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.
69
datasets available to search
ShareScore release 0.9.0
Dataset results
69 results for “primary growth”
SBC LTER: REEF: Net primary production, growth and standing crop of Macrocystis pyrifera in Southern California
The giant kelp Macrocystis pyrifera forms subtidal forests on shallow reefs in temperate regions of the world. It is one of the fastest-growing multicellular autotrophs on Earth and its high productivity supports diverse marine food webs. In 2008, we published a method for estimating biomass and net primary production (NPP) of giant kelp along with five years of data, to provide a more integrated measure of NPP than those yielded by previous methods. Our method combines monthly field measurements of standing crop and loss rates with a model of kelp biomass dynamics to estimate instantaneous mass-specific growth rates and NPP for each season of each year. We have since improved our approach to account for several previously unresolved sources of biomass loss. These improvements have led to a near doubling of our prior estimates of growth and NPP. At our site with the most persistent stand of giant kelp, NPP averages ~5.2 kg dry mass m-2 y-1 and results from the rapid growth (~3.5% per day) of a relatively small standing biomass (~ 0.4 kg dry mass m-2 on average) that turns over ~ 12 times annually. Here we provide revised estimates of seasonal biomass, growth and NPP for the five years covered by our previous publication (2002-2006), along with an additional data collect since then (2007-present). We also present updated relationships for predicting giant kelp biomass and NPP from much more easily obtained measurements of frond density. These data can be used to understand the mechanisms that drive variation in giant kelp NPP at a wide range of temporal scales.
Dataset of "TWIST1 expression is associated with high-risk neuroblastoma and promotes primary and metastatic tumor growth"
<p>The embryonic transcription factors TWIST1/2 are frequently overexpressed in cancer, acting as multifunctional oncogenes. Here we investigate their role in neuroblastoma (NB), a heterogeneous childhood malignancy ranging from spontaneous regression to dismal outcomes despite multimodal therapy. We first reveal the association of TWIST1 expression with poor survival and metastasis in primary NB, while TWIST2 correlates with good prognosis. Secondly, suppression of TWIST1 by CRISPR/Cas9 results in a reduction of tumor growth and metastasis in immunocompromised mice. Moreover, TWIST1 knock-out tumors displays a less aggressive cellular morphology and a reduced disruption of the extracellular matrix (ECM) reticulin network. Additionally, we identify a TWIST1-mediated transcriptional program associated with dismal outcome in NB and involved in the control of pathways mainly linked to the signaling, migration, adhesion, the organization of the ECM, and the tumor cells versus tumor stroma crosstalk. Taken together, our findings identified TWIST1 as novel therapeutic target in NB.</p>
Dataset for "TWIST1 expression is associated with high-risk neuroblastoma and promotes primary and metastatic tumor growth"
<p>The embryonic transcription factors TWIST1/2 are frequently overexpressed in cancer, acting as multifunctional oncogenes. Here we investigate their role in neuroblastoma (NB), a heterogeneous childhood malignancy ranging from spontaneous regression to dismal outcomes despite multimodal therapy. We first reveal the association of TWIST1 expression with poor survival and metastasis in primary NB, while TWIST2 correlates with good prognosis. Secondly, suppression of TWIST1 by CRISPR/Cas9 results in a reduction of tumor growth and metastasis in immunocompromised mice. Moreover, TWIST1 knock-out tumors displays a less aggressive cellular morphology and a reduced disruption of the extracellular matrix (ECM) reticulin network. Additionally, we identify a TWIST1-mediated transcriptional program associated with dismal outcome in NB and involved in the control of pathways mainly linked to the signaling, migration, adhesion, the organization of the ECM, and the tumor cells versus tumor stroma crosstalk. Taken together, our findings confirm TWIST1 as promising therapeutic target in NB.</p> <p>This dataset comprise images (.ndpi files) of anti-F4/80 IHC staining used for the quantification of macrophages in subcutaneous and orthotopic neuroblastoma xenografts derived from SK-N-Be2c cells expressing TWIST1 or knocked out for TWIST1 through CRISR/Cas9.</p>
Dataset - Drying out fish ponds, for an entire growth season, as an agroecological practice: maintaining primary producers for fish production and biodiversity conservation
<p>This dataset is based on samples taken from fish ponds in the Dombes region between 2007 and 2014. It includes sediment and water physio-chemistry data, as well as primary producer diversity, benthic invertebrate density and fish yield for 85 different ponds. All these data are linked to the distance to the last dry-out, a major practice in extensive fish farming in this region.</p> <p>There are two .tab and .csv files:<br> One containing the dataset<br> One containing the description of the different variables (Metadata)</p>
parallel-fibered bone; A5, osteocyte lacunae with well-preserved canaliculi; B3, osteocyte lacunae lacking canaliculi; B4, B5, growth pattern with preserved residuals of the thick annuli and zones (zo I–III) and thin annuli and zones (zo IV–VII); A6, growth pattern with preserved thin annuli and thick zones (zo I–IV), the dotted line marks the border between the perimedullary region and the cortex. Arrows in A5 and B3 indicate osteocyte lacunae; in B4, B5, and A6 indicate the annuli. Growth pattern in B4 figured on the lateral section side, in B5 and A5 on the ventral side; note the cortex thickness variation between B4 and B5. A1, A3, A4, A6, B1, B4, B5 in polarized light and A2, A5, B2, B3 in normal transmitted light. Abbreviations: an, annulus; ec, erosion cavity; pmr, perimedullary region; pos, primary osteon; sos, secondary osteon; zo, zone. in Palaeohistology helps reveal taxonomic variability in exceptionally large temnospondyl humeri from the Upper Triassic of Krasiejów, SW Poland
parallel-fibered bone; A5, osteocyte lacunae with well-preserved canaliculi; B3, osteocyte lacunae lacking canaliculi; B4, B5, growth pattern with preserved residuals of the thick annuli and zones (zo I–III) and thin annuli and zones (zo IV–VII); A6, growth pattern with preserved thin annuli and thick zones (zo I–IV), the dotted line marks the border between the perimedullary region and the cortex. Arrows in A5 and B3 indicate osteocyte lacunae; in B4, B5, and A6 indicate the annuli. Growth pattern in B4 figured on the lateral section side, in B5 and A5 on the ventral side; note the cortex thickness variation between B4 and B5. A1, A3, A4, A6, B1, B4, B5 in polarized light and A2, A5, B2, B3 in normal transmitted light. Abbreviations: an, annulus; ec, erosion cavity; pmr, perimedullary region; pos, primary osteon; sos, secondary osteon; zo, zone.
Fig. 2 in Fig. 8 in Androgenic Modulation in the Primary Ovarian Growth of the Japanese eel, .
Fig. 2. Mean (± 95% confidence intervals) defence score of male (M) and female (F) Red-backed Shrikes in relation to interspecific territory overlapping. (BW –) – pairs breeding in areas beyond the breeding territories of the associated species (Barred Warbler); (BW +) – pairs breeding within the boundaries of associate species.
Fig. 1 in Fig. 8 in Androgenic Modulation in the Primary Ovarian Growth of the Japanese eel, .
Fig. 1. Mean (± 95% confidence intervals) defence score of male (M) and female (F) Barred Warblers in relation to interspecific territory overlapping. (RBS –) – pairs breeding in areas beyond the breeding territories of the associated species (Red–backed Shrike); (RBS +) – pairs breeding within the boundaries of the associated species.
Fig. 7 in Androgenic Modulation in the Primary Ovarian Growth of the Japanese eel, .
Fig. 7. in vitro detection of arα and arβ expression during ovarian tissue culture within 24 hours. The serial time course of mRNA expression was screened within 24 hours. mRNA expression patterns of (A) arα and (B) arβ within 24 hours in L-15 medium tissue culture without treatment. Quantitative mRNA expression data are presented as the mean ± SD, and statistically significant differences were determined by one-way ANOVA and LSD post hoc tests (p <0.05).
Fig. 6 in Androgenic Modulation in the Primary Ovarian Growth of the Japanese eel, .
Fig. 6. in vivo mRNA expression of fshr following AR's agonist and antagonist treatments. Ovarian tissue was collected from female eels. (A) Controls, n = 4; SPH, n = 4; SPH + FLUT, n = 4. (B) Controls, n = 4; MT, n = 7; MT + FLUT, n = 4. The mRNA expression data from female eels' ovaries are presented as the mean ± SD, and statistically significant differences were determined via one-way ANOVA and LSD post hoc tests (p <0.05).
Fig. 3 in Androgenic Modulation in the Primary Ovarian Growth of the Japanese eel, .
Fig. 3. The ovarian composition of female eel undergoing hormonal induction in three stages: IA, IB, and IC (the grey tint from light to dark). Stage was categorized as the characteristics for follicle stage calculation. GSI was measured and is shown in each individual. The ovary composition is shown in each percentage bar. The stage composition is shown among female eels in (A) the control group, (B) weekly SPH injection for three weeks and (C) weekly SPH + MT injection for three weeks.
Fig. 1 in Androgenic Modulation in the Primary Ovarian Growth of the Japanese eel, .
Fig. 1. Histological comparison of ovarian development among the control and three weekly SPH- and SPH + MT- injected groups. Histological analyses are shown in controls (A, GSI = 0.42%; B, GSI = 0.46%; C, GSI = 0.5%; D, GSI = 0.75%), weekly SPH injection for three weeks (E, GSI = 0.63%; F, GSI = 1.02%; G, GSI = 1.07%) and weekly SPH + MT for three weeks (H, GSI = 0.93%; I, GSI = 1.34%; J, GSI = 1.38%; K, GSI = 1.41%). Stage IA follicles are labeled as A; Stage IB follicles are labeled as B; Stage IC follicles are labeled as C. Ovarian tissue was sampled 72 hours after the third injection. Sections underwent HE staining. 10-fold magnified LM images were obtained by digital camera photography. Scale bar = 100 μm.
Fig. 8 in Androgenic Modulation in the Primary Ovarian Growth of the Japanese eel, .
Fig. 8. in vitro detection of arα and arβ expression during ovarian tissue culture with and without hormone treatment. mRNA expression was detected after FSH, MT, or FSH + MT treatments. ara expression is shown after (A) 1 and (B) 12 hours of hormonal treatments; arβ expression is shown after (C) 1 and (D) 12 hours of hormonal treatments. Relative mRNA expression data are presented as mean ± SD, and statistically significant differences were determined by one-way ANOVA and LSD post hoc tests (p <0.05).
Fig. 5 in Androgenic Modulation in the Primary Ovarian Growth of the Japanese eel, .
Fig. 5. Correlations between gene (arα, arβ, and fshr) expression and GSI. Correlations between gene expression and GSI are displayed. (A, B, and C) are correlations between fshr expression and GSI. (D, E and F) are correlations between arα expression and GSI. (G, H, and I) are correlations between arβ expression and GSI. The three groups displayed are the control (A, D, and G; n = 6), weekly SPH injection for three weeks (B, E and H; n = 9) and weekly SPH+MT injection for three weeks (C, F and I; n = 6). The correlation between mRNA expression and previtellogenic ovary growth condition was analyzed using Spearman's rho correlations. GSI is plotted against the mRNA expression level. p <0.05 indicates significant correlation, and r-value represents the positive or negative correlation coefficient.
Fig. 2 in Androgenic Modulation in the Primary Ovarian Growth of the Japanese eel, .
Fig. 2. Calculation of follicle stage among female eels undergoing hormonal induction of ovary development. (A) Ovarian development was demonstrated by GSI, and GSI percentage was calculated as mean ± SD (control, n = 4; SPH, n = 3 and SPH + MT, n = 4). Stage IA, IB, and IC follicles were categorized as the characteristics for follicle stage calculation among female eels in the control, weekly SPH-injected, and weekly SPH + MT-injected groups. Each stage calculation is displayed in (B) stage IA follicles, (C) stage IB follicles, and (D) stage IC follicles. Significant differences are compared using one-way ANOVA and LSD post hoc tests; p <0.05.
Fig. 4 in Androgenic Modulation in the Primary Ovarian Growth of the Japanese eel, .
Fig. 4. in vivo mRNA expression of arα, arβ, and fshr after weekly hormone injection for three weeks. Relative mRNA expression of (A) arα, (B) arβ, and (C) fshr among the control (n = 6), SPH (n = 9) and SPH + MT (n = 6) groups. The mRNA of 18S rRNA was used as the internal standard for relative mRNA normalized quantification. The mRNA expression data from female eels' ovaries were collected and calculated as mean ± SD. Statistically significant differences are identified by one-way ANOVA and LSD post hoc tests. p <0.05 is considered significant.
SBC LTER: Reef: Net primary production, growth and standing crop of Macrocystis pyrifera in Southern California
This data package has been deprecated because the models/methods have been changed. Please see the new data package using updated models: Updated Kelp NPP packages. These data are a time series of net primary production (NPP), growth and standing crop for the giant kelp, Macrocystis pyrifera, that is appropriate for examining seasonal and inter-annual patterns across multiple sites. The standing crop and loss rates of M. pyrifera are measured monthly in permanent plots at three sites in the Santa Barbara Channel, USA. Collection of these data began in May 2002 and is ongoing. Seasonal estimates of NPP and growth rate are made by combining the field data with a model of kelp dynamics. The dataset includes plant density in each plot and censuses of fronds on tagged plants at each site. NPP, mass specific growth rate and standing crop are presented in four metrics (wet mass, dry mass, carbon mass and nitrogen mass) to facilitate comparisons with previous studies of M. pyrifera and with NPP measured in other ecosystems. A subset of these data covering the time period 2002-05-01 to 2007-12-31 were contributed to Ecological Archives as Data Paper E089-119-D1 in 2008 (citation: Andrew Rassweiler, Katie K. Arkema, Daniel C. Reed, Richard C. Zimmerman, and Mark A. Brzezinski. 2008. Net primary production, growth, and standing crop of Macrocystis pyrifera in southern California. Ecology 89:2068).
Linking variation in planktonic primary production to coral reef fish growth and condition
<p class="MsoNormal"><span>Within low nutrient tropical oceans, islands and atolls with higher primary production support higher reef fish biomass and reef organism abundance. External energy subsidies can be delivered onto reefs via a range of physical mechanisms. However, the influence of spatial variation in primary production on reef fish growth and condition is largely unknown. It is not yet clear how variability in food delivery onto a reef interacts with reef depth and slope, and affects reef fish productivity. </span><span>Here we test the hypothesis that with increased proximity to deep-water oceanic allochthonous nutrient sources, or at sites where transportation of these water bodies onto reefs is facilitated by shallower reef slopes, parameters of fish growth and condition will be higher, and this pattern will be further emphasised in areas naturally higher in primary production. Contrary to expectations, we found no association between fish growth rate and sites with higher mean chlorophyll values. There were no differences in </span><span>δ</span><sup><span>15</span></sup><span>N or</span><span> δ</span><sup><span>13</span></sup><span>C values in fish collected at greater depths across reefs, suggesting a homogeneous primary production resource. However, the relationship between fish condition and primary production was influenced by depth of collection, driven by higher fish condition at shallow depths within a study site which is a 'hotspot' of primary production. Carbon </span><span>δ</span><sup><span>13</span></sup><span>C values were depleted at sites with increasing primary production, and this trend was reversed by an interactive effect with shallower reef slopes. </span><span>Our results indicate that deep-water ocean nutrient influences did not </span><span>translate into observable increases in overall population growth in </span><span>planktivorous </span><em><span>Chromis fieldi </span></em><span>with</span><span>in the </span><span>10–17.5 m</span><span> </span><span>depth range, but show the importance of site specific variation in hydrodynamics and reef physical characteristics influencing fish carbon isotopic composition and condition. </span></p>
New protein production in primary pulmonary artery endothelial cells treated with insulin-like growth factor 1 treatment
<p>Maximum projections of flat-fielded and deconvolved epi-fluorescence imaging data for primary sheep pulmonary artery endothelial cells (PAEC) treated with vehicle or insulin-like growth factor 1 (IGF1) media.</p> <p>Two cell types: normal PAEC and persistent pulmonary hypertension of the newborn (PPHN) PAEC</p> <p>Three time points: 0 minutes, 1 hour, and 24 hours post-treatment</p> <p>Two fluorescence channels:<br> C0 - DAPI for nuclei (R37606, Life Technologies)<br> C1 - Click-IT new protein translation kit (C10428, C10429, Life Technologies)</p>
Data: Large old trees increase growth under shifting climatic constraints: Aligning tree longevity and individual growth dynamics in primary mountain spruce forests
<p>In a world of accelerating changes in environmental conditions driving tree growth, tradeoffs between tree growth rate and longevity could curtail the abundance of large, old trees (LOTs), with potentially dire consequences for biodiversity and carbon storage. However, the influence of tree-level tradeoffs on forest structure at landscape scales will also depend on disturbances, which shape tree size and age distribution, and on whether LOTs can benefit from improved growing conditions due to climate warming.</p> <p>We analyzed temporal and spatial variation in radial growth patterns from ~5000 Norway spruce (<em>Picea abies </em>(L.) H. Karst) live and dead trees from the Western Carpathian primary spruce forest stands. We applied mixed-linear modeling to quantify the importance of LOT growth histories and stand dynamics (i.e. competition and disturbance factors) on lifespan. Finally, we assessed regional synchronization in radial growth variability over the 20<sup>th</sup> century, and modelled the effects of stand dynamics and climate on LOTs recent growth trends.</p> <p>Tree age varied considerably among forest stands, implying an important role of disturbance as an age constraint. Slow juvenile growth and longer period of suppressed growth prolonged tree lifespan, while increasing disturbance severity and shorter time since last disturbance decreased it. The highest age was not achieved only by trees with continuous slow growth, but those with slow juvenile growth followed by subsequent growth releases. Growth trend analysis demonstrated an increase in absolute growth rates in response to climate warming, with late summer temperatures driving the recent growth trend. Contrary to our expectation that LOTs would eventually exhibit declining growth rates, the oldest LOTs (>400 years) continuously increase growth throughout their lives, indicating a high phenotypic plasticity of LOTs for increasing biomass, and a strong carbon sink role of primary spruce forests under rising temperatures, intensifying droughts, and increasing bark beetle outbreaks.</p>
Data from: Glutaredoxin regulation of primary root growth confers early drought stress tolerance in pearl millet
<p><span>Seedling root traits impact plant establishment under challenging environments. Pearl millet is one of the most heat- and drought-tolerant cereal crops that provides a vital food source across the sub-Saharan Sahel region. Pearl millet's early root system features a single fast-growing primary root which we hypothesize is an adaptation to the Sahelian climate. Using crop modelling, we demonstrate that early drought stress is an important constraint in agrosystems in the Sahel where pearl millet was domesticated. Furthermore, we show that increased pearl millet primary root growth is correlated with increased early water stress tolerance in field conditions. Genetics including GWAS and QTL approaches identify genomic regions controlling this key root trait. Combining gene expression data, re-sequencing and re-annotation of one of these genomic regions identified a glutaredoxin-encoding gene <em>PgGRXC9</em> as the candidate stress resilience root growth regulator. Functional characterization of its closest <em>Arabidopsis</em> homolog <em>AtROXY19</em> revealed a novel role for this glutaredoxin (GRX) gene clade in regulating cell elongation. In summary, our study suggests a conserved function for GRX genes in conferring root cell elongation and enhancing resilience of pearl millet to its Sahelian environment. </span></p>
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.