cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.4769635
title: A long-term copper exposure on freshwater ecosystem using lotic mesocosms - Invertebrate community responses

description: Taxonomic and chemical time-series datasets and supplemental descriptive information for the journal article with the same title, published in <i>Environmental Toxicology and Chemistr</i>y. The abstract of the companion article follows: A lotic mesocosm study was carried out in 20 m long channels, under continuous, environmentally realistic concentrations of copper (Cu) in low, medium, and high exposure treatments (nominally 0, 5, 25 and 75 µg L<sup>-1</sup>; average measured concentrations &lt;0.5, 4, 20, and 57 µg L <sup>-1 </sup>respectively) for 18 months. Total abundance, taxa richness and community structure of zooplankton, macroinvertebrates and emerging insects were severely affected at Cu treatment levels of 25 and 75 µg L<sup>-1</sup>. Some taxa seemed to be sensitive to Cu, i.e. gastropods such as <i>Lymnaea </i>spp. and <i>Physa </i>sp., crustaceans such as <i>Chydorus sphaericus</i><i>,</i> <i>Gammarus pulex</i> and <i>Asellus aquaticus</i>, rotifers such as <i>Mytilina</i><i> </i>sp. and <i>Trichocerca</i><i> </i>sp. leeches such as <i>Erpobdella </i>sp.<i> </i>and the emergence of dipteran insects such as chironomini<i>. </i>Other taxa appeared to be tolerant or favoured by indirect effects, i.e. chironimidae larvae, the emergence of orthocladiinae and zooplanktoner <i>Vorticella</i> sp. which increased in the 25 and 75 µg L<sup>-1</sup> treatments. After about 8 months of Cu exposure, the macroinvertebrate community in the high treatment was decimated to the point that few organisms could be detected, with only moderate effects in the medium treatment, and very slight effects among the macroinvertebrate community in the low Cu treatment. Subsequently, most taxa in the high Cu exposure began a gradual and partial recovery. By the end of the study at 18 months, macroinvertebrate taxa richness was similar to control richness, although overall abundances remained lower than controls. After 18 months of copper exposure, a No Observed Effect Concentration at the community level (NOEC<sub>community</sub>) for consumers was set at 5 (4) µg L<sup>-1</sup>, with a Lowest Observed Effect Concentration (LOEC<sub>community</sub>) at 25 (20) µg L<sup>-1</sup>. <br><br>The data repository set consists of 4 files with supporting information for the article:<br>SI-1. This file consists of photographs of key features of the experimental stream design and tables detailing the sampling designs.<br>SI-2. Dissolved copper (Cu), pH, and dissolved organic carbon (DOC) time-series values <br>SI-3. Time-series data of zooplankton, benthic macroinvertebrate, and emerging insect taxonomic counts<br><br>SI-4. Supplemental Descriptions of Aquatic Chemistry Methods and Results (in French)
DOI: 10.6084/m9.figshare.4769605
title: Table S3 from Characterization of RBP9 and RBP10, two developmentally regulated RNA-binding proteins in <i>Trypanosoma brucei</i>

description: mRNAs with ≥ 2 fold change vs t0 after RBP10 transgene induction ( 5h and 10h pi).
DOI: 10.6084/m9.figshare.4769605.v1
title: Table S3 from Characterization of RBP9 and RBP10, two developmentally regulated RNA-binding proteins in <i>Trypanosoma brucei</i>

description: mRNAs with ≥ 2 fold change vs t0 after RBP10 transgene induction ( 5h and 10h pi).
DOI: 10.6084/m9.figshare.4769608
title: Table S10 from Characterization of RBP9 and RBP10, two developmentally regulated RNA-binding proteins in <i>Trypanosoma brucei</i>

description: Protein enrichements of RBPs present only in RBP9 or RBP10 BioID experiments and proteins biotinylated in both BioID datasets.
DOI: 10.6084/m9.figshare.4769599
title: Table S12 from Characterization of RBP9 and RBP10, two developmentally regulated RNA-binding proteins in <i>Trypanosoma brucei</i>

description: RBP10 BioID anlysisis of &gt;10FC Enriched proteins : 10 Fold Enriched proteins in BirA-RBP0 BioID samples. Blue: Developmentally downregulated regulated proteins, Orange: Developementally Upregulated proteins.
DOI: 10.6084/m9.figshare.4769602
title: Table S1 from Characterization of RBP9 and RBP10, two developmentally regulated RNA-binding proteins in <i>Trypanosoma brucei</i>

description: RNA-seq data for cells after RBP9 or RBP10 transgene induction.
DOI: 10.6084/m9.figshare.4769608.v1
title: Table S10 from Characterization of RBP9 and RBP10, two developmentally regulated RNA-binding proteins in <i>Trypanosoma brucei</i>

description: Protein enrichements of RBPs present only in RBP9 or RBP10 BioID experiments and proteins biotinylated in both BioID datasets.
DOI: 10.6084/m9.figshare.4769599.v1
title: Table S12 from Characterization of RBP9 and RBP10, two developmentally regulated RNA-binding proteins in <i>Trypanosoma brucei</i>

description: RBP10 BioID anlysisis of &gt;10FC Enriched proteins : 10 Fold Enriched proteins in BirA-RBP0 BioID samples. Blue: Developmentally downregulated regulated proteins, Orange: Developementally Upregulated proteins.
DOI: 10.6084/m9.figshare.4769602.v1
title: Table S1 from Characterization of RBP9 and RBP10, two developmentally regulated RNA-binding proteins in <i>Trypanosoma brucei</i>

description: RNA-seq data for cells after RBP9 or RBP10 transgene induction.
DOI: 10.6084/m9.figshare.4769791.v4
title: numpy-stl

description: Simple library to make working with STL files (and 3D objects in general) fast and easy.
DOI: 10.6084/m9.figshare.4769593
title: Table S6 from Characterization of RBP9 and RBP10, two developmentally regulated RNA-binding proteins in <i>Trypanosoma brucei</i>

description: RBP9 and RBP10 BioID Fold Enrichments
DOI: 10.6084/m9.figshare.4769596
title: Table S11 from Characterization of RBP9 and RBP10, two developmentally regulated RNA-binding proteins in <i>Trypanosoma brucei</i>

description: RBP9 BioID anlysisis of &gt;10FC Enriched proteins : 10 Fold Enriched proteins in BirA-RBP0 BioID samples. Blue: Developmentally downregulated regulated proteins, Orange: Developementally Upregulated proteins.
DOI: 10.6084/m9.figshare.4769587
title: Table S9 from Characterization of RBP9 and RBP10, two developmentally regulated RNA-binding proteins in <i>Trypanosoma brucei</i>

description: Protein enrichements of proteins present only in RBP9 or RBP10 BioID experiments and proteins biotinylated in both BioID datasets.
DOI: 10.6084/m9.figshare.4769590
title: Table S5 from Characterization of RBP9 and RBP10, two developmentally regulated RNA-binding proteins in <i>Trypanosoma brucei</i>

description: SINQ analysis of RBP9 and RBP10 BioID.
DOI: 10.6084/m9.figshare.4769587.v1
title: Table S9 from Characterization of RBP9 and RBP10, two developmentally regulated RNA-binding proteins in <i>Trypanosoma brucei</i>

description: Protein enrichements of proteins present only in RBP9 or RBP10 BioID experiments and proteins biotinylated in both BioID datasets.
DOI: 10.6084/m9.figshare.4769593.v1
title: Table S6 from Characterization of RBP9 and RBP10, two developmentally regulated RNA-binding proteins in <i>Trypanosoma brucei</i>

description: RBP9 and RBP10 BioID Fold Enrichments
DOI: 10.6084/m9.figshare.4769596.v1
title: Table S11 from Characterization of RBP9 and RBP10, two developmentally regulated RNA-binding proteins in <i>Trypanosoma brucei</i>

description: RBP9 BioID anlysisis of &gt;10FC Enriched proteins : 10 Fold Enriched proteins in BirA-RBP0 BioID samples. Blue: Developmentally downregulated regulated proteins, Orange: Developementally Upregulated proteins.
DOI: 10.6084/m9.figshare.4769791.v5
title: numpy-stl

description: Simple library to make working with STL files (and 3D objects in general) fast and easy.
DOI: 10.6084/m9.figshare.4769584
title: Table S8 from Characterization of RBP9 and RBP10, two developmentally regulated RNA-binding proteins in <i>Trypanosoma brucei</i>

description: RBP10 BioID and its mRNA associated values for proteins biotinylated in both replicates.
DOI: 10.6084/m9.figshare.4769590.v1
title: Table S5 from Characterization of RBP9 and RBP10, two developmentally regulated RNA-binding proteins in <i>Trypanosoma brucei</i>

description: SINQ analysis of RBP9 and RBP10 BioID.
DOI: 10.6084/m9.figshare.4769584.v1
title: Table S8 from Characterization of RBP9 and RBP10, two developmentally regulated RNA-binding proteins in <i>Trypanosoma brucei</i>

description: RBP10 BioID and its mRNA associated values for proteins biotinylated in both replicates.
DOI: 10.6084/m9.figshare.4769575
title: Supplementary table 3 from Learning from single extreme events

description: List of studies used in meta-analysis of the effect of heat waves on mortality (box 3).
DOI: 10.6084/m9.figshare.4769791.v6
title: numpy-stl

description: Simple library to make working with STL files (and 3D objects in general) fast and easy.
DOI: 10.6084/m9.figshare.4769578
title: Table S4 from Characterization of RBP9 and RBP10, two developmentally regulated RNA-binding proteins in <i>Trypanosoma brucei</i>

description: FAST regulated mRNAs ( ≥ 2 fold change at t1) and SLOW regulated (mRNAs with a ≥ 2 fold change only at t2) and mRNA copy numbers per cell.
DOI: 10.6084/m9.figshare.4769569
title: Supplementary table 1 from Learning from single extreme events

description: List of studies used in Appendix 1. Extreme event studies identified by a search of the literature.
DOI: 10.6084/m9.figshare.4769575.v2
title: Supplementary table 3 from Learning from single extreme events

description: List of studies used in meta-analysis of the effect of heat waves on mortality (box 3).
DOI: 10.6084/m9.figshare.4769578.v1
title: Table S4 from Characterization of RBP9 and RBP10, two developmentally regulated RNA-binding proteins in <i>Trypanosoma brucei</i>

description: FAST regulated mRNAs ( ≥ 2 fold change at t1) and SLOW regulated (mRNAs with a ≥ 2 fold change only at t2) and mRNA copy numbers per cell.
DOI: 10.6084/m9.figshare.4769791.v7
title: numpy-stl

description: Simple library to make working with STL files (and 3D objects in general) fast and easy.
DOI: 10.6084/m9.figshare.4769563
title: Table S7 from Characterization of RBP9 and RBP10, two developmentally regulated RNA-binding proteins in <i>Trypanosoma brucei</i>

description: RBP9 BioID and its mRNA associated values for proteins biotinylated in both replicates.
DOI: 10.6084/m9.figshare.4769569.v1
title: Supplementary table 1 from Learning from single extreme events

description: List of studies used in Appendix 1. Extreme event studies identified by a search of the literature.
DOI: 10.6084/m9.figshare.4769575.v1
title: Supplementary table 3 from Learning from single extreme events

description: List of studies used in meta-analysis of the effect of heat waves on mortality (box 3).
DOI: 10.6084/m9.figshare.4769563.v1
title: Table S7 from Characterization of RBP9 and RBP10, two developmentally regulated RNA-binding proteins in <i>Trypanosoma brucei</i>

description: RBP9 BioID and its mRNA associated values for proteins biotinylated in both replicates.
DOI: 10.6084/m9.figshare.4769551
title: Table S2 from Characterization of RBP9 and RBP10, two developmentally regulated RNA-binding proteins in <i>Trypanosoma brucei</i>

description: mRNAs with ≥ 2 fold change vs t0 after RBP9 transgene induction ( 12h and 24h pi).
DOI: 10.6084/m9.figshare.4769560
title: Supplementary table 2 from Learning from single extreme events

description: List of studies used in meta-analysis of the 2003 European heat wave (box 3).
DOI: 10.6084/m9.figshare.4769791.v8
title: numpy-stl

description: Simple library to make working with STL files (and 3D objects in general) fast and easy.
DOI: 10.6084/m9.figshare.4769551.v1
title: Table S2 from Characterization of RBP9 and RBP10, two developmentally regulated RNA-binding proteins in <i>Trypanosoma brucei</i>

description: mRNAs with ≥ 2 fold change vs t0 after RBP9 transgene induction ( 12h and 24h pi).
DOI: 10.6084/m9.figshare.4769560.v2
title: Supplementary table 2 from Learning from single extreme events

description: List of studies used in meta-analysis of the 2003 European heat wave (box 3).
DOI: 10.6084/m9.figshare.4769560.v1
title: Supplementary table 2 from Learning from single extreme events

description: List of studies used in meta-analysis of the 2003 European heat wave (box 3).
DOI: 10.6084/m9.figshare.4769539
title: Spreadsheet of Analyzed Data from Sampling and tracking a changing environment: persistence and reward in the foraging decisions of bumblebees

description: Bee choice data
DOI: 10.6084/m9.figshare.4769542
title: Electronic supplemental data from Quantification of efficacy of collagen cross-linking agents to induce stiffening of rat sclera

description: Data for all samples. See file header for explanation.
DOI: 10.6084/m9.figshare.4769791.v9
title: numpy-stl

description: Simple library to make working with STL files (and 3D objects in general) fast and easy.
DOI: 10.6084/m9.figshare.4769542.v1
title: Electronic supplemental data from Quantification of efficacy of collagen cross-linking agents to induce stiffening of rat sclera

description: Data for all samples. See file header for explanation.
DOI: 10.6084/m9.figshare.4769791.v10
title: numpy-stl

description: Simple library to make working with STL files (and 3D objects in general) fast and easy.
DOI: 10.6084/m9.figshare.4769791.v11
title: numpy-stl

description: Simple library to make working with STL files (and 3D objects in general) fast and easy.
DOI: 10.6084/m9.figshare.4769491
title: NeXtProt evidence list from Release 2017-01-23

description: Downloaded identifiers with existence classification
DOI: 10.6084/m9.figshare.4769482
title: sim_networks.zip

description: 10000 simulated networks, obtained by selecting at random a generating function between three different well-known models (Erdos Renyi, Barabasi-Albert, and Watts-Strogatz). In ER networks we set the number of nodes (V) to a random integer in [50, 500] and the number of edges to a random integer in [V, 1000]. In BA networks, we set the number of nodes to a random integer in [500, 1000], and the number of outgoing edges generated for each node to (V x r x 0.01 + 1), with V being the number of nodes, and r being a random real number in [0,1]. In WS networks, we set the dimension of the lattice to 1, the size of the lattice along all dimensions to a random integer in [50, 250], the distance within two nodes are connected to a random integer in [2,10], and the rewiring probability to a random real number in [0,1]. In addition, we generated networks with a degree distribution following a power law with exponent varying between 2 and 3 using the configuration model.<br>
DOI: 10.6084/m9.figshare.4769485
title: Human Protein Atlas download set

description: HPA downloaded identifier mappings for release 16.1, March 2017
DOI: 10.6084/m9.figshare.4769491.v1
title: NeXtProt evidence list from Release 2017-01-23

description: Downloaded identifiers with existence classification
DOI: 10.6084/m9.figshare.4769494.v1
title: Data Citation 1: The qRT-PCR data for expression of GRs, MR and RPL7 in tissues of MR-KO and WT adult (200 days post-fertilization) medaka

description: Data for mRNA levels of GRs, MR and rpl7 are shown as means of triplicate (arbitrary units). The GR mRNA levels are normalized using rpl7 mRNA levels and shown in Figure 1
DOI: 10.6084/m9.figshare.4769482.v1
title: sim_networks.zip

description: 10000 simulated networks, obtained by selecting at random a generating function between three different well-known models (Erdos Renyi, Barabasi-Albert, and Watts-Strogatz). In ER networks we set the number of nodes (V) to a random integer in [50, 500] and the number of edges to a random integer in [V, 1000]. In BA networks, we set the number of nodes to a random integer in [500, 1000], and the number of outgoing edges generated for each node to (V x r x 0.01 + 1), with V being the number of nodes, and r being a random real number in [0,1]. In WS networks, we set the dimension of the lattice to 1, the size of the lattice along all dimensions to a random integer in [50, 250], the distance within two nodes are connected to a random integer in [2,10], and the rewiring probability to a random real number in [0,1]. In addition, we generated networks with a degree distribution following a power law with exponent varying between 2 and 3 using the configuration model.<br>
DOI: 10.6084/m9.figshare.4769485.v1
title: Human Protein Atlas download set

description: HPA downloaded identifier mappings for release 16.1, March 2017
DOI: 10.6084/m9.figshare.4769449
title: Supplementary data to the paper "Freshwater biofilters (Anodonta anatina) reduce transmission of the common fish trematode (Diplostomum pseudospathaceum)" by Gopko M*., Mironova E.*, Pasternak A., Mikheev V., Taskinen J.

description: <b>Supplementary table 1</b>. Changes in cercariae abundance in <i>Anodonta</i> and control treatment after the 2 h incubation. The parameters of mussels ‘feeding’ were calculated according to Frost (1972) and Conover (1978).<b>Supplementary table 2. </b>Infection intensities in fish (summarised abundance of metacercariae in two eyes), exposed to the different doses of cercariae in the presence/absence of mussels.<br>
DOI: 10.6084/m9.figshare.4769449.v1
title: Supplementary data to the paper "Freshwater biofilters (Anodonta anatina) reduce transmission of the common fish trematode (Diplostomum pseudospathaceum)" by Gopko M*., Mironova E.*, Pasternak A., Mikheev V., Taskinen J.

description: <b>Supplementary table 1</b>. Changes in cercariae abundance in <i>Anodonta</i> and control treatment after the 2 h incubation. The parameters of mussels ‘feeding’ were calculated according to Frost (1972) and Conover (1978).<b>Supplementary table 2. </b>Infection intensities in fish (summarised abundance of metacercariae in two eyes), exposed to the different doses of cercariae in the presence/absence of mussels.<br>
DOI: 10.6084/m9.figshare.4769437
title: Electronic Supplementary Information Table 1. from A new crustacean from the Herefordshire (Silurian) Lagerstätte, UK, and its significance in malacostracan evolution

description: Phylogenetic dataset of [4] as modified and used in [12].
DOI: 10.6084/m9.figshare.4769437.v1
title: Electronic Supplementary Information Table 1. from A new crustacean from the Herefordshire (Silurian) Lagerstätte, UK, and its significance in malacostracan evolution

description: Phylogenetic dataset of [4] as modified and used in [12].
DOI: 10.6084/m9.figshare.4769398
title: A neurologic dysfunction scoring protocol for jaundiced neonates requiring exchange transfusion

description: <b>Aim:</b> To evaluate the performance of a neurologic assessment protocol among jaundiced infants requiring exchange transfusion (ET). <b>Methods:</b> We identified infants in a referral children’s hospital who received ET and those who met the American Academy of Pediatrics (AAP) criteria for ET based on total serum bilirubin (TSB) levels. The performance of a bilirubin-induced neurologic dysfunction (BIND-M) scoring protocol for acute bilirubin encephalopathy (ABE) in detecting infants treated with ET in both groups was investigated by logistic regression analysis and <i>c</i>-statistic. <b>Results:</b> A total of 438 late-preterm and term infants were enrolled, out of which 141 (32.2%) received ET, and 155 (35.4%) met AAP criteria for ET. Infants with BIND-M scores of 3–6 (intermediate ABE) or 7–12 (advanced ABE) were significantly associated with ET in both groups, but not scores of 1–2 (mild ABE), with or without adjustment for confounding neurotoxicity risk factors. However, the discriminatory ability of BIND-M regression models was modestly satisfactory (<i>c</i>-statistic range: 0.693–0.791). <b>Conclusions:</b> Our findings suggest that BIND-M is a potentially useful decision-making tool for ET and support current recommendation for immediate ET for infants with intermediate-to-advanced stages of ABE regardless of the TSB levels.
DOI: 10.6084/m9.figshare.4769398.v2
title: A neurologic dysfunction scoring protocol for jaundiced neonates requiring exchange transfusion

description: <b>Aim:</b> To evaluate the performance of a neurologic assessment protocol among jaundiced infants requiring exchange transfusion (ET). <b>Methods:</b> We identified infants in a referral children’s hospital who received ET and those who met the American Academy of Pediatrics (AAP) criteria for ET based on total serum bilirubin (TSB) levels. The performance of a bilirubin-induced neurologic dysfunction (BIND-M) scoring protocol for acute bilirubin encephalopathy (ABE) in detecting infants treated with ET in both groups was investigated by logistic regression analysis and <i>c</i>-statistic. <b>Results:</b> A total of 438 late-preterm and term infants were enrolled, out of which 141 (32.2%) received ET, and 155 (35.4%) met AAP criteria for ET. Infants with BIND-M scores of 3–6 (intermediate ABE) or 7–12 (advanced ABE) were significantly associated with ET in both groups, but not scores of 1–2 (mild ABE), with or without adjustment for confounding neurotoxicity risk factors. However, the discriminatory ability of BIND-M regression models was modestly satisfactory (<i>c</i>-statistic range: 0.693–0.791). <b>Conclusions:</b> Our findings suggest that BIND-M is a potentially useful decision-making tool for ET and support current recommendation for immediate ET for infants with intermediate-to-advanced stages of ABE regardless of the TSB levels.
DOI: 10.6084/m9.figshare.4769371
title: Fresh cheese as a vehicle for polyunsaturated fatty acids integration: effect on physico-chemical, microbiological and sensory characteristics

description: Five different vegetable oils were used in the production of fresh cheese to increase the concentration of polyunsaturated fatty acids (PUFAs), particularly α-linolenic acid (ALA), the most important omega-3 fatty acid of vegetable origin. Physico-chemical and microbiological characteristics of functionalized cheeses were evaluated after 1 and 3 days of ripening at 4 °C while the consumer appreciation was evaluated in the final product at 3 days of ripening. After 3 days, the cheeses with <i>Camelina sativa</i> and <i>Echium plantagineum</i> oils added exhibited the highest retention of PUFAs (mostly ALA) compared to those with flaxseed, raspberry and blackcurrant oils. The addition of oil showed little effects on physico-chemical characteristics and also consumers’ evaluation highlighted that all of the fresh cheeses were considered acceptable although those with flaxseed and raspberry oils were the most appreciated.
DOI: 10.6084/m9.figshare.4769371.v1
title: Fresh cheese as a vehicle for polyunsaturated fatty acids integration: effect on physico-chemical, microbiological and sensory characteristics

description: Five different vegetable oils were used in the production of fresh cheese to increase the concentration of polyunsaturated fatty acids (PUFAs), particularly α-linolenic acid (ALA), the most important omega-3 fatty acid of vegetable origin. Physico-chemical and microbiological characteristics of functionalized cheeses were evaluated after 1 and 3 days of ripening at 4 °C while the consumer appreciation was evaluated in the final product at 3 days of ripening. After 3 days, the cheeses with <i>Camelina sativa</i> and <i>Echium plantagineum</i> oils added exhibited the highest retention of PUFAs (mostly ALA) compared to those with flaxseed, raspberry and blackcurrant oils. The addition of oil showed little effects on physico-chemical characteristics and also consumers’ evaluation highlighted that all of the fresh cheeses were considered acceptable although those with flaxseed and raspberry oils were the most appreciated.
DOI: 10.5281/zenodo.4011701
title: Data to: Aerosol emission is increased in professional singing

description: This dataset contains raw data of emitted aerosols measured via a laser particle counter. Further, R-code for statistical analyses is available. The pre-print of an article based on these data was deposited here: https://depositonce.tu-berlin.de/handle/11303/11491