cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.5435866
title: MCA DGE Data

description: MCA single cell DGE data (Cells with &gt;500UMI ) for the following manuscript:Mapping the Mouse Cell Atlas by Microwell-seq<br>MCA_500more_dge.rar: The raw digital expression matrix (dge) of more than 400,000 single cells sorted by tissues. All cells have more than 500 transcripts. The batch genes were not removed.<br>MCA_BatchRemove_dge.zip: The batch gene removed dge of more than 200,000 primary single cells sorted by tissues. Some tissues are not included due to relatively strong batch effects. This dataset can be used to make global tissue tSNE plot and do cross-tissue analysis.<br>MCA_CellAssignments.csv: The annotation of cells, which includes the cell names, cluster ID, belonged tissues, experimental batches and cell barcodes.<br>MCA_Figure2-batch-removed.txt.tar.gz: The batch removed dge of approximately 60,000 cells of high quality. 1500 cells were sampled from 43 tissues respectively. This sampled data is used for Figure 2.<br>MCA_Figure2_Cell.info.xlsx: The annotations of cells used in Figure2. <br>Sheet1: The annotations of each cell used in Figure2, including cell names, cluster ID, belonged tissues. <br>Sheet2: The annotations of 98 clusters in Figure2. <br>Sheet3: The composition of cell numbers in 98 clusters and 43 tissues. <br>MCA_Batch Information.xlsx: The batch information, which includes the age and gender of the mouse, and experiment batches for MCA data.<br><br>MCA_BatchRemoved_Merge_dge.h5ad：The updated dge with batch gene removed. It can be read with scanpy python package. About 333778 cells are included.<br>MCA_BatchRemoved_Merge_dge_cellinfo.csv: The cell information of MCA_BatchRemoved_Merge_dge.h5ad.<br><br><br><br>Batch effect removalFor cross tissue comparison, we removed the batch gene background to improve presentation. We assume that for each batch of experiment, the cell barcodes with less than 500UMI correspond to the empty beads exposed free RNA during the cell lysis, RNA capture and washing steps. The batch gene background value is defined as the average gene detection for all cellular barcodes with less than 500 UMI, multiplied by a coefficient of 2, and then rounded to the nearest integer. Genes detected in less 25% of all cells are removed from the batch gene background list. We subtract the batch gene background for each cell from the digital expression matrix before making the cross tissue comparison figures.
DOI: 10.6084/m9.figshare.5435866.v1
title: MCA DGE Data

description: MCA single cell DGE data (Cells with &gt;500UMI ) for the following manuscript:Mapping the Mouse Cell Atlas by Microwell-seq
DOI: 10.6084/m9.figshare.5435866.v2
title: MCA DGE Data

description: MCA single cell DGE data (Cells with &gt;500UMI ) for the following manuscript:Mapping the Mouse Cell Atlas by Microwell-seq
DOI: 10.6084/m9.figshare.5435866.v3
title: MCA DGE Data

description: MCA single cell DGE data (Cells with &gt;500UMI ) for the following manuscript:Mapping the Mouse Cell Atlas by Microwell-seq<br>MCA_DGE.rar: The raw digital expression matrix (dge) of more than 400,000 single cells sorted by tissues. For each cell, more than 500 transcripts are expressed. The batch effects are not been removed.<br>MCA_Figure2-batch-removed.txt.tar.gz: The batch removed dge of approximately 60,000 cells of high quality. 1500 cells were sampled from 43 tissues respectively. This sampled data is used for Figure 2.<br>MCA_cell-assignments.xlsx: The annotation of cells, which includes the cell names, cluster ID, belonged tissues, experimental batches and cell barcodes.<br>MCA_All-batch-removed.zip: The batch effect removed dge of more than 400,000 single cells sorted by tissues. This dataset can be used to make global tissue tSNE plot and do cross-tissue analysis.<br>Batch effect removalFor cross tissue comparison, we removed the batch gene background to improve presentation. We assume that for each batch of experiment, the cell barcodes with less than 500UMI correspond to the empty beads exposed free RNA during the cell lysis, RNA capture and washing steps. The batch gene background value is defined as the average gene detection for all cellular barcodes with less than 500 UMI, multiplied by a coefficient of 2, and then rounded to the nearest integer. Genes detected in less 25% of all cells are removed from the batch gene background list. We subtract the batch gene background for each cell from the digital expression matrix before making the cross tissue comparison figures.
DOI: 10.6084/m9.figshare.5435866.v4
title: MCA DGE Data

description: MCA single cell DGE data (Cells with &gt;500UMI ) for the following manuscript:Mapping the Mouse Cell Atlas by Microwell-seq<br>MCA_500more_dge.rar: The raw digital expression matrix (dge) of more than 400,000 single cells sorted by tissues. All cells have more than 500 transcripts. The batch genes were not removed.<br>MCA_BatchRemove_dge.zip: The batch gene removed dge of more than 400,000 single cells sorted by tissues. This dataset can be used to make global tissue tSNE plot and do cross-tissue analysis.<br>MCA_cell-assignments.xlsx: The annotation of cells, which includes the cell names, cluster ID, belonged tissues, experimental batches and cell barcodes.<br>MCA_Figure2-batch-removed.txt.tar.gz: The batch removed dge of approximately 60,000 cells of high quality. 1500 cells were sampled from 43 tissues respectively. This sampled data is used for Figure 2.<br>MCA_Figure2_Cell.info.xlsx: The annotations of cells used in Figure2. <br>Sheet1: The annotations of each cell used in Figure2, including cell names, cluster ID, belonged tissues. <br>Sheet2: The annotations of 98 clusters in Figure2. <br>Sheet3: The composition of cell numbers in 98 clusters and 43 tissues. <br><br>Batch effect removalFor cross tissue comparison, we removed the batch gene background to improve presentation. We assume that for each batch of experiment, the cell barcodes with less than 500UMI correspond to the empty beads exposed free RNA during the cell lysis, RNA capture and washing steps. The batch gene background value is defined as the average gene detection for all cellular barcodes with less than 500 UMI, multiplied by a coefficient of 2, and then rounded to the nearest integer. Genes detected in less 25% of all cells are removed from the batch gene background list. We subtract the batch gene background for each cell from the digital expression matrix before making the cross tissue comparison figures.
DOI: 10.6084/m9.figshare.5435866.v5
title: MCA DGE Data

description: MCA single cell DGE data (Cells with &gt;500UMI ) for the following manuscript:Mapping the Mouse Cell Atlas by Microwell-seq<br>MCA_500more_dge.rar: The raw digital expression matrix (dge) of more than 400,000 single cells sorted by tissues. All cells have more than 500 transcripts. The batch genes were not removed.<br>MCA_BatchRemove_dge.zip: The batch gene removed dge of more than 400,000 single cells sorted by tissues. This dataset can be used to make global tissue tSNE plot and do cross-tissue analysis.<br>MCA_CellAssignments.csv: The annotation of cells, which includes the cell names, cluster ID, belonged tissues, experimental batches and cell barcodes.<br>MCA_Figure2-batch-removed.txt.tar.gz: The batch removed dge of approximately 60,000 cells of high quality. 1500 cells were sampled from 43 tissues respectively. This sampled data is used for Figure 2.<br>MCA_Figure2_Cell.info.xlsx: The annotations of cells used in Figure2. <br>Sheet1: The annotations of each cell used in Figure2, including cell names, cluster ID, belonged tissues. <br>Sheet2: The annotations of 98 clusters in Figure2. <br>Sheet3: The composition of cell numbers in 98 clusters and 43 tissues. <br><br>Batch effect removalFor cross tissue comparison, we removed the batch gene background to improve presentation. We assume that for each batch of experiment, the cell barcodes with less than 500UMI correspond to the empty beads exposed free RNA during the cell lysis, RNA capture and washing steps. The batch gene background value is defined as the average gene detection for all cellular barcodes with less than 500 UMI, multiplied by a coefficient of 2, and then rounded to the nearest integer. Genes detected in less 25% of all cells are removed from the batch gene background list. We subtract the batch gene background for each cell from the digital expression matrix before making the cross tissue comparison figures.
DOI: 10.6084/m9.figshare.5435866.v6
title: MCA DGE Data

description: MCA single cell DGE data (Cells with &gt;500UMI ) for the following manuscript:Mapping the Mouse Cell Atlas by Microwell-seq<br>MCA_500more_dge.rar: The raw digital expression matrix (dge) of more than 400,000 single cells sorted by tissues. All cells have more than 500 transcripts. The batch genes were not removed.<br>MCA_BatchRemove_dge.zip: The batch gene removed dge of more than 400,000 single cells sorted by tissues. This dataset can be used to make global tissue tSNE plot and do cross-tissue analysis.<br>MCA_CellAssignments.csv: The annotation of cells, which includes the cell names, cluster ID, belonged tissues, experimental batches and cell barcodes.<br>MCA_Figure2-batch-removed.txt.tar.gz: The batch removed dge of approximately 60,000 cells of high quality. 1500 cells were sampled from 43 tissues respectively. This sampled data is used for Figure 2.<br>MCA_Figure2_Cell.info.xlsx: The annotations of cells used in Figure2. <br>Sheet1: The annotations of each cell used in Figure2, including cell names, cluster ID, belonged tissues. <br>Sheet2: The annotations of 98 clusters in Figure2. <br>Sheet3: The composition of cell numbers in 98 clusters and 43 tissues. <br>MCA_Batch Information.xlsx: The batch information, which includes the age and gender of the mouse, and experiment batches for MCA data.<br><br>Batch effect removalFor cross tissue comparison, we removed the batch gene background to improve presentation. We assume that for each batch of experiment, the cell barcodes with less than 500UMI correspond to the empty beads exposed free RNA during the cell lysis, RNA capture and washing steps. The batch gene background value is defined as the average gene detection for all cellular barcodes with less than 500 UMI, multiplied by a coefficient of 2, and then rounded to the nearest integer. Genes detected in less 25% of all cells are removed from the batch gene background list. We subtract the batch gene background for each cell from the digital expression matrix before making the cross tissue comparison figures.
DOI: 10.5281/zenodo.3997116
title: POPC:POPG 1:1 MD simulation with CHARMM36 in water and Na+ counter ions

description: CHARMM36 POPC:POPG 1:1 bilayer simulation in water. The initial structure was taken from CHARMM-GUI. Temperature is 298 K. The system contains 150 POPC, 150 POPG, 150 sodium ions and 31500 TIP3 water molecules. Total length of simulation is 400 ns. First 100 ns were discarded. Saving frequency of 100-300ns.xtc is 20 ps.
DOI: 10.5281/zenodo.3997115
title: POPC:POPG 1:1 MD simulation with CHARMM36 in water and Na+ counter ions

description: CHARMM36 POPC:POPG 1:1 bilayer simulation in water. The initial structure was taken from CHARMM-GUI. Temperature is 298 K. The system contains 150 POPC, 150 POPG, 150 sodium ions and 31500 TIP3 water molecules. Total length of simulation is 400 ns. First 100 ns were discarded. Saving frequency of 100-300ns.xtc is 20 ps.
DOI: 10.6084/m9.figshare.5435110
title: Wikimedia Iraq phone survey 1 - 2017

description: There are a total of 17 questions in the survey, addressing the following categories:Internet useMobile phone use (smartphones & basic voice/SMS phones)Awareness and use of WikipediaGeneral demographicsThe survey collected 2500 total responses, representing populations in 5 geographical regions served by 3 mobile Iraqi operators. 3 language choices (Arabic, English, Kurdish) were provided.Here are the main questions this survey was designed to answer. However, analyzing the full data set allows you to conduct more in-depth data explorations and gain meaningful insights beyond the points presented here.What is the actual number of people who use the internet?(Real-world behavior makes this difficult to measure from industry reports, since people might have access to the internet through school, friends, internet cafés, public Wifi, etc.)For internet users: What do people mostly use the internet for?For non-internet users: Why not use the internet?How many people use smartphones?Do people with smartphones use the internet from just Wifi? Or just cellular service?How many people think that they don’t use the internet, but still use Facebook or WhatsApp?How many people have heard of Wikipedia? What do they use it for? How often?If they have heard of Wikipedia, but aren’t using it, why not?<br>Compared to previous phone surveys in other countries, the 2017 Iraq phone survey presented new questions.What are people’s awareness of other major internet brands in comparison to Wikipedia?Can people find online content in their preferred language?How does data cost impact internet use?
DOI: 10.6084/m9.figshare.5435107
title: Selection on flower size in Kielmeyera

description: Differential gender selection on flower size in two Neotropical congeneric species
DOI: 10.6084/m9.figshare.5435107.v1
title: Selection on flower size in Kielmeyera

description: Differential gender selection on flower size in two Neotropical congeneric species
DOI: 10.6084/m9.figshare.5435110.v1
title: Iraq survey 1.zip

description: There are a total of 17 questions in the survey, addressing the following categories: "); color: rgb(34, 34, 34); font-family: sans-serif; font-size: 14px; background-color: rgb(255, 255, 255);"&gt;Internet useMobile phone use (smartphones & basic voice/SMS phones)Awareness and use of WikipediaGeneral demographicsThe survey collected 2500 total responses, representing populations in 5 geographical regions served by 3 mobile Iraqi operators. 3 language choices (Arabic, English, Kurdish) were provided.Here are the main questions this survey was designed to answer. However, analyzing the full data set allows you to conduct more in-depth data explorations and gain meaningful insights beyond the points presented here. "); color: rgb(34, 34, 34); font-family: sans-serif; font-size: 14px; background-color: rgb(255, 255, 255);"&gt;What is the actual number of people who use the internet?(Real-world behavior makes this difficult to measure from industry reports, since people might have access to the internet through school, friends, internet cafés, public Wifi, etc.) "); color: rgb(34, 34, 34); font-family: sans-serif; font-size: 14px; background-color: rgb(255, 255, 255);"&gt;For internet users: What do people mostly use the internet for?For non-internet users: Why not use the internet?How many people use smartphones?Do people with smartphones use the internet from just Wifi? Or just cellular service?How many people think that they don’t use the internet, but still use Facebook or WhatsApp?How many people have heard of Wikipedia? What do they use it for? How often?If they have heard of Wikipedia, but aren’t using it, why not?<br>Compared to previous phone surveys in other countries, the 2017 Iraq phone survey presented new questions. "); color: rgb(34, 34, 34); font-family: sans-serif; font-size: 14px; background-color: rgb(255, 255, 255);"&gt;What are people’s awareness of other major internet brands in comparison to Wikipedia?Can people find online content in their preferred language?How does data cost impact internet use?
DOI: 10.6084/m9.figshare.5435209.v1
title: WNIT_16.gif

description: Chloride ion moving from water to an adjacent nitrobenzene phase. (April 2017)<br>
DOI: 10.6084/m9.figshare.5433628
title: Vote shares (small parties and selected coalitions)

description: Vote shares of the smaller parties and a few selected coalitions of interest. These shares are calculated based on a pooled survey (at each date pooled sample was calculated based on aggregation of polls from different German pollsters). For each date this data set provides a subset of 500 simulations from a Dirichlet distribution, which is the (Bayesian) Posterior distribution of a Multinomial Likelihood (pooled survey) and a uninformative (flat) Dirichlet-Prior. Each simulation provides a possible election outcome. The vote shares provided here are based on "redistributed votes" (i.e. vote shares of parties below 5% threshold are redistributed proportionally to parties above the 5% threshold). Data from October 2016 until September 22nd, 2017.
DOI: 10.6084/m9.figshare.5433439.v2
title: Planar 2-color time-resolved laser-induced incandescence measurements of soot in a diffusion flame

description: Planar two-dimensional two-color time-resolved laser-induced incandescence (2D-2C-TiRe-LII) is employed to investigate soot formation in a standard ethylene laminar diffusion flame. The time resolution of the 2D LII signal is realized by shifting the delay time of ICCD cameras. The two-color configuration is applied to measure the peak temperature of soot particles immediately after the laser pulse rather than using the energy balance to compute . The Sauter mean diameter <i>D</i><sub>32</sub> and the corresponding distribution width parameter σ of the measured soot particles is extracted by using an error minimization method. The method shows that a range of possible geometry mean particle diameters and corresponding distribution width parameters are also possible solutions, and further information on realizable particle size distribution widths is necessary to narrow down the extracted diameter. Copyright © 2017 American Association for Aerosol Research
DOI: 10.6084/m9.figshare.5433439.v1
title: Planar 2-Colour Time-Resolved Laser-Induced Incandescence Measurements of Soot in a Diffusion Flame

description: Planar two-dimensional two-colour time-resolved laser-induced incandescence (2D-2C-TiRe-LII) is employed to investigate soot formation in a standard ethylene laminar diffusion flame. The time resolution of the 2D LII signal is realised by shifting the delay time of ICCD cameras. The two-colour configuration is applied to measure the peak temperature of soot particles immediately after the laser pulse rather than using the energy balance to compute . The Sauter mean diameter <i>D</i><sub>32</sub> and the corresponding distribution width parameter σ of the measured soot particles is extracted by using an error minimisation method. The method shows that a range of possible geometry mean particle diameters and corresponding distribution width parameters are also possible solutions, and further information on realisable particle size distribution widths is necessary to narrow down the extracted diameter.
DOI: 10.6084/m9.figshare.5433292
title: Geometric Multiplex Model

description: from "hidden geometric correlations in multiplex networks"
DOI: 10.6084/m9.figshare.5433313
title: Maximum clade credibility phylogenetic trees generated from human seasonal influenza A(H3N2) viruses sampled in the 2014/15 season in Scotland.

description: MCC trees generated using the programme BEAST program (http://tree.bio.ed.ac.uk/software/beast/); includes trees for each of the eight influenza gene segments and for the concatenated full genome. Tree files can opened using a program designed for viewing phylogenetic trees (e.g. FigTree - http://tree.bio.ed.ac.uk/software/figtree/).<br>
DOI: 10.6084/m9.figshare.5433259
title: Moorfields Eye Hospital NHS Foundation Trust

description: Response to our Freedom of Information Act request received from this NHS Trust.
DOI: 10.6084/m9.figshare.5433313.v1
title: Maximum clade credibility phylogenetic trees generated from human seasonal influenza A(H3N2) viruses sampled in the 2014/15 season in Scotland.

description: MCC trees generated using the programme BEAST program (http://tree.bio.ed.ac.uk/software/beast/); includes trees for each of the eight influenza gene segments and for the concatenated full genome. Tree files can opened using a program designed for viewing phylogenetic trees (e.g. FigTree - http://tree.bio.ed.ac.uk/software/figtree/).<br>
DOI: 10.6084/m9.figshare.5433250
title: Thrombolysis

description: Dataset for thrombolysis article
DOI: 10.6084/m9.figshare.5433244
title: Milton Keynes University Hospital NHS Foundation Trust

description: Response to our Freedom of Information Act request received from this NHS Trust.
DOI: 10.6084/m9.figshare.5433259.v1
title: Moorfields Eye Hospital NHS Foundation Trust

description: Response to our Freedom of Information Act request received from this NHS Trust.
DOI: 10.6084/m9.figshare.5433199
title: Mid Yorkshire Hospitals NHS Trust

description: Response to our Freedom of Information Act request received from this NHS Trust.
DOI: 10.6084/m9.figshare.5433244.v1
title: Milton Keynes University Hospital NHS Foundation Trust

description: Response to our Freedom of Information Act request received from this NHS Trust.
DOI: 10.6084/m9.figshare.5433250.v1
title: Thrombolysis

description: Dataset for thrombolysis article
DOI: 10.6084/m9.figshare.5433187
title: Mid Essex Hospital Services NHS Trust

description: Response to our Freedom of Information Act request received from this NHS Trust.
DOI: 10.6084/m9.figshare.5433199.v1
title: Mid Yorkshire Hospitals NHS Trust

description: Response to our Freedom of Information Act request received from this NHS Trust.
DOI: 10.6084/m9.figshare.5433181
title: Mersey Care NHS Foundation Trust

description: Response to our Freedom of Information Act request received from this NHS Trust.
DOI: 10.6084/m9.figshare.5433184
title: Mid Cheshire Hospitals NHS Foundation Trust

description: Response to our Freedom of Information Act request received from this NHS Trust.<br>
DOI: 10.6084/m9.figshare.5433178
title: Medway NHS Foundation Trust

description: Response to our Freedom of Information Act request received from this NHS Trust.
DOI: 10.6084/m9.figshare.5433184.v1
title: Mid Cheshire Hospitals NHS Foundation Trust

description: Response to our Freedom of Information Act request received from this NHS Trust.<br>
DOI: 10.6084/m9.figshare.5433187.v1
title: Mid Essex Hospital Services NHS Trust

description: Response to our Freedom of Information Act request received from this NHS Trust.
DOI: 10.6084/m9.figshare.5433178.v1
title: Medway NHS Foundation Trust

description: Response to our Freedom of Information Act request received from this NHS Trust.
DOI: 10.6084/m9.figshare.5433181.v1
title: Mersey Care NHS Foundation Trust

description: Response to our Freedom of Information Act request received from this NHS Trust.
DOI: 10.6084/m9.figshare.5433166
title: Maidstone and Tunbridge Wells NHS Trust

description: Response to our Freedom of Information Act request received from this NHS Trust.
DOI: 10.6084/m9.figshare.5433175
title: Manchester Mental Health and Social Care Trust

description: Response to our Freedom of Information Act request received from this NHS Trust.
DOI: 10.6084/m9.figshare.5433154
title: London North West Healthcare NHS Trust

description: Response to our Freedom of Information Act request received from this NHS Trust.
DOI: 10.6084/m9.figshare.5433160
title: Luton and Dunstable University Hospital NHS Foundation Trust

description: Response to our Freedom of Information Act request received from this NHS Trust.
DOI: 10.6084/m9.figshare.5433175.v1
title: Manchester Mental Health and Social Care Trust

description: Response to our Freedom of Information Act request received from this NHS Trust.
DOI: 10.6084/m9.figshare.5433148
title: London Ambulance Service NHS Trust

description: Response to our Freedom of Information Act request received from this NHS Trust.
DOI: 10.6084/m9.figshare.5433160.v1
title: Luton and Dunstable University Hospital NHS Foundation Trust

description: Response to our Freedom of Information Act request received from this NHS Trust.
DOI: 10.6084/m9.figshare.5433166.v1
title: Maidstone and Tunbridge Wells NHS Trust

description: Response to our Freedom of Information Act request received from this NHS Trust.