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.
7,327
datasets available to search
ShareScore release 0.9.0
Dataset results
7,327 results for “pathways”
Fig. 3. A in Heartworm and seal louse: Trends in prevalence, characterisation of impact and transmission pathways in a unique parasite assembly on seals in the North and Baltic Sea
Fig. 3. A: Prevalence of A. spirocauda and E. horridus in harbour seals in the North and Baltic Sea from 1996 to 2021, data from 1996 to 2013 according to Lehnert et al. (2016). B: Prevalence of A. spirocauda and E. horridus in harbour seals during the seasons in the North and Baltic Sea from 2014 to 2021.
Fig. 2 in Heartworm and seal louse: Trends in prevalence, characterisation of impact and transmission pathways in a unique parasite assembly on seals in the North and Baltic Sea
Fig. 2. Sampling routine of E. horridus infected seal skin for histological and bacteriological examinations. A: Mild E. horridus infection of a harbour seal yearling, asterisk pointing at E. horridus. B: Close up of E. horridus C: Removing of E. horridus D: Cutting and removing of the infected skin with a sterile forceps for further investigations. Scale bars: A-D 1 cm.
Fig. 1 in Heartworm and seal louse: Trends in prevalence, characterisation of impact and transmission pathways in a unique parasite assembly on seals in the North and Baltic Sea
Fig. 1. Levels of infection with E. horridus in P. vitulina. A: Mild E. horridus infection of a harbour seal yearling, asterisk pointing at E. horridus B: Close up of E. horridus in the head area of a harbour seal C: Severe E. horridus infection of a harbour seal D: Close up of severe E. horridus infection. Scale bars: A-D 1 cm.
BRAIN Journal-Isolating the Norepinephrine Pathway Comparing Lithium in Bipolar Patients to SSRIs in Depressive Patients-Figure 2. Resting state neuroimaging findings illustrating the action of Lithium following whole brain
<p>The axial, saggital, and coronal MRI activation maps illustrate increased delta frequency band neuronal activity in the 46 patients<br> diagnosed with Bipolar Affective Disorder compared to 32 female patients diagnosed with Major Depressive Disorder of Depressive<br> Episode. The Yellow/Orange shades indicate increased neuronal activity in the right Superior Frontal Gyrus (t=0.920, p=0.05060,<br> BA 6, MNI X=20, Y=0, Z=70) and in the right Cingulate Gyrus (t=0.0846, BA 24, MNI X= 5, Y=0, Z=51). Structural anatomy is<br> shown in grey scale (A – anterior; S – superior; P – posterior; L – left; R – right).</p>
BRAIN Journal-Electrophysiological Neuroimaging using sLORETA Comparing 100 Schizophrenia Patients to 48 Patients with Major Depression -Figure 3. Resulting comparisons isolating the Dopamine D2 Mesolimbic Pathway
<p>Moreover, a study in Prague identified that Toxoplasmosis triggers schizophrenia in<br> predisposed subjects (Flegr et al., 2014). It may very well be that the Toxoplasmosis parasite<br> increasing dopamine secretions in the frontal lobes may very well lead to decreased cerebral<br> volumes. Cat feces, sexual contact, and eating raw or undercooked pork are well known transmitters<br> of the Toxoplasmosis parasite and may be advisable that patients take precautions of the possibility<br> of these triggering symptoms of psychosis with these possible routes of infection. Another adjunct to Atypical Antipsychotics may be to treat the potential cerebral Toxoplasmosis infection with<br> Cotrimoxazole or Pyrimethamine/Clindamycin.</p>
BRAIN Journal-Isolating the Norepinephrine Pathway Comparing Lithium in Bipolar Patients to SSRIs in Depressive Patients-Figure 1. Resting state neuroimaging findings illustrating the action of Lithium following whole brain
<p>The axial, saggital, and coronal MRI activation maps illustrate neuronal activity of 46 patients diagnosed with Bipolar Affective<br> Disorder compared to 16 male patients diagnosed with Major Depressive Disorder of Depressive Episode. The Yellow/Orange<br> shades indicate increased neuronal activity in the right Superior Temporal Gyrus (t=1.403, p=0.00780, BA 41, MNI X=45, Y= -35,<br> Z=10) with activation also in the Fusiform Gyrus (t=1.26, BA 20, MNI X= 45, Y= -35, Z=10), the Parahippocampal Gyrus (t=1.29,<br> BA 36, MNI X=45, Y= -35, Z=10). (b) Increased neuronal activity in the Cingulate Gyrus (t=1.06, BA 32, MNI X=45, Y= -35,<br> Z=10). Structural anatomy is shown in grey scale (A – anterior; S – superior; P – posterior; L – left; R – right).</p>
Figure 4. (a) Therapy player software screen, where a) is the stimuli time, b) is the total therapy time, c) is the file path, d) displays the numeric values of each sequence of the therapy, e) shows the current value, and f) shows the current lag angle for zenith and azimuth values; (b) USB mechanism for conversion, where a) USB-UART converter, and b) USB-Zigbee converter.-Design of a Novel Servo-motorized Laser Device for Visual Pathways Diseases Therapy
<p>Where tt time expended by the servomotors to point the laser to a given position and execute<br> a laser beam sequence; tspin is the time that a servomotor needs to spin one degree; ttol is a given the<br> tolerance time; θservo is the addition of degrees that both servos in a laser driver need to spin point<br> the laser in a given position; tstimuli is the time expended in execute a laser beam, between 250 and<br> 605 ms (Weiskrantz et al., 1991); T is the total time of all repetitions in a therapy, suggested<br> between 20 and 60 minutes and N is the number of repetitions in a therapy.</p>
Figure 3. (Top): Illustration of the therapy selection main menu. This enables the user to select one of three options for the therapy. Stimuli sequence selectors; (Bottom): (a) Short distance – complete visual field; (b) Short distance – macular; (c) Middle-long distance.-Design of a Novel Servo-motorized Laser Device for Visual Pathways Diseases Therapy
<p>distance therapies for the prescribed time suggested by the ophthalmologist.<br> Note that the complete visual field therapy stimulates different parts in the entire visual field<br> whereas macular therapy stimulate only a small part of the visual field, only the first 10° of vision<br> range. In contrast, middle-long distance therapies are not developed inside the device; instead the<br> patient must sit watching a wall, where the stimuli will be presented. Figure 3 (Bottom) shows the<br> sequence selectors for the three different cases. The therapist will choose a desired number of<br> sequences according to the results of the examination to each patient; hence it is completely patient<br> dependent.<br> Once the therapist finishes the particular design of the stimuli sequence, the software<br> automatically displays a window where he can save the customized patient-specific details for future<br> use as a text file.</p>
Figure 2. (a) Representation of laser servo-driver for inverse kinematics analysis; (b) Representation of the lag angle, B, of the internal servomechanism (magnified version of the chin-rest).-Design of a Novel Servo-motorized Laser Device for Visual Pathways Diseases Therapy
<p>As the servo-driver will be attached in the chin-rest in a non-central area with respect to the<br> semispherical structure shown in Figure 1(a), it is necessary to calculate a lag angle, according to<br> the measurements from the chin-rest, see Figure 2(b). This was done using a hybrid formula based<br> on the law of cosines,</p>
Figure 1. (a) Part of the acrylic structure where the patient is enclosed to avoid external stimulus; (b) Chin rest, corresponding proportions and measurements.-Design of a Novel Servo-motorized Laser Device for Visual Pathways Diseases Therapy
<p>The device consists mainly of an acrylic semi-spherical structure (Figure 1(a)) where visual<br> stimuli will be shown, according to a pre-designed therapy. Four servomotors will drive the lasers,<br> two inside the structure (short distances drive the lasers, two inside the structure (short distance<br> therapies) and two outside (middle-long distance therapies). A chin-rest must be used to have a<br> better line of sight fixation. A webcam with infrared light will catch the Purkinje-Sanson images to<br> identify the sight line (Borah, 2006; Halswanter, 2011; Pambakian et al., 2000). LabVIEW software<br> is used to control the device, including an audio stimulus along with an image-processing pipeline.<br> Finally a microcontroller is used to control the servo movements, laser beams and buzzers.</p>
The loss of SMG1 causes defects in quality control pathways in Physcomitrella patens
<p>Nonsense-mediated mRNA decay (NMD) is important for both RNA quality control and gene regulation. NMD targets aberrant mRNA transcripts for decay and also directly influences the abundance of specific, non-aberrant transcripts in a wide range of eukaryotes. In animals, the PIK kinase, SMG1, plays an essential role in NMD, by phosphorylating the core NMD effector, UPF1. Despite being absent from the genome of the model plant, <em>Arabidopsis thaliana</em>, SMG1 is ubiquitous throughout the plant kingdom. Here we utilize RNA-seq to reveal the full range of processes involving <em>SMG1</em> in plants. In NMD-compromised, <em>smg1</em> mutant moss, 30% of multi-isoform genes produce NMD targeted transcript isoforms. Taking a machine learning approach, we show that an exon-exon junction downstream of a stop codon acts as the major feature to target transcripts to NMD and that retained intron isoforms are underrepresented among NMD targets. Furthermore, we show that <em>SMG1</em> is involved in other quality control pathways, affecting DNA repair and the unfolded protein response, in addition to its role in mRNA quality control. <em>smg1</em> plants have increased susceptibility to DNA damage, but increased tolerance to unfolded protein inducing agents. The involvement of SMG1 in RNA, DNA and protein quality control has major implications for the study of these processes in plants.</p>
Process Flow Diagram of Cardiac Surgery Pathway
<p><em><strong>This image is supplementary material for:</strong></em></p> <p>Currie, C. S.M. Monks, T. (2018) <em>Modelling Diseases: Prevention, Cure, and Management.</em> In M. Rabe, A. Juan, N. Mustafee, A. Skoogh, & B. Johansson (Eds.). Proceedings of the Winter Simulation Conference 2018. Gothenburg, Sweden.</p> <p><em>Relevant to:</em></p> <p><strong>Section 4.1.4. Spend some Time Observing How the Operations of the Disease Pathway are Managed</strong></p> <p>The description of the disease pathway obtained in the initial meeting may be idealized. It is advised that modelers spend at least a few hours in the one or more services in the real pathway to observe how it operates and to interview on-the-ground workforce. Observations of the system under pressure are useful to understand the complexities of the pathway and will reveal aspects that have been missed or that operate differently from described. This Figure illustrates a cardiac surgery pathway at a large hospital that operated on patients from a network of smaller hospitals in the UK. The diagram itself was primarily constructed in an initial meeting with a group of cardiac surgeons. Observation of the system and shadowing of specialist cardiac nurses revealed two differences from the idealized model. Firstly, patients could deteriorate and ‘bounce back’ from post-operative care to higher levels of care. Secondly, in times of pressure, the post operative beds were used flexibly to accommodate patients waiting for surgery and those who had already undergone surgery.</p>
Alterations in Patterns of Gene Expression and Perturbed Pathways Associated With Chemotherapy-Induced Nausea
<p>This dataset contains the supplementary materials describing in detail the methods and the results of the analyses. The manuscript has been submitted for publication. Please cite both the paper as well as the DOI of this dataset if you make use of the data.</p>
Summary statistics - Imputed gene associations identify replicable trans-acting genes enriched in transcription pathways and complex traits
<p>Summary statistics for all trans-acting/target gene pairs tested in our manuscript.</p> <p>Preprint available: <a href="https://doi.org/10.1101/471748">https://doi.org/10.1101/471748</a></p>
Dataset from Computational modeling of anthocyanin pathway evolution: Biases, hotspots, and trade-offs
<p>This directory contains the scripts used to run simulations, Jupyter notebook with complete analysis, and serialized (pickled) raw simulated dataset from our paper "<em>Computational modeling of anthocyanin pathway evolution: Biases, hotspots, and trade-offs</em>". These materials are referenced in the main text and supplemental text of the publication. The purpose of this repository is to facilitate replication of our analysis by any interested parties. </p>
Supplementary Data: Evolution of the cholesterol biosynthesis pathway in animals
<p>Cholesterol plays essential roles in animal development and disease progression. Here, we characterize the evolutionary pattern of the canonical cholesterol biosynthesis pathway (CBP) in the animal kingdom using both genome-wide analyses and functional experiments. CBP genes in the basal metazoans were inherited from their last common eukaryotic ancestor and evolutionarily conserved for cholesterol biosynthesis. The genomes of both the basal metazoans and deuterostomes retain almost the full set of CBP genes, while Cnidaria and many protostomes have independently experienced multiple massive losses of CBP genes that might be due to the geologic events during the Ediacaran period, such as the appearance of an exogenous sterol supply and the frequent perturbation of ocean oxygenation. Meanwhile, the indispensable utilization processes of cholesterol potentially strengthened the maintenance of the complete set of CBP genes in vertebrates. These results strengthen both biotic and abiotic roles in the macroevolution of a biosynthesis pathway in animals.</p>
Integrated analysis of miRNA landscape and cellular networking pathways in stage-specific prostate cancer
<p><strong>Figure S1.</strong> Heat map of miRNA-microarray. Expression of miRNAs differentially expressed and assessed in microarray analysis of RNA isolated from four different cell lines of prostate cancer (LNCaP, PC3, DU145, 22Rv1) compared with control cell line of prostate cancer (PrEc). The red color depicts high and green color showed a lower level of expression at p value <0.01.</p> <p><strong>Figure S2A.</strong> Drug resistance by drug efflux. The internetworking relationship with miRNAs and plasma membrane protein P-glycoprotein (Pgp-plasma membrane protein). The miRNA-130a and miR-181a are downregulated in this pathway (green color) and linked with Pg and BCRP (breast cancer resistant protein). miR-133a and miR379 are involved in regulating the expression of MRP2. While miR-298, miR27a, miR331-5p and miR-130a are involved in regulating the expression of poly-glycoprotein (P-gp).</p> <p><strong>Figure S2B.</strong> Epithelial mesenchymal transition pathway. The miR-200b was downregulated during early-stage prostate cancer and was involved in inhibiting Jagged-2 (JAG2), one of the NOTCH ligands.</p> <p><strong>Figure S2C.</strong> Adipogenesis pathway. The expression of miR-326 was upregulated during the metastatic stage of prostate cancer, (red color) and involved in regulating the expression of CCAT/enhancer binding protein β (C/EBPβ), directly linked with the nuclear hormone receptor peroxisome proliferator-activated receptor-gamma (PPAR-γ).</p> <p><strong>Figure S2D.</strong> Bone metamorphosis signaling pathway. The expression of miR-140, miR-145, and miR-155 was upregulated, along with miR-140 and miR-145 were associated with modulation of gene SOX9, and miR-155 was involved in regulating the gene FOXO3A.</p> <p><strong>Figure S2E.</strong> Th1 pathway. In this pathway, the expression of miR-146a showed a higher level of expression (red color) and modulated the expression of NF-κB signaling.</p> <p><strong>Figure S2F.</strong> Th1 and Th2 pathway. In this pathway, the expression of miR-146a showed a lower level of expression (green color) and may modulate the expression of NF-κB signaling.</p> <p><strong>Table S1.</strong> List of differentially expressed miRNAs derived from LNCaP cells lines statistically significant as P < 0.001.</p> <p><strong>Table S2.</strong> List of differentially expressed miRNAs derived from PC3 cells lines statistically significant as P < 0.001.</p> <p><strong>Table S3.</strong> List of differentially expressed miRNAs derived from DU145 cells lines statistically significant as P < 0.001.</p> <p><strong>Table S4.</strong> List of differentially expressed miRNAs derived from 22Rv1 cells lines statistically significant as P < 0.001.</p>
Link to dataset related to article "Sustained activation of detoxification pathways promotes liver carcinogenesis in response to chronic bile acid-mediated damage"
<p>This record contains link to raw data related to article "Sustained activation of detoxification pathways promotes liver carcinogenesis in response to chronic bile acid-mediated damage"</p> <p>Chronic inflammation promotes oncogenic transformation and tumor progression. Many inflammatory agents also generate a toxic microenvironment, implying that adaptive mechanisms must be deployed for cells to survive and undergo transformation in such unfavorable contexts. A paradigmatic case is represented by cancers occurring in pediatric patients with genetic defects of hepatocyte phosphatidylcholine transporters and in the corresponding mouse model (Mdr2-/- mice), in which impaired bile salt emulsification leads to chronic hepatocyte damage and inflammation, eventually resulting in oncogenic transformation. By combining genomics and metabolomics, we found that the transition from inflammation to cancer in Mdr2-/- mice was linked to the sustained transcriptional activation of metabolic detoxification systems and transporters by the Constitutive Androstane Receptor (CAR), a hepatocyte-specific nuclear receptor. Activation of CAR-dependent gene expression programs coincided with reduced content of toxic bile acids in cancer nodules relative to inflamed livers. Treatment of Mdr2-/- mice with a CAR inhibitor blocked cancer progression and caused a partial regression of existing tumors. These results indicate that the acquisition of resistance to endo- or xeno-biotic toxicity is critical for cancers that develop in toxic microenvironments.</p> <p>https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE80777 under the accession GSE80777, which comprises ChIP-seq data (GSE80775) and expression data (GSE80776).</p>
JRC-TEMBA - African decarbonisation pathways
<p>This dataset underpins the report provided to the project JRC-TEMBA - African decarbonisation pathways.</p> <p>The report provides insights into energy supply and demand, power generation, investments and total system costs, water consumption and withdrawal as well as carbon dioxide emissions for the African continent.</p> <p>The energy supply systems of forty-seven African countries are modelled individually and connected via gas and electricity trade links to identify the cost-optimal solution to satisfy each country´s total final energy demand for the period 2015-2065. In this analysis, The Electricity Model Base for Africa (TEMBA) was extended to include a simple representation of the full energy system. It was also updated to include new data. It is run using the medium- to long-term Open Source Energy Modelling System tool (OSeMOSYS).</p> <p>The TEMBA model produces aggregate energy, and detailed power system results in each country in the African continent. The power sector results are also reported with power pool aggregation.</p> <p>The OSeMOSYS model and input data used to produce these results can be found at <a href="https://github.com/KTH-dESA/jrc_temba">https://github.com/KTH-dESA/jrc_temba</a>.</p>
Fig. 3 in Ants increase cloverworm herbivory via nonconsumptive pathways
Fig. 3. The leaf area damaged (cm2) afer 4 d. Ln indicates the presence of ants, Lasius neoniger Emery; Os indicates the presence of striped lynx spiders, Oxyopes salticus (Hentz); and Hs indicates the presence of green cloverworms, Hypena scabra Fabricius.
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.