Nina; Berezowska, Sabina Anna; Wyler, Kurt; Froment, Laurène; Weis, Stefan; Peng, Ren-Wang; Bruggmann, Rémy; Schär, Primo; Amrein, Michael Alex; Hall, Sean; Dorn, Patrick; Kocher, Gregor; Riether, Carsten; Ochsenbein, Adrian; Schmid, Ralph; Marti, Thomas (2019). Tumor Initiation Capacity and Therapy Resistance Are Differential Features of EMT-Related Subpopulations in the NSCLC Cell Line A549. Neoplasia, 21(2), pp. 185-196. Elsevier 10.1016/j.neo.2018.09.008

Mota Castro Dias, Mariana; Coisne, Caroline Marie; Lazarevic, Ivana; Baden, Pascale; Hata, Masaki; Iwamoto, Noriko; Francisco, David Miguel Ferreira; Vanlandewijck, Michael; He, Liqun; Baier, Felix Alexander; Keogh-Stroka, Deborah M.; Bruggmann, Rémy; Lyck, Ruth; Enzmann, Gaby; Deutsch, Urban; Betsholtz, Christer; Furuse, Mikio; Tsukita, Shoichiro; Engelhardt, Britta (2019). Claudin-3-deficient C57BL/6J mice display intact brain barriers. Scientific Reports, 9(1), p. 203. Nature Publishing Group 10.1038/s41598-018-36731-3

V'kovski, Philip; Gerber, Markus; Kelly, Jenna Nicole; Pfänder, Stephanie; Ebert, Nadine; Braga Lagache, Sophie; Simillion, Cedric; Portmann, Jasmine; Stalder, Hanspeter; Gaschen, Véronique; Bruggmann, Rémy; Stoffel, Michael Hubert; Heller, Manfred; Dijkman, Ronald; Thiel, Volker Earl (2019). Determination of host proteins composing the microenvironment of coronavirus replicase complexes by proximity-labeling. eLife, 8 eLife Sciences Publications 10.7554/eLife.42037

Burkhard, Regula; Keller, Irene; Arambasic, Miroslav; Juskevicius, Darius; Tzankov, Alexandar; Lundberg, Pontus; Bruggmann, Rémy; Dirnhofer, Stephan; Radpour, Ramin; Novak, Urban (2019). TIRAP p.R81C is a novel lymphoma risk variant which enhances cell proliferation via NF-κB mediated signaling in B-cells. Haematologica - the hematology journal, 104(4), pp. 766-777. Ferrata-Storti Foundation 10.3324/haematol.2018.201590

Matthijs, Anneleen M F; Auray, Gael; Jakob, Virginie; Garcia-Nicolas, Obdulio; Braun, Roman O.; Keller, Irene; Bruggmann, Rémy; Devriendt, Bert; Boyen, Filip; Guzman, Carlos A; Michiels, Annelies; Haesebrouck, Freddy; Collin, Nicolas; Barnier-Quer, Christophe; Maes, Dominiek; Summerfield, Artur (2019). Systems Immunology Characterization of Novel Vaccine Formulations for Mycoplasma hyopneumoniae Bacterins. Frontiers in immunology, 10(1087), p. 1087. Frontiers Research Foundation 10.3389/fimmu.2019.01087

Sande-Melón, Marcos; Marques, Inês J.; Galardi-Castilla, María; Langa, Xavier; Pérez-López, María; Botos, Marius-Alexandru; Sánchez-Iranzo, Héctor; Guzmán-Martínez, Gabriela; Ferreira Francisco, David Miguel; Pavlinic, Dinko; Benes, Vladimir; Bruggmann, Rémy; Mercader Huber, Nadia Isabel (2019). Adult sox10+ Cardiomyocytes Contribute to Myocardial Regeneration in the Zebrafish. Cell reports, 29(4), pp. 1041-1054. Cell Press 10.1016/j.celrep.2019.09.041

Braun, Roman Othmar; Brunner, Livia; Wyler, Kurt; Auray, Gael; Garcia Nicolas, Obdulio; Python, Sylvie; Zumkehr, Beatrice; Gaschen, Veronique; Stoffel, Michael Hubert; Collin, Nicolas; Barnier-Quer, Christophe; Bruggmann, Rémy; Summerfield, Artur (2019). Erratum: Author Correction: System immunology-based identification of blood transcriptional modules correlating to antibody responses in sheep. npj vaccines, 4(10), p. 10. Nature Publishing Group 10.1038/s41541-019-0100-1


Riether, Carsten; Pabst, Thomas; Höpner, Sabine; Bacher, Vera; Hinterbrandner, Magdalena; Banz, Yara; Müller, Rouven; Manz, Markus G.; Gharib, Walid H.; Ferreira, David; Bruggmann, Remy; Van Rompaey, Luc; Moshir, Mahan; Delahaye, Tim; Gandini, Domenica; Erzeel, Ellen; Hultberg, Anna; Fung, Samson; De Haard, Hans; Leupin, Nicolas; ... (2 December 2018). 2680 Argx-110 Targeting CD70, in Combination with Azacitidine, Shows Favorable Safety Profile and Promising Anti-Leukemia Activity in Newly Diagnosed AML Patients in an Ongoing Phase 1/2 Clinical Trial (Unpublished). In: ASCO 2018. 2. Dezember 2018.

Talker, Stephanie; Baumann, Arnaud; Barut, Güliz Tuba; Keller, Irene; Bruggmann, Rémy; Summerfield, Artur (2018). Precise Delineation and Transcriptional Characterization of Bovine Blood Dendritic-Cell and Monocyte Subsets. Frontiers in immunology, 9(2505), p. 2505. Frontiers Research Foundation 10.3389/fimmu.2018.02505

Braun, Roman Othmar; Brunner, Livia; Wyler, Kurt; Auray, Gael; Garcia Nicolas, Obdulio; Python, Sylvie; Zumkehr, Beatrice; Gaschen, Véronique; Stoffel, Michael Hubert; Collin, Nicolas; Barnier-Quer, Christophe; Bruggmann, Rémy; Summerfield, Artur (2018). System immunology-based identification of blood transcriptional modules correlating to antibody responses in sheep. npj vaccines, 3(41), p. 41. Nature Publishing Group 10.1038/s41541-018-0078-0

Schmid, Marc W.; Heichinger, Christian; Coman Schmid, Diana; Guthörl, Daniela; Gagliardini, Valeria; Bruggmann, Rémy; Aluri, Sirisha; Aquino, Catharine; Schmid, Bernhard; Turnbull, Lindsay A.; Grossniklaus, Ueli (2018). Contribution of epigenetic variation to adaptation in Arabidopsis. Nature communications, 9(1), p. 4446. Nature Publishing Group 10.1038/s41467-018-06932-5

Lüdin, Petra; Roetschi, Alexandra; Wüthrich, Daniel; Bruggmann, Rémy; Berthoud, Hélène; Shani, Noam (2018). Update on Tetracycline Susceptibility of Pediococcus acidilactici Based on Strains Isolated from Swiss Cheese and Whey. Journal of food protection, 81(10), pp. 1582-1589. International Association for Food Protection 10.4315/0362-028X.JFP-18-160

V'kovski, Philip; Gerber, M; Kelly, Jenna Nicole; Pfänder, Stephanie; Ebert, Nadine; Braga, Sophie Marie-Pierre; Simillion, Cedric André Marie; Portmann, Jasmine; Stalder, Hanspeter; Gaschen, Véronique; Bruggmann, Rémy; Stoffel, Michael Hubert; Heller, Manfred; Dijkman, Ronald; Thiel, Volker Earl (14 September 2018). Determination of host cell proteins constituting the molecular microenvironment of coronavirus replicase complexes by proximity-labeling (bioRxiv). Cold Spring Harbor Laboratory 10.1101/417907

Liechti, Nicole; Schürch, Nadia; Bruggmann, Rémy; Wittwer, Matthias (2018). The genome of Naegleria lovaniensis, the basis for a comparative approach to unravel pathogenicity factors of the human pathogenic amoeba N. fowleri. BMC Genomics, 19(1), p. 654. BioMed Central 10.1186/s12864-018-4994-1

Brauchle, Michael Anton; Bilican, Adem; Eyer, Claudia; Bailly, X; Martinez, P; Ladurner, P; Bruggmann, Rémy; Sprecher, SG (2018). Xenacoelomorpha Survey Reveals That All 11 Animal Homeobox Gene Classes Were Present in the First Bilaterians. Genome biology and evolution, 10(9), pp. 2205-2217. Oxford University Press 10.1093/gbe/evy170

Machado, Ricardo A. R.; Wüthrich, Daniel; Kuhnert, Peter; Arce, Carla C. M.; Thönen, Lisa; Ruiz, Celia; Zhang, Xi; Robert, Christelle A. M.; Karimi, Javad; Kamali, Shokoofeh; Ma, Juan; Bruggmann, Rémy; Erb, Matthias (2018). Whole-genome-based revisit of Photorhabdus phylogeny: proposal for the elevation of most Photorhabdus subspecies to the species level and description of one novel species Photorhabdus bodei sp. nov., and one novel subspecies Photorhabdus laumondii subsp. clarkei subsp. nov. International journal of systematic and evolutionary microbiology, 68(8), pp. 2664-2681. Society for General Microbiology SGM 10.1099/ijsem.0.002820

Koeck, Ivonne; Hashemi Gheinani, Ali; Baumgartner, Ulrich; Vassella, Erik; Bruggmann, Rémy; Burkhard, Fiona C.; Monastyrskaya, Katia (2018). Tumor Necrosis Factor-α Initiates miRNA-mRNA Signaling Cascades in Obstruction-Induced Bladder Dysfunction. The American journal of pathology, 188(8), pp. 1847-1864. Elsevier 10.1016/j.ajpath.2018.05.008

Widmer, Yves F.; Bilican, Adem; Bruggmann, Rémy; Sprecher, Simon G. (2018). Regulators of Long-Term Memory Revealed by Mushroom Body-Specific Gene Expression Profiling in Drosophila melanogaster. Genetics, 209(4), pp. 1167-1181. Genetics Society of America 10.1534/genetics.118.301106

Xu, Duo; Shun-Qing, Liang; Yang, Haitang; Lüthi, Ursina; Riether, Carsten; Berezowska, Sabina Anna; Marti, Thomas; Hall, Sean; Bruggmann, Rémy; Kocher, Gregor; Schmid, Ralph; Peng, Ren-Wang (2018). Increased sensitivity to apoptosis upon endoplasmic reticulum stress-induced activation of the unfolded protein response in chemotherapy-resistant malignant pleural mesothelioma. British journal of cancer, 119(1), pp. 65-75. Nature Publishing Group 10.1038/s41416-018-0145-3

Oechslin, Corinne Pia; Lenz, Nicole; Liechti, Nicole; Ryter, Sarah; Agyeman, Philipp; Bruggmann, Rémy; Leib, Stephen; Beuret, Christian M (2018). Limited Correlation of Shotgun Metagenomics Following Host Depletion and Routine Diagnostics for Viruses and Bacteria in Low Concentrated Surrogate and Clinical Samples. Frontiers in cellular and infection microbiology, 8(375), p. 375. Frontiers 10.3389/fcimb.2018.00375

Wüthrich, Daniel; Irmler, Stefan; Berthoud, Hélène; Guggenbuhl, Barbara; Eugster, Elisabeth; Bruggmann, Rémy (2018). Conversion of Methionine to Cysteine in Lactobacillus paracasei Depends on the Highly Mobile cysK-ctl-cysE Gene Cluster. Frontiers in Microbiology, 9(2415) Frontiers 10.3389/fmicb.2018.02415

Wüthrich, Daniel; Wenzel, Claudia; Bavan, Tharmatha; Bruggmann, Rémy; Berthoud, Hélène; Irmler, Stefan (2018). Transcriptional Regulation of Cysteine and Methionine Metabolism in Lactobacillus paracasei FAM18149. Frontiers in Microbiology, 9(1261) Frontiers 10.3389/fmicb.2018.01261


Mager, Lukas Franz; Kölzer, Viktor Hendrik; Stuber Roos, Regula; Thoo Sin Lang, Lester; Keller, Irene; Köck, Ivonne; Langenegger, Maya; Simillion, Cedric; Pfister, Simona P; Faderl, Martin Richard; Genitsch Gratwohl, Vera; Tcymbarevich, Irina; Juillerat, Pascal; Li, Xiaohong; Xia, Yu; Karamitopoulou, Evanthia; Lyck, Ruth; Zlobec, Inti; Hapfelmeier, Siegfried Hektor; Bruggmann, Rémy; ... (2017). The ESRP1-GPR137 axis contributes to intestinal pathogenesis. eLife, 6 eLife Sciences Publications 10.7554/eLife.28366

Plüss, Michel; Kopps, Anna M; Keller, Irene; Meienberg, Janine; Caspar, Sylvan M; Dubacher, Nicolo; Bruggmann, Rémy; Vogel, Manfred; Matyas, Gabor (2017). Need for speed in accurate whole-genome data analysis: GENALICE MAP challenges BWA/GATK more than PEMapper/PECaller and Isaac. Proceedings of the National Academy of Sciences of the United States of America - PNAS, 114(40), E8320-E8322. National Academy of Sciences NAS 10.1073/pnas.1713830114

Bosshard, Lars; Dupanloup, Isabelle; Tenaillon, Olivier; Bruggmann, Rémy; Ackermann, Martin; Peischl, Stephan; Excoffier, Laurent (2017). Accumulation of Deleterious Mutations During Bacterial Range Expansions. Genetics, 207(2), pp. 669-684. Genetics Society of America 10.1534/genetics.117.300144

Boujon, Céline; Koch, Michel Christoph; Wüthrich, Daniel; Werder, Simea; Jakupovic, Dennis; Bruggmann, Rémy; Seuberlich, Torsten (2017). Indication of Cross-Species Transmission of Astrovirus Associated with Encephalitis in Sheep and Cattle. Emerging infectious diseases, 23(9), pp. 1604-1608. U.S. National Center for Infectious Diseases 10.3201/eid2309.170168

Truchet, Laura Rosyne Hedwig; Walland, Julia Gianna Marlene; Wüthrich, Daniel; Boujon, Céline; Posthaus, Horst; Bruggmann, Rémy; Schüpbach, Gertraud; Oevermann, Anna; Seuberlich, Torsten (2017). Neuropathological survey reveals underestimation of the prevalence of neuroinfectious diseases in cattle in Switzerland. Veterinary microbiology, 208, pp. 137-145. Elsevier 10.1016/j.vetmic.2017.07.027

Hashemi Gheinani, Ali; Kiss, Bernhard; Moltzahn, Felix Roman; Keller, Irene; Bruggmann, Rémy; Rehrauer, Hubert; Fournier, Catharine Aquino; Burkhard, Fiona C.; Monastyrskaya-Stäuber, Katia (2017). Characterization of miRNA-regulated networks, hubs of signaling, and biomarkers in obstruction-induced bladder dysfunction. JCI insight, 2(2), e89560. JCI Insight 10.1172/jci.insight.89560

Vazquez Pianzola, Maria Paula; Schaller, Bogdan; Colombo, Martino; Beuchle, Dirk; Neuenschwander, Samuel; Marcil, Anne; Bruggmann, Rémy; Suter, Beat (2017). The mRNA transportome of the BicD / Egl transport machinery. RNA biology, 14(1), pp. 73-89. Taylor and Francis 10.1080/15476286.2016.1251542

Colombo, Martino; Karousis, Evangelos D.; Bourquin, Joëll; Bruggmann, Rémy; Mühlemann, Oliver (2017). Transcriptome-wide identification of NMD-targeted human mRNAs reveals extensive redundancy between SMG6- and SMG7-mediated degradation pathways. RNA - a publication of the RNA Society, 23(2), pp. 189-201. Cold Spring Harbor Laboratory Press 10.1261/rna.059055.116

Simillion, Cedric André Marie; Liechti, Robin; Lischer, Heidi E.L.; Ioannidis, Vassilios; Bruggmann, Rémy (2017). Avoiding the pitfalls of gene set enrichment analysis with SetRank. BMC bioinformatics, 18(1), p. 151. BioMed Central 10.1186/s12859-017-1571-6

Wüthrich, Daniel; Berthoud, Hélène; Wechsler, Daniel; Eugster, Elisabeth; Irmler, Stefan; Bruggmann, Rémy (2017). The Histidine Decarboxylase Gene Cluster of Lactobacillus parabuchneri Was Gained by Horizontal Gene Transfer and Is Mobile within the Species. Frontiers in Microbiology, 8(218) Frontiers 10.3389/fmicb.2017.00218

Anikster, Yair; Haack, Tobias B.; Vilboux, Thierry; Pode-Shakked, Ben; Thöny, Beat; Shen, Nan; Guarani, Virginia; Meissner, Thomas; Mayatepek, Ertan; Trefz, Friedrich K.; Marek-Yagel, Dina; Martinez, Aurora; Huttlin, Edward L.; Paulo, Joao A.; Berutti, Riccardo; Benoist, Jean-François; Imbard, Apolline; Dorboz, Imen; Heimer, Gali; Landau, Yuval; ... (2017). Biallelic Mutations in DNAJC12 Cause Hyperphenylalaninemia, Dystonia, and Intellectual Disability. American journal of human genetics, 100(2), pp. 257-266. Cell Press 10.1016/j.ajhg.2017.01.002

Awasthi, Nivedita; Drögemüller, Cord; Jagannathan, Vidhya; Keller, Irene; Wüthrich, Daniel; Bruggmann, Rémy; Beck, Julia; Schütz, Ekkehard; Brenig, Bertram; Demmel, Steffi; Moser, Simon; Signer-Hasler, Heidi; Pieńkowska-Schelling, Aldona; Schelling, Claude; Sande Melon, Marcos; Rongen, Ronald; Rieder, Stefan; Kelsh, Robert N.; Mercader Huber, Nadia and Leeb, Tosso (2017). A structural variant in the 5’-flanking region of the TWIST2 gene affects melanocyte development in belted cattle. PLoS ONE, 12(6), e0180170. Public Library of Science 10.1371/journal.pone.0180170

Rashpa, Ravish; Vazquez Pianzola, Maria Paula; Colombo, Martino; Hernandez, Greco; Beuchle, Dirk; Berger, Fabienne Chantal; Peischl, Stephan; Bruggmann, Rémy; Suter, Beat (2017). Cbp80 is needed for the expression of piRNA components and piRNAs. PLoS ONE, 12(7), e0181743. Public Library of Science 10.1371/journal.pone.0181743

Moser, Aline; Wüthrich, Daniel; Bruggmann, Rémy; Eugster-Meier, Elisabeth; Meile, Leo; Irmler, Stefan (2017). Amplicon Sequencing of the slpH Locus Permits Culture-Independent Strain Typing of Lactobacillus helveticus in Dairy Products. Frontiers in Microbiology, 8(1380) Frontiers 10.3389/fmicb.2017.01380

Seuberlich, Torsten; Wüthrich, Daniel; Selimovic-Hamza, Senija; Drögemüller, Cord; Oevermann, Anna; Bruggmann, Remy; Bouzalas, Ilias (2017). Identification of a second encephalitis-associated astrovirus in cattle. Emerging Microbes & Infections, 6(1), p. 1. Nature Publishing Group 10.1038/emi.2017.56


Auray, Gael; Keller, Irene; Python, Sylvie; Gerber, Markus Daniel; Bruggmann, Rémy; Ruggli, Nicolas; Summerfield, Artur (2016). Characterization and Transcriptomic Analysis of Porcine Blood Conventional and Plasmacytoid Dendritic Cells Reveals Striking Species-Specific Differences. Journal of immunology, 197(12), pp. 4791-4806. American Association of Immunologists 10.4049/jimmunol.1600672

Storari, Michelangelo; Kulli, Sandra; Wüthrich, Daniel; Bruggmann, Rémy; Berthoud, Hélène; Arias-Roth, Emmanuelle (2016). Genomic approach to studying nutritional requirements of Clostridium tyrobutyricum and other Clostridia causing late blowing defects. Food microbiology, 59, pp. 213-223. Elsevier 10.1016/

Reber, Stefan; Stettler, Jolanda; Filosa, G.; Colombo, Martino; Jutzi, D.; Lenzken, S. C.; Schweingruber, Christoph; Bruggmann, Rémy; Bachi, A.; Barabino, S. M.; Mühlemann, Oliver; Ruepp, Marc-David (2016). Minor intron splicing is regulated by FUS and affected by ALS-associated FUS mutants. EMBO journal, 35(14), pp. 1504-1521. Nature Publishing Group 10.15252/embj.201593791

Bombarely, Aureliano; Moser, Michel; Amrad, Avichai Moshe; Bao, Manzhu; Bapaume, Laure; Barry, Cornelius S.; Bliek, Mattijs; Boersma, Maaike R.; Borghi, Lorenzo; Bruggmann, Rémy; Bucher, Marcel; D'Agostino, Nunzio; Davies, Kevin; Druege, Uwe; Dudareva, Natalia; Egea-Cortines, Marcos; Delledonne, Massimo; Fernandez-Pozo, Noe; Franken, Philipp; Grandont, Laurie; ... (2016). Insight into the evolution of the Solanaceae from the parental genomes of Petunia hybrida. Nature Plants, 2(6), p. 16074. Nature Publishing Group 10.1038/nplants.2016.74

van Giesen, Lena; Hernandez-Nunez, Luis; Delasoie-Baranek, Sophie; Colombo, Martino; Renaud, Philippe; Bruggmann, Rémy; Benton, Richard; Samuel, Aravinthan D T; Sprecher, Simon G (2016). Erratum: Multimodal stimulus coding by a gustatory sensory neuron in Drosophila larvae. Nature communications, 7(11028), p. 11028. Nature Publishing Group 10.1038/ncomms11028

Scheel, Troels K H; Luna, Joseph M; Liniger, Matthias; Nishiuchi, Eiko; Rozen-Gagnon, Kathryn; Shlomai, Amir; Auray, Gaël; Gerber, Markus; Fak, John; Keller, Irene; Bruggmann, Rémy; Darnell, Robert B; Ruggli, Nicolas; Rice, Charles M (2016). A Broad RNA Virus Survey Reveals Both miRNA Dependence and Functional Sequestration. Cell host & microbe, 19(3), pp. 409-423. Cell Press 10.1016/j.chom.2016.02.007

Meienberg, Janine; Bruggmann, Rémy; Oexle, Konrad; Matyas, Gabor (2016). Clinical sequencing: is WGS the better WES? Human genetics, 135(3), pp. 359-362. Springer 10.1007/s00439-015-1631-9

Seuberlich, Torsten; Wüthrich, Daniel; Selimovic-Hamza, Senija; Drögemüller, Cord; Oevermann, Anna; Bruggmann, Rémy; Bouzalas, Ilias (2016). Identification of a second encephalitis-associated astrovirus in cattle. Emerging Microbes & Infections, 5, e71. Nature Publishing Group 10.1038/emi.2016.5

Duart Garcia, Carolina; Plattet, Philippe; Bruggmann, Rémy; Simillion, Cedric André Marie; Irene, Keller; Göran, Andersson; Braunschweig, Martin (2016). Evidence for two protein coding transcripts at the Igf2as locus. Gene Reports, 4, pp. 60-66. Elsevier 10.1016/j.genrep.2016.04.003

van Giesen, Lena; Hernandez-Nunez, Luis; Delasoie-Baranek, Sophie; Colombo, Martino; Renaud, Philippe; Bruggmann, Rémy; Benton, Richard; Samuel, Aravinthan D T; Sprecher, Simon G (2016). Multimodal stimulus coding by a gustatory sensory neuron in Drosophila larvae. Nature communications, 7(10687), p. 10687. Nature Publishing Group 10.1038/ncomms10687

Schlegel, Markus; Münsterkötter, Martin; Güldener, Ulrich; Bruggmann, Rémy; Duò, Angelo; Hainaut, Matthieu; Henrissat, Bernard; Sieber, Christian M. K.; Hoffmeister, Dirk; Grünig, Christoph R. (2016). Globally distributed root endophyte Phialocephala subalpina links pathogenic and saprophytic lifestyles. BMC Genomics, 17(1), p. 1015. BioMed Central 10.1186/s12864-016-3369-8

Miclaus, Mihai; Balacescu, Ovidiu; Has, Ioan; Balacescu, Loredana; Has, Voichita; Suteu, Dana; Neuenschwander, Samuel; Keller, Irene; Bruggmann, Rémy (2016). Maize Cytolines Unmask Key Nuclear Genes That Are under the Control of Retrograde Signaling Pathways in Plants. Genome biology and evolution, 8(11), pp. 3256-3270. Oxford University Press 10.1093/gbe/evw245

Wüthrich, Daniel; Boujon, Céline; Truchet, Laura Rosyne Hedwig; Selimovic-Hamza, Senija; Oevermann, Anna; Bouzalas, Ilias; Bruggmann, Rémy; Seuberlich, Torsten (2016). Exploring the virome of cattle with non-suppurative encephalitis of unknown etiology by metagenomics. Virology, 493, pp. 22-30. Academic Press 10.1016/j.virol.2016.03.009

Bouzalas, Ilias; Wüthrich, Daniel; Selimovic-Hamza, Senija; Drögemüller, Cord; Bruggmann, Rémy; Seuberlich, Torsten (2016). Full-genome based molecular characterization of encephalitis-associated bovine astroviruses. Infection, genetics and evolution, 44, pp. 162-168. Elsevier 10.1016/j.meegid.2016.06.052


Meienberg, Janine; Zerjavic, Katja; Keller, Irene; Okoniewski, Michal; Patrignani, Andrea; Ludin, Katja; Xu, Zhenyu; Steinmann, Beat; Carrel, Thierry; Röthlisberger, Benno; Schlapbach, Ralph; Bruggmann, Rémy; Matyas, Gabor (2015). New insights into the performance of human whole-exome capture platforms. Nucleic acids research, 43(11), e76. Oxford University Press 10.1093/nar/gkv216

Storari, Michelangelo; Wüthrich, Daniel; Bruggmann, Rémy; Berthoud, Hélène; Arias-Roth, Emmanuelle (2015). Draft Genome Sequences of Clostridium tyrobutyricum Strains FAM22552 and FAM22553, Isolated from Swiss Semihard Red-Smear Cheese. Genome Announcements, 3(2) American Society for Microbiology 10.1128/genomeA.00078-15


Hilty, Markus; Wüthrich, Daniel; Salter, Susannah J; Engel, Hans Jürg; Campbell, Samuel; Sá-Leão, Raquel; de Lencastre, Hermínia; Hermans, Peter; Sadowy, Ewa; Turner, Paul; Chewapreecha, Claire; Diggle, Mathew; Pluschke, Gerd; McGee, Lesley; Eser, Ozgen Köseoğlu; Low, Donald E; Smith-Vaughan, Heidi; Endimiani, Andrea; Küffer, Marianne; Dupasquier, Mélanie; ... (2014). Global phylogenomic analysis of nonencapsulated Streptococcus pneumoniae reveals a deep-branching classic lineage that is distinct from multiple sporadic lineages. Genome biology and evolution, 6(12), pp. 3281-3294. Oxford University Press 10.1093/gbe/evu263

Rezaei, Mina; Andrieu, Thomas; Neuenschwander, Samuel; Bruggmann, Rémy; Mordasini, David; Frey, Felix J; Vogt, Bruno; Frey, Brigitte M. (2014). Regulation of 11β-hydroxysteroid dehydrogenase type 2 by microRNA. Hypertension, 64(4), pp. 860-866. American Heart Association 10.1161/HYPERTENSIONAHA.114.00002

Bouzalas, Ilias G; Wüthrich, Daniel; Walland, Julia Gianna Marlene; Drögemüller, Cord; Zurbriggen, Andreas; Vandevelde, Marc; Oevermann, Anna; Bruggmann, Rémy; Seuberlich, Torsten (2014). Neurotropic astrovirus in cattle with nonsuppurative encephalitis in Europe. Journal of clinical microbiology, 52(9), pp. 3318-3324. American Society for Microbiology 10.1128/JCM.01195-14

Schaffner, Thierry Oliver; Hinds, Jason; Gould, Katherine A; Wüthrich, Daniel; Bruggmann, Rémy; Küffer, Marianne; Mühlemann, Kathrin; Hilty, Markus; Hathaway, Lucy Jane (2014). A point mutation in cpsE renders Streptococcus pneumoniae nonencapsulated and enhances its growth, adherence and competence. BMC microbiology, 14(210), p. 210. BioMed Central 10.1186/s12866-014-0210-x

Greminger, Maja P; Stölting, Kai N; Nater, Alexander; Goossens, Benoit; Arora, Natasha; Bruggmann, Rémy; Patrignani, Andrea; Nussberger, Beatrice; Sharma, Reeta; Kraus, Robert H S; Ambu, Laurentius N; Singleton, Ian; Chikhi, Lounes; van Schaik, Carel P; Krützen, Michael (2014). Generation of SNP datasets for orangutan population genomics using improved reduced-representation sequencing and direct comparisons of SNP calling algorithms. BMC Genomics, 15(16), p. 16. BioMed Central 10.1186/1471-2164-15-16

Drögemüller, Michaela; Jagannathan, Vidhya; Howard, J.; Bruggmann, Rémy; Drögemüller, Cord; Ruetten, Maja; Leeb, Tosso; Kook, Peter H. (2014). A frameshift mutation in the cubilin gene (CUBN) in Beagles with Imerslund-Gräsbeck syndrome (selective cobalamin malabsorption). Animal genetics, 45(1), pp. 148-150. Blackwell 10.1111/age.12094

Wiedemar, Natalie; Tetens, Jens; Jagannathan, Vidhya; Menoud, Annie; Neuenschwander, Samuel; Bruggmann, Rémy; Thaller, Georg; Drögemüller, Cord (2014). Independent polled mutations leading to complex gene expression differences in cattle. PLoS ONE, 9(3), e93435. Public Library of Science 10.1371/journal.pone.0093435

Adamsen, Dea; Ramaekers, Vincent; Ho, Horace Tb; Britschgi, Corinne; Rüfenacht, Véronique; Meili, David; Bobrowski, Elise; Philippe, Paule; Nava, Caroline; Van Maldergem, Lionel; Bruggmann, Rémy; Walitza, Susanne; Wang, Joanne; Grünblatt, Edna; Thöny, Beat (2014). Autism spectrum disorder associated with low serotonin in CSF and mutations in the SLC29A4 plasma membrane monoamine transporter (PMAT) gene. Molecular autism, 5(43), p. 43. BioMed Central 10.1186/2040-2392-5-43


Bruggmann, Rémy; Jagannathan, Vidhya; Braunschweig, Martin (2013). In search of epigenetic marks in testes and sperm cells of differentially fed boars. PLoS ONE, 8(11), e78691. Public Library of Science 10.1371/journal.pone.0078691

Di Giallonardo, Francesca; Zagordi, Osvaldo; Duport, Yannick; Leemann, Christine; Joos, Beda; Künzli-Gontarczyk, Marzanna; Bruggmann, Rémy; Beerenwinkel, Niko; Günthard, Huldrych F.; Metzner, Karin J. (2013). Next-generation sequencing of HIV-1 RNA genomes: determination of error rates and minimizing artificial recombination. PLoS ONE, 8(9), e74249. Public Library of Science 10.1371/journal.pone.0074249

Wicker, Thomas; Oberhaensli, Simone; Parlange, Francis; Buchmann, Jan P; Shatalina, Margarita; Roffler, Stefan; Ben-David, Roi; Doležel, Jaroslav; Šimková, Hana; Schulze-Lefert, Paul; Spanu, Pietro D; Bruggmann, Rémy; Amselem, Joelle; Quesneville, Hadi; Ver Loren van Themaat, Emiel; Paape, Timothy; Shimizu, Kentaro K; Keller, Beat (2013). The wheat powdery mildew genome shows the unique evolution of an obligate biotroph. Nature genetics, 45(9), pp. 1092-1096. Nature America 10.1038/ng.2704

Issa, Shadi A.; Kienzler, Romeo; El-Kalioby, Mohamed; Tonellato, Peter J.; Wall, Dennis; Bruggmann, Rémy; Abouelhoda, Mohamed (2013). Streaming Support for Data Intensive Cloud-Based Sequence Analysis. BioMed research international, 2013(8), pp. 1-16. Hindawi Publishing Corporation 10.1155/2013/791051

Biason-Lauber, Anna; Böni-Schnetzler, Marianne; Hubbard, Basil P.; Bouzakri, Karim; Brunner, Andrea; Cavelti-Weder, Claudia; Keller, Cornelia; Meyer-Böni, Monika; Meier, Daniel T.; Brorsson, Caroline; Timper, Katharina; Leibowitz, Gil; Patrignani, Andrea; Bruggmann, Rémy; Boily, Gino; Zulewski, Henryk; Geier, Andreas; Cermak, Jennifer M; Elliott, Peter; Ellis, James L.; ... (2013). Identification of a SIRT1 mutation in a family with type 1 diabetes. Cell metabolism, 17(3), pp. 448-455. Cell Press 10.1016/j.cmet.2013.02.001

Koch, Caroline Tina; Bruggmann, Rémy; Tetens, Jens; Drögemüller, Cord (2013). A non-coding genomic duplication at the HMX1 locus is associated with crop ears in highland cattle. PLoS ONE, 8(10), e77841. Public Library of Science 10.1371/journal.pone.0077841


Kienzler, Romeo; Bruggmann, Rémy; Ranganathan, Anand; Tatbul, Nesime (2012). Incremental DNA Sequence Analysis in the Cloud. In: Ailamaki, Anastasia; Bowers, Shawn (eds.) Scientific and Statistical Database Management. Lecture Notes in Computer Science: Vol. 7338 (pp. 640-645). Heidelberg: Springer Verlag 10.1007/978-3-642-31235-9_50

Kienzler, R.; Bruggmann, Rémy; Ranganathan, A.; Tatbul, N. (2012). Stream as You Go: The Case for Incremental Data Access and Processing in the Cloud. In: Proceedings of the 2012 IEEE 28th International Conference on Data Engineering Workshops, 1.-5.4.2012 (pp. 159-166). Washington, DC: IEEE Computer Society 10.1109/ICDEW.2012.69

Testoni, Stefania; Bartolone, Elena; Rossi, Marco; Patrignani, Andrea; Bruggmann, Rémy; Lichtner, Peter; Tetens, Jens; Gentile, Arcangelo; Drögemüller, Cord (2012). KDM2B is implicated in bovine lethal multi-organic developmental dysplasia. PLoS ONE, 7(9), e45634. Lawrence, Kans.: Public Library of Science 10.1371/journal.pone.0045634

Duò, Angelo; Bruggmann, Rémy; Zoller, Stefan; Bernt, Matthias; Grünig, Christoph (2012). Mitochondrial genome evolution in species belonging to the Phialocephala fortinii s.l. - Acephala applanata species complex. BMC Genomics, 13(166), p. 166. London: BioMed Central 10.1186/1471-2164-13-166

Lindner, Heike; Raissig, Michael T.; Sailer, Christian; Shimosato-Asano, Hiroko; Bruggmann, Rémy; Grossniklaus, Ueli (2012). SNP-Ratio Mapping (SRM): Identifying Lethal Alleles and Mutations in Complex Genetic Backgrounds by Next-Generation Sequencing. Genetics, 191(4), pp. 1381-1386. Bethesda, Md.: Genetics Society of America 10.1534/genetics.112.141341

Bruggmann, Rémy; Tomato Genome Consortium, the (2012). The tomato genome sequence provides insights into fleshy fruit evolution. Nature, 485(7400), pp. 635-641. London: Macmillan Journals Ltd. 10.1038/nature11119


Asp, Torben; Byrne, Stephen; Gundlach, Heidrun; Bruggmann, Rémy; Mayer, Klaus F X; Andersen, Jeppe R; Xu, Mingliang; Greve, Morten; Lenk, Ingo; Lübberstedt, Thomas (2011). Comparative sequence analysis of VRN1 alleles of Lolium perenne with the co-linear regions in barley, wheat, and rice. Molecular genetics and genomics : MGG, 286(5-6), pp. 433-447. Springer 10.1007/s00438-011-0654-8

Calviño, Martín; Bruggmann, Rémy; Messing, Joachim (2011). Characterization of the small RNA component of the transcriptome from grain and sweet sorghum stems. BMC Genomics, 12(356), p. 356. BioMed Central 10.1186/1471-2164-12-356


Ballvora, Agim; Jöcker, Anika; Viehöver, Prisca; Ishihara, Hirofumi; Paal, Jürgen; Meksem, Khalid; Bruggmann, Rémy; Schoof, Heiko; Weisshaar, Bernd; Gebhardt, Christiane (2007). Comparative sequence analysis of Solanum and Arabidopsis in a hot spot for pathogen resistance on potato chromosome V reveals a patchwork of conserved and rapidly evolving genome segments. BMC Genomics, 8(112), p. 112. BioMed Central 10.1186/1471-2164-8-112


Michel, Kathrin; Abderhalden, Olaf; Bruggmann, Rémy; Dudler, Robert (2006). Transcriptional changes in powdery mildew infected wheat and Arabidopsis leaves undergoing syringolin-triggered hypersensitive cell death at infection sites. Plant molecular biology, 62(4-5), pp. 561-578. Springer 10.1007/s11103-006-9045-7

Bruggmann, Rémy; Bharti, Arvind K; Gundlach, Heidrun; Lai, Jinsheng; Young, Sarah; Pontaroli, Ana C; Wei, Fusheng; Haberer, Georg; Fuks, Galina; Du, Chunguang; Raymond, Christina; Estep, Matt C; Liu, Renyi; Bennetzen, Jeffrey L; Chan, Agnes P; Rabinowicz, Pablo D; Quackenbush, John; Barbazuk, W Brad; Wing, Rod A; Birren, Bruce; ... (2006). Uneven chromosome contraction and expansion in the maize genome. Genome research, 16(10), pp. 1241-1251. Cold Spring Harbor, N.Y 10.1101/gr.5338906


Bruggmann, Rémy; Abderhalden, Olaf; Reymond, Philippe; Dudler, Robert (2005). Analysis of epidermis- and mesophyll-specific transcript accumulation in powdery mildew-inoculated wheat leaves. Plant molecular biology, 58(2), pp. 247-267. Springer 10.1007/s11103-005-3099-9


Hagmann, M; Bruggmann, Rémy; Lei, Xue; Georgiev, O; Schaffner, W; Rungger, D; Spaniol, P; Gerster, T (1998). Homologous recombination and DNA-end joining reactions in zygotes and early embryos of zebrafish (Danio rerio) and Drosophila melanogaster. Biological chemistry, 379(6), pp. 673-681. De Gruyter


Hagmann, M; Adlkofer, K; Pfeiffer, P; Bruggmann, Rémy; Georgiev, O; Rungger, D; Schaffner, W (1996). Dramatic changes in the ratio of homologous recombination to nonhomologous DNA-end joining in oocytes and early embryos of Xenopus laevis. Biological chemistry Hoppe-Seyler, 377(4), pp. 239-250. De Gruyter 10.1515/bchm3.1996.377.4.239

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