May 4 2021. Maps of the nervous system inspire experiments and theories in neuroscience. Spatial transcriptomics has opened up a new era in neuroanatomy, where the unsupervised and unbiased exploration of the molecular signatures of tissue organization will give rise to a new generation of brain maps. Here we review the technological and conceptual advances made possible by spatial transcriptomics in the context of advancing neuroanatomy and discuss how molecular neuroanatomy can redefine mapping of the nervous system. We propose that classification of brain regions on the basis of their gene expression profile can circumvent subjective neuroanatomical definitions and produce common reference frameworks that can incorporate cell types, connectivity, activity, and other modalities.

Spatial Transcriptomics: Molecular Maps of the Mammalian Brain
Cantin Ortiz, Marie Carlén and Konstantinos Meletis
Annual Review of Neuroscience. 2021 Apr 29. doi: 10.1146/annurev-neuro-100520-082639. Online ahead of print. PMID:33914592

April 23 2021


In this Perspective in Neuron, Pierre Le Merre, Sofie Ährlund-Richter and Marie Carlén provide a new comprehensive view of structural and functional distinctions of the mouse prefrontal cortex (PFC) and emphasizes the relevance of studying the PFC as a whole to unravel the integrative cognitive functions of this brain region.

A research synthesis of 100 recent publications (2011-2020) utilizing in vivo perturbation of behavior is included, and the results question absolute localized functions in the PFC.

Analyzed large-scale connectivity data indicate that the PFC is a module, holding a few larger subdivisions defined by its whole-brain connectivity. 

The Perspective also covers neuronal correlates to cognitive functions of the mouse PFC and cellular mechanisms underlying PFC feedback modulation of downstream regions. 

LINK to free pdf (for 50 days).

Cover art: Nirupa Rao


Nicolas Guyon, PhD student in the CarlenLab will defend his thesis
May 21 2021 at 14.00!

Place: Eva & Georg Klein hall, Biomedicum + zoom

Opponent: Kathleen Cho, UCSF, CA, USA.


Victoria Puig Velasco, Mar Institute for Medical Research Barcelona, Spain.

Paolo Medini, Umeå University, Umeå, Sweden

Rochellys Diaz Heijtz, Karolinska Institutet, Stockholm, Sweden


Marie Carlén, Dinos Meletis and Pierre Le Merre will arrange the Brain Circuits course at Karolinska Institutet.

Sep 13-17 2021, 9.00-17.00

Application period: April 15 – May 17 2021

Information and link to application system HERE


Confirmed speakers:

Anna Beyeler, INSERM, Neurocentre Magendie, University of Bordeaux, France

Laura Busse, Ludwig-Maximilians-Universität München, Germany

Nick Steinmetz, University of Washington, WA, USA

Gabrielle Girardeau, INSERM, Institut du Fer-a-Moulin, Sorbonne Université, France


Share This