Publications

2019

Kalamakis G, Brüne D, Ravichandran S, Bolz J, Fan W, Ziebell F, Stiehl T, Catalá-Martinez F, Kupke J, Zhao S, Llorens-Bobadilla E, Bauer K, Limpert S, Berger B, Christen U, Schmezer P, Mallm JP, Berninger B, Anders S, Del Sol A, Marciniak-Czochra A, Martin-Villalba A (2019) Quiescence Modulates Stem Cell Maintenance and Regenerative Capacity in the Aging Brain. Cell
Kang E, Song J, Lin Y, Park J, Lee JH, Hussani Q, Gu Y, Ge S, Li W, Hsu KS, Berninger B, Christian KM, Song H, Ming GL (2019) Interplay between a Mental Disorder Risk Gene and Developmental Polarity Switch of GABA Action Leads to Excitation-Inhibition Imbalance. Cell Rep
Wong FK, Marín O (2019) Developmental Cell Death in the Cerebral Cortex. Annu Rev Cell Dev Biol
Llorca A, Ciceri G, Beattie R, Wong FK, Diana G, Serafeimidou-Pouliou E, Fernández-Otero M, Streicher C, Arnold SJ, Meyer M, Hippenmeyer S, Maravall M, Marin O (2019) A stochastic framework of neurogenesis underlies the assembly of neocortical cytoarchitecture. Elife
Kalebic N, Gilardi C, Stepien B, Wilsch-Bräuninger M, Long KR, Namba T, Florio M, Langen B, Lombardot B, Shevchenko A, Kilimann MW, Kawasaki H, Wimberger P, Huttner WB (2019) Neocortical Expansion Due to Increased Proliferation of Basal Progenitors Is Linked to Changes in Their Morphology. Cell Stem Cell

Long KR, Huttner WB (2019) How the extracellular matrix shapes neural development. Open Biol

Kostic M, Paridaen JTML, Long KR, Kalebic N, Langen B, Grübling N, Wimberger P, Kawasaki H, Namba T, Huttner WB (2019) YAP Activity Is Necessary and Sufficient for Basal Progenitor Abundance and Proliferation in the Developing Neocortex. Cell Rep

Tyson AL, Akhtar AM, Andreae LC (2019) Optimisation and validation of hydrogel-based brain tissue clearing shows uniform expansion across anatomical regions and spatial scales. Sci Rep
Pervolaraki E, Tyson AL, Pibiri F, Poulter SL, Reichelt AC, Rodgers RJ, Clapcote SJ, Lever C, Andreae LC, Dachtler J (2019) The within-subject application of diffusion tensor MRI and CLARITY reveals brain structural changes in Nrxn2 deletion mice Mol Autism
Johansson M, Giger FA, Fielding T, Houart C (2019) Dkk1 Controls Cell-Cell Interaction through Regulation of Non-nuclear Beta-Catenin Pools. Dev Cell
Machado CB, Pluchon P, Harley P, Rigby M, Gonzalez Sabater V, Stevenson DC, Hynes S, Lowe A, Burrone J, Viasnoff V, Lieberam I (2019) In Vitro Modelling of Nerve-Muscle Connectivity in a Compartmentalised Tissue Culture Device. Adv Biosyst

Hadjivasiliou Z, Moore RE, McIntosh R, Galea GL, Clarke JDW, Alexandre P (2019) Basal Protrusions Mediate Spatiotemporal Patterns of Spinal Neuron Differentiation. Dev Cell
Liao M, Kundap U, Rosch RE, Burrows DRW, Meyer MP, Bouchra BOA, Cossette P, Samarut É (2019) Targeted knockout of GABA receptor gamma 2 subunit provokes transient light-induced reflex seizures in zebrafish larvae. Dis Model Mech

Diana G, Sainsbury TTJ, Meyer MP (2019) Bayesian inference of neuronal assemblies. PLoS Comput Biol
Araya C, Häkkinen HM, Carcamo L, Cerda M, Savy T, Rookyard C, Peyriéras N, Clarke JDW (2019) Cdh2 coordinates Myosin-II dependent internalisation of the zebrafish neural plate. Sci Rep

Campo-Paysaa F, Clarke JD, Wingate RJ (2019) Generation of the squamous epithelial roof of the 4th ventricle. eLife

Subathra Poopalasundaram, Jo Richardson, Annabelle Scott, Alex Donovan, Karen Liu and Anthony Graham (2019) Diminution of pharyngeal segmentation and the evolution of the amniotes Zoological Letters

Nagai T, Trakanant S, Kawasaki M, Kawasaki K, Yamada Y, Watanabe M, Blackburn J, Otsuka-Tanaka Y, Hishinuma M, Kitatmura A, Meguro F, Yamada A, Kodama Y, Maeda T, Zhou Q, Saijo Y, Yasue A, Sharpe PT, Hindges R, Takagi R, Ohazama A (2019) MicroRNAs control eyelid development through regulating Wnt signaling. Dev Dyn

Bragado Alonso S, Reinert JK, Marichal N, Massalini S, Berninger B, Kuner T, Calegari F (2019) An increase in neural stem cells and olfactory bulb adult neurogenesis improves discrimination of highly similar odorants. EMBO J
Favuzzi E, Deogracias R, Marques-Smith A, Maeso P, Jezequel J, Exposito-Alonso D, Balia M, Kroon T, Hinojosa AJ, F Maraver E, Rico B (2019) Distinct molecular programs regulate synapse specificity in cortical inhibitory circuits. Science

Martínez-Martínez MÁ, Ciceri G, Espinós A, Fernández V, Marín O, Borrell V (2019) Extensive branching of radially-migrating neurons in the mammalian cerebral cortex. J Comp Neurol
Scott R, Sánchez-Aguilera A, van Elst K, Lim L, Dehorter N, Bae SE, Bartolini G, Peles E, Kas MJH, Bruining H, Marín O (2019) Loss of Cntnap2 Causes Axonal Excitability Deficits, Developmental Delay in Cortical Myelination, and Abnormal Stereotyped Motor Behavior. Cereb Cortex

2018

Ha KCH, Blencowe BJ, Morris Q (2018) QAPA: a new method for the systematic analysis of alternative polyadenylation from RNA-seq data. Genome Biol
Sterne-Weiler T, Weatheritt RJ, Best AJ, Ha KCH, Blencowe BJ (2018) Efficient and Accurate Quantitative Profiling of Alternative Splicing Patterns of Any Complexity on a Laptop. Mol Cell
Gonatopoulos-Pournatzis T, Wu M, Braunschweig U, Roth J, Han H, Best AJ, Raj B, Aregger M, O'Hanlon D, Ellis JD, Calarco JA, Moffat J, Gingras AC, Blencowe BJ (2018) Genome-wide CRISPR-Cas9 Interrogation of Splicing Networks Reveals a Mechanism for Recognition of Autism-Misregulated Neuronal Microexons. Mol Cell
Ing-Esteves S, Kostadinov D, Marocha J, Sing AD, Joseph KS, Laboulaye MA, Sanes JR, Lefebvre JL (2018) Combinatorial Effects of Alpha- and Gamma-Protocadherins on Neuronal Survival and Dendritic Self-Avoidance. J Neurosci
Wong FK, Bercsenyi K, Sreenivasan V, Portalés A, Fernández-Otero M, Marín O (2018) Pyramidal cell regulation of interneuron survival sculpts cortical networks. Nature
Kalebic N, Gilardi C, Albert M, Namba T, Long KR, Kostic M, Langen B, Huttner WB (2018) Human-specific Elife
Long KR, Newland B, Florio M, Kalebic N, Langen B, Kolterer A, Wimberger P, Huttner WB (2018) Extracellular Matrix Components HAPLN1, Lumican, and Collagen I Cause Hyaluronic Acid-Dependent Folding of the Developing Human Neocortex. Neuron

Lipovsek M, Wingate RJ (2018) Conserved and divergent development of brainstem vestibular and auditory nuclei. eLife

Taylor RD, Heine M, Emptage NJ, Andreae LC (2018) Neuronal Receptors Display Cytoskeleton-Independent Directed Motion on the Plasma Membrane. iScience
Chai A, Mateus AM, Oozeer F, Sousa-Nunes R (2018) Spatiotemporally controlled genetic perturbation for efficient large-scale studies of cell non-autonomous effects. Elife
Karow M, Camp JG, Falk S, Gerber T, Pataskar A, Gac-Santel M, Kageyama J, Brazovskaja A, Garding A, Fan W, Riedemann T, Casamassa A, Smiyakin A, Schichor C, Götz M, Tiwari VK, Treutlein B, Berninger B (2018) Direct pericyte-to-neuron reprogramming via unfolding of a neural stem cell-like program. Nat Neurosci
Tiwari N, Pataskar A, Péron S, Thakurela S, Sahu SK, Figueres-Oñate M, Marichal N, López-Mascaraque L, Tiwari VK, Berninger B (2018) Stage-Specific Transcription Factors Drive Astrogliogenesis by Remodeling Gene Regulatory Landscapes. Cell Stem Cell
Karimova M, Baker O, Camgoz A, Naumann R, Buchholz F, Anastassiadis K (2018) A single reporter mouse line for Vika, Flp, Dre, and Cre-recombination. Sci Rep
Zimmermann T, Maroso M, Beer A, Baddenhausen S, Ludewig S, Fan W, Vennin C, Loch S, Berninger B, Hofmann C, Korte M, Soltesz I, Lutz B, Leschik J (2018) Neural stem cell lineage-specific cannabinoid type-1 receptor regulates neurogenesis and plasticity in the adult mouse hippocampus. Cereb Cortex
Yap K, Mukhina S, Zhang G, Tan JSC, Ong HS, Makeyev EV (2018) A Short Tandem Repeat-Enriched RNA Assembles a Nuclear Compartment to Control Alternative Splicing and Promote Cell Survival. Mol Cell
Lim L, Mi D, Llorca A, Marín O (2018) Development and Functional Diversification of Cortical Interneurons. Neuron
Reh TA, Hindges R (2018) MicroRNAs in Retinal Development. Annu Rev Vis Sci
Prekop HT, Kroiss A, Rook V, Zagoraiou L, Jessell T, Fernandes C, Delogu A, Wingate R (2018) SOX14 is required for a specific subset of cerebello-olivary projections. J Neurosci
Priego N, Zhu L, Monteiro C, Mulders M, Wasilewski D, Bindeman W, Doglio L, Martínez L, Martínez-Saez E, Ramón Y Cajal S, Megías D, Hernández-Encinas E, Blanco-Aparicio C, Martínez L, Zarzuela E, Muñoz J, Fustero-Torre C, Piñeiro-Yáñez E, Hernández-Laín A, Bertero L, Poli V, Sanchez-Martinez M, Menendez JA, Soffietti R, Bosch-Barrera J, Valiente M (2018) Author Correction: STAT3 labels a subpopulation of reactive astrocytes required for brain metastasis. Nat Med

Ehsan M, Kelly M, Hooper C, Yavari A, Beglov J, Bellahcene M, Ghataorhe K, Poloni G, Goel A, Kyriakou T, Fleischanderl K, Ehler E, Makeyev E, Lange S, Ashrafian H, Redwood C, Davies B, Watkins H, Gehmlich K (2018) Mutant Muscle LIM Protein C58G causes cardiomyopathy through protein depletion. J Mol Cell Cardiol
Andreae LC, Basson MA (2018) Sex bias in autism: new insights from Chd8 mutant mice? Nat Neurosci
Javer A, Currie M, Lee CW, Hokanson J, Li K, Martineau CN, Yemini E, Grundy LJ, Li C, Ch'ng Q, Schafer WR, Nollen EAA, Kerr R, Brown AEX (2018) An open-source platform for analyzing and sharing worm-behavior data. Nat Methods
Taylor SE, Taylor RD, Price J, Andreae LC (2018) Single-molecule fluorescence in-situ hybridization reveals that human SHANK3 mRNA expression varies during development and in autism-associated SHANK3 heterozygosity. Stem Cell Res Ther
Hinojosa AJ, Deogracias R, Rico B (2018) The Microtubule Regulator NEK7 Coordinates the Wiring of Cortical Parvalbumin Interneurons. Cell Rep
Laurent P, Ch'ng Q, Jospin M, Chen C, Lorenzo R, de Bono M (2018) Genetic dissection of neuropeptide cell biology at high and low activity in a defined sensory neuron. Proc Natl Acad Sci USA
Arango C, Díaz-Caneja CM, McGorry PD, Rapoport J, Sommer IE, Vorstman JA, McDaid D, Marín O, Serrano-Drozdowskyj E, Freedman R, Carpenter W (2018) Preventive strategies for mental health. Lancet Psychiatry

Grillo FW, Neves G, Walker A, Vizcay-Barrena G, Fleck RA, Branco T, Burrone J (2018) A Distance-Dependent Distribution of Presynaptic Boutons Tunes Frequency-Dependent Dendritic Integration. Neuron

Denaxa M, Neves G, Burrone J, Pachnis V (2018) Homeostatic Regulation of Interneuron Apoptosis During Cortical Development. J Exp Neurosci
Holzbaur E, Burrone J (2018) Editorial overview: Cellular neuroscience. Curr Opin Neurobiol
Andreae LC (2018) FENS-Kavli winter symposium: Review and perspectives on neurological diseases. Eur J Neurosci
Khan AG, Hofer SB (2018) Contextual signals in visual cortex. Curr Opin Neurobiol

Favuzzi E, Rico B (2018) Molecular diversity underlying cortical excitatory and inhibitory synapse development. Curr Opin Neurobiol
Lim L, Pakan JMP, Selten MM, Marques-Smith A, Llorca A, Bae SE, Rochefort NL, Marín O (2018) Optimization of interneuron function by direct coupling of cell migration and axonal targeting. Nat Neurosci

Zhao S, Fan W, Guo X, Xue L, Berninger B, Salierno MJ, Del Campo A (2018) Microenvironments to study migration and somal translocation in cortical neurons. Biomaterials
Khan AG, Poort J, Chadwick A, Blot A, Sahani M, Mrsic-Flogel TD, Hofer SB (2018) Distinct learning-induced changes in stimulus selectivity and interactions of GABAergic interneuron classes in visual cortex. Nat Neurosci

Galliano E, Franzoni E, Breton M, Chand AN, Byrne DJ, Murthy VN, Grubb MS (2018) Embryonic and postnatal neurogenesis produce functionally distinct subclasses of dopaminergic neuron. Elife
Fassier C, Fréal A, Gasmi L, Delphin C, Ten Martin D, De Gois S, Tambalo M, Bosc C, Mailly P, Revenu C, Peris L, Bolte S, Schneider-Maunoury S, Houart C, Nothias F, Larcher JC, Andrieux A, Hazan J (2018) Motor axon navigation relies on Fidgetin-like 1-driven microtubule plus end dynamics. J Cell Biol
Constance WD, Mukherjee A, Fisher YE, Pop S, Blanc E, Toyama Y, Williams DW (2018) Neurexin and Neuroligin-based adhesion complexes drive axonal arborisation growth independent of synaptic activity. Elife
Mi D, Li Z, Lim L, Li M, Moissidis M, Yang Y, Gao T, Hu TX, Pratt T, Price DJ, Sestan N, Marín O (2018) Early emergence of cortical interneuron diversity in the mouse embryo. Science
Giger FA, Houart C (2018) The Birth of the Eye Vesicle: When Fate Decision Equals Morphogenesis. Front Neurosci
Denaxa M, Neves G, Rabinowitz A, Kemlo S, Liodis P, Burrone J, Pachnis V (2018) Modulation of Apoptosis Controls Inhibitory Interneuron Number in the Cortex. Cell Rep

Antinucci P, Hindges R (2018) Orientation-Selective Retinal Circuits in Vertebrates. Front Neural Circuits
Del Pino I, Rico B, Marín O (2018) Neural circuit dysfunction in mouse models of neurodevelopmental disorders. Curr Opin Neurobiol
Kiecker C (2018) The origins of the circumventricular organs. J Anat
Andreae LC, Burrone J (2018) The role of spontaneous neurotransmission in synapse and circuit development. J Neurosci Res

Kathuria A, Nowosiad P, Jagasia R, Aigner S, Taylor RD, Andreae LC, Gatford NJF, Lucchesi W, Srivastava DP, Price J (2018) Stem cell-derived neurons from autistic individuals with SHANK3 mutation show morphogenetic abnormalities during early development. Mol Psychiatry

2017

Han H, Braunschweig U, Gonatopoulos-Pournatzis T, Weatheritt RJ, Hirsch CL, Ha KCH, Radovani E, Nabeel-Shah S, Sterne-Weiler T, Wang J, O'Hanlon D, Pan Q, Ray D, Zheng H, Vizeacoumar F, Datti A, Magomedova L, Cummins CL, Hughes TR, Greenblatt JF, Wrana JL, Moffat J, Blencowe BJ (2017) Multilayered Control of Alternative Splicing Regulatory Networks by Transcription Factors. Mol Cell
Barrios-Rodiles M, Ellis JD, Blencowe BJ, Wrana JL (2017) LUMIER: A Discovery Tool for Mammalian Protein Interaction Networks. Methods Mol Biol
Blencowe BJ (2017) The Relationship between Alternative Splicing and Proteomic Complexity. Trends Biochem Sci
Tapial J, Ha KCH, Sterne-Weiler T, Gohr A, Braunschweig U, Hermoso-Pulido A, Quesnel-Vallières M, Permanyer J, Sodaei R, Marquez Y, Cozzuto L, Wang X, Gómez-Velázquez M, Rayon T, Manzanares M, Ponomarenko J, Blencowe BJ, Irimia M (2017) An atlas of alternative splicing profiles and functional associations reveals new regulatory programs and genes that simultaneously express multiple major isoforms. Genome Res
Gueroussov S, Weatheritt RJ, O'Hanlon D, Lin ZY, Narula A, Gingras AC, Blencowe BJ (2017) Regulatory Expansion in Mammals of Multivalent hnRNP Assemblies that Globally Control Alternative Splicing. Cell
Peng YR, Tran NM, Krishnaswamy A, Kostadinov D, Martersteck EM, Sanes JR (2017) Satb1 Regulates Contactin 5 to Pattern Dendrites of a Mammalian Retinal Ganglion Cell. Neuron
Clarke J, Gillingwater T, Graham A, Milz S (2017) Editorial - Journal of Anatomy January 2017. J Anat

Wright R, Newey SE, Ilie A, Wefelmeyer W, Raimondo JV, Ginham R, Mcllhinney RAJ, Akerman CJ (2017) Neuronal Chloride Regulation via KCC2 Is Modulated through a GABAB Receptor Protein Complex. J Neurosci
Heide M, Long KR, Huttner WB (2017) Novel gene function and regulation in neocortex expansion. Curr Opin Cell Biol
Hamid FM, Makeyev EV (2017) A mechanism underlying position-specific regulation of alternative splicing. Nucleic Acids Res
Patel DS, Diana G, Entchev EV, Zhan M, Lu H, Ch'ng Q (2017) Quantification of Information Encoded by Gene Expression Levels During Lifespan Modulation Under Broad-range Dietary Restriction in C. elegans. J Vis Exp
Azim K, Angonin D, Marcy G, Pieropan F, Rivera A, Donega V, Cantù C, Williams G, Berninger B, Butt AM, Raineteau O (2017) Pharmacogenomic identification of small molecules for lineage specific manipulation of subventricular zone germinal activity. PLoS Biol
Bicker F, Vasic V, Horta G, Ortega F, Nolte H, Kavyanifar A, Keller S, Stankovic ND, Harter PN, Benedito R, Lutz B, Bäuerle T, Hartwig J, Baumgart J, Krüger M, Radyushkin K, Alberi L, Berninger B, Schmidt MHH (2017) Neurovascular EGFL7 regulates adult neurogenesis in the subventricular zone and thereby affects olfactory perception. Nat Commun
Farrukh A, Ortega F, Fan W, Marichal N, Paez JI, Berninger B, Campo AD, Salierno MJ (2017) Bifunctional Hydrogels Containing the Laminin Motif IKVAV Promote Neurogenesis. Stem Cell Reports
Karakatsani A, Marichal N, Urban S, Kalamakis G, Ghanem A, Schick A, Zhang Y, Conzelmann KK, Rüegg MA, Berninger B, Ruiz de Almodovar C, Gascón S, Kröger S (2017) Neuronal LRP4 regulates synapse formation in the developing CNS. Development
Abbas F, Triplett MA, Goodhill GJ, Meyer MP (2017) A Three-Layer Network Model of Direction Selective Circuits in the Optic Tectum. Front Neural Circuits

Furlan G, Cuccioli V, Vuillemin N, Dirian L, Muntasell AJ, Coolen M, Dray N, Bedu S, Houart C, Beaurepaire E, Foucher I, Bally-Cuif L (2017) Life-Long Neurogenic Activity of Individual Neural Stem Cells and Continuous Growth Establish an Outside-In Architecture in the Teleost Pallium. Curr Biol

Gordon-Weeks PR (2017) Phosphorylation of Drebrin and Its Role in Neuritogenesis. Adv Exp Med Biol
Dart AE, Gordon-Weeks PR (2017) The Role of Drebrin in Cancer Cell Invasion. Adv Exp Med Biol
Lipovsek M, Ledderose J, Butts T, Lafont T, Kiecker C, Wizenmann A, Graham A (2017) The emergence of mesencephalic trigeminal neurons. Neural Dev
Favuzzi E, Marques-Smith A, Deogracias R, Winterflood CM, Sánchez-Aguilera A, Mantoan L, Maeso P, Fernandes C, Ewers H, Rico B (2017) Activity-Dependent Gating of Parvalbumin Interneuron Function by the Perineuronal Net Protein Brevican. Neuron

Bibollet-Bahena O, Okafuji T, Hokamp K, Tear G, Mitchell KJ (2017) A dual-strategy expression screen for candidate connectivity labels in the developing thalamus. PLoS One
Mukherjee A, Williams DW (2017) More alive than dead: non-apoptotic roles for caspases in neuronal development, plasticity and disease. Cell Death Differ
Evans MD, Tufo C, Dumitrescu AS, Grubb MS (2017) Myosin II activity is required for structural plasticity at the axon initial segment. Eur J Neurosci
Oozeer F, Yates LL, Dean C, Formstone CJ (2017) A role for core planar polarity proteins in cell contact-mediated orientation of planar cell division across the mammalian embryonic skin. Sci Rep
Verbeeren J, Verma B, Niemelä EH, Yap K, Makeyev EV, Frilander MJ (2017) Alternative exon definition events control the choice between nuclear retention and cytoplasmic export of U11/U12-65K mRNA. PLoS Genet