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.
1,988
datasets available to search
ShareScore release 0.9.0
Dataset results
1,988 results for “proliferation”
Data from: Host sex modulates the energetics of pathogen proliferation and its dependence on environmental resources
Open the record for dataset details and reuse information.
A Tasquinomod-loaded dopamine-modified pH sensitive hydrogel is effective at inhibiting the proliferation of KRAS mutant lung cancer cells
Open the record for dataset details and reuse information.
Benzalkonium Chloride Disinfectants Induce Apoptosis, Inhibit Proliferation, and Activate the Integrated Stress Response in a 3-D in Vitro Model of Neurodevelopment
Open the record for dataset details and reuse information.
Data from: Horizontal gene acquisitions, mobile element proliferation, and genome decay in the host - restricted plant pathogen Erwinia tracheiphila
Open the record for dataset details and reuse information.
Data from: Mean annual temperature influences local fine root proliferation in tropical montane wet forest
Open the record for dataset details and reuse information.
Data: Size-dependent patterns of cell proliferation and migration in freely-expanding epithelia
<p>Raw images ('*.tif" file extensions) and core measurement files ('*.mat file extension). For small and large circles, we include images of phase, GFP, RFP, and nuclei. We also include two ellipses in phase. '<a href="https://zenodo.org/api/files/f94dc36b-aa3a-40f5-800a-035282fdfad7/t0SummaryStats.mat">t0SummaryStats.mat</a>' gives information for the starting conditions of tissues represented by the '<a href="https://zenodo.org/api/files/f94dc36b-aa3a-40f5-800a-035282fdfad7/PIVunsmoothed.mat">PIVunsmoothed.mat</a>' and '<a href="https://zenodo.org/api/files/f94dc36b-aa3a-40f5-800a-035282fdfad7/Kymographs.mat">Kymographs.mat</a>' datasets. '<a href="https://zenodo.org/api/files/f94dc36b-aa3a-40f5-800a-035282fdfad7/ContinuityEqn_FVM.m">ContinuityEqn_FVM.m</a>' includes the solution to the continuity equation via the finite volume method as detailed in the materials and methods, and relies on data in '<a href="https://zenodo.org/api/files/f94dc36b-aa3a-40f5-800a-035282fdfad7/Kymographs.mat">Kymographs.mat</a>' and '<a href="https://zenodo.org/api/files/f94dc36b-aa3a-40f5-800a-035282fdfad7/t0SummaryStats_continuityEqn.mat">t0SummaryStats_continuityEqn.mat</a>'.</p>
Genome sequencing of P. tricornutum mother and daughter cultures derived from single cell and separated by 30 days of proliferation - processed datasets
<p><strong>Genome sequencing of <em>P. tricornutum</em> mother and daughter cultures derived from single cell and separated by 30 days of proliferation - processed datasets.</strong></p> <p>Raw data for this experiment are available at https://www.ncbi.nlm.nih.gov/bioproject/PRJNA658224.</p> <p> </p> <p><strong>Please note that the naming of files differs from the general description on /www.ncbi.nlm.nih.gov/bioproject website and in related publication:</strong></p> <p>Instead of MC1-3, the processed datasets are labelled Sc1-3</p> <p>Instead of DC1.1; DC1.2 and DC1.3, the processed datasets are labelled Sc11, Sc12 and Sc14 respectively</p> <p>Instead of DC2.1; DC2.2 and DC2.3, the processed datasets are labelled Sc21, Sc22 and Sc24 respectively</p> <p>Instead of DC3.1; DC3.2 and DC3.3, the processed datasets are labelled Sc31, Sc32 and Sc33 respectively</p> <p><strong>Available datasets: </strong></p> <p><em>.bam</em> files with ILLUMINA reads aligned to the reference P. tricornutum v2 genome used for SNP calling </p> <p><em>.vcf</em> files for individual samples with SNPs called using GATK3.7.0</p> <p><em>joint_genotyping_cohort.vcf</em> file with SNPs called jointly for all samples using GATK4.2.1 </p> <p> </p> <p><strong>Description of the experiment:</strong> </p> <p>Whole-genome Illumina sequencing of mother and daughter cultures derived from single cell to reveal genomic changes occurring within 30 day time frame. Three independent single cells were isolated from CCAP 1055/1 culture (sample label: Pt1) to start mother cultures (MC1; MC2; MC3 . On day 30 after mother culture isolation (T1 time point), three daughter cells were isolated from each mother culture forming cultures DC11-DC33. Part of mother cultures and CCAP 1055/1 culture were harvested at T1 (Samples: Pt1T1; MC1T1; MC2T1; MC3T1) . After another 30 days (T2 time point), all cultures were harvested (Samples: Pt1T2; mother culture MC1T2 and respective daughter cultures DC11, DC12 and DC13 ; mother culture MC2T2 and respective daughter cultures DC21, DC22 and DC23; mother culture MC3T1 and respective daughter cultures DC31, DC32, DC33).</p>
Data from: Curcumin improves glycolipid metabolism through regulating peroxisome proliferator activated receptor γ signalling pathway in high-fat diet-induced obese mice and 3T3-L1 adipocytes
Curcumin, an active component derived from the Curcuma longa L. which is a traditional Chinese medicine that is widely used for treating metabolic diseases through regulating different molecular pathway. Here, in this study, we aimed to comprehensively investigate the effects of curcumin on glycolipid metabolism in vivo and in vitro and then determine the underlying mechanism. Male C57BL/6J obese mice and 3T3-L1 adipocytes were used in vivo and in vitro study, respectively. Our results demonstrated that treatment with curcumin for 8 weeks decreased body weight, fat mass and serum lipid profiles. Meanwhile, it lowered fasting blood glucose and increased the insulin sensitivity in high-fat diet induced obese mice. In addition, curcumin stimulated lipolysis and improve glycolipid through upregulating the expressions of ATGL, HSL, PPARγ, C/EBPα and PPARα in adipose tissue of the mice. In differentiated 3T3-L1 cells, curcumin reduced glycerol release and increased glucose uptake via upregulating PPARγ and C/EBPα. We concluded that curcumin has potential to improve glycolipid metabolism disorders caused by obesity through regulating PPARγ signaling pathway.
Data from: Effect of Ghost pepper on cell proliferation, apoptosis, senescence and global proteomic profile in human renal adenocarcinoma cells
Chili peppers are an important constituent of many foods and contain medicinally valuable compounds, such as capsaicin and dihydrocapsaicin. As various dietary botanicals have anticancer properties, this study was aimed to examine the effect of Ghost pepper (Bhut Jolokia), one of the hottest chili peppers in the world, on cell proliferation, apoptosis, senescence and the global proteomic profile in human renal cell adenocarcinoma in vitro. 769-P human renal adenocarcinoma cells were cultured on RPMI-1640 media supplemented with fetal bovine serum (10%) and antibiotic-antimycotic solution (1%). Treatment stock solutions were prepared in ethanol. Cell proliferation was tested with phenol red-free media with capsaicin (0–400 μM), dihydrocapsaicin (0–400 μM), capsaicin + dihydrocapsaicin (5:1), and dry Ghost peppers (0–3 g L-1) for 24, 48 and 72 h. Polycaspase and senescence associated-beta-galactosidase (SA-beta-gal) activities were tested with capsaicin (400 μM), dihydrocapsaicin (400 μM), capsaicin (400 μM) + dihydrocapsaicin (80 μM), and ghost pepper (3 g L-1) treatments. Global proteomic profile of cells in control and ghost pepper treatment (3 g L-1) was analyzed after 6 h by a shotgun proteomic approach using tandem mass spectrometry. At 24 h after treatment (24 HAT), relative to control, cell proportion with capsaicin (400 μM), dihydrocapsaicin (400 μM), capsaicin (400 μM) + dihydrocapsaicin (80 μM), and ghost pepper (3 g L-1) treatments was reduced to 36%, 18%, 33% and 20%, respectively, and further reduced at 48 and 72 HAT. All treatments triggered an early polycaspase response. SA-beta-gal activity was normal or suppressed with all treatments. About 68,220 protein isoforms were identified by shotgun proteomic approach. Among these, about 8.2% were significantly affected by ghost pepper. Ghost pepper regulated various proteins involved in intrinsic and extrinsic apoptotic pathways, Ras, Rb/E2F, p53, TGF-beta, WNT-beta catenin, and calcium induced cell death pathways. Ghost pepper also induced changes in proteins related to methylation, acetylation, genome stability, cell cycle check points, carbohydrate, protein and other metabolism and cellular mechanisms. Ghost pepper exhibited antiproliferation activity by inducing apoptosis through a complex network of proteins in human renal cell adenocarcinoma in vitro.
Data from: Collective cell migration without proliferation: density determines cell velocity and wave velocity
Collective cell migration contributes to embryogenesis, wound healing and tumor metastasis. Cell monolayer migration experiments help understanding what determines the movement of cells far from the leading edge. Inhibiting cell proliferation limits cell density increase and prevents jamming; we observe long-duration migration and quantify space-time characteristics of the velocity profile over large length- and time-scales. Velocity waves propagate backwards and their frequency depends only on cell density at the moving front. Both cell average velocity and wave velocity increase linearly with the cell effective radius regardless of the distance to the front. Inhibiting lamellipodia decreases cell velocity while waves either disappear or have a lower frequency. Our model combines conservation laws, monolayer mechanical properties and a phenomenological coupling between strain and polarity: advancing cells pull on their followers which then become polarized. With reasonable values of parameters, this model agrees with several of our experimental observations. Together, our experiments and model disantangle the respective contributions of active velocity and of proliferation in monolayer migration, explain how cells maintain their polarity far from the moving front, and highlight the importance of strain-polarity coupling and density in long-range information propagation.
Data from: Two subunits of human ORC are dispensable for DNA replication and proliferation
The six-subunit Origin Recognition Complex (ORC) is believed to be an essential eukaryotic ATPase that binds to origins of replication as a ring-shaped heterohexamer to load MCM2-7 and initiate DNA replication. We have discovered that human cell lines in culture proliferate with intact chromosomal origins of replication after disruption of both alleles of ORC2 or of the ATPase subunit, ORC1. The ORC1 or ORC2-depleted cells replicate with decreased chromatin loading of MCM2-7 and become critically dependent on another ATPase, CDC6, for survival and DNA replication. Thus, either the ORC ring lacking a subunit, even its ATPase subunit, can load enough MCM2-7 in partnership with CDC6 to initiate DNA replication, or cells have an ORC-independent, CDC6-dependent mechanism to load MCM2-7 on origins of replication
Data from: Whole genome duplication and transposable element proliferation drive genome expansion in Corydoradinae catfishes
Genome size varies significantly across eukaryotic taxa and the largest changes are typically driven by macro-mutations such as whole genome duplications (WGDs) and proliferation of repetitive elements. These two processes may affect the evolutionary potential of lineages by increasing genetic variation and changing gene expression. Here we elucidate the evolutionary history and mechanisms underpinning genome size variation in a species rich group of Neotropical catfishes (Corydoradinae) with extreme variation in genome size - 0.6pg to 4.4 pg per haploid cell. Firstly, genome size was quantified in 65 species and mapped onto a novel fossil-calibrated phylogeny. Two evolutionary shifts in genome size were identified across the tree - the first between 43-49 Mya (95% highest posterior density (HPD) 36.2-68.1 Mya) and the second at ~19 Mya (95% HPD 15.3-30.14 Mya). Secondly, RAD sequencing was used to identify potential WGD events and quantify transposable element abundance in different lineages. Evidence of two lineage scale WGDs were identified across the phylogeny, the first event occurring between 54-66 Mya (95% HPD 42.56-99.5 Mya) and the second at 20-30 Mya (95% HPD 15.3-45 Mya) based on haplotype numbers per contig and between 35-44 Mya (95% HPD 30.29-64.51 Mya) and 20-30 Mya (95% HPD 15.3-45 Mya) based on SNP read ratios. Transposable element abundance increased considerably in parallel with genome size, with a single TE-family (TC1-IS630-Pogo) showing several increases across the Corydoradinae, with the most recent at 20-30 Mya (95% HPD 15.3-45 Mya) and an older event at 35-44 Mya (95% HPD 30.29-64.51 Mya). We identified signals congruent with two WGD duplication events, as well as an increase in TE abundance across different lineages, making the Corydoradinae an excellent model system to study the effects of WGD and TEs on genome and organismal evolution.
Data from: Contribution of cell proliferation to axial elongation in the red flour beetle Tribolium castaneum
Most arthropods generate their posterior bodies by adding segments periodically, as the embryo grows, from a posteriorly located region called the segment addition zone. This mode of segmentation is shared with vertebrates and relies on oscillatory mechanisms, where the temporal periodicity of a clock is translated into repetitive spatial patterns. This ordered anterior-to-posterior pattern is achieved at the same time as the tissue elongates, opening the question of the functional coordination between the mechanisms of segmental patterning and posterior growth. The study of these processes in different arthropods has played an important role in unravelling some of the molecular mechanisms of segment formation. However, the behavior of cells during elongation and how cellular processes affect this segmental patterning has been poorly studied. Cell proliferation together with cell rearrangements are presumed to be the major forces driving axis elongation in the red flour beetle Tribolium castaneum. However, there still no strong evidence about the role and distribution of cell proliferation within the embryo. In this study, we propose to address these questions by using whole embryo cultures and pharmacological manipulation. We show that considerable cell proliferation occurs during germband elongation, measured by incorporation of the nucleoside analog of thymidine 5-Ethynyl-2'-deoxyuridine, EdU. Moreover, proliferating cells appeared to be spread along the elongating embryo with a posterior bias at early segmentation. In addition, when we blocked cell division, treated germbands were always shorter than controls and in some cases not able to fully elongate, even when control embryos already started to retract and leg buds are evident. Finally, we found that the absence of cell proliferation has no apparent effect on segmental patterning, as evidenced by Tc-engrailed (Tc-en) gene expression.
Data from: Tolerance to gamma radiation in the tardigrade Hypsibius dujardini from embryo to adult correlate inversely with cellular proliferation
Tardigrades are highly tolerant to desiccation and ionizing radiation but the mechanisms of this tolerance are not well understood. In this paper, we report studies on dose responses of adults and eggs of the tardigrade Hypsibius dujardini exposed to gamma radiation. In adults the LD50/48h for survival was estimated at ~ 4200 Gy, and doses higher than 100 Gy reduced both fertility and hatchability of laid eggs drastically. We also evaluated the effect of radiation (doses 50 Gy, 200 Gy, 500 Gy) on eggs in the early and late embryonic stage of development, and observed a reduced hatchability in the early stage, while no effect was found in the late stage of development. Survival of juveniles from irradiated eggs was highly affected by a 500 Gy dose, both in the early and the late stage. Juveniles hatched from eggs irradiated at 50 Gy and 200 Gy developed into adults and produced offspring, but their fertility was reduced compared to the controls. Finally we measured the effect of low temperature during irradiation at 4000 Gy and 4500 Gy on survival in adult tardigrades, and observed a slight delay in the expressed mortality when tardigrades were irradiated on ice. Since H. dujardini is a freshwater tardigrade with lower tolerance to desiccation compared to limno-terrestrial tardigrades, the high radiation tolerance in adults, similar to limno-terrestrial tardigrades, is unexpected and seems to challenge the idea that desiccation and radiation tolerance rely on the same molecular mechanisms. We suggest that the higher radiation tolerance in adults and late stage embryos of H. dujardini (and in other studied tardigrades) compared to early stage embryos may partly be due to limited mitotic activity, since tardigrades have a low degree of somatic cell division (eutely), and dividing cells are known to be more sensitive to radiation.
Data from: Transposon proliferation in an asexual parasitoid
The widespread occurrence of sex is one of the most elusive problems in evolutionary biology. Theory predicts that asexual lineages can be driven to extinction by uncontrolled proliferation of vertically transmitted transposable elements (TEs), which accumulate because of the inefficiency of purifying selection in the absense of sex and recombination. To test this prediction, we compared genome-wide TE load between a sexual lineage of the parasitoid wasp Leptopilina clavipes and a lineage of the same species that is rendered asexual by Wolbachia-induced parthenogenesis. We sequenced the entire genomes of both the sexual and the asexual lineages using next-generation sequencing. We identified transposons of most major classes (including DNA transposons, LTR and LINE-like retrotransposable elements) in both lineages. Quantification of TE abundance using coverage depth showed that copy numbers in the asexual lineage exceeded those in the sexual lineage for DNA transposons, but not LTR and LINE-like elements. However, one or a small number of gypsy-like LTR elements exhibited a four-fold higher coverage in the asexual lineage. Quantitative PCR showed that high loads of this gypsy-like TE were characteristic for 11 genetically distinct asexual wasp lineages when compared to sexual lineages. Bisulfite sequencing revealed no DNA cytosine methylation of the gypsy-like TE in either lineage. We found no evidence for an overall increase in copy number for all TE types in asexuals as predicted by theory. Instead, we suggest that our results are best explained as side-effects of (epi)genetic manipulations of the host genome by Wolbachia. Asexuality is achieved in a myriad of ways in nature, many of which could create similar problems with TE proliferation.
Oncogenic BRAF V600E induces glial proliferation through ERK and neuronal death through JNK
<p>Background: Activating V600E in BRAF is a common driver mutation in cancers of multiple tissue origins, including melanoma and glioma. BRAF V600E has also been implicated in neurodegeneration. The present study aims to characterize BRAF V600E on cell death and survival in three major cell types of the CNS: neurons, astrocytes, and microglia. Methods : Multiple primary cultures and cell lines of glial cells and neurons were employed. BRAF V600E as well as BRAF WT expression was mediated by lentivirus or retrovirus. Blockage of downstream effectors were achieved by siRNA. Gene expression data from patients with Parkinson’s disease was analyzed. Results : In astrocytes and microglia, BRAF V600E induces cell proliferation, and the proliferative effect in microglia is mediated by activated ERK but not JNK. Conditioned medium from BRAF V600E -expressing microglia induced neuronal cell death. In neuronal cells, BRAF V600E directly induces cell death, through JNK but not ERK. We further show that BRAF-related genes are enriched in pathways in patients with Parkinson’s disease. Conclusions : Our study identifies distinct consequences mediated by distinct downstream effectors in dividing glial cells and in neurons following the same BRAF mutational activation and a causal link between BRAF-activated microglia and neuronal cell death that does not require physical proximity. It provides insight into a possibly important role of BRAF in neurodegeneration as a result of either dysregulated BRAF in neurons or its impact on glial cells.</p>
ALKBH5 promotes tumour proliferation, migration, and invasion by regulating the lncRNA MIR210HG/Mir-206/WEE1 signalling pathway in glioma
<p>GRAPH</p>
Dataset for: Cure or Curse? Simulation Indicates that Microbes Proliferate under Disinfection Measures in the Space Station
Open the record for dataset details and reuse information.
Figure 1 in Investigation the effects of vitreous humor on proliferation and dedifferentiation of differentiated NTERA2 cells
Figure 1. Cell count analysis of NT2, NT2-RA and NT2 RA-VH cells at 3 and 9 days after culturing at 6 well plates. NT2 RA-VH cell numbers were increased in comparison to those of the NT2-RA cells. Data represent the mean ± SEM. (a) P <0.05; (b) P <0.01 vs control group, compared with NT2-RA cells.
Figure 3 in Investigation the effects of vitreous humor on proliferation and dedifferentiation of differentiated NTERA2 cells
Figure 3. Flow cytometry analysis to assess the level of TRA-81, SSEA1, and SSEA3 cell surface antigens on NT2, NT2-RA, and NT2-RA cells treated with different concentrations of VH for 6 days. (A) NT2-RA cells treated with 2.5% and 7.5% VH; (B) NT2-RA cells treated with 15% VH.
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.