cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.19758836.v1
title: Confidence bands for a log-concave density

description: We present a new approach for inference about a univariate log-concave distribution: Instead of using the method of maximum likelihood, we propose to incorporate the log-concavity constraint in an appropriate nonparametric confidence set for the cdf <i>F</i>. This approach has the advantage that it automatically provides a measure of statistical uncertainty and it thus overcomes a marked limitation of the maximum likelihood estimate. In particular, we show how to construct confidence bands for the density that have a finite sample guaranteed confidence level. The nonparametric confidence set for <i>F</i> which we introduce here has attractive computational and statistical properties: It allows to bring modern tools from optimization to bear on this problem via difference of convex programming, and it results in optimal statistical inference. We show that the width of the resulting confidence bands converges at nearly the parametric n−12 rate when the log density is <i>k</i>-affine.
DOI: 10.5523/bris.2d4m29jbudzg92jg0k7gkjw23g
title: Whole cell and surface protein expression assessment in macrophage subtype

description: This data set contains a .ods file with differentially and non-differentially expressed proteins within M1, M2a and M2c macrophages compared to M0 control macrophages, assessed by whole cell or surface proteomics analysis. The data consists of 9 tables
DOI: 10.35077/set
title: CISI C57BL/6 mouse coronal sections containing MOp - October 2020 - tissue section 2

description: This dataset is part of an experiment demonstrating Composite In Situ Imaging (CISI) on whole coronal sections from a bisected mouse brain. The experiment profiled 37 genes through a combination of composite measurements and validation measurements in 12 tissue sections, with the validation measurements varying in each section. Both types of measurements were made using cyclic HCR-FISH, with composite measurements consisting of multiple probes simultaneously staining with the same dye in a given round of imaging. Composite measurements were decompressed to recover predicted images for individual genes, and these were compared with validation images and used for downstream analysis (e.g. cell type clustering).
description: FISH
description: DATASET METADATA: title:'CISI C57BL/6 mouse coronal sections containing MOp - October 2020 - tissue section 2', GeneralModality:'spatial transcriptomics', Technique:'CISI' SPECIMEN METADATA: LocalID:'Tissue2', Species:'mouse', NCBITaxonomy:'NCBI:txid10090', Age:'unknown (adult)', OrganName:'Brain', Locations:'Coronal sections' INSTRUMENT METADATA: MicroscopeType:'Confocal', MicroscopeManufacturerAndModel:'Yokogawa W1 on Nikon Eclipse Ti' IMAGE METADATA: stepSizeX:'0.323', stepSizeY:'0.323', stepSizeZ:'1.5'
DOI: 10.34740/kaggle/dsv/3852234
title: Mahanagar Yatayat Dataset
DOI: 10.35077/shy
title: CISI C57BL/6 mouse coronal sections containing MOp - October 2020 - tissue section 3

description: This dataset is part of an experiment demonstrating Composite In Situ Imaging (CISI) on whole coronal sections from a bisected mouse brain. The experiment profiled 37 genes through a combination of composite measurements and validation measurements in 12 tissue sections, with the validation measurements varying in each section. Both types of measurements were made using cyclic HCR-FISH, with composite measurements consisting of multiple probes simultaneously staining with the same dye in a given round of imaging. Composite measurements were decompressed to recover predicted images for individual genes, and these were compared with validation images and used for downstream analysis (e.g. cell type clustering).
description: FISH
description: DATASET METADATA: title:'CISI C57BL/6 mouse coronal sections containing MOp - October 2020 - tissue section 3', GeneralModality:'spatial transcriptomics', Technique:'CISI' SPECIMEN METADATA: LocalID:'Tissue3', Species:'mouse', NCBITaxonomy:'NCBI:txid10090', Age:'unknown (adult)', OrganName:'Brain', Locations:'Coronal sections' INSTRUMENT METADATA: MicroscopeType:'Confocal', MicroscopeManufacturerAndModel:'Yokogawa W1 on Nikon Eclipse Ti' IMAGE METADATA: stepSizeX:'0.323', stepSizeY:'0.323', stepSizeZ:'1.5'
DOI: 10.6084/m9.figshare.20134415
title: error

description: Data and R script used in the papper
DOI: 10.6084/m9.figshare.20134415.v3
title: error

description: Data and R script used in the papper
DOI: 10.6084/m9.figshare.20134415.v2
title: Extreme rainfall event, but not microsite, constrains the germination of the perennial grasses Leptochloa crinita and Pappophorum caespitosum in two different sites along a stress gradient in the central Monte desert, Argentina.

description: Data and R script used in the papper Extreme rainfall event, but not microsite, constrains the germination of the perennial grasses Leptochloa crinita and Pappophorum caespitosum in two different sites along a stress gradient in the central Monte desert, Argentina.
DOI: 10.35077/sip
title: CISI C57BL/6 mouse coronal sections containing MOp - October 2020 - tissue section 4

description: This dataset is part of an experiment demonstrating Composite In Situ Imaging (CISI) on whole coronal sections from a bisected mouse brain. The experiment profiled 37 genes through a combination of composite measurements and validation measurements in 12 tissue sections, with the validation measurements varying in each section. Both types of measurements were made using cyclic HCR-FISH, with composite measurements consisting of multiple probes simultaneously staining with the same dye in a given round of imaging. Composite measurements were decompressed to recover predicted images for individual genes, and these were compared with validation images and used for downstream analysis (e.g. cell type clustering).
description: FISH
description: DATASET METADATA: title:'CISI C57BL/6 mouse coronal sections containing MOp - October 2020 - tissue section 4', GeneralModality:'spatial transcriptomics', Technique:'CISI' SPECIMEN METADATA: LocalID:'Tissue4', Species:'mouse', NCBITaxonomy:'NCBI:txid10090', Age:'unknown (adult)', OrganName:'Brain', Locations:'Coronal sections' INSTRUMENT METADATA: MicroscopeType:'Confocal', MicroscopeManufacturerAndModel:'Yokogawa W1 on Nikon Eclipse Ti' IMAGE METADATA: stepSizeX:'0.323', stepSizeY:'0.323', stepSizeZ:'1.5'
DOI: 10.35077/sit
title: CISI C57BL/6 mouse coronal sections containing MOp - October 2020 - tissue section 5

description: This dataset is part of an experiment demonstrating Composite In Situ Imaging (CISI) on whole coronal sections from a bisected mouse brain. The experiment profiled 37 genes through a combination of composite measurements and validation measurements in 12 tissue sections, with the validation measurements varying in each section. Both types of measurements were made using cyclic HCR-FISH, with composite measurements consisting of multiple probes simultaneously staining with the same dye in a given round of imaging. Composite measurements were decompressed to recover predicted images for individual genes, and these were compared with validation images and used for downstream analysis (e.g. cell type clustering).
description: FISH
description: DATASET METADATA: title:'CISI C57BL/6 mouse coronal sections containing MOp - October 2020 - tissue section 5', GeneralModality:'spatial transcriptomics', Technique:'CISI' SPECIMEN METADATA: LocalID:'Tissue5', Species:'mouse', NCBITaxonomy:'NCBI:txid10090', Age:'unknown (adult)', OrganName:'Brain', Locations:'Coronal sections' INSTRUMENT METADATA: MicroscopeType:'Confocal', MicroscopeManufacturerAndModel:'Yokogawa W1 on Nikon Eclipse Ti' IMAGE METADATA: stepSizeX:'0.323', stepSizeY:'0.323', stepSizeZ:'1.5'
DOI: 10.35077/ski
title: CISI C57BL/6 mouse coronal sections containing MOp - October 2020 - tissue section 6

description: This dataset is part of an experiment demonstrating Composite In Situ Imaging (CISI) on whole coronal sections from a bisected mouse brain. The experiment profiled 37 genes through a combination of composite measurements and validation measurements in 12 tissue sections, with the validation measurements varying in each section. Both types of measurements were made using cyclic HCR-FISH, with composite measurements consisting of multiple probes simultaneously staining with the same dye in a given round of imaging. Composite measurements were decompressed to recover predicted images for individual genes, and these were compared with validation images and used for downstream analysis (e.g. cell type clustering).
description: FISH
description: DATASET METADATA: title:'CISI C57BL/6 mouse coronal sections containing MOp - October 2020 - tissue section 6', GeneralModality:'spatial transcriptomics', Technique:'CISI' SPECIMEN METADATA: LocalID:'Tissue6', Species:'mouse', NCBITaxonomy:'NCBI:txid10090', Age:'unknown (adult)', OrganName:'Brain', Locations:'Coronal sections' INSTRUMENT METADATA: MicroscopeType:'Confocal', MicroscopeManufacturerAndModel:'Yokogawa W1 on Nikon Eclipse Ti' IMAGE METADATA: stepSizeX:'0.323', stepSizeY:'0.323', stepSizeZ:'1.5'
DOI: 10.5281/zenodo.4766415
title: croycrab/ECY20-1435: first release

description: first release ? Not sure if I'm doing this correctly, but check out the code if you're interested in the manuscript details.
DOI: 10.5281/zenodo.4766414
title: croycrab/ECY20-1435: first release

description: first release ? Not sure if I'm doing this correctly, but check out the code if you're interested in the manuscript details.
DOI: 10.6084/m9.figshare.19991204.v2
title: Social effects of rabies infection in male vampire bats (Desmodus rotundus)

description: Dataset and R code for manuscript: Social effects of rabies infection in male vampire bats (Desmodus rotundus).
DOI: 10.35077/sky
title: CISI C57BL/6 mouse coronal sections containing MOp - October 2020 - tissue section 7

description: This dataset is part of an experiment demonstrating Composite In Situ Imaging (CISI) on whole coronal sections from a bisected mouse brain. The experiment profiled 37 genes through a combination of composite measurements and validation measurements in 12 tissue sections, with the validation measurements varying in each section. Both types of measurements were made using cyclic HCR-FISH, with composite measurements consisting of multiple probes simultaneously staining with the same dye in a given round of imaging. Composite measurements were decompressed to recover predicted images for individual genes, and these were compared with validation images and used for downstream analysis (e.g. cell type clustering).
description: FISH
description: DATASET METADATA: title:'CISI C57BL/6 mouse coronal sections containing MOp - October 2020 - tissue section 7', GeneralModality:'spatial transcriptomics', Technique:'CISI' SPECIMEN METADATA: LocalID:'Tissue7', Species:'mouse', NCBITaxonomy:'NCBI:txid10090', Age:'unknown (adult)', OrganName:'Brain', Locations:'Coronal sections' INSTRUMENT METADATA: MicroscopeType:'Confocal', MicroscopeManufacturerAndModel:'Yokogawa W1 on Nikon Eclipse Ti' IMAGE METADATA: stepSizeX:'0.323', stepSizeY:'0.323', stepSizeZ:'1.5'
DOI: 10.35077/sly
title: CISI C57BL/6 mouse coronal sections containing MOp - October 2020 - tissue section 8

description: This dataset is part of an experiment demonstrating Composite In Situ Imaging (CISI) on whole coronal sections from a bisected mouse brain. The experiment profiled 37 genes through a combination of composite measurements and validation measurements in 12 tissue sections, with the validation measurements varying in each section. Both types of measurements were made using cyclic HCR-FISH, with composite measurements consisting of multiple probes simultaneously staining with the same dye in a given round of imaging. Composite measurements were decompressed to recover predicted images for individual genes, and these were compared with validation images and used for downstream analysis (e.g. cell type clustering).
description: FISH
description: DATASET METADATA: title:'CISI C57BL/6 mouse coronal sections containing MOp - October 2020 - tissue section 8', GeneralModality:'spatial transcriptomics', Technique:'CISI' SPECIMEN METADATA: LocalID:'Tissue8', Species:'mouse', NCBITaxonomy:'NCBI:txid10090', Age:'unknown (adult)', OrganName:'Brain', Locations:'Coronal sections' INSTRUMENT METADATA: MicroscopeType:'Confocal', MicroscopeManufacturerAndModel:'Yokogawa W1 on Nikon Eclipse Ti' IMAGE METADATA: stepSizeX:'0.323', stepSizeY:'0.323', stepSizeZ:'1.5'
DOI: 10.6084/m9.figshare.20134499
title: Story Map CaGIS Analysis Data

description: <strong>This zip folder contains three main folders. The contents of each folder is described as follows:</strong> <strong>Pre-Analysis Data</strong> Contains four csv files in the parent level corresponding to the frequency and confidence data for two- and four-coder groups. It also contains two folders housing 44 csv files a piece for the Gwet's AC1 data. <strong>Post-Analysis Data</strong> Contains three csv files summarizing the Gwet's AC1 results (AC1_Clean.xlsx), the prevalence and split results (Frequency_All.xlsx), and depicting the data underlying the matrix (Matrix_Updated.xlsx) <strong>Scripts</strong> Contains two scripts: First, frequency_calculation.py that reorganizes and cleans the raw data to come up with prevalence and split values. Second, Gwet.R that calculates the Gwet's AC1 scores and cumulative probabilities for the values.
DOI: 10.6084/m9.figshare.20134499.v2
title: Story Map CaGIS Analysis Data

description: <strong>This zip folder contains three main folders. The contents of each folder is described as follows:</strong> <strong>Pre-Analysis Data</strong> Contains four csv files in the parent level corresponding to the frequency and confidence data for two- and four-coder groups. It also contains two folders housing 44 csv files a piece for the Gwet's AC1 data. <strong>Post-Analysis Data</strong> Contains three csv files summarizing the Gwet's AC1 results (AC1_Clean.xlsx), the prevalence and split results (Frequency_All.xlsx), and depicting the data underlying the matrix (Matrix_Updated.xlsx) <strong>Scripts</strong> Contains two scripts: First, frequency_calculation.py that reorganizes and cleans the raw data to come up with prevalence and split values. Second, Gwet.R that calculates the Gwet's AC1 scores and cumulative probabilities for the values.
DOI: 10.35077/sob
title: CISI C57BL/6 mouse coronal sections containing MOp - October 2020 - tissue section 9

description: This dataset is part of an experiment demonstrating Composite In Situ Imaging (CISI) on whole coronal sections from a bisected mouse brain. The experiment profiled 37 genes through a combination of composite measurements and validation measurements in 12 tissue sections, with the validation measurements varying in each section. Both types of measurements were made using cyclic HCR-FISH, with composite measurements consisting of multiple probes simultaneously staining with the same dye in a given round of imaging. Composite measurements were decompressed to recover predicted images for individual genes, and these were compared with validation images and used for downstream analysis (e.g. cell type clustering).
description: FISH
description: DATASET METADATA: title:'CISI C57BL/6 mouse coronal sections containing MOp - October 2020 - tissue section 9', GeneralModality:'spatial transcriptomics', Technique:'CISI' SPECIMEN METADATA: LocalID:'Tissue9', Species:'mouse', NCBITaxonomy:'NCBI:txid10090', Age:'unknown (adult)', OrganName:'Brain', Locations:'Coronal sections' INSTRUMENT METADATA: MicroscopeType:'Confocal', MicroscopeManufacturerAndModel:'Yokogawa W1 on Nikon Eclipse Ti' IMAGE METADATA: stepSizeX:'0.323', stepSizeY:'0.323', stepSizeZ:'1.5'
DOI: 10.35077/soy
title: CISI C57BL/6 mouse coronal sections containing MOp - October 2020 - tissue section 10

description: This dataset is part of an experiment demonstrating Composite In Situ Imaging (CISI) on whole coronal sections from a bisected mouse brain. The experiment profiled 37 genes through a combination of composite measurements and validation measurements in 12 tissue sections, with the validation measurements varying in each section. Both types of measurements were made using cyclic HCR-FISH, with composite measurements consisting of multiple probes simultaneously staining with the same dye in a given round of imaging. Composite measurements were decompressed to recover predicted images for individual genes, and these were compared with validation images and used for downstream analysis (e.g. cell type clustering).
description: FISH
description: DATASET METADATA: title:'CISI C57BL/6 mouse coronal sections containing MOp - October 2020 - tissue section 10', GeneralModality:'spatial transcriptomics', Technique:'CISI' SPECIMEN METADATA: LocalID:'Tissue10', Species:'mouse', NCBITaxonomy:'NCBI:txid10090', Age:'unknown (adult)', OrganName:'Brain', Locations:'Coronal sections' INSTRUMENT METADATA: MicroscopeType:'Confocal', MicroscopeManufacturerAndModel:'Yokogawa W1 on Nikon Eclipse Ti' IMAGE METADATA: stepSizeX:'0.323', stepSizeY:'0.323', stepSizeZ:'1.5'
DOI: 10.35077/spa
title: CISI C57BL/6 mouse coronal sections containing MOp - October 2020 - tissue section 11

description: This dataset is part of an experiment demonstrating Composite In Situ Imaging (CISI) on whole coronal sections from a bisected mouse brain. The experiment profiled 37 genes through a combination of composite measurements and validation measurements in 12 tissue sections, with the validation measurements varying in each section. Both types of measurements were made using cyclic HCR-FISH, with composite measurements consisting of multiple probes simultaneously staining with the same dye in a given round of imaging. Composite measurements were decompressed to recover predicted images for individual genes, and these were compared with validation images and used for downstream analysis (e.g. cell type clustering).
description: FISH
description: DATASET METADATA: title:'CISI C57BL/6 mouse coronal sections containing MOp - October 2020 - tissue section 11', GeneralModality:'spatial transcriptomics', Technique:'CISI' SPECIMEN METADATA: LocalID:'Tissue11', Species:'mouse', NCBITaxonomy:'NCBI:txid10090', Age:'unknown (adult)', OrganName:'Brain', Locations:'Coronal sections' INSTRUMENT METADATA: MicroscopeType:'Confocal', MicroscopeManufacturerAndModel:'Yokogawa W1 on Nikon Eclipse Ti' IMAGE METADATA: stepSizeX:'0.323', stepSizeY:'0.323', stepSizeZ:'1.5'
DOI: 10.6084/m9.figshare.19858336
title: Simultaneous acquisition data

description: Comparison of reconstrucition techniques on SIM data of labelled mitochondria in COS7 cells.
DOI: 10.6084/m9.figshare.19884205
title: Sequential acquisition data

description: Images compare reconstruction techniques on MAI-SIM data acquired under ideal phase shift conditions. Fixed COS7 cells were labelled for beta-tubulin using scondary anti-body staining with Alexa590. Pixel size is 86 nm in the raw data and 43 nm after upscaling during reconstruction.
DOI: 10.5519/qd.kvl52hix
title: Query on the Natural History Museum Data Portal (data.nhm.ac.uk) (1 records)
DOI: 10.6084/m9.figshare.20122796
title: MT_dataset

description: All datasets for training MT models.
DOI: 10.35077/spy
title: CISI C57BL/6 mouse coronal sections containing MOp - October 2020 - tissue section 12

description: This dataset is part of an experiment demonstrating Composite In Situ Imaging (CISI) on whole coronal sections from a bisected mouse brain. The experiment profiled 37 genes through a combination of composite measurements and validation measurements in 12 tissue sections, with the validation measurements varying in each section. Both types of measurements were made using cyclic HCR-FISH, with composite measurements consisting of multiple probes simultaneously staining with the same dye in a given round of imaging. Composite measurements were decompressed to recover predicted images for individual genes, and these were compared with validation images and used for downstream analysis (e.g. cell type clustering).
description: FISH
description: DATASET METADATA: title:'CISI C57BL/6 mouse coronal sections containing MOp - October 2020 - tissue section 12', GeneralModality:'spatial transcriptomics', Technique:'CISI' SPECIMEN METADATA: LocalID:'Tissue12', Species:'mouse', NCBITaxonomy:'NCBI:txid10090', Age:'unknown (adult)', OrganName:'Brain', Locations:'Coronal sections' INSTRUMENT METADATA: MicroscopeType:'Confocal', MicroscopeManufacturerAndModel:'Yokogawa W1 on Nikon Eclipse Ti' IMAGE METADATA: stepSizeX:'0.323', stepSizeY:'0.323', stepSizeZ:'1.5'
DOI: 10.6084/m9.figshare.20134988
title: Multicolour performance of MAI-SIM

description: MAI-SIM.reconstructions of fixed samples imaged in a sequential acquisition mode.
DOI: 10.15784/601576
title: Particulate silicon and nitrogen concentrations and isotopic composition measurements in McLane pump profiles from 67°S to 55°S latitude in the Pacific Sector of the Southern Ocean

description: This dataset contains data for particulate silicon, particulate carbon, particulate nitrogen, stable isotopes of nitrogen and stable isotopes of silicon in particulates from McLane pump profiles
DOI: 10.5255/ukda-sn-854915
title: Video-Based Study of Classroom Pedagogy, 2019-2021

description: Background: during school lessons participants can face challenging pedagogical problems such as when science and religion topics interact. Potential types of pedagogical problem and what participants can do in response are unclear. Research designs exploring pedagogical problem-solving should investigate teachers’ thinking processes and include pupil interpretations. Purpose: this theoretical and methodological paper integrates the Pedagogy Analysis Framework with an analysis of pedagogical problem-solving, illustrating the resultant extended Pedagogy Analysis Framework and Pedagogical Problem Typology using data from a video-based study of one science and one RE lesson. The research design builds on previous work by exploring primary school and RE pedagogy. Sample: one class of thirty 7-year-old pupils, and another class of 10-year-olds, each with their class teacher and teaching assistants. Design and method: four research methods were used (lesson video analysis, teacher verbal protocols, pupil group verbal protocols and individual teacher interviews). Data were video recorded (managed using NVivo). Six hours of video data were analysed using Grounded Theory Methods by two educational researchers, the class teacher and two groups of pupils (three girls and three boys). The interpretivist theoretical perspective (symbolic interactionism) was underpinned by a social constructionist epistemology (hence the methodology is Straussian Grounded Theory). Appropriate criteria for evaluating the emergent grounded theory were used. Data were recorded in 2019. Results: This paper presents an extended Pedagogy Analysis Framework and a Pedagogical Problem Typology with examples. Conclusion: the extended Pedagogy Analysis Framework and Pedagogical Problem Typology can help during pedagogy analysis to identify, understand and explain common and less common types of pedagogical problem. Novice-expert strategic dialogue can struggle for want of a shared vocabulary. This research design works with younger and older children.