409 Works

Probabilistic cytoarchitectonic map of Area TE 2.1 (STG) (v5.1)

D. Zachlod, P. Morosan, S. Bludau, H. Mohlberg, K. Zilles & K. Amunts
This dataset contains the distinct architectonic Area TE 2.1 (STG) in the individual, single subject template of the MNI Colin 27 as well as the MNI ICBM 152 2009c nonlinear asymmetric reference space. As part of the Julich-Brain cytoarchitectonic atlas, the area was identified using cytoarchitectonic analysis on cell-body-stained histological sections of 10 human postmortem brains obtained from the body donor program of the University of Düsseldorf. The results of the cytoarchitectonic analysis were then...

Neuronal density in the human cerebral cortex

M. Inda, J. DeFelipe & A. Muñoz
This dataset contains the neuronal density in various cytoarchitectonic areas of the human cerebral cortex. Cell density was analyzed on cell-body-stained histological sections of 5 human postmortem brains that were supplied by Dr R. Alcaraz, Forensic Pathology Service, Basque Institute of Legal Medicine, Bilbao, Spain. Brain samples were obtained following the guidelines and approval by the Institutional Ethical Committee.

Axonal projections from the forelimb representation of the rat primary somatosensory cortex (case R605)

I. Zakiewicz, Y. Van Dongen, T.B. Leergaard & J.G. Bjaalie
Bright-field microscopy images of serial coronal brain sections showing anterogradely labeled axons in an adult male Sprague Dawley rat following injection of Phaseolus vulgaris leucoagglutinin in the forelimb representation of the primary somatosensory cortex. The labeling was visualized histologically in sections counterstained to visualize cytoarchitecture. The presence of cytochrome oxidase positive barrels has been visualized in selected sections through the sensorimotor cortex.

Anterograde visualization of projections from lateral orbitofrontal cortex in rat (case: F36)

H. Kondo, G.M. Olsen, M. Gianatti, B. Monterotti, T. Sakshaug & M.P. Witter
High-resolution bright-field microscopy images (42) of serial coronal brain sections showing anterogradely labeled axons in orbitofrontal cortex (OFC) in a female adult Sprague Dawley rat. The anterograde tracer biotinylated dextran amine (BDA) was injected into the lateral orbitofrontal cortex (LOC). Brain sections are 300 µm apart and 50 µm thick. The dataset contains a complete series throughout the anterior-posterior extent of the brain, contributing to visualization of a topographically organized connectivity from OFC throughout the...

Anterograde visualization of projections from lateral orbitofrontal cortex in rat (case: F35)

H. Kondo, G.M. Olsen, M. Gianatti, B. Monterotti, T. Sakshaug & M.P. Witter
High-resolution bright-field microscopy images (43) of serial coronal brain sections showing anterogradely labeled axons in orbitofrontal cortex (OFC) in a female adult Sprague Dawley rat. The anterograde tracer biotinylated dextran amine (BDA) was injected into the lateral orbitofrontal cortex (LOC). Brain sections are 300 µm apart and 50 µm thick. The dataset contains a complete series throughout the anterior-posterior extent of the brain, contributing to visualization of a topographically organized connectivity from OFC throughout the...

Anterograde visualization of projections from ventral orbitofrontal cortex in rat (case: F34)

H. Kondo, G.M. Olsen, M. Gianatti, B. Monterotti, T. Sakshaug & M.P. Witter
High-resolution bright-field microscopy images (44) of serial coronal brain sections showing anterogradely labeled axons in orbitofrontal cortex (OFC) in a female adult Sprague Dawley rat. The anterograde tracer biotinylated dextran amine (BDA) was injected into the ventral orbitofrontal cortex (VOC). Brain sections are 300 µm apart and 50 µm thick. The dataset contains a complete series throughout the anterior-posterior extent of the brain, contributing to visualization of a topographically organized connectivity from OFC throughout the...

Anterograde visualization of projections from ventral orbitofrontal cortex in rat (case: F5)

H. Kondo, G.M. Olsen, M. Gianatti, B. Monterotti, T. Sakshaug & M.P. Witter
High-resolution bright-field microscopy images (43) of serial coronal brain sections showing anterogradely labeled axons in orbitofrontal cortex (OFC) in a female adult Sprague Dawley rat. The anterograde tracer biotinylated dextran amine (BDA) was injected into the ventral orbitofrontal cortex (VOC). Brain sections are 300 µm apart and 50 µm thick. The dataset contains a complete series throughout the anterior-posterior extent of the brain, contributing to visualization of a topographically organized connectivity from OFC throughout the...

Anterograde visualization of projections from lateral orbitofrontal cortex in rat (case: F38)

H. Kondo, G.M. Olsen, M. Gianatti, B. Monterotti, T. Sakshaug & M.P. Witter
High-resolution bright-field microscopy images (35) of serial coronal brain sections showing anterogradely labeled axons in orbitofrontal cortex (OFC) in a female adult Sprague Dawley rat. The anterograde tracer biotinylated dextran amine (BDA) was injected into the lateral orbitofrontal cortex (LOC). Brain sections are 300 µm apart and 50 µm thick. The dataset contains a complete series throughout the anterior-posterior extent of the brain, contributing to visualization of a topographically organized connectivity from OFC throughout the...

Density measurements of different receptors for stratum cellulare of CA (Hippocampus) [human, v1.0]

N. Palomero-Gallagher & K. Zilles
This dataset contains the densities (in fmol/mg protein) of receptors for classical neurotransmitters in stratum cellulare of CA (Hippocampus) obtained by means of quantitative _in vitro_ autoradiography. The receptor densities are visualized as _fingerprints_ (**fp**), which provide the mean density and standard deviation for each of the analyzed receptor types, averaged across samples. Overview of available measurements [ **receptor** \| **_neurotransmitter_** \| _labeling agent_ ]: **AMPA** \| **_glutamate_** \| _[3H]AMPA_ **kainate** \| **_glutamate_** \| _[3H]kainate_...

Waxholm Space atlas of the Sprague Dawley rat brain delineations v2

L. Kjonigsen, S. Lillehaug, J.G. Bjaalie, M.P. Witter & T.B. Leergaard
Anatomical delineations of 79 brain regions based on observations in a high resolution magnetic resonance imaging (MRI) volume ([DOI: 10.25493/DTSG-ZBS](https://www.humanbrainproject.eu/en/explore-the-brain/search/?facet_type[0]=Project#Dataset/a4a4984f-b1a2-4d28-9c94-fa4767b19c62 "Go to MRI volume")). This MRI volume features structural T2*-weighted and diffusion weighted that have been interpreted in context of legacy information from published resources. Version 2 of the Waxholm Space atlas of the Sprague Dawley rat brain contains 13 new and updated delineations of the hippocampal formation and parahippocampal region, and 66 structure delineations...

Density measurements of different receptors for CA3 (Hippocampus) [human, v1.0]

N. Palomero-Gallagher & K. Zilles
This dataset contains the densities (in fmol/mg protein) of receptors for classical neurotransmitters in CA3 (Hippocampus) obtained by means of quantitative _in vitro_ autoradiography. The receptor densities are visualized as _fingerprints_ (**fp**), which provide the mean density and standard deviation for each of the analyzed receptor types, averaged across samples. Overview of available measurements [ **receptor** \| **_neurotransmitter_** \| _labeling agent_ ]: **AMPA** \| **_glutamate_** \| _[3H]AMPA_ **kainate** \| **_glutamate_** \| _[3H]kainate_ **NMDA** \| **_glutamate_**...

Density measurements of different receptors for CA1 (Hippocampus) [human, v1.0]

N. Palomero-Gallagher & K. Zilles
This dataset contains the densities (in fmol/mg protein) of receptors for classical neurotransmitters in CA1 (Hippocampus) obtained by means of quantitative _in vitro_ autoradiography. The receptor densities are visualized as _fingerprints_ (**fp**), which provide the mean density and standard deviation for each of the analyzed receptor types, averaged across samples. Overview of available measurements [ **receptor** \| **_neurotransmitter_** \| _labeling agent_ ]: **AMPA** \| **_glutamate_** \| _[3H]AMPA_ **kainate** \| **_glutamate_** \| _[3H]kainate_ **NMDA** \| **_glutamate_**...

Mechanistic analysis of ERP in rodents

A. Arena, S. Thon & J. Storm
The aim of this task is to gain a better understanding on the nature of the evoked related potentials (ERPs) induced by a current stimulation of the secondary motor cortex (M2), which has been adopted for generating the cortical perturbation in task PCI-like measure in rodents. Since a current stimulation is not physiological, it can be difficult to predict the exact brain response. We, therefore, stimulated M2 of head-restrained awake rats with current pulses of...

Extraction of Parvalbumin positive cells from an Allen mouse brain in situ hybridisation experiment

SC Yates & M. Puchades
Aim of project: To assign coordinates and quantify parvalbumin positive cells extracted from a series of brain section images obtained from the Allen Brain ISH repository. Study design: The image series was exported from the Allen Mouse Brain Atlas Data Portal, http://mouse.brain-map.org/experiment/show/75457579 (© 2004 Allen Institute for Brain Science. Allen Mouse Brain Atlas. Available from: mouse.brain-map.org). The series included images of 20 sagittal mouse brain sections from the left hemisphere labelled for parvalbumin by in...

Reference delineations of Area hOc1 (V1, 17, CalcS) in individual sections of the BigBrain

K. Kiwitz, C. Schiffer, T. Dickscheid & K. Amunts
This dataset contains cytoarchitectonic maps of Area hOc1 (V1, 17, CalcS) in the BigBrain dataset [Amunts et al. 2013]. The mappings were created using the semi-automatic method presented in Schleicher et al. 1999, based on coronal histological sections on 1 micron resolution. Mappings are available on every 60th section of the visual system. They were then transformed to the sections of the 3D reconstructed BigBrain space using the transformations used in Amunts et al. 2013,...

Probabilistic map of the direct segment of the left arcuate fasciculus (atlas of deep white matter fibre bundles, version 2018)

P. Guevara, D. Duclap, C. Poupon, L. Marrakchi-Kacem, P. Fillard, D. Le Bihan, M. Leboyer, J. Houenou & J. F. Mangin
This data contains the probability map of the direct segment of the left arcuate fasciculus (atlas of deep white matter fibre bundles, version 2018), in the MNI ICBM152 reference brain. This bundle was identified by fibre clustering, from the tractography datasets of 78 subjects in Neurospin’s ARCHI database. The map shows the probability of finding a fibre belonging to the bundle in each voxel of the reference brain. The maximum probability corresponds to the voxels...

Probabilistic map of the right inferior fronto-occipital fasciculus (atlas of deep white matter fibre bundles, version 2018)

P. Guevara, D. Duclap, C. Poupon, L. Marrakchi-Kacem, P. Fillard, D. Le Bihan, M. Leboyer, J. Houenou & J. F. Mangin
This data contains the probability map of the right inferior fronto-occipital fasciculus (atlas of deep white matter fibre bundles, version 2018), in the MNI ICBM152 reference brain. This bundle was identified by fibre clustering, from the tractography datasets of 78 subjects in Neurospin’s ARCHI database. The map shows the probability of finding a fibre belonging to the bundle in each voxel of the reference brain. The maximum probability corresponds to the voxels with the highest...

Morphological reconstruction of cholinergic interneurons in the striatum

J. F. Nylén & M. Dorst
The study entails the collection of single cell patch-clamp recordings and morphological reconstruction from cholinergic interneurons in the striatum. The project also includes literature review of molecular composition in terms of ion channels and receptors and electrophysiological behaviors. The data consists of patch-clamp recordings and 3D- reconstructions using the Neurolucida system. Only data related to morphological reconstructions presented here.

Coronal section images series showing neuronal nuclei, calbindin and parvalbumin in the rat hippocampal region

C. Boccara, L. Kjonigsen, I. Hammer, J.G. Bjaalie, T.B. Leergaard & M.P. Witter
Bright-field microscopy images of serial coronal brain sections showing neuronal nuclei (NeuN), calbindin and parvalbumin in an adult male Long Evans rat (case 1366), starting from the anterior hippocampus to the posterior end of the entorhinal cortex. The images show the detailed architecture of this complex brain region and enable identification of regional and subregional boundaries.

Densities and 3D distributions of synapses using FIB/SEM imaging in the mouse neocortex (somatosensory cortex)

M. Turegano, R. Rodriguez, J. DeFelipe & A. Merchan-Perez
Synapses have been identified, segmented and quantified in the adult mouse somatosensory cortex with 3D electron microscopy (FIB-SEM). Three animals have been used (ID5, ID24 and ID25). The six layers of the somatosensory cortex have been studied. Data obtained include the number of asymmetric and symmetric synapses, their sizes and their spatial distribution.

Probabilistic cytoarchitectonic map of Area STS1 (STS) (v3.0)

D. Zachlod, S. Bludau, H. Mohlberg & K. Amunts
This dataset contains the distinct probabilistic cytoarchitectonic map of Area STS1 (STS) in the individual, single subject template of the MNI Colin 27 reference space. As part of the Julich-Brain cytoarchitectonic atlas, the area was identified using classical histological criteria and quantitative cytoarchitectonic analysis on cell-body-stained histological sections of 10 human postmortem brains obtained from the body donor program of the University of Düsseldorf. The results of the cytoarchitectonic analysis were then mapped to the...

Probabilistic cytoarchitectonic map of Area p24ab (pACC) (v16.0)

N. Palomero-Gallagher, F. Hoffstaedter, H. Mohlberg, S. B. Eickhoff, K. Amunts & K. Zilles
This dataset contains the distinct probabilistic cytoarchitectonic map of Area p24ab (pACC) in the individual, single subject template of the MNI Colin 27 reference space. As part of the Julich-Brain cytoarchitectonic atlas, the area was identified using cytoarchitectonic analysis on cell-body-stained histological sections of 10 human postmortem brains obtained from the body donor program of the University of Düsseldorf. The results of the cytoarchitectonic analysis were then mapped to the reference space, where each voxel...

3D reconstructions of pyramidal cells in mouse hippocampal CA1 region

J. DeFelipe, R. Benavides-Piccione, I. Fernaud, A. Kastanauskaite, M. Regalado, S. Gonzalez-Tapia, G. Leon, D. Cano & C. Rojo
We have produced 3D reconstructions of pyramidal cells in the mouse hippocampal CA1 region using Neurolucida software from 3D confocal stack of images. Data from 3D reconstructions will be useful to modeling and integration of anatomical data with functional studies in mouse hippocampus.

Synapse maps - confocal

A. Merchan-Perez, R. Benevides, S. Gonzalez, S. Tapia, A. Kastanauskaite, A. Muñoz, A. Santuy, J. DeFelipe, R. Rodriguez, C. Alvarez & L. Valdes
We have processed brain material from transgenic mice expressing the enhanced green fluorescent protein (EGFP) coupled with the synaptic protein PSD95 (EGFP95) in order to accomplish the automated counting process using 3D connected components of fluorescent puncta in stacks of confocal microscope images for the CA1 region of the hippocampal formation. Furthermore, we have developed a PSDs volume segmentation and quantification algorithm designed to be executed in a supercomputer in order to obtain results in...

Interpolated 3D map of Area hIP5 (IPS) in the BigBrain

M. Richter, K. Amunts, H. Mohlberg, S. Bludau, S. B. Eickhoff, K. Zilles & S. Caspers
This dataset contains cytoarchitectonic maps of Area hIP5 (IPS) in the Big Brain dataset [Amunts et al. 2013]. The mappings were created using the semi-automatic method presented in Schleicher et al. 1999, based on coronal histological sections on 1 micron resolution. Mappings are available on approximately every 15-60th section of this region. They were then aligned to the corresponding sections of the 3D reconstructed Big Brain space, using the transformations used in Amunts et al....

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  • 2019
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