Find research datasets worth reusing
Search datasets from major research repositories and use ShareScore to quickly assess how well each record supports discovery, access, and reuse.
21,320
datasets available to search
ShareScore release 0.9.0
Dataset results
21,320 results for “Transcription”
Heterochromatin-dependent transcription of satellite DNAs in the Drosophila melanogaster female germline
<p>Large blocks of tandemly repeated DNAs—satellite DNAs (satDNAs)—play important roles in heterochromatin formation and chromosome segregation. We know little about how satDNAs are regulated, however their misregulation is associated with genomic instability and human diseases. We use the <i>Drosophila melanogaster</i> germline as a model to study the regulation of satDNA transcription and chromatin. Here we show that complex satDNAs (>100-bp repeat units) are transcribed into long noncoding RNAs and processed into piRNAs (PIWI interacting RNAs). This satDNA piRNA production depends on the Rhino-Deadlock-Cutoff complex and the transcription factor Moonshiner—a previously-described non-canonical pathway that licenses heterochromatin-dependent transcription of dual-strand piRNA clusters. We show that this pathway is important for establishing heterochromatin at satDNAs. Therefore, satDNAs are regulated by piRNAs originating from their own genomic loci. This novel mechanism of satDNA regulation provides insight into the role of piRNA pathways in heterochromatin formation and genome stability.</p>
Data from: Transcriptional remodeling upon light removal in a model cnidarian: losses and gains in gene expression
Organismal responses to light:dark cycles can result from two general processes: (i) direct response to light or (ii) a free-running rhythm (i.e., a circadian clock). Previous research in cnidarians has shown that candidate circadian clock genes have rhythmic expression in the presence of diel lighting, but these oscillations appear to be lost quickly after removal of the light cue. Here, we measure whole-organism gene expression changes in 136 transcriptomes of the sea anemone Nematostella vectensis, entrained to a light:dark environment and immediately following light cue removal to distinguish two broadly defined responses in cnidarians: light entrainment and circadian regulation. Direct light exposure resulted in significant differences in expression for hundreds of genes, including more than 200 genes with rhythmic, 24-hour periodicity. Removal of the lighting cue resulted in the loss of significant expression for 80% of these genes after one day, including most of the hypothesized cnidarian circadian genes. Further, 70% of these candidate genes were phase shifted. Most surprisingly, thousands of genes, some of which are involved in oxidative stress, DNA damage response, and chromatin modification, had significant differences in expression in the 24 hours following light removal, suggesting that loss of the entraining cue may induce a cellular stress response. Together, our findings suggest that a majority of genes with significant differences in expression for anemones cultured under diel lighting are largely driven by the primary photoresponse rather than a circadian clock when measured at the whole animal level. These results provide context for the evolution of cnidarian circadian biology and help to disassociate two commonly confounded factors driving oscillating phenotypes.
Perception of Mixed-Reality Shopping Assistant System to develop Design Principles : Interview Transcripts (MRDP)
<p>The dataset is a collection of transcripts where 35 participants were interviewed to collect users’’ feedback and perceptions about the mixed-reality MR shopping assistant system. The interviews were a part of the research where a personal shopping assistance system based on optical see-through mixed-reality (MR ) technology was designed. Microsoft HoloLens 2 was leveraged as the archetype to realize this novel system to facilitating consumer information search and decision making. The design incorporated various shopping assistance elements (i.e., product information, reviews, recommendations, product availability, videos, a virtual cart, and an option to buy). Users can interact with these elements with gesture-based inputs to navigate through the interface.</p> <p>Derived from the qualitative feedback from the 35 participants, we proposed six design principles that aim to support future designs and developments of mixed-reality MR shopping applications for head-mounted displays in omnichannel retail: Rigor, Informativeness, Tangibility, Summary, Comparability and Holism. </p> <p> </p>
Comprehensive understanding of Tn5 insertion preference recovers expansive transcription regulatory lexicon
<p>This repository stores pre-calculated mappability files for BiasFreeATAC correction pipeline.</p>
Expression and Purification of DNA-binding domain of T-box Transcription Factor TBXTA-c021
<p>A detailed protocol for the expression and purification of G177D variant of TBXT DNA-binding domain.</p>
Expression and Purification of Full-Length T-box Transcription Factor TBXTA-c027
<p>A detailed protocol for the expression and purification of G177D variant of biotinylated, full-length TBXT</p>
Yongning Na for Natural Language Processing: a single-speaker audio corpus with transcriptions
<p><em>(français ci-dessous)</em></p> <p>This archive contains a dataset (audio files and transcriptions) of a minority language, Yongning Na (Glottocode: yong1288; closest iso 639-3 code: nru). The archive contains a subset of the Na corpus of the Pangloss Collection: it is a single-speaker corpus, consisting of all the audio resources transcribed, for the main speaker of this corpus (Ms. LATAMI Dashilame).<br> The corpus is versioned, so that the experiments carried out on these resources (for linguistic research or for Natural Language Processing) are fully reproducible. All relevant information is contained in YAML files (.yml extension; one in French, one in English).<br> The data sub-folder contains the converted and demultiplexed audio files, as well as the annotations associated with each channel of the audio files.<br> The summary files contain, among other things, the list of graphemes used in the language (complex graphemes are particularly important), as well as information on the various resources (audio and annotations), such as their identifiers (DOIs) and links to the original files.<br> From a computational point of view, the list of DOIs of the audios and annotations described in this YAML file is sufficient to generate this corpus at a given time. A corpus like the present one can be viewed as the version, at a given time, of a set of documents in the Pangloss collection: a corpus as it stands at a precise version.</p> <p>Further information is available from <a href="https://gitlab.com/lacito/outilspangloss">https://gitlab.com/lacito/outilspangloss</a></p> <p>---------------</p> <p>Cette archive contient un jeu de données (audios et transcriptions) d’une langue à tradition orale, le na de Yongning (Glottocode: yong1288; code iso 639-3 le plus proche : nru). L’archive contient un sous-ensemble du corpus na de la collection Pangloss : c’est un corpus monolocuteur, constitué de l’intégralité des ressources audio transcrites pour la locutrice principale de ce corpus (Mme LATAMI Dashilame).<br> Le corpus est versionné, de sorte que les expériences menées sur ces ressources (pour la linguistique ou pour le Traitement automatique des langues) soient reproductibles de façon exacte (en pensant bien à joindre l’algorithme : paramètres, répartitions des fichiers dans les différents ensembles, etc.). Toutes les informations pertinentes se trouvent dans les fichiers YAML (extension .yml ; un en français, un autre en anglais).<br> Le sous-dossier des données contient d’une part les audios convertis et démultiplexés et d’autre part les annotations associées à chaque canal desdits audios.<br> Les fichiers récapitulatifs contiennent notamment la liste des graphèmes utilisés dans cette langue (les graphèmes complexes sont particulièrement importants), ainsi que des informations sur les différentes ressources (audios et annotations), comme les identifiants (DOI), les liens vers les fichiers originaux, etc.<br> Au plan informatique, la liste des identifiants DOI des audios et annotations décrits dans ce fichier YAML suffit pour générer ce corpus à un instant t. Un corpus comme celui-ci peut être vu comme la version à l’instant t d’un ensemble de documents de la collection Pangloss : un corpus arrêté à une version précise.<br> Pour plus de précisions : <a href="https://gitlab.com/lacito/outilspangloss">https://gitlab.com/lacito/outilspangloss</a></p>
A dominant-negative SOX18 mutant disrupts multiple regulatory layers essential to transcription factor activity
<p>Few genetically dominant mutations involved in human disease have been fully explained at the molecular level. In cases where the mutant gene encodes a transcription factor, the dominant-negative mode of action of the mutant protein is particularly poorly understood. Here, we studied the genome-wide mechanism underlying a dominant-negative form of the SOX18 transcription factor (SOX18<sup>RaOp</sup>) responsible for both the classical mouse mutant <u>Ra</u>gged <u>Op</u>ossum and the human genetic disorder Hypotrichosis-Lymphedema-Telangiectasia-Renal Syndrome. Combining three single-molecule imaging assays in living cells together with genomics and proteomics analysis, we found that SOX18<sup>RaOp</sup> disrupts the system through an accumulation of molecular interferences which impair several functional properties of the wild-type SOX18 protein, including its target gene selection process. The dominant-negative effect is further amplified by poisoning the interactome of its wild-type counterpart, which perturbs regulatory nodes such as SOX7 and MEF2C. Our findings explain in unprecedented detail the multi-layered process that underpins the molecular aetiology of dominant-negative transcription factor function.</p>
Raw Data supporting Promoters adopt distinct dynamic manifestations depending on transcription factor context
<p>All source data is provided as MAT-files, which can be opened in Matlab. In total, the source data contain 270 core data files and 540 processed data files. The data for each individual promoter is stored in a different directory and the 9 promoters are:</p> <ul> <li> <p><em>ALD3 </em></p> </li> <li> <p><em>DCS2 </em></p> </li> <li> <p><em>DDR2 </em></p> </li> <li> <p><em>HXK1 </em></p> </li> <li> <p><em>RTN2 </em></p> </li> <li> <p><em>TKL2 </em></p> </li> <li> <p><em>SIP18 </em></p> </li> <li> <p><em>pSIP18_mut6</em> (also referred to as mutant A4)</p> </li> <li> <p><em>pSIP18_mut21</em> (also referred to as mutant D6)</p> </li> </ul> <p>The data for the first 7 promoters was previously reported in (Hansen and O’Shea, 2013), though in an unnormalized form. That is, it was previously reported as a concentration per cell in arbitrary fluorescence units (AU). In the present manuscript, we have calibrated the data to obtain absolute abundances, such that the MAT-files now contain both the old AU concentration as well as absolute abundances, i.e. number of YFP molecules per cell. The calibration was performed as described in (Huang et al., 2016). Similarly, the data for the last 2 promoters (A4 and D6) was previously reported in its unnormalized form in (Hansen and O’Shea, 2015) and it is here also reported in the form of absolute abundances.</p> <p> </p> <p>The MAT-files containing the raw data have the suffix “_size.mat”. The name of the MAT files describes the experiment. If the file name contains “DM”, then it is a single pulse. Thus, “SIP18_DM_40min_275nM_size.mat” refers to a single 40 min pulse with 275 nM 1-NM-PP1 for the <em>SIP18</em> promoter. Similarly if the file name contains “FM”, e.g. “RTN2_FM_8_5min_690nM_size.mat” then it refers to eight 5 min pulses separated by 5 min intervals at 690 nM for the <em>RTN2</em> promoter. Finally, if the file name contains “FM4”, e.g. “TKL2_FM4_15minINT_690nM_size.mat” then the experiment was four 5 min pulses separated by 15 min intervals at 690 nM for the <em>TKL2</em> promoter. The concentration is the concentration of 1-NM-PP1 that was used and 100 nM, 275 nM, 690 nM and 3mM refers to approximately, 25%, 50%, 75% and 100% Msn2 activation. For full experimental details please see (Hansen and O’Shea, 2013; Hansen et al., 2015).</p> <p> </p> <p>The “_size.mat” MAT-files contain the following variables:</p> <ul> <li> cell_size_pixels</li> <li> CFP</li> <li> CFP_molecules</li> <li> CFP_raw</li> <li> inhibitor_conc</li> <li> MSN2_raw</li> <li> MSN2_RFP</li> <li> pulse_parameters • time</li> <li> YFP</li> <li> YFP_molecules</li> <li> YFP_raw</li> </ul> <p>CFP, CFP_molecules, CFP_raw and YFP, YFP_molecules, YFP_raw are Nx64 matrices, where each row N correspond to a different cell and the 64 columns correspond to the 64 experimentally measured timepoints corresponding to the “time” vector running from -5 min to 152.5 min in increments of 2.5 min and the 1NM-PP1 inhibitor was added at time 0. “CFP_raw” and “YFP_raw” contains raw, uncorrected data, so without photobleaching correction and background subtraction. “CFP” and “YFP” contain corrected data in arbitrary fluorescence units (AU) and report on the concentration (i.e. size normalized). Finally, “CFP_molecules” and “YFP_molecules” contains the total number of CFP and YFP molecules per cell (i.e. this is not a concentration, but the absolute abundance). The area of each cell at each timepoint can be found in the matrix “cell_size_pixels”. Since the cells are live and growing, this will tend to increase during the experiments. Occasionally large fluctuations can occur due to errors in cell segmentation or due to division. For full details on the image analysis and cell segmentation, please see (Hansen and O’Shea, 2013; Hansen et al., 2015).</p> <p> </p> <p>The variables “inhibitor_conc” and “pulse_parameters” refer to the type of experiment and is also given by the name. “inhibitor_conc” gives the 1NMPP1 concentration: 100 nM, 275 nM, 690 nM or 3000 nM. “pulse_parameters” contains either 2 or 3 elements and given the dynamical pulse sequence parameters. Column 1 contains the number of pulses and column 2 the duration of the pulses. Column 3 gives the interval between the pulses if more than one pulse is used – otherwise column 3 is zero.</p> <p> </p> <p>Moreover, on a more technical note it should be noted that the signal-to-noise of the CFP reporter is worse than the YFP reporter. Therefore, we always use the YFP reporter for quantitative analysis. Furthermore, the two other MAT-files “…MSN2.mat” and “…YFP.mat” contain processed data. Please see the ReadMe file on the code for a full description and how these were derived.</p> <p> </p> <p>Finally, Supplementary Table 1 contains the model-inferred parameters for each promoter and condition.</p> <p> </p> <p> </p> <p><strong>References</strong></p> <p>Hansen, A.S., and O’Shea, E.K. (2013). Promoter decoding of transcription factor dynamics involves a trade-off between noise and control of gene expression. Mol. Syst. Biol.</p> <p>Hansen, A.S., and O’Shea, E.K. (2015). Cis Determinants of Promoter Threshold and Activation Timescale. Cell Rep.</p> <p>Hansen, A.S., Hao, N., and OShea, E.K. (2015). High-throughput microfluidics to control and measure signaling dynamics in single yeast cells. Nat. Protoc.</p> <p>Huang, L., Pauleve, L., Zechner, C., Unger, M., Hansen, A.S., and Koeppl, H. (2016). Reconstructing dynamic molecular states from single-cell time series. J. R. Soc. Interface.</p>
ESPRESSO: Robust discovery and quantification of transcript isoforms from error-prone long-read RNA-seq data (repository for simulated ONT RNA-seq data)
<p>Simulated ONT direct RNA and 1D cDNA sequencing data of varying sequencing depths (0.5 million, 1 million, 3 million, and 5 million simulated reads) used for benchmark evaluations of transcript discovery and quantification in our paper "ESPRESSO: Robust discovery and quantification of transcript isoforms from error-prone long-read RNA-seq data". All details can be found in the <strong>Materials and Methods</strong> section of the paper. </p> <p><em>HEK293T_DirectRNA.transcriptome_quantification.tsv</em> and <em>HEK293T_DirectRNA.transcriptome_quantification.tsv </em>are tab-separated files containing estimated raw read counts and normalized abundance values (in TPM) of transcripts annotated in GENCODE v34lift37. Transcript quantification was done using NanoSim (version 3.1.0). </p> <p><em>HEK293T_DirectRNA.NanoSim_500k.fastq.gz</em>,<em> </em><em>HEK293T_DirectRNA.NanoSim_1M.fastq.gz</em>, <em>HEK293T_DirectRNA.NanoSim_3M.fastq.gz</em>, and<em> HEK293T_DirectRNA.NanoSim_5M.fastq.gz </em>are gzip compressed FASTQ files containing 0.5 million, 1 million, 3 million, and 5 million simulated ONT direct RNA sequencing reads respectively. </p> <p><em>HEK293T_1DcDNA.NanoSim_500k.fastq.gz</em>,<em> HEK293T_1DcDNA.NanoSim_1M.fastq.gz</em>, <em>HEK293T_1DcDNA.NanoSim_3M.fastq.gz</em>, and<em> HEK293T_1DcDNA.NanoSim_5M.fastq.gz </em>are gzip compressed FASTQ files containing 0.5 million, 1 million, 3 million, and 5 million simulated ONT 1D cDNA sequencing reads respectively. </p>
Fluorescence complementation enables quantitative imaging of cell penetrating peptide-mediated protein delivery in plants including WUSCHEL transcription factor
<p>These are data related to the manuscript titled "Fluorescence complementation enables quantitative imaging of cell penetrating peptide-mediated protein delivery in plants including WUSCHEL transcription factor" whose preprint can be found here: https://doi.org/10.1101/2022.05.03.490515</p>
Vimeo Creative Commons Collection (V3C) Whisper Transcripts
<p>Automatic transcript for every video in the Vimeo Creative Commons Collection (V3C) generated using <a href="https://github.com/openai/whisper">OpenAI's Whisper</a> using the 'small' model.</p>
Tracing pathways from high-resolution tractography, transcription, and temporal dimensions
<p>The neural circuits supporting human cognition are topics of enduring interest. The lack of tools available to map circuits has precluded our ability to trace the evolution of the human connectome. We harnessed high-resolution connectomic, anatomic, and transcriptomic data to develop enhanced tools to test for modifications in developmental programs across species. We found corresponding ages across species and transcriptionally define neurons with stereotypical projections in humans and macaques. We used these data to test for modifications in frontal cortex circuit. Frontal cortex circuitry development is extended in primates, which is concomitant with an expansion in cortico-cortical pathways compared with mice in adulthood. These parameters varied little across humans and macaques. We identify a collection of conserved features in frontal cortex circuits in studied primates. We demonstrate that the integration of transcriptional and connectomic data across temporal dimensions is a robust approach to trace the evolution of connections in primates. This dataset contains scripts as well as diffusion MR scans of mouse brains.</p>
Reproductive transcriptome of Nicotiana tabacum male gametophyte unveils decreasing number of new transcription factors during pollen ontogeny
<p>Plants with highly reduced male gametophytes represent a successful adaptation to sexual reproduction, which plays an important role in the colonization and radiation of terrestrial ecosystems. During pollen maturation, microsporocytes to mature pollen grain cells switch from mitosis to meiosis and ultimately form a haploid male gametophyte, a widely used model to study plant development. We performed RNASeq analysis of <em>Nicotiana tabacum</em> at six developmental stages from microspores to mature pollen grain to characterize in detail key transcription factor (TF) genes involved in pollen ontogeny. Our results provide the most complete transcriptomic data during pollen development in the important model plant <em>Nicotiana tabacum. </em>We have identified DEGs associated with six ontogenetic stages of the male gametophyte, providing insights into the molecular regulation of reproductive development by TFs that have a high potential for agronomic research investigating molecular networks associated with pollen sterility and related issues.</p>
LJ Speech - Aligned IPA transcriptions
<p>Files:</p> <ul> <li> <p><code>grids.zip</code></p> <ul> <li>contains TextGrids for all audio files containing three tiers <code>words</code>, <code>phonemes</code> and <code>transcription</code> <ul> <li><code>words</code> contains the aligned normalized English words</li> <li><code>phonemes</code> contains IPA pronunciations transcribed using CMU dictionary which then were aligned with Montreal Forced Aligner. The pronunciations were then mapped from ARPAbet to IPA and duration marks were applied (without punctuation)</li> <li><code>transcription</code> contains unaligned phonemes including punctuation and word boundary labels (SIL0)</li> </ul> </li> </ul> </li> <li> <p><code>preview.png</code></p> <ul> <li>preview of the first TextGrid opened in Praat</li> </ul> </li> <li> <p><code>words-vocabulary.txt</code></p> <ul> <li>contains all words from tier <code>words</code></li> </ul> </li> <li> <p><code>phonemes-vocabulary.txt</code></p> <ul> <li>contains all phonemes from tier <code>phonemes</code></li> </ul> </li> <li> <p><code>transcription-vocabulary.txt</code></p> <ul> <li>contains all phonemes/punctuation from tier <code>transcription</code></li> </ul> </li> <li> <p><code>phonemes-durations.pdf</code></p> <ul> <li>contains the plotted phoneme duration distribution of tier <code>phonemes</code></li> </ul> </li> <li> <p><code>phonemes-durations-simple.pdf</code></p> <ul> <li>contains the plotted phoneme duration distribution of tier <code>phonemes</code> if all duration markers are ignored</li> </ul> </li> <li> <p><code>pronunciations.dict</code></p> <ul> <li>contains the pronunciations for each word including punctuation and weights (occurrence)</li> </ul> </li> <li> <p><code>script.sh</code></p> <ul> <li>contains the script to reproduce all results</li> </ul> </li> </ul> <p>Phoneme duration marker:</p> <ul> <li><code>˘</code> -> [0, 20) percentile</li> <li><code>ˑ</code> -> [80, 90) percentile</li> <li><code>ː</code> -> [90, inf) percentile</li> </ul> <p>Silence marker:</p> <ul> <li><code>SIL0</code> -> no silence</li> <li><code>SIL1</code> -> [0, 33.33) percentile</li> <li><code>SIL2</code> -> [33.33, 66.66) percentile</li> <li><code>SIL3</code> -> [66.66, inf) percentile</li> </ul> <p> </p>
Effects of the entomopathogenic fungus Mucor hiemalis BO-1 on the physical functions and transcriptional signatures of Bradysia odoriphaga larvae
<p><em><span>Mucor hiemalis</span></em><span> BO-1 is an entomopathogenic fungus that infects <em>Bradysia</em> <em>odoriphaga</em>, a destructive root maggot. <em>M</em>. <em>hiemalis</em> BO-1 possesses stronger pathogenicity to the larvae than to other stages of <em>B</em>. <em>odoriphaga</em> and provides satisfactory field control. However, the physiological response of <em>B</em>. <em>odoriphaga</em> larvae to infection and the infection mechanism of <em>M</em>. <em>hiemalis</em> are unknown. We detected some physiological indicators of diseased <em>B</em>. <em>odoriphaga</em> larvae infected by <em>M</em>. <em>hiemalis</em> BO-1. These included changes in consumption, nutrient contents and digestive and antioxidant enzymes. We performed transcriptome analysis of diseased <em>B</em>. <em>odoriphaga</em> larvae and found that M. <em>hiemalis</em> BO-1 showed acute toxicity to <em>B</em>. <em>odoriphaga</em> larvae and was as toxic as some chemical pesticides. The food consumption of diseased <em>B</em>. <em>odoriphaga</em> after inoculation with <em>M</em>. <em>hiemalis</em> spores decreased significantly, and there was a significant decrease in total protein, lipid and carbohydrates in diseased larvae. Key digestive enzymes (protease, </span>α<span>-amylase, lipase and cellulase) were significantly inhibited during infection. Peroxidase maintained high activity, and the activity of other antioxidant enzymes (catalase, superoxide dismutase and glutathione S-transferases) first increased and then decreased. Combined with the transcriptional signatures of diseased <em>B</em>. <em>odoriphaga</em> larvae, <em>M</em>. <em>hiemalis</em> BO-1 infection resulted in decreased food consumption, reduced digestive enzyme activity and altered energy metabolism and material accumulation. Infection was also accompanied by fluctuations in immune function, such as cytochrome P450 and the Toll pathway. Therefore, our results laid a basis for the further study of the interactions between <em>M</em>. <em>hiemalis</em> BO-1 and <em>B</em>. <em>odoriphaga</em> and promoted the genetic improvement of entomopathogenic fungi.</span></p>
Data for "Dynamic switching of transcriptional regulators between two distinct low-mobility chromatin states"
<p>This deposit contains all the single-molecule trajectories reported in "Dynamic switching of transcriptional regulators between two distinct low-mobility chromatin states", Science Advances, 2023.</p> <p>To access the tracks, open the mat file in MATLAB. This contains a MATLAB table with the following fields:</p> <p><strong>summary_table.cell_protein{i}</strong> identifies the i<sup>th</sup> dataset i.e. cell line + protein + treatment.</p> <p><strong>summary_table.X{i}{j}</strong> is an Nx2 array of x and y coordinates (in microns) for track j in condition i. N is the number of localizations in that track.</p> <p>Time interval between localizations is 200 ms.</p> <p>Details on data acquisition and tracking parameters can be found in the associated manuscript.</p>
Frozen feather and motif files for Distinct stage-specific transcriptional states of B cells derived from human tonsillar tissue.
<p>Frozen feather and motif files for manuscript "Distinct stage-specific transcriptional states of B cells derived from human tonsillar tissue" by Espinoza DA, et al. Data was downloaded from cisTarget database from aertslab.org.</p>
EUREKA WP2: Regional Interview Transcripts
ZIP file containing transcripts in English of 40 interviews conducted with farmers, foresters, advisors and other professionals across Europe by several EUREKA partners in the summer of 2020. The focus of the interviews was to discuss the (digital) information needs of potential users of the EU-FarmBook knowledge platform. This work informed the development of a set of representative 'user personas' and associated 'user journeys' to aid in the design of the EU-FarmBook. See Deliverable 2.2 for a full report of the findings.
EUREKA WP2: Regional Interview Transcripts
ZIP file containing transcripts in English of 40 interviews conducted with farmers, foresters, advisors and other professionals across Europe by several EUREKA partners in the summer of 2020. The focus of the interviews was to discuss the (digital) information needs of potential users of the EU-FarmBook knowledge platform. This work informed the development of a set of representative 'user personas' and associated 'user journeys' to aid in the design of the EU-FarmBook. See Deliverable 2.2 for a full report of the findings.
ScienceDex guides
Understand access before you commit
These curated guides explain access requirements, typical timelines, costs, and reuse considerations for widely used research datasets.
Allen Brain Atlas
Allen Brain Atlas is an Allen Institute collection of brain map atlases, datasets, APIs, and analysis tools covering mouse, human, and non-human primate brain resources.
Annotated Behaviour and Observability Dataset (ABODe)
ABODe is a University of Edinburgh DataShare dataset for behavior classification in group-housed mice using home-cage video, identities, bounding boxes, ground-plate positions, and annotator labels.
DANDI Archive for NWB datasets
DANDI is a BRAIN Initiative archive for publishing and sharing neurophysiology data, including electrophysiology, optophysiology, and behavioral data packaged as NWB and related standards.
International Brain Laboratory public data
The International Brain Laboratory public data releases expose standardized mouse decision-making experiments, including Neuropixels recordings, widefield calcium imaging, behavior, and session metadata accessed through the ONE API.
OpenNeuro
OpenNeuro is a free, open platform for sharing neuroimaging datasets, with public search, dataset pages, and download paths for web, S3, DataLad, and the OpenNeuro CLI.