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49 results for “spatially targeted”
Spatial transcriptome analysis defines heme as a hemopexin-targetable inflammatoxin in the brain - Datasets and Python notebooks
<p>This dataset and the associated Python notebooks and R-code are related to the publication "Spatial transcriptome analysis defines heme as a hemopexin-targetable inflammatoxin in the brain".</p>
Gaze-dependent spatial updating of tactile targets in a localization task
<p>The article which was written based on the uploaded dataset can be retrieved here: https://doi.org/10.3389/fpsyg.2014.00066 </p> <p>Abstract:</p> <p>There is concurrent evidence that visual reach targets are represented with respect to gaze. For tactile reach targets, we previously showed that an effector movement leads to a shift from a gaze-independent to a gaze-dependent reference frame. Here we aimed to unravel the influence of effector movement (gaze shift) on the reference frame of tactile stimuli using a spatial localization task (yes/no paradigm). We assessed how gaze direction (fixation <em>left/right</em>) alters the perceived spatial location (point of subjective equality) of sequentially presented tactile standard and visual comparison stimuli while effector movement (gaze <em>fixed/shifted</em>) and stimulus order (<em>vis-tac/tac-vis</em>) were varied. In the fixed-gaze condition, subjects maintained gaze at the fixation site throughout the trial. In the shifted-gaze condition, they foveated the first stimulus, then made a saccade toward the fixation site where they held gaze while the second stimulus appeared. Only when an effector movement occurred <em>after</em> the encoding of the tactile stimulus (shifted-gaze, <em>tac-vis</em>), gaze s<em>imilarly</em> influenced the perceived location of the tactile and the visual stimulus. In contrast, when gaze was fixed or a gaze shift occurred <em>before</em> encoding of the tactile stimulus, gaze <em>differentially</em> affected the perceived spatial relation of the tactile and the visual stimulus suggesting gaze-dependent coding of only one of the two stimuli. Consistent with previous findings this implies that visual stimuli vary with gaze irrespective of whether gaze is fixed or shifted. However, a gaze-dependent representation of tactile stimuli seems to critically depend on an effector movement (gaze shift) after tactile encoding triggering spatial updating of tactile targets in a gaze-dependent reference frame. Together with our recent findings on tactile reaching, the present results imply similar underlying reference frames for tactile spatial perception and action.</p>
Spatial targeting of Screening + Eave tubes (SET), a house-based malaria control intervention, in Côte d'Ivoire: A geostatistical modelling study
<p>New malaria control tools and tailoring interventions to local contexts are needed to reduce the malaria burden and meet global goals. The housing modification, screening plus a targeted house-based insecticide delivery system called the In2Care® Eave Tubes, has been shown to reduce clinical malaria in a large cluster randomised controlled trial. However, the widescale suitability of this approach is unknown. We aimed to predict household suitability and define the most appropriate locations for ground-truthing where Screening + Eave Tubes (SET) could be implemented across Côte d'Ivoire. We classified DHS sampled households into suitable for SET based on the walls and roof materials. We fitted a Bayesian beta-binomial logistic model using the integrated nested Laplace approximation (INLA) to predict suitability of SET and to define priority locations for ground-truthing and to calculate the potential population coverage and costs. Based on currently available data on house type and malaria infection rate, 31% of the total population and 17.5% of the population in areas of high malaria transmission live in areas suitable for SET. The estimated cost of implementing SET in suitable high malaria transmission areas would be $46m ($13m –$108m). Ground-truthing and more studies should be conducted to evaluate the efficacy and feasibility of SET in these settings. The study provides an example of implementing strategies to reflect local socio-economic and epidemiological factors, and move beyond blanket, one-size-fits-all strategies.</p>
Single-cell spatial transcriptomics of an inducible destabilized-domain Cre mouse line to target disease associated microglia
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Spatial targeting of Screening + Eave tubes (SET), a house-based malaria control intervention, in Côte d’Ivoire: A geostatistical modelling study
Open the record for dataset details and reuse information.
Experimental files for Spatial and temporal evolution of laser plasma produced using a double-stream gas puff target
<p><span>Spatial and temporal evolution of laser plasma produced as a result of irradiation of an argon/helium gas puff target with short (1.3 ns) or long (6 ns) laser pulses generated with an Nd:YAG laser system was investigated. Imaging and spectral measurements of SXR emission from the plasma, created in the double-stream gas puff target, have been performed with the use of an x-ray streak camera. The experimental data.zip file contains the experimental data from an spectral and imaging systems coupled to an X-ray streak camera.</span></p> <p><span>Work supported by the National Science Centre, Poland, grant agreement no. 2020/39/B/ST2/00509</span></p>
Pupil dilation during orienting of attention and conscious detection of visual targets in patients with left spatial neglect
<p>Right Brain-Damaged patients (RBD) with left spatial neglect (N+), are characterised by deficits in orienting and re-orienting attention to stimuli in the contralesional left side of space. In a recent ERPs study with visual stimuli (Lasaponara et al., 2018) we have pointed out that the pathological attentional bias of N+ is matched with exaggerated novelty reaction and contextual updating of targets in the right ipsilesional space and reduced novelty reaction and contextual updating of targets in the left contralesional space. To characterise further the attentional performance of N+, here we measured Pupil Dilation (PDil), which is a reliable marker of noradrenergic-locus coeruleus activity and response to unexpected events/rewards. Compared to Neutral and Valid targets, N+ patients displayed a pathological reduction of PDil in response to infrequent Invalid targets in the left side of space, while in Healthy Controls (HC) and RBD without neglect (N-) the same targets enhanced PDil with respect to Neutral and frequent Valid targets. Invalid targets in the right side of space enhanced PDil in all experimental groups. Interestingly, both N- and N+ showed a consistent number of target omissions both in the left and right side of space. With respect to seen targets, N- showed reduced PDil in response to unseen targets both in the left and right side of space. In contrast, N+ had reduced PDil in response to unseen targets in the left side of space though not in the right side, where seen and unseen targets evoked comparable levels of PDil. These results disclose, for the first time, the PDil correlates of spatial attention in left spatial neglect and suggest that the pathological attentional bias suffered by N+ might enhance the autonomic responses reflected in PDil to unseen ipsilesional stimuli. This enhancement can contribute to biasing contextual updating and predictive coding of stimuli in the ipsilesional space, thus worsening the pathological attentional bias of N+.</p>
Pre-fitted Bayesian models for "Gene panel selection for targeted spatial transcriptomics"
<p>simulation_parameters_DARTFISH_slim.rds: Bayesian model fitted on the Zhang dataset.</p> <p>simulation_parameters_MERFISH_slim.rds: Bayesian model fitted on the Moffit dataset.</p> <p>simulation_parameters_osmFISH_slim.rds: Bayesian model fitted on the Codeluppi dataset.</p> <p> </p>
Data from: Nets versus spraying: a spatial modelling approach reveals indoor residual spraying targets Anopheles mosquito habitats better than mosquito nets in Tanzania
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Effector movement triggers gaze-dependent spatial coding of tactile and proprioceptive-tactile reach targets
<p>The article available under https://doi.org/10.1016/j.neuropsychologia.2014.07.025 is based on the uploaded dataset.</p> <p>Abstract</p> <p>Reaching in space requires that the target and the hand are represented in the same coordinate system. While studies on visually-guided reaching consistently demonstrate the use of a gaze-dependent spatial reference frame, controversial results exist in the somatosensory domain. We investigated whether effector movement (eye or arm/hand) after target presentation and before reaching leads to gaze-dependent coding of somatosensory targets. Subjects reached to a felt target while directing gaze towards one of seven fixation locations. Touches were applied to the fingertip(s) of the left hand (proprioceptive-tactile targets) or to the dorsal surface of the left forearm (tactile targets). Effector movement was varied in terms of movement of the target limb or a gaze shift. Horizontal reach errors systematically varied as a function of gaze when a movement of either the target effector or gaze was introduced. However, we found no effect of gaze on horizontal reach errors when a movement was absent before the reach. These findings were comparable for tactile and proprioceptive-tactile targets. Our results suggest that effector movement promotes a switch from a gaze-independent to a gaze-dependent representation of somatosensory reach targets.</p>
IF and SCRINSHOT image data of probe set selection for targeted spatial transcriptomics
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Dendritic prioritization through spatial stream network modeling informs targeted management of Himalayan riverscapes under brown trout invasion
<p>With the concept of 'riverscapes' long pending to be acknowledged in the 'landscape-centric' legislative framework of Himalayan nations, conservation of native riverine species stays practically unheeded. This necessitates urgent prioritization of stream networks to conserve the lotic taxa under invasion pressures. Himalayan riverscapes are pervaded with the invasive-exotic brown trout <i>Salmo trutta</i>,<i> </i>posing serious threats to the co-occurring native, the snow trout <i>Schizothorax richardsonii</i>. Using intensive surveys (218.7km) and geostatistical stream network models (n=537), we contrasted snow trout in two stream networks with and without invasives, for assessing differences in their spatial distribution. Our models indicate invasion-induced relegations of natives from the river mainstem into headwaters, with large sections of mainstem occupied by invasives. Furthermore, a concerningly small percentage of potential habitat left for natives to occupy in the mainstem is threatened, where a 100% overlap of native and invasive trout distributions is predicted. With a higher presence probability for the natives in headwaters of invaded watershed as compared to the non-invaded watershed, we highlight the headwater streams as<b> </b>potential refugia for the natives under invasion.</p> <p><i>Synthesis and Applications: </i>Our approach of basin-scale dendritic prioritization provides immediate management solutions to tackle brown trout invasion threats in Himalaya. We inform decisions on delineation of headwaters as invasion refugia for native fish, with assisted recovery of their fragmented populations in the river mainstems through targeted management of invasives</p>
Dendritic prioritization through spatial stream network modeling informs targeted management of Himalayan riverscapes under brown trout invasion
Open the record for dataset details and reuse information.
Precision targeting of beta-catenin induces tumor reprogramming and immunity in hepatocellular cancers [Spatial Transcriptomics by 10X Visium CTNNB1/NFE2L2]
GEO Series GSE290445. Mus musculus. 5 samples. Type: Other.
Spatially clustered loci with multiple enhancers are frequent targets of HIV-1
GEO Series GSE134382. Homo sapiens. 36 samples. Type: Other.
The spatial and temporal dynamics of the nuclear RNAi-targeted retrotransposon transcripts in Caenorhabditis elegans [RNA-seq]
GEO Series GSE118379. Caenorhabditis elegans. 12 samples. Type: Expression profiling by high throughput sequencing.
Comparison of skin spatial transciptomics before and after IL-1-targeted biological treatment in Pityriasis rubra pilaris
GEO Series GSE264192. Homo sapiens. 51 samples. Type: Other.
HCC spatial transcriptomic profiling reveals significant and potentially targetable cancer-endothelial interactions
GEO Series GSE277104. Homo sapiens. 308 samples. Type: Other.
A targetable developmental program co-regulates angiogenesis and immune evasion [Spatial Transcriptomics]
GEO Series GSE311909. Homo sapiens. 2 samples. Type: Other.
A single-cell and spatial atlas of autopsy tissues reveals pathology and cellular targets of SARS-CoV-2 [gene expression levels]
GEO Series GSE164013. Homo sapiens. 80 samples. Type: Expression profiling by high throughput sequencing.
ScienceDex guides
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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.