cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.35077/act-nap
title: Neuron Morphology data in tiff stack format from Patch-seq experiments in human neocortex, Cell ID 685780246

description: Human neocortical neurons display diverse morphology, physiology and gene expression profiles. We use a method called Patch-seq, where these three data modalities are assayed simultaneously from the same neuron, to understand how the genetic profile of human neocortical neuron types corresponds to their morphological and electrophysiological phenotypes. This collection may contain image stacks (TIFF), reconstruction files in image space (.swc, µm), a transformed file (.swc, µm) oriented so that the y axis extends vertically towards the pia surface, and a marker file (.marker, µm) indicating nodes where dendrites were truncated (10), reconstruction was not continued (20), or surface of tissue was closest to soma (30).
description: https://www.protocols.io/view/patch-seq-recording-and-extraction-detailed-protoc-5qpvoyb2bg4o/v2, https://www.protocols.io/view/3d-reconstruction-of-neurons-in-vaa3d-v-3-36wgq5683gk5/v3
description: DATASET METADATA: title:'Neuron Morphology data in tiff stack format from Patch-seq experiments in human neocortex, Cell ID 685780246', GeneralModality:'cell morphology', Technique:'Patch-seq' SPECIMEN METADATA: LocalID:'H18.03.008', Species:'Human', NCBITaxonomy:'NCBI:txid9606', Age:'19', Ageunit:'years', Sex:'Female', OrganName:'Brain', SampleLocalID:'685780246', Atlas:'Ding, Song-Lin et al. “Comprehensive cellular-resolution atlas of the adult human brain.” The Journal of comparative neurology vol. 524,16 (2016): 3127-481. doi:10.1002/cne.24279', Locations:'MTG' INSTRUMENT METADATA: MicroscopeType:'Brightfield', MicroscopeManufacturerAndModel:'Zeiss AxioImager Z2 microscope', ObjectiveImmersion:'Oil' IMAGE METADATA: xAxis:'NA', yAxis:'NA', zAxis:'NA', Number:'NA', displayColor:'NA', stepSizeX:'0.114', stepSizeY:'0.114', stepSizeZ:'0.44'
DOI: 10.35077/act-net
title: Neuron Morphology data in tiff stack format from Patch-seq experiments in human neocortex, Cell ID 685790763

description: Human neocortical neurons display diverse morphology, physiology and gene expression profiles. We use a method called Patch-seq, where these three data modalities are assayed simultaneously from the same neuron, to understand how the genetic profile of human neocortical neuron types corresponds to their morphological and electrophysiological phenotypes. This collection may contain image stacks (TIFF), reconstruction files in image space (.swc, µm), a transformed file (.swc, µm) oriented so that the y axis extends vertically towards the pia surface, and a marker file (.marker, µm) indicating nodes where dendrites were truncated (10), reconstruction was not continued (20), or surface of tissue was closest to soma (30).
description: https://www.protocols.io/view/patch-seq-recording-and-extraction-detailed-protoc-5qpvoyb2bg4o/v2, https://www.protocols.io/view/3d-reconstruction-of-neurons-in-vaa3d-v-3-36wgq5683gk5/v3
description: DATASET METADATA: title:'Neuron Morphology data in tiff stack format from Patch-seq experiments in human neocortex, Cell ID 685790763', GeneralModality:'cell morphology', Technique:'Patch-seq' SPECIMEN METADATA: LocalID:'H18.03.008', Species:'Human', NCBITaxonomy:'NCBI:txid9606', Age:'19', Ageunit:'years', Sex:'Female', OrganName:'Brain', SampleLocalID:'685790763', Atlas:'Ding, Song-Lin et al. “Comprehensive cellular-resolution atlas of the adult human brain.” The Journal of comparative neurology vol. 524,16 (2016): 3127-481. doi:10.1002/cne.24222', Locations:'MTG' INSTRUMENT METADATA: MicroscopeType:'Brightfield', MicroscopeManufacturerAndModel:'Zeiss AxioImager Z2 microscope', ObjectiveImmersion:'Oil' IMAGE METADATA: xAxis:'NA', yAxis:'NA', zAxis:'NA', Number:'NA', displayColor:'NA', stepSizeX:'0.114', stepSizeY:'0.114', stepSizeZ:'0.44'
DOI: 10.25345/c5vx06d1x
title: MassIVE MSV000091761 - DSSO Crosslinking of IEX column fractions from Tetrahymena cilia extract fractionation.
title: Procedure details are reported in McCafferty et al. eLife2022;11e81977. Briefly cilia extract from Tetrahymena thermophila SB715 was fractionated on a mixed bed IEX HPLC column and all resulting fractions were crosslinked by addition of DSSO to 0.5mM. Following reduction, alkylation, trypsin digestion, and desalting, mass spectra were collected on an Orbitrap Fusion Lumos using a DDA MS2-MS3 method and spectra were processed in ProteomeDiscoverer 2.3 using the Xlinkx node to identify crosslinks. The look-up database for crosslink identification was generated from the same .RAW files using a standard Basic workflow to identify proteins present in the fractions.
DOI: 10.35077/act-new
title: Neuron Morphology data in tiff stack format from Patch-seq experiments in human neocortex, Cell ID 685806972

description: Human neocortical neurons display diverse morphology, physiology and gene expression profiles. We use a method called Patch-seq, where these three data modalities are assayed simultaneously from the same neuron, to understand how the genetic profile of human neocortical neuron types corresponds to their morphological and electrophysiological phenotypes. This collection may contain image stacks (TIFF), reconstruction files in image space (.swc, µm), a transformed file (.swc, µm) oriented so that the y axis extends vertically towards the pia surface, and a marker file (.marker, µm) indicating nodes where dendrites were truncated (10), reconstruction was not continued (20), or surface of tissue was closest to soma (30).
description: https://www.protocols.io/view/patch-seq-recording-and-extraction-detailed-protoc-5qpvoyb2bg4o/v2, https://www.protocols.io/view/3d-reconstruction-of-neurons-in-vaa3d-v-3-36wgq5683gk5/v3
description: DATASET METADATA: title:'Neuron Morphology data in tiff stack format from Patch-seq experiments in human neocortex, Cell ID 685806972', GeneralModality:'cell morphology', Technique:'Patch-seq' SPECIMEN METADATA: LocalID:'H18.03.008', Species:'Human', NCBITaxonomy:'NCBI:txid9606', Age:'19', Ageunit:'years', Sex:'Female', OrganName:'Brain', SampleLocalID:'685806972', Atlas:'Ding, Song-Lin et al. “Comprehensive cellular-resolution atlas of the adult human brain.” The Journal of comparative neurology vol. 524,16 (2016): 3127-481. doi:10.1002/cne.24223', Locations:'MTG' INSTRUMENT METADATA: MicroscopeType:'Brightfield', MicroscopeManufacturerAndModel:'Zeiss AxioImager Z2 microscope', ObjectiveImmersion:'Oil' IMAGE METADATA: xAxis:'NA', yAxis:'NA', zAxis:'NA', Number:'NA', displayColor:'NA', stepSizeX:'0.114', stepSizeY:'0.114', stepSizeZ:'0.44'
DOI: 10.35077/act-nil
title: Neuron Morphology data in tiff stack format from Patch-seq experiments in human neocortex, Cell ID 685821059

description: Human neocortical neurons display diverse morphology, physiology and gene expression profiles. We use a method called Patch-seq, where these three data modalities are assayed simultaneously from the same neuron, to understand how the genetic profile of human neocortical neuron types corresponds to their morphological and electrophysiological phenotypes. This collection may contain image stacks (TIFF), reconstruction files in image space (.swc, µm), a transformed file (.swc, µm) oriented so that the y axis extends vertically towards the pia surface, and a marker file (.marker, µm) indicating nodes where dendrites were truncated (10), reconstruction was not continued (20), or surface of tissue was closest to soma (30).
description: https://www.protocols.io/view/patch-seq-recording-and-extraction-detailed-protoc-5qpvoyb2bg4o/v2, https://www.protocols.io/view/3d-reconstruction-of-neurons-in-vaa3d-v-3-36wgq5683gk5/v3
description: DATASET METADATA: title:'Neuron Morphology data in tiff stack format from Patch-seq experiments in human neocortex, Cell ID 685821059', GeneralModality:'cell morphology', Technique:'Patch-seq' SPECIMEN METADATA: LocalID:'H18.03.008', Species:'Human', NCBITaxonomy:'NCBI:txid9606', Age:'19', Ageunit:'years', Sex:'Female', OrganName:'Brain', SampleLocalID:'685821059', Atlas:'Ding, Song-Lin et al. “Comprehensive cellular-resolution atlas of the adult human brain.” The Journal of comparative neurology vol. 524,16 (2016): 3127-481. doi:10.1002/cne.24252', Locations:'MTG' INSTRUMENT METADATA: MicroscopeType:'Brightfield', MicroscopeManufacturerAndModel:'Zeiss AxioImager Z2 microscope', ObjectiveImmersion:'Oil' IMAGE METADATA: xAxis:'NA', yAxis:'NA', zAxis:'NA', Number:'NA', displayColor:'NA', stepSizeX:'0.114', stepSizeY:'0.114', stepSizeZ:'0.44'
DOI: 10.35077/act-nip
title: Neuron Morphology data in tiff stack format from Patch-seq experiments in human neocortex, Cell ID 689306781

description: Human neocortical neurons display diverse morphology, physiology and gene expression profiles. We use a method called Patch-seq, where these three data modalities are assayed simultaneously from the same neuron, to understand how the genetic profile of human neocortical neuron types corresponds to their morphological and electrophysiological phenotypes. This collection may contain image stacks (TIFF), reconstruction files in image space (.swc, µm), a transformed file (.swc, µm) oriented so that the y axis extends vertically towards the pia surface, and a marker file (.marker, µm) indicating nodes where dendrites were truncated (10), reconstruction was not continued (20), or surface of tissue was closest to soma (30).
description: https://www.protocols.io/view/patch-seq-recording-and-extraction-detailed-protoc-5qpvoyb2bg4o/v2, https://www.protocols.io/view/3d-reconstruction-of-neurons-in-vaa3d-v-3-36wgq5683gk5/v3
description: DATASET METADATA: title:'Neuron Morphology data in tiff stack format from Patch-seq experiments in human neocortex, Cell ID 689306781', GeneralModality:'cell morphology', Technique:'Patch-seq' SPECIMEN METADATA: LocalID:'H18.03.009', Species:'Human', NCBITaxonomy:'NCBI:txid9606', Age:'19', Ageunit:'years', Sex:'Male', OrganName:'Brain', SampleLocalID:'689306781', Atlas:'Ding, Song-Lin et al. “Comprehensive cellular-resolution atlas of the adult human brain.” The Journal of comparative neurology vol. 524,16 (2016): 3127-481. doi:10.1002/cne.24215', Locations:'MTG' INSTRUMENT METADATA: MicroscopeType:'Brightfield', MicroscopeManufacturerAndModel:'Zeiss AxioImager Z2 microscope', ObjectiveImmersion:'Oil' IMAGE METADATA: xAxis:'NA', yAxis:'NA', zAxis:'NA', Number:'NA', displayColor:'NA', stepSizeX:'0.114', stepSizeY:'0.114', stepSizeZ:'0.28000000000000003'
DOI: 10.35077/act-nod
title: Neuron Morphology data in tiff stack format from Patch-seq experiments in human neocortex, Cell ID 689319155

description: Human neocortical neurons display diverse morphology, physiology and gene expression profiles. We use a method called Patch-seq, where these three data modalities are assayed simultaneously from the same neuron, to understand how the genetic profile of human neocortical neuron types corresponds to their morphological and electrophysiological phenotypes. This collection may contain image stacks (TIFF), reconstruction files in image space (.swc, µm), a transformed file (.swc, µm) oriented so that the y axis extends vertically towards the pia surface, and a marker file (.marker, µm) indicating nodes where dendrites were truncated (10), reconstruction was not continued (20), or surface of tissue was closest to soma (30).
description: https://www.protocols.io/view/patch-seq-recording-and-extraction-detailed-protoc-5qpvoyb2bg4o/v2, https://www.protocols.io/view/3d-reconstruction-of-neurons-in-vaa3d-v-3-36wgq5683gk5/v3
description: DATASET METADATA: title:'Neuron Morphology data in tiff stack format from Patch-seq experiments in human neocortex, Cell ID 689319155', GeneralModality:'cell morphology', Technique:'Patch-seq' SPECIMEN METADATA: LocalID:'H18.03.009', Species:'Human', NCBITaxonomy:'NCBI:txid9606', Age:'19', Ageunit:'years', Sex:'Male', OrganName:'Brain', SampleLocalID:'689319155', Atlas:'Ding, Song-Lin et al. “Comprehensive cellular-resolution atlas of the adult human brain.” The Journal of comparative neurology vol. 524,16 (2016): 3127-481. doi:10.1002/cne.24291', Locations:'MTG' INSTRUMENT METADATA: MicroscopeType:'Brightfield', MicroscopeManufacturerAndModel:'Zeiss AxioImager Z2 microscope', ObjectiveImmersion:'Oil' IMAGE METADATA: xAxis:'NA', yAxis:'NA', zAxis:'NA', Number:'NA', displayColor:'NA', stepSizeX:'0.114', stepSizeY:'0.114', stepSizeZ:'0.28000000000000003'
DOI: 10.35077/act-nor
title: Neuron Morphology data in tiff stack format from Patch-seq experiments in human neocortex, Cell ID 689331391

description: Human neocortical neurons display diverse morphology, physiology and gene expression profiles. We use a method called Patch-seq, where these three data modalities are assayed simultaneously from the same neuron, to understand how the genetic profile of human neocortical neuron types corresponds to their morphological and electrophysiological phenotypes. This collection may contain image stacks (TIFF), reconstruction files in image space (.swc, µm), a transformed file (.swc, µm) oriented so that the y axis extends vertically towards the pia surface, and a marker file (.marker, µm) indicating nodes where dendrites were truncated (10), reconstruction was not continued (20), or surface of tissue was closest to soma (30).
description: https://www.protocols.io/view/patch-seq-recording-and-extraction-detailed-protoc-5qpvoyb2bg4o/v2, https://www.protocols.io/view/3d-reconstruction-of-neurons-in-vaa3d-v-3-36wgq5683gk5/v3
description: DATASET METADATA: title:'Neuron Morphology data in tiff stack format from Patch-seq experiments in human neocortex, Cell ID 689331391', GeneralModality:'cell morphology', Technique:'Patch-seq' SPECIMEN METADATA: LocalID:'H18.03.009', Species:'Human', NCBITaxonomy:'NCBI:txid9606', Age:'19', Ageunit:'years', Sex:'Male', OrganName:'Brain', SampleLocalID:'689331391', Atlas:'Ding, Song-Lin et al. “Comprehensive cellular-resolution atlas of the adult human brain.” The Journal of comparative neurology vol. 524,16 (2016): 3127-481. doi:10.1002/cne.24250', Locations:'MTG' INSTRUMENT METADATA: MicroscopeType:'Brightfield', MicroscopeManufacturerAndModel:'Zeiss AxioImager Z2 microscope', ObjectiveImmersion:'Oil' IMAGE METADATA: xAxis:'NA', yAxis:'NA', zAxis:'NA', Number:'NA', displayColor:'NA', stepSizeX:'0.114', stepSizeY:'0.114', stepSizeZ:'0.28000000000000003'
DOI: 10.35077/act-now
title: Neuron Morphology data in tiff stack format from Patch-seq experiments in human neocortex, Cell ID 689360084

description: Human neocortical neurons display diverse morphology, physiology and gene expression profiles. We use a method called Patch-seq, where these three data modalities are assayed simultaneously from the same neuron, to understand how the genetic profile of human neocortical neuron types corresponds to their morphological and electrophysiological phenotypes. This collection may contain image stacks (TIFF), reconstruction files in image space (.swc, µm), a transformed file (.swc, µm) oriented so that the y axis extends vertically towards the pia surface, and a marker file (.marker, µm) indicating nodes where dendrites were truncated (10), reconstruction was not continued (20), or surface of tissue was closest to soma (30).
description: https://www.protocols.io/view/patch-seq-recording-and-extraction-detailed-protoc-5qpvoyb2bg4o/v2, https://www.protocols.io/view/3d-reconstruction-of-neurons-in-vaa3d-v-3-36wgq5683gk5/v3
description: DATASET METADATA: title:'Neuron Morphology data in tiff stack format from Patch-seq experiments in human neocortex, Cell ID 689360084', GeneralModality:'cell morphology', Technique:'Patch-seq' SPECIMEN METADATA: LocalID:'H18.03.009', Species:'Human', NCBITaxonomy:'NCBI:txid9606', Age:'19', Ageunit:'years', Sex:'Male', OrganName:'Brain', SampleLocalID:'689360084', Atlas:'Ding, Song-Lin et al. “Comprehensive cellular-resolution atlas of the adult human brain.” The Journal of comparative neurology vol. 524,16 (2016): 3127-481. doi:10.1002/cne.24261', Locations:'MTG' INSTRUMENT METADATA: MicroscopeType:'Brightfield', MicroscopeManufacturerAndModel:'Zeiss AxioImager Z2 microscope', ObjectiveImmersion:'Oil' IMAGE METADATA: xAxis:'NA', yAxis:'NA', zAxis:'NA', Number:'NA', displayColor:'NA', stepSizeX:'0.114', stepSizeY:'0.114', stepSizeZ:'0.28000000000000003'
DOI: 10.35077/act-nut
title: Neuron Morphology data in tiff stack format from Patch-seq experiments in human neocortex, Cell ID 695505884

description: Human neocortical neurons display diverse morphology, physiology and gene expression profiles. We use a method called Patch-seq, where these three data modalities are assayed simultaneously from the same neuron, to understand how the genetic profile of human neocortical neuron types corresponds to their morphological and electrophysiological phenotypes. This collection may contain image stacks (TIFF), reconstruction files in image space (.swc, µm), a transformed file (.swc, µm) oriented so that the y axis extends vertically towards the pia surface, and a marker file (.marker, µm) indicating nodes where dendrites were truncated (10), reconstruction was not continued (20), or surface of tissue was closest to soma (30).
description: https://www.protocols.io/view/patch-seq-recording-and-extraction-detailed-protoc-5qpvoyb2bg4o/v2, https://www.protocols.io/view/3d-reconstruction-of-neurons-in-vaa3d-v-3-36wgq5683gk5/v3
description: DATASET METADATA: title:'Neuron Morphology data in tiff stack format from Patch-seq experiments in human neocortex, Cell ID 695505884', GeneralModality:'cell morphology', Technique:'Patch-seq' SPECIMEN METADATA: LocalID:'H18.03.010', Species:'Human', NCBITaxonomy:'NCBI:txid9606', Age:'31', Ageunit:'years', Sex:'Male', OrganName:'Brain', SampleLocalID:'695505884', Atlas:'Ding, Song-Lin et al. “Comprehensive cellular-resolution atlas of the adult human brain.” The Journal of comparative neurology vol. 524,16 (2016): 3127-481. doi:10.1002/cne.24208', Locations:'MTG' INSTRUMENT METADATA: MicroscopeType:'Brightfield', MicroscopeManufacturerAndModel:'Zeiss AxioImager Z2 microscope', ObjectiveImmersion:'Oil' IMAGE METADATA: xAxis:'NA', yAxis:'NA', zAxis:'NA', Number:'NA', displayColor:'NA', stepSizeX:'0.114', stepSizeY:'0.114', stepSizeZ:'0.44'
DOI: 10.35077/act-oak
title: Neuron Morphology data in tiff stack format from Patch-seq experiments in human neocortex, Cell ID 695574463

description: Human neocortical neurons display diverse morphology, physiology and gene expression profiles. We use a method called Patch-seq, where these three data modalities are assayed simultaneously from the same neuron, to understand how the genetic profile of human neocortical neuron types corresponds to their morphological and electrophysiological phenotypes. This collection may contain image stacks (TIFF), reconstruction files in image space (.swc, µm), a transformed file (.swc, µm) oriented so that the y axis extends vertically towards the pia surface, and a marker file (.marker, µm) indicating nodes where dendrites were truncated (10), reconstruction was not continued (20), or surface of tissue was closest to soma (30).
description: https://www.protocols.io/view/patch-seq-recording-and-extraction-detailed-protoc-5qpvoyb2bg4o/v2, https://www.protocols.io/view/3d-reconstruction-of-neurons-in-vaa3d-v-3-36wgq5683gk5/v3
description: DATASET METADATA: title:'Neuron Morphology data in tiff stack format from Patch-seq experiments in human neocortex, Cell ID 695574463', GeneralModality:'cell morphology', Technique:'Patch-seq' SPECIMEN METADATA: LocalID:'H18.03.010', Species:'Human', NCBITaxonomy:'NCBI:txid9606', Age:'31', Ageunit:'years', Sex:'Male', OrganName:'Brain', SampleLocalID:'695574463', Atlas:'Ding, Song-Lin et al. “Comprehensive cellular-resolution atlas of the adult human brain.” The Journal of comparative neurology vol. 524,16 (2016): 3127-481. doi:10.1002/cne.24204', Locations:'MTG' INSTRUMENT METADATA: MicroscopeType:'Brightfield', MicroscopeManufacturerAndModel:'Zeiss AxioImager Z2 microscope', ObjectiveImmersion:'Oil' IMAGE METADATA: xAxis:'NA', yAxis:'NA', zAxis:'NA', Number:'NA', displayColor:'NA', stepSizeX:'0.114', stepSizeY:'0.114', stepSizeZ:'0.44'
DOI: 10.15156/bio/sh3619810.08fu
title: SH3619810.08FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15156/bio/sh3619811.08fu
title: SH3619811.08FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15156/bio/sh3619812.08fu
title: SH3619812.08FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.