Centre intégratif de génomique

Equipe principale | CIG Services communs | Genomics Technologies Facility (GTF) | Group Benton | Group Desvergne | Group Fajas | Group Fankhauser | Group Franken | Group Gambetta | Group Gatfield | Group Hernandez | Group Herr | Group Michalik | Group Reymond | Group Stasiak | Group Thorens | Group Wahli | Group van Leeuwen | Mouse Metabolic Evaluation Facility (MEF) | Protein Analysis Facility (PAF)
Publications | Mémoires et thèses

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1292 publications

Sous presse | 2020 | 2019 | 2018 | 2017 | ...
PHYTOCHROME INTERACTING FACTOR 7 is important for early responses to elevated temperature in Arabidopsis seedlings.
Fiorucci A.S., Galvão V.C., Ince Y.Ç., Boccaccini A., Goyal A., Allenbach Petrolati L., Trevisan M., Fankhauser C. The New phytologist. Peer-reviewed.
Dairy consumption is associated with lower plasma dihydroceramides in women from the D.E.S.I.R. cohort.
Fumeron F., Nicolas A., Bastard J.P., Fellahi S., Wigger L., Ibberson M., Cruciani-Guglielmacci C., Le Stunff H., Velho G., Magnan C. et al. Diabetes & metabolism. Peer-reviewed.
Sleep-wake-driven and circadian contributions to daily rhythms in gene expression and chromatin accessibility in the murine cortex.
Hor C.N., Yeung J., Jan M., Emmenegger Y., Hubbard J., Xenarios I., Naef F., Franken P. Proceedings of the National Academy of Sciences of the United States of America. Peer-reviewed.
Functional integration of "undead" neurons in the olfactory system
Prieto-Godino L.L., Silbering A.F., Khallaf M.A., Cruchet S., Bojkowska K., Pradervand S., Hansson B.S., Knaden M., Benton R. Science Advances.
tRNA 2'-O-methylation by a duo of TRM7/FTSJ1 proteins modulates small RNA silencing in Drosophila.
Angelova M.T., Dimitrova D.G., Da Silva B., Marchand V., Jacquier C., Achour C., Brazane M., Goyenvalle C., Bourguignon-Igel V., Shehzada S. et al., 2020/01/16. Nucleic acids research. Peer-reviewed.
A partial genome assembly of the miniature parasitoid wasp, Megaphragma amalphitanum
Sharko Fedor S., Nedoluzhko Artem V., Lê Brandon M., Tsygankova Svetlana V., Boulygina Eugenia S., Rastorguev Sergey M., Sokolov Alexey S., Rodriguez Fernando, Mazur Alexander M., Polilov Alexey A. et al., 2019/12/23. PLOS ONE, 14 (12) pp. e0226485.
Mate discrimination among subspecies through a conserved olfactory pathway
Khallaf M.A., Auer T.O., Grabe V., Depetris-Chauvin A., Ammagarahalli B., Zhang D.-D., Lavista-Llanos S., Kaftan F., Weissflog J., Matzkin L.L. et al., 2019/11/25. bioRxiv.
Molecular mechanisms underlying phytochrome-controlled morphogenesis in plants.
Legris M., Ince Y.Ç., Fankhauser C., 2019/11/19. Nature communications, 10 (1) p. 5219. Peer-reviewed.
Enhanced emotional memory retrieval by chemogenetic activation of locus coeruleus norepinephrine neurons
Fukabori R., Iguchi Y., Takahashi K., Eifuku S., Tsuji S., Hazama A., Uchigashima M., Watanabe M., Mizuma H., Cui Y. et al., 2019/11/05. bioRxiv.
A multi-omics digital research object for the genetics of sleep regulation.
Jan M., Gobet N., Diessler S., Franken P., Xenarios I., 2019/10/31. Scientific data, 6 (1) p. 258. Peer-reviewed.
The RNA-binding ubiquitin ligase MKRN1 functions in ribosome-associated quality control of poly(A) translation.
Hildebrandt A., Brüggemann M., Rücklé C., Boerner S., Heidelberger J.B., Busch A., Hänel H., Voigt A., Möckel M.M., Ebersberger S. et al., 2019/10/22. Genome biology, 20 (1) p. 216. Peer-reviewed.
CDK4 Regulates Lysosomal Function and mTORC1 Activation to Promote Cancer Cell Survival
Martínez-Carreres Laia, Puyal Julien, Leal-Esteban Lucía C., Orpinell Meritxell, Castillo-Armengol Judit, Giralt Albert, Dergai Oleksandr, Moret Catherine, Barquissau Valentin, Nasrallah Anita et al., 2019/10/15. Cancer Research, 79 (20) pp. 5245-5259.
Advances and Applications in the Quest for Orthologs.
Glover N., Dessimoz C., Ebersberger I., Forslund S.K., Gabaldón T., Huerta-Cepas J., Martin M.J., Muffato M., Patricio M., Pereira C. et al., 2019/10/01. Molecular biology and evolution, 36 (10) pp. 2157-2164. Peer-reviewed.
Tanycytes Regulate Lipid Homeostasis by Sensing Free Fatty Acids and Signaling to Key Hypothalamic Neuronal Populations via FGF21 Secretion.
Geller S., Arribat Y., Netzahualcoyotzi C., Lagarrigue S., Carneiro L., Zhang L., Amati F., Lopez-Mejia I.C., Pellerin L., 2019/10/01. Cell metabolism, 30 (4) pp. 833-844.e7. Peer-reviewed.
The Role of Insulation in Patterning Gene Expression.
Özdemir I., Gambetta M.C., 2019/09/28. Genes, 10 (10). Peer-reviewed.
PIF transcription factors link a neighbor threat cue to accelerated reproduction in Arabidopsis.
Galvāo V.C., Fiorucci A.S., Trevisan M., Franco-Zorilla J.M., Goyal A., Schmid-Siegert E., Solano R., Fankhauser C., 2019/09/05. Nature communications, 10 (1) p. 4005. Peer-reviewed.
Glucose transporter 2 mediates the hypoglycemia-induced increase in cerebral blood flow.
Lei H., Preitner F., Labouèbe G., Gruetter R., Thorens B., 2019/09. Journal of cerebral blood flow and metabolism, 39 (9) pp. 1725-1736. Peer-reviewed.
The PPAR-microbiota-metabolic organ trilogy to fine-tune physiology.
Oh HYP, Visvalingam V., Wahli W., 2019/09. FASEB journal, 33 (9) pp. 9706-9730. Peer-reviewed.
Use of preclinical models to identify markers of type 2 diabetes susceptibility and novel regulators of insulin secretion - A step towards precision medicine.
Thorens B., Rodriguez A., Cruciani-Guglielmacci C., Wigger L., Ibberson M., Magnan C., 2019/09. Molecular metabolism, 27S pp. S147-S154. Peer-reviewed.
Closing the DNA replication cycle: from simple circular molecules to supercoiled and knotted DNA catenanes.
Schvartzman J.B., Hernández P., Krimer D.B., Dorier J., Stasiak A., 2019/08/22. Nucleic acids research, 47 (14) pp. 7182-7198. Peer-reviewed.
Oral transfer of chemical cues, growth proteins and hormones in social insects
LeBoeuf Adria C, Waridel Patrice, Brent Colin S, Goncalves Andre N, Menin Laure, Ortiz Daniel, Riba-Grognuz Oksana, Koto Akiko, Soares Zamira G, Privman Eyal et al., 2019/08/19. eLife, 8.
Fostering improved human islet research: a European perspective.
Marchetti P., Schulte A.M., Marselli L., Schoniger E., Bugliani M., Kramer W., Overbergh L., Ullrich S., Gloyn A.L., Ibberson M. et al., 2019/08. Diabetologia, 62 (8) pp. 1514-1516. Peer-reviewed.
Genome-wide association study identifies eight risk loci and implicates metabo-psychiatric origins for anorexia nervosa.
Watson H.J., Yilmaz Z., Thornton L.M., Hübel C., Coleman JRI, Gaspar H.A., Bryois J., Hinney A., Leppä V.M., Mattheisen M. et al., 2019/08. Nature genetics, 51 (8) pp. 1207-1214. Peer-reviewed.
Large-scale neuroanatomical study uncovers 198 gene associations in mouse brain morphogenesis.
Collins S.C., Mikhaleva A., Vrcelj K., Vancollie V.E., Wagner C., Demeure N., Whitley H., Kannan M., Balz R., Anthony LFE et al., 2019/08/01. Nature communications, 10 (1) p. 3465. Peer-reviewed.
Mendelian randomization integrating GWAS and eQTL data reveals genetic determinants of complex and clinical traits.
Porcu E., Rüeger S., Lepik K., eQTLGen Consortium, BIOS Consortium, Santoni F.A., Reymond A., Kutalik Z., 2019/07/24. Nature communications, 10 (1) p. 3300. Peer-reviewed.
The gut microbiota influences skeletal muscle mass and function in mice
Lahiri Shawon, Kim Hyejin, Garcia-Perez Isabel, Reza Musarrat Maisha, Martin Katherine A., Kundu Parag, Cox Laura M., Selkrig Joel, Posma Joram M., Zhang Hongbo et al., 2019/07/24. Science translational medicine, 11 (502) pp. eaan5662. Peer-reviewed.
iHam and pyHam: visualizing and processing hierarchical orthologous groups.
Train C.M., Pignatelli M., Altenhoff A., Dessimoz C., 2019/07/15. Bioinformatics, 35 (14) pp. 2504-2506. Peer-reviewed.
Dynactin1 depletion leads to neuromuscular synapse instability and functional abnormalities.
Bercier V., Hubbard J.M., Fidelin K., Duroure K., Auer T.O., Revenu C., Wyart C., Del Bene F., 2019/07/10. Molecular neurodegeneration, 14 (1) p. 27. Peer-reviewed.
Developmental dynamics of lncRNAs across mammalian organs and species.
Sarropoulos I., Marin R., Cardoso-Moreira M., Kaessmann H., 2019/07. Nature, 571 (7766) pp. 510-514. Peer-reviewed.
Gene expression across mammalian organ development.
Cardoso-Moreira M., Halbert J., Valloton D., Velten B., Chen C., Shao Y., Liechti A., Ascenção K., Rummel C., Ovchinnikova S. et al., 2019/07. Nature, 571 (7766) pp. 505-509. Peer-reviewed.
OMA standalone: orthology inference among public and custom genomes and transcriptomes.
Altenhoff A.M., Levy J., Zarowiecki M., Tomiczek B., Warwick Vesztrocy A., Dalquen D.A., Müller S., Telford M.J., Glover N.M., Dylus D. et al., 2019/07. Genome research, 29 (7) pp. 1152-1163. Peer-reviewed.
HCF-2 inhibits cell proliferation and activates differentiation-gene expression programs.
Gudkova D., Dergai O., Praz V., Herr W., 2019/06/20. Nucleic acids research, 47 (11) pp. 5792-5808. Peer-reviewed.
In Silico Transcriptomic Analysis of Wound-Healing-Associated Genes in Malignant Pleural Mesothelioma.
Rouka E., Beltsios E., Goundaroulis D., Vavougios G.D., Solenov E.I., Hatzoglou C., Gourgoulianis K.I., Zarogiannis S.G., 2019/06/12. Medicina, 55 (6). Peer-reviewed.
Charting DENR-dependent translation reinitiation uncovers predictive uORF features and links to circadian timekeeping via Clock.
Castelo-Szekely V., De Matos M., Tusup M., Pascolo S., Ule J., Gatfield D., 2019/06/04. Nucleic acids research, 47 (10) pp. 5193-5209. Peer-reviewed.
The selective peroxisome proliferator-activated receptor alpha modulator (SPPARMα) paradigm: conceptual framework and therapeutic potential : A consensus statement from the International Atherosclerosis Society (IAS) and the Residual Risk Reduction Initiative (R3i) Foundation.
Fruchart J.C., Santos R.D., Aguilar-Salinas C., Aikawa M., Al Rasadi K., Amarenco P., Barter P.J., Ceska R., Corsini A., Després J.P. et al., 2019/06/04. Cardiovascular Diabetology, 18 (1) p. 71. Peer-reviewed.
Mitigating Anticipated Effects of Systematic Errors Supports Sister-Group Relationship between Xenacoelomorpha and Ambulacraria.
Philippe H., Poustka A.J., Chiodin M., Hoff K.J., Dessimoz C., Tomiczek B., Schiffer P.H., Müller S., Domman D., Horn M. et al., 2019/06/03. Current Biology, 29 (11) pp. 1818-1826.e6. Peer-reviewed.
Cortical and Commissural Defects Upon HCF-1 Loss in Nkx2.1-Derived Embryonic Neurons and Glia.
Minocha S., Herr W., 2019/06. Developmental neurobiology, 79 (6) pp. 578-595. Peer-reviewed.
How to Recruit the Correct RNA Polymerase? Lessons from snRNA Genes.
Dergai O., Hernandez N., 2019/06. Trends in Genetics, 35 (6) pp. 457-469. Peer-reviewed.
Kleine-Levin syndrome is associated with LMOD3 variants.
Al Shareef S.M., Basit S., Li S., Pfister C., Pradervand S., Lecendreux M., Mayer G., Dauvilliers Y., Salpietro V., Houlden H. et al., 2019/06. Journal of sleep research, 28 (3) pp. e12718. Peer-reviewed.
Laser capture microdissection of human pancreatic islets reveals novel eQTLs associated with type 2 diabetes.
Khamis A., Canouil M., Siddiq A., Crouch H., Falchi M., Bulow M.V., Ehehalt F., Marselli L., Distler M., Richter D. et al., 2019/06. Molecular Metabolism, 24 pp. 98-107. Peer-reviewed.
Systemic PPARγ deletion in mice provokes lipoatrophy, organomegaly, severe type 2 diabetes and metabolic inflexibility.
Gilardi F., Winkler C., Quignodon L., Diserens J.G., Toffoli B., Schiffrin M., Sardella C., Preitner F., Desvergne B., 2019/06. Metabolism, 95 pp. 8-20. Peer-reviewed.
Design of in vitro Transcribed mRNA Vectors for Research and Therapy.
Tusup M., French L.E., De Matos M., Gatfield D., Kundig T., Pascolo S., 2019/05/29. Chimia, 73 (6) pp. 391-394. Peer-reviewed.
Arabidopsis S2Lb links AtCOMPASS-like and SDG2 activity in H3K4me3 independently from histone H2B monoubiquitination.
Fiorucci A.S., Bourbousse C., Concia L., Rougée M., Deton-Cabanillas A.F., Zabulon G., Layat E., Latrasse D., Kim S.K., Chaumont N. et al., 2019/05/21. Genome biology, 20 (1) p. 100. Peer-reviewed.
Correction for Minocha et al., "Rapid Recapitulation of Nonalcoholic Steatohepatitis upon Loss of Host Cell Factor 1 Function in Mouse Hepatocytes".
Minocha S., Villeneuve D., Praz V., Moret C., Lopes M., Pinatel D., Rib L., Guex N., Herr W., 2019/05/15. Molecular and cellular biology, 39 (10). Peer-reviewed.
From Normal to Obesity and Back: The Associations between Mitochondrial DNA Copy Number, Gender, and Body Mass Index.
Skuratovskaia D., Litvinova L., Vulf M., Zatolokin P., Popadin K., Mazunin I., 2019/05/09. Cells, 8 (5). Peer-reviewed.
ImtRDB: a database and software for mitochondrial imperfect interspersed repeats annotation.
Shamanskiy V.A., Timonina V.N., Popadin K.Y., Gunbin K.V., 2019/05/08. BMC genomics, 20 (Suppl 3) p. 295. Peer-reviewed.
Chromatin three-dimensional interactions mediate genetic effects on gene expression.
Delaneau O., Zazhytska M., Borel C., Giannuzzi G., Rey G., Howald C., Kumar S., Ongen H., Popadin K., Marbach D. et al., 2019/05/03. Science, 364 (6439). Peer-reviewed.
Breakpoint mapping at nucleotide resolution in X-autosome balanced translocations associated with clinical phenotypes.
Moysés-Oliveira M., Di-Battista A., Zamariolli M., Meloni V.A., Bragagnolo S., Christofolini D.M., Steiner C.E., Kosyakova N., Liehr T., Reymond A. et al., 2019/05. European journal of human genetics, 27 (5) pp. 760-771. Peer-reviewed.
Hepatic PPARα is critical in the metabolic adaptation to sepsis.
Paumelle R., Haas J.T., Hennuyer N., Baugé E., Deleye Y., Mesotten D., Langouche L., Vanhoutte J., Cudejko C., Wouters K. et al., 2019/05. Journal of hepatology, 70 (5) pp. 963-973. Peer-reviewed.
DynaStI: A Dynamic Retention Time Database for Steroidomics.
Codesido S., Randazzo G.M., Lehmann F., González-Ruiz V., García A., Xenarios I., Liechti R., Bridge A., Boccard J., Rudaz S., 2019/04/30. Metabolites, 9 (5) p. 85. Peer-reviewed.
Navigating in vitro bioactivity data by investigating available resources using model compounds.
Ilmjärv S., Augsburger F., Bolleman J.T., Liechti R., Bridge A.J., Sandström J., Jaquet V., Xenarios I., Krause K.H., 2019/04/29. Scientific data, 6 (1) p. 45. Peer-reviewed.
In vivo assembly and trafficking of olfactory Ionotropic Receptors.
Abuin L., Prieto-Godino L.L., Pan H., Gutierrez C., Huang L., Jin R., Benton R., 2019/04/17. BMC Biology, 17 (1) p. 34. Peer-reviewed.
Phylogenetic approaches to identifying fragments of the same gene, with application to the wheat genome.
Piližota I., Train C.M., Altenhoff A., Redestig H., Dessimoz C., 2019/04/01. Bioinformatics, 35 (7) pp. 1159-1166. Peer-reviewed.
Rare variants in the genetic background modulate cognitive and developmental phenotypes in individuals carrying disease-associated variants.
Pizzo L., Jensen M., Polyak A., Rosenfeld J.A., Mannik K., Krishnan A., McCready E., Pichon O., Le Caignec C., Van Dijck A. et al., 2019/04. Genetics in medicine, 21 (4) pp. 816-825. Peer-reviewed.
Worldwide distribution of blood values in elite track and field athletes: Biomarkers of altered erythropoiesis.
Robinson N., Saugy J., Schütz F., Faiss R., Baume N., Giraud S., Saugy M., 2019/04. Drug testing and analysis, 11 (4) pp. 567-577. Peer-reviewed.
Exploiting vulnerabilities of cancer by targeting nuclear receptors of stromal cells in tumor microenvironment.
Cheng H.S., Lee JXT, Wahli W., Tan N.S., 2019/03/30. Molecular cancer, 18 (1) p. 51. Peer-reviewed.
Genome-wide identification of microRNAs regulating the human prion protein.
Pease D., Scheckel C., Schaper E., Eckhardt V., Emmenegger M., Xenarios I., Aguzzi A., 2019/03. Brain pathology, 29 (2) pp. 232-244. Peer-reviewed.
Targeting the Brain to Cure Type 2 Diabetes.
Thorens B., 2019/03. Diabetes, 68 (3) pp. 476-478. Peer-reviewed.
Differential regulation of RNA polymerase III genes during liver regeneration.
Yeganeh M., Praz V., Carmeli C., Villeneuve D., Rib L., Guex N., Herr W., Delorenzi M., Hernandez N., CycliX consortium, 2019/02/28. Nucleic Acids Research, 47 (4) pp. 1786-1796. Peer-reviewed.
mtProtEvol: the resource presenting molecular evolution analysis of proteins involved in the function of Vertebrate mitochondria.
Kuzminkova A.A., Sokol A.D., Ushakova K.E., Popadin K.Y., Gunbin K.V., 2019/02/26. BMC evolutionary biology, 19 (Suppl 1) p. 47. Peer-reviewed.
Rapid Recapitulation of Nonalcoholic Steatohepatitis upon Loss of Host Cell Factor 1 Function in Mouse Hepatocytes
Minocha S., Villeneuve D., Praz V., Moret C., Lopes M., Pinatel D., Rib L., Guex N., Herr W., 2019/02/15. Molecular and cellular biology, 39 (5) pp. UNSP e00405. Peer-reviewed.
Depletion of Gram-Positive Bacteria Impacts Hepatic Biological Functions During the Light Phase.
Oh HYP, Ellero-Simatos S., Manickam R., Tan N.S., Guillou H., Wahli W., 2019/02/14. International journal of molecular sciences, 20 (4). Peer-reviewed.
The making of an olfactory specialist
Auer T.O., Khallaf M.A., Silbering A.F., Zappia G., Ellis K., Hansson B.S., Jefferis G.S.X.E., Caron S., Knaden M., Benton R., 2019/02/12. bioRxiv.
Human Semaphorin 3 Variants Link Melanocortin Circuit Development and Energy Balance.
van der Klaauw A.A., Croizier S., Mendes de Oliveira E., Stadler LKJ, Park S., Kong Y., Banton M.C., Tandon P., Hendricks A.E., Keogh J.M. et al., 2019/02/07. Cell, 176 (4) pp. 729-742.e18. Peer-reviewed.
Sensory neuron lineage mapping and manipulation in the Drosophila olfactory system.
Chai P.C., Cruchet S., Wigger L., Benton R., 2019/02/07. Nature Communications, 10 (1) p. 643. Peer-reviewed.
Cold-inducible RNA-binding protein (CIRBP) adjusts clock-gene expression and REM-sleep recovery following sleep deprivation.
Hoekstra M.M., Emmenegger Y., Hubbard J., Franken P., 2019/02/05. eLife, 8 pp. e43400. Peer-reviewed.
Renal mineralocorticoid receptor expression is reduced in lipoatrophy.
Toffoli B., Bernardi S., Winkler C., Carrascosa C., Gilardi F., Desvergne B., 2019/02. FEBS open bio, 9 (2) pp. 328-334. Peer-reviewed.
Are TADs supercoiled?
Racko D., Benedetti F., Dorier J., Stasiak A., 2019/01/25. Nucleic acids research, 47 (2) pp. 521-532. Peer-reviewed.
Proteo-Transcriptomic Dynamics of Cellular Response to HIV-1 Infection.
Golumbeanu M., Desfarges S., Hernandez C., Quadroni M., Rato S., Mohammadi P., Telenti A., Beerenwinkel N., Ciuffi A., 2019/01/18. Scientific reports, 9 (1) p. 213. Peer-reviewed.
KnotProt 2.0: a database of proteins with knots and other entangled structures.
Dabrowski-Tumanski P., Rubach P., Goundaroulis D., Dorier J., Sulkowski P., Millett K.C., Rawdon E.J., Stasiak A., Sulkowska J.I., 2019/01/08. Nucleic Acids Research, 47 (D1) pp. D367-D375. Peer-reviewed.
Assigning confidence scores to homoeologs using fuzzy logic.
Glover N.M., Altenhoff A., Dessimoz C., 2019. PeerJ, 6 pp. e6231. Peer-reviewed.
De Novo Duplication in the CHD7 Gene Associated With Severe CHARGE Syndrome.
Pranckėnienė L., Preikšaitienė E., Gueneau L., Reymond A., Kučinskas V., 2019. Genomics insights, 12 p. 1178631019839010. Peer-reviewed.
Enabling semantic queries across federated bioinformatics databases
Sima Ana Claudia, Mendes de Farias Tarcisio, Zbinden Erich, Anisimova Maria, Gil Manuel, Stockinger Heinz, Stockinger Kurt, Robinson-Rechavi Marc, Dessimoz Christophe, 2019/01/01. Database, 2019. Peer-reviewed.
Expanding the Orthologous Matrix (OMA) programmatic interfaces: REST API and the OmaDB packages for R and Python.
Kaleb K., Vesztrocy A.W., Altenhoff A., Dessimoz C., 2019. F1000Research, 8 p. 42. Peer-reviewed.
GENCODE reference annotation for the human and mouse genomes.
Frankish A., Diekhans M., Ferreira A.M., Johnson R., Jungreis I., Loveland J., Mudge J.M., Sisu C., Wright J., Armstrong J. et al., 2019. Nucleic Acids Research, 47 (D1) pp. D766-D773. Peer-reviewed.
Global Genetic Networks and the Genotype-to-Phenotype Relationship.
Costanzo M., Kuzmin E., van Leeuwen J., Mair B., Moffat J., Boone C., Andrews B., 2019. Cell, 177 (1) pp. 85-100. Peer-reviewed.
Human adipose tissue H3K4me3 histone mark in adipogenic, lipid metabolism and inflammatory genes is positively associated with BMI and HOMA-IR.
Castellano-Castillo D., Denechaud P.D., Fajas L., Moreno-Indias I., Oliva-Olivera W., Tinahones F., Queipo-Ortuño M.I., Cardona F., 2019. PloS one, 14 (4) pp. e0215083. Peer-reviewed.
Inferring Orthology and Paralogy.
Altenhoff A.M., Glover N.M., Dessimoz C., 2019. Methods in molecular biology, 1910 pp. 149-175. Peer-reviewed.
Ionotropic Receptors Specify the Morphogenesis of Phasic Sensors Controlling Rapid Thermal Preference in Drosophila.
Budelli G., Ni L., Berciu C., van Giesen L., Knecht Z.A., Chang E.C., Kaminski B., Silbering A.F., Samuel A., Klein M. et al., 2019. Neuron, 101 (4) pp. 738-747.e3. Peer-reviewed.
Omics Approaches in Sleep-Wake Regulation.
O'Callaghan E.K., Green E.W., Franken P., Mongrain V., 2019. Handbook of experimental pharmacology, 253 pp. 59-81. Peer-reviewed.
Pharmacological PPARβ/δ activation upregulates VLDLR in hepatocytes.
Zarei M., Barroso E., Palomer X., Escolà-Gil J.C., Cedó L., Wahli W., Vázquez-Carrera M., 2019. Clinica e investigacion en arteriosclerosis, 31 (3) pp. 111-118. Peer-reviewed.
Profound Perturbation of the Metabolome in Obesity Is Associated with Health Risk.
Cirulli E.T., Guo L., Leon Swisher C., Shah N., Huang L., Napier L.A., Kirkness E.F., Spector T.D., Caskey C.T., Thorens B. et al., 2019. Cell Metabolism, 29 (2) pp. 488-500.e2. Peer-reviewed.
Rocking Promotes Sleep in Mice through Rhythmic Stimulation of the Vestibular System.
Kompotis K., Hubbard J., Emmenegger Y., Perrault A., Mühlethaler M., Schwartz S., Bayer L., Franken P., 2019. Current Biology, 29 (3) pp. 392-401.e4. Peer-reviewed.
Tanycyte Gene Expression Dynamics in the Regulation of Energy Homeostasis.
Langlet F., 2019. Frontiers in endocrinology, 10 p. 286. Peer-reviewed.
Tissue- and sex-specific small RNAomes reveal sex differences in response to the environment.
Bezler A., Braukmann F., West S.M., Duplan A., Conconi R., Schütz F., Gönczy P., Piano F., Gunsalus K., Miska E.A. et al., 2019. PLoS Genetics, 15 (2) pp. e1007905. Peer-reviewed.
Toward unrestricted use of public genomic data.
Amann R.I., Baichoo S., Blencowe B.J., Bork P., Borodovsky M., Brooksbank C., Chain PSG, Colwell R.R., Daffonchio D.G., Danchin A. et al., 2019. Science, 363 (6425) pp. 350-352. Peer-reviewed.
Transcriptome-wide sites of collided ribosomes reveal principles of translational pausing
Arpat Alaaddin Bulak, Liechti Angélica, Matos Mara De, Dreos René, Janich Peggy, Gatfield David, 2019. bioRxiv.
Updates in Rhea: SPARQLing biochemical reaction data.
Lombardot T., Morgat A., Axelsen K.B., Aimo L., Hyka-Nouspikel N., Niknejad A., Ignatchenko A., Xenarios I., Coudert E., Redaschi N. et al., 2019. Nucleic Acids Research, 47 (D1) pp. D596-D600. Peer-reviewed.
Whole-Night Continuous Rocking Entrains Spontaneous Neural Oscillations with Benefits for Sleep and Memory.
Perrault A.A., Khani A., Quairiaux C., Kompotis K., Franken P., Muhlethaler M., Schwartz S., Bayer L., 2019. Current Biology, 29 (3) pp. 402-411.e3. Peer-reviewed.
µLAS: Sizing of expanded trinucleotide repeats with femtomolar sensitivity in less than 5 minutes.
Malbec R., Chami B., Aeschbach L., Ruiz Buendía G.A., Socol M., Joseph P., Leïchlé T., Trofimenko E., Bancaud A., Dion V., 2019. Scientific Reports, 9 (1) p. 23. Peer-reviewed.
The Janus face of rosiglitazone.
Pich C., Michalik L., 2018/12/28. Oncotarget, 9 (102) pp. 37614-37615. Peer-reviewed.
Mutations in MAST1 Cause Mega-Corpus-Callosum Syndrome with Cerebellar Hypoplasia and Cortical Malformations.
Tripathy R., Leca I., van Dijk T., Weiss J., van Bon B.W., Sergaki M.C., Gstrein T., Breuss M., Tian G., Bahi-Buisson N. et al., 2018/12/19. Neuron, 100 (6) pp. 1354-1368.e5. Peer-reviewed.
Formal description of the new tree frog species inhabiting Northern Italy and Southern Switzerland
Dufresnes Christophe, Mazepa Glib, Rodrigues Nicolas, Brelsford Alan, Litvinchuk Spartak N., Sermier Roberto, Lavanchy Guillaume, Betto-Colliard Caroline Blaser Olivier, Borzée Amaël, Cavoto Elisa et al., 2018/12/18. Société Vaudoise des Sciences Naturelles, 97 pp. 5-11.
Molecular evolution of juvenile hormone esterase-like proteins in a socially exchanged fluid.
LeBoeuf A.C., Cohanim A.B., Stoffel C., Brent C.S., Waridel P., Privman E., Keller L., Benton R., 2018/12/13. Scientific reports, 8 (1) p. 17830. Peer-reviewed.
Additional evidence of the link between mtDNA copy number and the body mass index.
Skuratovskaia D.A., Sofronova J.K., Zatolokin P.A., Popadin K.Y., Vasilenko M.A., Litvinova L.S., Mazunin I.O., 2018/12. Mitochondrial DNA. Part A, DNA mapping, sequencing, and analysis, 29 (8) pp. 1240-1244. Peer-reviewed.
SLC2A9 (GLUT9) mediates urate reabsorption in the mouse kidney.
Auberson M., Stadelmann S., Stoudmann C., Seuwen K., Koesters R., Thorens B., Bonny O., 2018/12. Pflugers Archiv, 470 (12) pp. 1739-1751. Peer-reviewed.
Metabolic programming a lean phenotype by deregulation of RNA polymerase III.
Willis I.M., Moir R.D., Hernandez N., 2018/11/27. Proceedings of the National Academy of Sciences of the United States of America, 115 (48) pp. 12182-12187. Peer-reviewed.
The conserved threonine-rich region of the HCF-1<sub>PRO</sub> repeat activates promiscuous OGT:UDP-GlcNAc glycosylation and proteolysis activities.
Kapuria V., Röhrig U.F., Waridel P., Lammers F., Borodkin V.S., van Aalten DMF, Zoete V., Herr W., 2018/11/16. The Journal of biological chemistry, 293 (46) pp. 17754-17768. Peer-reviewed.
Induction of Paracrine Signaling in Metastatic Melanoma Cells by PPARγ Agonist Rosiglitazone Activates Stromal Cells and Enhances Tumor Growth.
Pich C., Meylan P., Mastelic-Gavillet B., Nguyen T.N., Loyon R., Trang B.K., Moser H., Moret C., Goepfert C., Hafner J. et al., 2018/11/15. Cancer research, 78 (22) pp. 6447-6461. Peer-reviewed.
Involvement of glucocorticoid prereceptor metabolism and signaling in rat visceral adipose tissue lipid metabolism after chronic stress combined with high-fructose diet.
Bursać B., Djordjevic A., Veličković N., Milutinović D.V., Petrović S., Teofilović A., Gligorovska L., Preitner F., Tappy L., Matić G., 2018/11/15. Molecular and cellular endocrinology, 476 pp. 110-118. Peer-reviewed.
Dissecting KMT2D missense mutations in Kabuki syndrome patients.
Cocciadiferro D., Augello B., De Nittis P., Zhang J., Mandriani B., Malerba N., Squeo G.M., Romano A., Piccinni B., Verri T. et al., 2018/11/01. Human molecular genetics, 27 (21) pp. 3651-3668. Peer-reviewed.
RecPhyloXML: a format for reconciled gene trees.
Duchemin W., Gence G., Arigon Chifolleau A.M., Arvestad L., Bansal M.S., Berry V., Boussau B., Chevenet F., Comte N., Davín A.A. et al., 2018/11/01. Bioinformatics, 34 (21) pp. 3646-3652. Peer-reviewed.
β-Klotho deficiency shifts the gut-liver bile acid axis and induces hepatic alterations in mice.
Somm E., Henry H., Bruce S.J., Bonnet N., Montandon S.A., Niederländer N.J., Messina A., Aeby S., Rosikiewicz M., Fajas L. et al., 2018/11/01. American journal of physiology. Endocrinology and metabolism, 315 (5) pp. E833-E847. Peer-reviewed.
Genome-wide analyses identify a role for SLC17A4 and AADAT in thyroid hormone regulation.
Teumer A., Chaker L., Groeneweg S., Li Y., Di Munno C., Barbieri C., Schultheiss U.T., Traglia M., Ahluwalia T.S., Akiyama M. et al., 2018/10/26. Nature communications, 9 (1) p. 4455. Peer-reviewed.
Genome-wide RNA-seq analysis indicates that the DAG1 transcription factor promotes hypocotyl elongation acting on ABA, ethylene and auxin signaling.
Lorrai R., Gandolfi F., Boccaccini A., Ruta V., Possenti M., Tramontano A., Costantino P., Lepore R., Vittorioso P., 2018/10/26. Scientific reports, 8 (1) p. 15895. Peer-reviewed.
Bidirectional and context-dependent changes in theta and gamma oscillatory brain activity in noradrenergic cell-specific Hypocretin/Orexin receptor 1-KO mice.
Li S., Franken P., Vassalli A., 2018/10/19. Scientific reports, 8 (1) p. 15474. Peer-reviewed.
Changes in resource partitioning between and within organs support growth adjustment to neighbor proximity in <i>Brassicaceae</i> seedlings.
de Wit M., George G.M., Ince Y.Ç., Dankwa-Egli B., Hersch M., Zeeman S.C., Fankhauser C., 2018/10/16. Proceedings of the National Academy of Sciences of the United States of America, 115 (42) pp. E9953-E9961. Peer-reviewed.
An expression atlas of variant ionotropic glutamate receptors identifies a molecular basis of carbonation sensing.
Sánchez-Alcañiz J.A., Silbering A.F., Croset V., Zappia G., Sivasubramaniam A.K., Abuin L., Sahai S.Y., Münch D., Steck K., Auer T.O. et al., 2018/10/12. Nature communications, 9 (1) p. 4252. Peer-reviewed.
Central Dicer-miR-103/107 controls developmental switch of POMC progenitors into NPY neurons and impacts glucose homeostasis.
Croizier S., Park S., Maillard J., Bouret S.G., 2018/10/12. eLife, 7. Peer-reviewed.
Chromatin Loop Extrusion and Chromatin Unknotting.
Racko D., Benedetti F., Goundaroulis D., Stasiak A., 2018/10/11. Polymers, 10 (10) p. 1126. Peer-reviewed.
Repurposing of promoters and enhancers during mammalian evolution.
Carelli F.N., Liechti A., Halbert J., Warnefors M., Kaessmann H., 2018/10/04. Nature communications, 9 (1) p. 4066. Peer-reviewed.
<i>Arabidopsis</i> RUP2 represses UVR8-mediated flowering in noninductive photoperiods.
Arongaus A.B., Chen S., Pireyre M., Glöckner N., Galvão V.C., Albert A., Winkler J.B., Fankhauser C., Harter K., Ulm R., 2018/10/01. Genes & development, 32 (19-20) pp. 1332-1343. Peer-reviewed.
Knoto-ID: a tool to study the entanglement of open protein chains using the concept of knotoids.
Dorier J., Goundaroulis D., Benedetti F., Stasiak A., 2018/10/01. Bioinformatics, 34 (19) pp. 3402-3404. Peer-reviewed.
The OEA effect on food intake is independent from the presence of PPARα in the intestine and the nodose ganglion, while the impact of OEA on energy expenditure requires the presence of PPARα in mice.
Caillon A., Duszka K., Wahli W., Rohner-Jeanrenaud F., Altirriba J., 2018/10. Metabolism, 87 pp. 13-17. Peer-reviewed.
Two convergent pathways of DNA knotting in replicating DNA molecules as revealed by θ-curve analysis.
O'Donnol D., Stasiak A., Buck D., 2018/09/28. Nucleic acids research, 46 (17) pp. 9181-9188. Peer-reviewed.
The Role of PPARβ/δ in Melanoma Metastasis.
Lim JCW, Kwan Y.P., Tan M.S., Teo MHY, Chiba S., Wahli W., Wang X., 2018/09/20. International journal of molecular sciences, 19 (10). Peer-reviewed.
Cycles of gene expression and genome response during mammalian tissue regeneration.
Rib L., Villeneuve D., Minocha S., Praz V., Hernandez N., Guex N., Herr W., CycliX Consortium, 2018/09/12. Epigenetics & chromatin, 11 (1) p. 52. Peer-reviewed.
Prioritising candidate genes causing QTL using hierarchical orthologous groups.
Warwick Vesztrocy A., Dessimoz C., Redestig H., 2018/09/01. Bioinformatics, 34 (17) pp. i612-i619. Peer-reviewed.
Metronidazole Causes Skeletal Muscle Atrophy and Modulates Muscle Chronometabolism.
Manickam R., Oh HYP, Tan C.K., Paramalingam E., Wahli W., 2018/08/16. International journal of molecular sciences, 19 (8) pp. E2418. Peer-reviewed.
Insights into the role of hepatocyte PPARα activity in response to fasting.
Régnier M., Polizzi A., Lippi Y., Fouché E., Michel G., Lukowicz C., Smati S., Marrot A., Lasserre F., Naylies C. et al., 2018/08/15. Molecular and cellular endocrinology, 471 pp. 75-88. Peer-reviewed.
Quantifying the Effects of 16p11.2 Copy Number Variants on Brain Structure: A Multisite Genetic-First Study.
Martin-Brevet S., Rodríguez-Herreros B., Nielsen J.A., Moreau C., Modenato C., Maillard A.M., Pain A., Richetin S., Jønch A.E., Qureshi A.Y. et al., 2018/08/15. Biological psychiatry, 84 (4) pp. 253-264. Peer-reviewed.
A systems genetics resource and analysis of sleep regulation in the mouse.
Diessler S., Jan M., Emmenegger Y., Guex N., Middleton B., Skene D.J., Ibberson M., Burdet F., Götz L., Pagni M. et al., 2018/08. PLoS biology, 16 (8) pp. e2005750. Peer-reviewed.
Scaling up data curation using deep learning: An application to literature triage in genomic variation resources.
Lee K., Famiglietti M.L., McMahon A., Wei C.H., MacArthur JAL, Poux S., Breuza L., Bridge A., Cunningham F., Xenarios I. et al., 2018/08. PLoS computational biology, 14 (8) pp. e1006390. Peer-reviewed.
Enteric Microbiota⁻Gut⁻Brain Axis from the Perspective of Nuclear Receptors.
Duszka K., Wahli W., 2018/07/28. International journal of molecular sciences, 19 (8) pp. E2210. Peer-reviewed.
Fully-automated systems and the need for global approaches should exhort clinical labs to reinvent routine MS analysis?
Rochat B., 2018/07/01. Bioanalysis, 10 (14) pp. 1129-1141. Peer-reviewed.
Insights into the Role of PPARβ/δ in NAFLD.
Chen J., Montagner A., Tan N.S., Wahli W., 2018/06/27. International journal of molecular sciences, 19 (7) p. 1893. Peer-reviewed.
Analysis of shared heritability in common disorders of the brain.
Brainstorm Consortium, Anttila V., Bulik-Sullivan B., Finucane H.K., Walters R.K., Bras J., Duncan L., Escott-Price V., Falcone G.J., Gormley P. et al., 2018/06/22. Science, 360 (6395) pp. eaap8757. Peer-reviewed.
A phosphorylation switch turns a positive regulator of phototropism into an inhibitor of the process.
Schumacher P., Demarsy E., Waridel P., Petrolati L.A., Trevisan M., Fankhauser C., 2018/06/19. Nature communications, 9 (1) p. 2403. Peer-reviewed.
Dietary Fiber Confers Protection against Flu by Shaping Ly6c<sup>-</sup> Patrolling Monocyte Hematopoiesis and CD8<sup>+</sup> T Cell Metabolism.
Trompette A., Gollwitzer E.S., Pattaroni C., Lopez-Mejia I.C., Riva E., Pernot J., Ubags N., Fajas L., Nicod L.P., Marsland B.J., 2018/05/15. Immunity, 48 (5) pp. 992-1005.e8. Peer-reviewed.
E2F1 promotes hepatic gluconeogenesis and contributes to hyperglycemia during diabetes.
Giralt A., Denechaud P.D., Lopez-Mejia I.C., Delacuisine B., Blanchet E., Bonner C., Pattou F., Annicotte J.S., Fajas L., 2018/05. Molecular metabolism, 11 pp. 104-112. Peer-reviewed.
Mechanism of selective recruitment of RNA polymerases II and III to snRNA gene promoters.
Dergai O., Cousin P., Gouge J., Satia K., Praz V., Kuhlman T., Lhôte P., Vannini A., Hernandez N., 2018/05/01. Genes & development, 32 (9-10) pp. 711-722. Peer-reviewed.
ROS release by PPARβ/δ-null fibroblasts reduces tumor load through epithelial antioxidant response.
Tan EHP, Sng M.K., How ISB, Chan JSK, Chen J., Tan C.K., Wahli W., Tan N.S., 2018/04. Oncogene, 37 (15) pp. 2067-2078. Peer-reviewed.
Clock-dependent chromatin topology modulates circadian transcription and behavior.
Mermet J., Yeung J., Hurni C., Mauvoisin D., Gustafson K., Jouffe C., Nicolas D., Emmenegger Y., Gobet C., Franken P. et al., 2018/03/01. Genes & development, 32 (5-6) pp. 347-358. Peer-reviewed.
Delayed Hair Follicle Morphogenesis and Hair Follicle Dystrophy in a Lipoatrophy Mouse Model of Pparg Total Deletion.
Sardella C., Winkler C., Quignodon L., Hardman J.A., Toffoli B., Giordano Attianese GMP, Hundt J.E., Michalik L., Vinson C.R., Paus R. et al., 2018/03. The Journal of investigative dermatology, 138 (3) pp. 500-510. Peer-reviewed.
Role of cell cycle regulators in adipose tissue and whole body energy homeostasis.
Lopez-Mejia I.C., Castillo-Armengol J., Lagarrigue S., Fajas L., 2018/03. Cellular and molecular life sciences, 75 (6) pp. 975-987. Peer-reviewed.
Sitagliptin and Roux-en-Y gastric bypass modulate insulin secretion via regulation of intra-islet PYY.
Guida C., McCulloch L.J., Godazgar M., Stephen S.D., Baker C., Basco D., Dong J., Chen D., Clark A., Ramracheya R.D., 2018/03. Diabetes, obesity & metabolism, 20 (3) pp. 571-581. Peer-reviewed.
Systems biology of the IMIDIA biobank from organ donors and pancreatectomised patients defines a novel transcriptomic signature of islets from individuals with type 2 diabetes.
Solimena M., Schulte A.M., Marselli L., Ehehalt F., Richter D., Kleeberg M., Mziaut H., Knoch K.P., Parnis J., Bugliani M. et al., 2018/03. Diabetologia, 61 (3) pp. 641-657. Peer-reviewed.
Transcription-induced supercoiling as the driving force of chromatin loop extrusion during formation of TADs in interphase chromosomes.
Racko D., Benedetti F., Dorier J., Stasiak A., 2018/02/28. Nucleic acids research, 46 (4) pp. 1648-1660. Peer-reviewed.
α-cell glucokinase suppresses glucose-regulated glucagon secretion.
Basco D., Zhang Q., Salehi A., Tarasov A., Dolci W., Herrera P., Spiliotis I., Berney X., Tarussio D., Rorsman P. et al., 2018/02/07. Nature communications, 9 (1) p. 546. Peer-reviewed.
Cdkn2a deficiency promotes adipose tissue browning.
Rabhi N., Hannou S.A., Gromada X., Salas E., Yao X., Oger F., Carney C., Lopez-Mejia I.C., Durand E., Rabearivelo I. et al., 2018/02. Molecular metabolism, 8 pp. 65-76. Peer-reviewed.
Cyclooxygenase-2 Selectively Controls Renal Blood Flow Through a Novel PPARβ/δ-Dependent Vasodilator Pathway.
Kirkby N.S., Sampaio W., Etelvino G., Alves D.T., Anders K.L., Temponi R., Shala F., Nair A.S., Ahmetaj-Shala B., Jiao J. et al., 2018/02. Hypertension, 71 (2) pp. 297-305. Peer-reviewed.
Hepatic regulation of VLDL receptor by PPARβ/δ and FGF21 modulates non-alcoholic fatty liver disease.
Zarei M., Barroso E., Palomer X., Dai J., Rada P., Quesada-López T., Escolà-Gil J.C., Cedó L., Zali M.R., Molaei M. et al., 2018/02. Molecular metabolism, 8 pp. 117-131. Peer-reviewed.
Inactivation of AMMECR1 is associated with growth, bone, and heart alterations.
Moysés-Oliveira M., Giannuzzi G., Fish R.J., Rosenfeld J.A., Petit F., Soares M.F., Kulikowski L.D., Di-Battista A., Zamariolli M., Xia F. et al., 2018/02. Human mutation, 39 (2) pp. 281-291. Peer-reviewed.
Peroxisome Proliferator Activated Receptor Gamma Controls Mature Brown Adipocyte Inducibility through Glycerol Kinase.
Lasar D., Rosenwald M., Kiehlmann E., Balaz M., Tall B., Opitz L., Lidell M.E., Zamboni N., Krznar P., Sun W. et al., 2018/01/16. Cell reports, 22 (3) pp. 760-773. Peer-reviewed.
Circadian Clocks and UPR: New Twists as the Story Unfolds.
Milev N.B., Gatfield D., 2018/01/08. Developmental cell, 44 (1) pp. 7-9. Peer-reviewed.
KIAA1109 Variants Are Associated with a Severe Disorder of Brain Development and Arthrogryposis.
Gueneau L., Fish R.J., Shamseldin H.E., Voisin N., Tran Mau-Them F., Preiksaitiene E., Monroe G.R., Lai A., Putoux A., Allias F. et al., 2018/01/04. American journal of human genetics, 102 (1) pp. 116-132. Peer-reviewed.
The OMA orthology database in 2018: retrieving evolutionary relationships among all domains of life through richer web and programmatic interfaces.
Altenhoff A.M., Glover N.M., Train C.M., Kaleb K., Warwick Vesztrocy A., Dylus D., de Farias T.M., Zile K., Stevenson C., Long J. et al., 2018/01/04. Nucleic acids research, 46 (D1) pp. D477-D485. Peer-reviewed.
A Transcriptomic Signature of the Hypothalamic Response to Fasting and BDNF Deficiency in Prader-Willi Syndrome.
Bochukova E.G., Lawler K., Croizier S., Keogh J.M., Patel N., Strohbehn G., Lo K.K., Humphrey J., Hokken-Koelega A., Damen L. et al., 2018. Cell Reports, 22 (13) pp. 3401-3408. Peer-reviewed.
ABPS: An R Package for Calculating the Abnormal Blood Profile Score.
Schütz F., Zollinger A., 2018. Frontiers in Physiology, 9 p. 1638. Peer-reviewed.
Abscisic acid inhibits hypocotyl elongation acting on gibberellins, DELLA proteins and auxin.
Lorrai R., Boccaccini A., Ruta V., Possenti M., Costantino P., Vittorioso P., 2018. AoB PLANTS, 10 (5) pp. ply061. Peer-reviewed.
Adrenaline Stimulates Glucagon Secretion by Tpc2-Dependent Ca<sup>2+</sup> Mobilization From Acidic Stores in Pancreatic α-Cells.
Hamilton A., Zhang Q., Salehi A., Willems M., Knudsen J.G., Ringgaard A.K., Chapman C.E., Gonzalez-Alvarez A., Surdo N.C., Zaccolo M. et al., 2018. Diabetes, 67 (6) pp. 1128-1139. Peer-reviewed.
An Attractive Reelin Gradient Establishes Synaptic Lamination in the Vertebrate Visual System.
Di Donato V., De Santis F., Albadri S., Auer T.O., Duroure K., Charpentier M., Concordet J.P., Gebhardt C., Del Bene F., 2018. Neuron, 97 (5) pp. 1049-1062.e6. Peer-reviewed.
CDK4, a new metabolic sensor that antagonizes AMPK.
Fajas L., Lopez-Mejia I.C., 2018. Molecular & cellular oncology, 5 (5) pp. e1409862. Peer-reviewed.
Chromatin immunoprecipitation improvements for the processing of small frozen pieces of adipose tissue.
Castellano-Castillo D., Denechaud P.D., Moreno-Indias I., Tinahones F., Fajas L., Queipo-Ortuño M.I., Cardona F., 2018. PloS one, 13 (2) pp. e0192314. Peer-reviewed.
Complementary intestinal mucosa and microbiota responses to caloric restriction.
Duszka K., Ellero-Simatos S., Ow G.S., Defernez M., Paramalingam E., Tett A., Ying S., König J., Narbad A., Kuznetsov V.A. et al., 2018. Scientific Reports, 8 (1) p. 11338. Peer-reviewed.
Gearing up to handle the mosaic nature of life in the quest for orthologs.
Forslund K., Pereira C., Capella-Gutierrez S., Sousa da Silva A., Altenhoff A., Huerta-Cepas J., Muffato M., Patricio M., Vandepoele K., Ebersberger I. et al., 2018. Bioinformatics, 34 (2) pp. 323-329. Peer-reviewed.
GLUT2-Expressing Neurons as Glucose Sensors in the Brain: Electrophysiological Analysis.
Labouèbe G., Thorens B., Lamy C., 2018. Methods in molecular biology, 1713 pp. 255-267. Peer-reviewed.
GOATOOLS: A Python library for Gene Ontology analyses.
Klopfenstein D.V., Zhang L., Pedersen B.S., Ramírez F., Warwick Vesztrocy A., Naldi A., Mungall C.J., Yunes J.M., Botvinnik O., Weigel M. et al., 2018. Scientific Reports, 8 (1) p. 10872. Peer-reviewed.
Hemicentin 1 influences podocyte dynamic changes in glomerular diseases.
Toffoli B., Zennaro C., Winkler C., Giordano Attianese GMP, Bernardi S., Carraro M., Gilardi F., Desvergne B., 2018. American Journal of Physiology. Renal physiology, 314 (6) pp. F1154-F1165. Peer-reviewed.
Identification and nanomechanical characterization of the fundamental single-strand protofilaments of amyloid α-synuclein fibrils.
Ruggeri F.S., Benedetti F., Knowles TPJ, Lashuel H.A., Sekatskii S., Dietler G., 2018. Proceedings of the National Academy of Sciences of the United States of America, 115 (28) pp. 7230-7235. Peer-reviewed.
In vitro Cortical Network Firing is Homeostatically Regulated: A Model for Sleep Regulation.
Saberi-Moghadam S., Simi A., Setareh H., Mikhail C., Tafti M., 2018. Scientific Reports, 8 (1) p. 6297. Peer-reviewed.
In Vitro Culture of the Insect Endosymbiont Spiroplasma poulsonii Highlights Bacterial Genes Involved in Host- Symbiont Interaction
Masson F., Calderon Copete S., Schüpfer F., Garcia-Arraez G., Lemaitre B., 2018. mBio, 9 (2) pp. e00024-18. Peer-reviewed.
Intellectual developmental disorder with cardiac arrhythmia syndrome in a child with compound heterozygous GNB5 variants.
Vernon H., Cohen J., De Nittis P., Fatemi A., McClellan R., Goldstein A., Malerba N., Guex N., Reymond A., Merla G., 2018. Clinical Genetics, 93 (6) pp. 1254-1256. Peer-reviewed.
Lack of Adipocytes Alters Hematopoiesis in Lipodystrophic Mice.
Wilson A., Fu H., Schiffrin M., Winkler C., Koufany M., Jouzeau J.Y., Bonnet N., Gilardi F., Renevey F., Luther S.A. et al., 2018. Frontiers in immunology, 9 p. 2573. Peer-reviewed.
Lauflumide (NLS-4) Is a New Potent Wake-Promoting Compound.
Luca G., Bandarabadi M., Konofal E., Lecendreux M., Ferrié L., Figadère B., Tafti M., 2018. Frontiers in neuroscience, 12 p. 519. Peer-reviewed.
Metabolic oscillations on the circadian time scale in <i>Drosophila</i> cells lacking clock genes.
Rey G., Milev N.B., Valekunja U.K., Ch R., Ray S., Silva Dos Santos M., Nagy A.D., Antrobus R., MacRae J.I., Reddy A.B., 2018. Molecular Systems Biology, 14 (8) pp. e8376. Peer-reviewed.
microRNA-205-5p is a modulator of insulin sensitivity that inhibits FOXO function.
Langlet F., Tarbier M., Haeusler R.A., Camastra S., Ferrannini E., Friedländer M.R., Accili D., 2018. Molecular Metabolism, 17 pp. 49-60. Peer-reviewed.
Periodic Motion of Sedimenting Flexible Knots
Gruziel M., Thyagarajan K., Dietler G., Stasiak A., Ekiel-Jeżewska M.L., Szymczak P., 2018. Physical Review Letters, 121 (12) p. 127801. Peer-reviewed.
PPARγ Controls Ectopic Adipogenesis and Cross-Talks with Myogenesis During Skeletal Muscle Regeneration.
Dammone G., Karaz S., Lukjanenko L., Winkler C., Sizzano F., Jacot G., Migliavacca E., Palini A., Desvergne B., Gilardi F. et al., 2018. InternationalJjournal of Molecular Sciences, 19 (7) p. 2044. Peer-reviewed.
Protective role of the ELOVL2/docosahexaenoic acid axis in glucolipotoxicity-induced apoptosis in rodent beta cells and human islets.
Bellini L., Campana M., Rouch C., Chacinska M., Bugliani M., Meneyrol K., Hainault I., Lenoir V., Denom J., Véret J. et al., 2018. Diabetologia, 61 (8) pp. 1780-1793. Peer-reviewed.
Protein Knotting by Active Threading of Nascent Polypeptide Chain Exiting from the Ribosome Exit Channel.
Dabrowski-Tumanski P., Piejko M., Niewieczerzal S., Stasiak A., Sulkowska J.I., 2018. The journal of Physical Chemistry. B, 122 (49) pp. 11616-11625. Peer-reviewed.
ROP: dumpster diving in RNA-sequencing to find the source of 1 trillion reads across diverse adult human tissues.
Mangul S., Yang H.T., Strauli N., Gruhl F., Porath H.T., Hsieh K., Chen L., Daley T., Christenson S., Wesolowska-Andersen A. et al., 2018. Genome Biology, 19 (1) p. 36. Peer-reviewed.
Selective deletion of PPARβ/δ in fibroblasts causes dermal fibrosis by attenuated LRG1 expression.
Sng M.K., Chan JSK, Teo Z., Phua T., Tan EHP, Wee JWK, Koh NJN, Tan C.K., Chen J.P., Pal M. et al., 2018. Cell discovery, 4 p. 15. Peer-reviewed.
Short-lived AUF1 p42-binding mRNAs of RANKL and BCL6 have two distinct instability elements each.
Dogar A.M., Pauchard-Batschulat R., Grisoni-Neupert B., Richman L., Paillusson A., Pradervand S., Hagenbüchle O., Ambrosini G., Schmid C.D., Bucher P. et al., 2018. PloS one, 13 (11) pp. e0206823. Peer-reviewed.
Slightly deleterious genomic variants and transcriptome perturbations in Down syndrome embryonic selection.
Popadin K., Peischl S., Garieri M., Sailani M.R., Letourneau A., Santoni F., Lukowski S.W., Bazykin G.A., Nikolaev S., Meyer D. et al., 2018. GenomeRresearch, 28 (1) pp. 1-10. Peer-reviewed.
The Insulator Protein CTCF Is Required for Correct <i>Hox</i> Gene Expression, but Not for Embryonic Development in <i>Drosophila</i>.
Gambetta M.C., Furlong EEM, 2018. Genetics, 210 (1) pp. 129-136. Peer-reviewed.
Minimizing carry-over PCR contamination in expanded CAG/CTG repeat instability applications.
Aeschbach L., Dion V., 2017/12/21. Scientific reports, 7 (1) p. 18026. Peer-reviewed.
Convergent origination of a <i>Drosophila</i>-like dosage compensation mechanism in a reptile lineage.
Marin R., Cortez D., Lamanna F., Pradeepa M.M., Leushkin E., Julien P., Liechti A., Halbert J., Brüning T., Mössinger K. et al., 2017/12. Genome research, 27 (12) pp. 1974-1987. Peer-reviewed.
Convergent origination of a <i>Drosophila</i>-like dosage compensation mechanism in a reptile lineage.
Marin R., Cortez D., Lamanna F., Pradeepa M.M., Leushkin E., Julien P., Liechti A., Halbert J., Brüning T., Mössinger K. et al., 2017/12. Genome research, 27 (12) pp. 1974-1987. Peer-reviewed.
Low number of fixed somatic mutations in a long-lived oak tree.
Schmid-Siegert E., Sarkar N., Iseli C., Calderon S., Gouhier-Darimont C., Chrast J., Cattaneo P., Schütz F., Farinelli L., Pagni M. et al., 2017/12. Nature plants, 3 (12) pp. 926-929. Peer-reviewed.
Proteomic interrogation of HSP90 and insights for medical research.
Weidenauer L., Wang T., Joshi S., Chiosis G., Quadroni M.R., 2017/12. Expert review of proteomics, 14 (12) pp. 1105-1117. Peer-reviewed.
PPARγ Modulates Long Chain Fatty Acid Processing in the Intestinal Epithelium.
Duszka K., Oresic M., Le May C., König J., Wahli W., 2017/11/28. International journal of molecular sciences, 18 (12) pp. E2559. Peer-reviewed.
WD40-repeat 47, a microtubule-associated protein, is essential for brain development and autophagy.
Kannan M., Bayam E., Wagner C., Rinaldi B., Kretz P.F., Tilly P., Roos M., McGillewie L., Bär S., Minocha S. et al., 2017/10/31. Proceedings of the National Academy of Sciences of the United States of America, 114 (44) pp. E9308-E9317. Peer-reviewed.
A Specific ChREBP and PPARα Cross-Talk Is Required for the Glucose-Mediated FGF21 Response.
Iroz A., Montagner A., Benhamed F., Levavasseur F., Polizzi A., Anthony E., Régnier M., Fouché E., Lukowicz C., Cauzac M. et al., 2017/10/10. Cell reports, 21 (2) pp. 403-416. Peer-reviewed.
Cerebral mGluR5 availability contributes to elevated sleep need and behavioral adjustment after sleep deprivation.
Holst S.C., Sousek A., Hefti K., Saberi-Moghadam S., Buck A., Ametamey S.M., Scheidegger M., Franken P., Henning A., Seifritz E. et al., 2017/10/05. eLife, 6 pp. eLife.28751. Peer-reviewed.
CNV-association meta-analysis in 191,161 European adults reveals new loci associated with anthropometric traits.
Macé A., Tuke M.A., Deelen P., Kristiansson K., Mattsson H., Nõukas M., Sapkota Y., Schick U., Porcu E., Rüeger S. et al., 2017/09/29. Nature communications, 8 (1) p. 744. Peer-reviewed.
Plant Strategies for Enhancing Access to Sunlight.
Fiorucci A.S., Fankhauser C., 2017/09/11. Current biology, 27 (17) pp. R931-R940. Peer-reviewed.
The PDK1 Inhibitor Dichloroacetate Controls Cholesterol Homeostasis Through the ERK5/MEF2 Pathway.
Khan AUH, Allende-Vega N., Gitenay D., Gerbal-Chaloin S., Gondeau C., Vo D.N., Belkahla S., Orecchioni S., Talarico G., Bertolini F. et al., 2017/09/06. Scientific reports, 7 (1) p. 10654. Peer-reviewed.
BLADE-ON-PETIOLE proteins act in an E3 ubiquitin ligase complex to regulate PHYTOCHROME INTERACTING FACTOR 4 abundance.
Zhang B., Holmlund M., Lorrain S., Norberg M., Bakó L., Fankhauser C., Nilsson O., 2017/08/22. eLife, 6 pp. e26759. Peer-reviewed.
Comparative Genomics of Two Sequential <i>Candida glabrata</i> Clinical Isolates.
Vale-Silva L., Beaudoing E., Tran VDT, Sanglard D., 2017/08/07. G3, 7 (8) pp. 2413-2426. Peer-reviewed.
MsViz: A Graphical Software Tool for In-Depth Manual Validation and Quantitation of Post-translational Modifications.
Martín-Campos T., Mylonas R., Masselot A., Waridel P., Petricevic T., Xenarios I., Quadroni M., 2017/08/04. Journal of proteome research, 16 (8) pp. 3092-3101. Peer-reviewed.
Multisensory neural integration of chemical and mechanical signals.
Sánchez-Alcañiz J.A., Benton R., 2017/08. BioEssays, 39 (8) p. 1700060. Peer-reviewed.
Bayesian association scan reveals loci associated with human lifespan and linked biomarkers.
McDaid A.F., Joshi P.K., Porcu E., Komljenovic A., Li H., Sorrentino V., Litovchenko M., Bevers RPJ, Rüeger S., Reymond A. et al., 2017/07/27. Nature communications, 8 p. 15842. Peer-reviewed.
High resolution temporal transcriptomics of mouse embryoid body development reveals complex expression dynamics of coding and noncoding loci.
Gloss B.S., Signal B., Cheetham S.W., Gruhl F., Kaczorowski D.C., Perkins A.C., Dinger M.E., 2017/07/27. Scientific reports, 7 (1) p. 6731. Peer-reviewed.
Molecular mechanisms of Bdp1 in TFIIIB assembly and RNA polymerase III transcription initiation.
Gouge J., Guthertz N., Kramm K., Dergai O., Abascal-Palacios G., Satia K., Cousin P., Hernandez N., Grohmann D., Vannini A., 2017/07/25. Nature communications, 8 (1) p. 130. Peer-reviewed.
Studies of global and local entanglements of individual protein chains using the concept of knotoids.
Goundaroulis D., Dorier J., Benedetti F., Stasiak A., 2017/07/24. Scientific reports, 7 (1) p. 6309. Peer-reviewed.
Local auxin production underlies a spatially restricted neighbor-detection response in <i>Arabidopsis</i>.
Michaud O., Fiorucci A.S., Xenarios I., Fankhauser C., 2017/07/11. Proceedings of the National Academy of Sciences of the United States of America, 114 (28) pp. 7444-7449. Peer-reviewed.
Hypocretin (orexin) is critical in sustaining theta/gamma-rich waking behaviors that drive sleep need.
Vassalli A., Franken P., 2017/07/03. Proceedings of the National Academy of Sciences of the United States of America, 114 (27) pp. E5464-E5473. Peer-reviewed.
Ionotropic Receptor-dependent moist and dry cells control hygrosensation in Drosophila.
Knecht Z.A., Silbering A.F., Cruz J., Yang L., Croset V., Benton R., Garrity P.A., 2017/06/16. eLife, 6 pp. e26654. Peer-reviewed.
Translational contributions to tissue specificity in rhythmic and constitutive gene expression.
Castelo-Szekely V., Arpat A.B., Janich P., Gatfield D., 2017/06/16. Genome biology, 18 (1) p. 116. Peer-reviewed.
Behavioural characterization of AnkyrinG deficient mice, a model for ANK3 related disorders.
van der Werf I.M., Van Dam D., Missault S., Yalcin B., De Deyn P.P., Vandeweyer G., Kooy R.F., 2017/06/15. Behavioural brain research, 328 pp. 218-226. Peer-reviewed.
Diurnal regulation of RNA polymerase III transcription is under the control of both the feeding-fasting response and the circadian clock.
Mange F., Praz V., Migliavacca E., Willis I.M., Schütz F., Hernandez N., CycliX Consortium, 2017/06. Genome research, 27 (6) pp. 973-984. Peer-reviewed.
Rare missense mutations in P2RY11 in narcolepsy with cataplexy.
Degn M., Dauvilliers Y., Dreisig K., Lopez R., Pfister C., Pradervand S., Rahbek Kornum B., Tafti M., 2017/06/01. Brain, 140 (6) pp. 1657-1668. Peer-reviewed.
Recognition of a glycosylation substrate by the O-GlcNAc transferase TPR repeats.
Rafie K., Raimi O., Ferenbach A.T., Borodkin V.S., Kapuria V., van Aalten DMF, 2017/06. Open biology, 7 (6) p. 170078. Peer-reviewed.
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