cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.19653123.v1
title: Supplementary Figures S1-S8 and Supplementary Tables S1-S7_Goldfarb et al_Endocrinology (2022)_Interplay between sex-biased GH-regulated mouse liver transcriptome

description: Supplementary Figures S1-S8 and Supplementary Tables S1-S7, from a study entitled: <br> Interplay between sex-biased GH-regulated mouse liver transcriptome and hepatic zonation revealed by single nucleus RNAseq <br> [Goldfarb et al, Endocrinology (2022)] <br> Abstract: The zonation of liver metabolic processes is well-characterized; however, little is known about the cell type-specificity and zonation of sexually dimorphic gene expression or its GH-dependent transcriptional regulators. We address these issues using single nucleus RNA-sequencing of 32,000 nuclei representing nine major liver cell types. Nuclei were extracted from livers from adult male and female mice, from males infused with GH continuously, mimicking the female plasma GH pattern, and from mice exposed to TCPOBOP, a xenobiotic agonist ligand of the nuclear receptor CAR that perturbs sex-biased gene expression. Analysis of these rich transcriptomic datasets revealed: 1) expression of sex-biased genes and their GH-dependent transcriptional regulators is primarily restricted to hepatocytes and is not a feature of liver non-parenchymal cells; 2) many sex-biased transcripts show sex-dependent zonation within the liver lobule; 3) gene expression is substantially feminized in both periportal and pericentral hepatocytes when male mice are infused with GH continuously; 4) sequencing nuclei increases the sensitivity for detecting thousands of nuclear-enriched lncRNAs and enables determination of their liver cell type-specificity, sex-bias and hepatocyte zonation profiles; 5) the periportal to pericentral hepatocyte cell ratio is significantly higher in male than female liver; and 6) TCPOBOP exposure disrupts both sex-specific gene expression and hepatocyte zonation within the liver lobule. These findings highlight the complex interconnections between hepatic sexual dimorphism and zonation at the single cell level and reveal how endogenous hormones and foreign chemical exposure can alter these interactions across the liver lobule with large effects on both protein-coding genes and lncRNAs.
DOI: 10.5281/zenodo.6484966
title: Oneat division model for Hela cells

description: Trained models for hela cells for the bright field channel for locating mitosis events. Provided is an example dataset for bright field image and its corresponding model that can be used using the notebook here: https://github.com/Kapoorlabs-CAPED/CAPED-AI-oneat Made by oneat software, pip install oneat for training of such datasets. Original data published by Romain Guiet at https://zenodo.org/record/6139958#.YmAh1NpBxhG
description: Computational support provided by Jean Zay dynamic access grant: AD011013396
DOI: 10.5281/zenodo.6480141
title: Oneat division model for Hela cells

description: Trained models for hela cells for the bright field channel for locating mitosis events. Provided is an example dataset for bright field image and its corresponding model that can be used using the notebook here: https://github.com/Kapoorlabs-CAPED/CAPED-AI-oneat Made by oneat software, pip install oneat for training of such datasets. Original data published by Romain Guiet at https://zenodo.org/record/6139958#.YmAh1NpBxhG
description: Computational support provided by Jean Zay dynamic access grant: AD011013396
DOI: 10.5281/zenodo.6485139
title: Natural history specimens collected and/or identified and deposited.

description: Natural history specimen data collected and/or identified by Stylianos Chatzimanolis, https://orcid.org/0000-0001-9008-0611. Claims were made on Bionomia, https://bionomia.net using specimen data from the Global Biodiversity Information Facility, https://gbif.org.
DOI: 10.25919/3jtr-2y33
title: Parkes observations for project P1150 semester 2022APRS_01

description: To date, the only radio pulsars that have been confirmed outside of our Galaxy lie in the Magellanic Clouds, with the LMC being the richer of the two galaxies in terms of pulsar discoveries. However, no millisecond pulsars (MSPs) have yet been discovered in the LMC or anywhere outside of our Galaxy. Since the majority of MSPs reside in binary systems, the discovery and study of MSPs can help us understand LMC binary pulsar evolution and MSP companion characteristics, as well as the different star formation environment of the LMC. We have discovered a number of weak but promising MSP candidates in a survey of the LMC in a high-resolution multibeam survey. Although these candidates have characteristics that suggest they are real, the detections from the survey data are too weak by themselves to definitively state whether they are real or not. Follow-up confirmations are thus required, and the UWL receiver makes such confirmations feasible. We estimate that with the increased sensitivity of the UWL compared to the multibeam system, we can obtain clear confirmation detections with S/N &gt; 10-12 with one-hour integrations per candidate. We propose to confirm 10 of our MSP candidates from the survey with one-hour observations with the UWL system, which totals 10 hr of time requested (plus overhead time for setup, and slew). If these candidates are confirmed, these would be the first extragalactic radio MSPs ever discovered.
DOI: 10.5066/p91r4oig
title: Mesocarnivore Survey of Lava Beds National Monument, Klamath Network, 2018 (ver. 2.0, April 2022)

description: Remote camera stations were set up in Lava Beds National Monument and Modoc National Forest from January to May 2018 to document occurrence of mesocarnivores and other wildlife. Thirty-three cameras were set up at 12 primary sampling units (clusters of one to four cameras) throughout the park. Potentially suitable habitat occurred in small patches in Lava Beds National Monument with cameras were placed in groups of one, two or three. To allow for more primary sampling units of four cameras, some cameras were installed in neighboring portions of Modoc National Forest. Cameras located in Modoc National Forest are considered part of the Lava Beds National Monument survey for the purposes of this study. The dataset contains all species observed within the study time-frame, the date and time of observation and the number of individuals detected as well as identification for individual locations, cameras and images. None of the three target species of conservation concern ((Pacific fisher (Pekania pennanti), Pacific marten (Martes caurina), Sierra Nevada red fox (Vulpes vulpes nector)) were seen, though Gray fox (Urocyon cinereoargenteus) were detected.
DOI: 10.5066/p9ymxgwh
title: Mesocarnivore Survey of Lassen Volcanic National Park, Klamath Network, 2017-2018 (ver. 2.0, April 2022)

description: Remote camera stations were set up in Lassen Volcanic National Park from August to October 2017 and June to September 2018 to document occurrence of mesocarnivores and other wildlife. 126 cameras were set up at 32 primary sampling units (clusters of two to four cameras) throughout the park. Random locations for primary sampling units were chosen using a 3-km sampling grid over the park area. The dataset contains all species observed within the study time-frame, the date and time of observation and the number of individuals detected as well as identification for individual locations, cameras and images. Of the three target species of conservation concern (Pacific fisher (Pekania pennanti), Pacific marten (Martes caurina), Sierra Nevada red fox (Vulpes vulpes necator)), Pacific martens and Red foxes were detected.
DOI: 10.6084/m9.figshare.19653555
title: Lightsheet dataset of midgut morphogenesis in w, 48Y-GAL4 / UAS-CAAX mCh; klar embryo

description: Lightsheet dataset of midgut morphogenesis in w, 48Y-GAL4 / UAS-CAAX mCh; klar embryo <br> TIFF of pullback images, each image taken 60 seconds apart <br> spcutMeshSmRS_0000XX.mat files provide the geometry mapping from 3D space in microns to 2D space seen in the TIFF images. For the images, 2D space limits span (x axis) s=[0, max(spcutMeshSmRS.uv(:, 1))] and (y axis) phi=[0,1]. The physical location in space of phi=0 is identical to phi=1, as the gut is mapped as a topological cylinder.
DOI: 10.6084/m9.figshare.19497704.v4
title: Rahnella sp., a dominant symbiont of the core gut bacteriome of Dendroctonus species, has metabolic capacity to degrade xylan by bifunctional xylanase-ferulic acid esterase

description: Table S1Table S2Figure S1Figure S2<br>
DOI: 10.6084/m9.figshare.19497704.v5
title: Rahnella sp., a dominant symbiont of the core gut bacteriome of Dendroctonus species, has metabolic capacity to degrade xylan by bifunctional xylanase-ferulic acid esterase

description: Table S1Table S2Figure S1Figure S2<br>
DOI: 10.6084/m9.figshare.19497704.v6
title: Rahnella sp., a dominant symbiont of the core gut bacteriome of Dendroctonus species, has metabolic capacity to degrade xylan by bifunctional xylanase-ferulic acid esterase

description: Table S1Table S2Figure S1Figure S2<br>
DOI: 10.6084/m9.figshare.19653591
title: Tissue kinematics: in-plane divergence div(v) and out-of-plane deformation 2Hvn

description: MATLAB files containing data used for Fig 3. Each .mat file contains a struct with the following fields: <br> timeSpan_i: [1×N double] timestamps relative to the onset of the middle constriction tidx_i: [1×N double] timestamp indices (1:N) rho: [float] correlation coefficient for out-of-plane deformation and in plane divergence div(v) allX: [Q×1 double] in-plane divergence, div(v), sampled at each timepoint and at 324 different locations on the surface of the gut tissue. allY: [Q×1 double] out of plane deformation, 2*H*vn, sampled at each timepoint and at 324 different locations on the surface of the gut tissue. H is the mean curvature of the tissue surface and vn is the normal velocity. <br> The sampling is taken as a uniform grid in (s,phi) coordinates described in the Methods section of the publication 'Visceral organ morphogenesis via calcium-patterned constrictions'
DOI: 10.6084/m9.figshare.19653591.v1
title: Tissue kinematics: in-plane divergence div(v) and out-of-plane deformation 2Hvn

description: MATLAB files containing data used for Fig 3. Each .mat file contains a struct with the following fields: <br> timeSpan_i: [1×N double] timestamps relative to the onset of the middle constriction tidx_i: [1×N double] timestamp indices (1:N) rho: [float] correlation coefficient for out-of-plane deformation and in plane divergence div(v) allX: [Q×1 double] in-plane divergence, div(v), sampled at each timepoint and at 324 different locations on the surface of the gut tissue. allY: [Q×1 double] out of plane deformation, 2*H*vn, sampled at each timepoint and at 324 different locations on the surface of the gut tissue. H is the mean curvature of the tissue surface and vn is the normal velocity. <br> The sampling is taken as a uniform grid in (s,phi) coordinates described in the Methods section of the publication 'Visceral organ morphogenesis via calcium-patterned constrictions'
DOI: 10.6084/m9.figshare.19653594
title: Adherence to typical antipsychotics

description: There has been a recent transition from typical to atypical antipsychotics in the management of schizophrenia. This has been attributed to the acute side effects experienced by patients on typical antipsychotics that lead to non-adherence. However, the treatment cost with typical antipsychotics is cheaper (preferred in low-income settings) and there is no difference in the effectiveness, efficacy, discontinuation rate, side effects symptom burden with atypical antipsychotics. This study aims to determine the prevalence of non-adherence and the associated factors to typical antipsychotics among patients with schizophrenia attending a psychiatric outpatient clinic at rural tertiary facility in Uganda.
DOI: 10.6084/m9.figshare.19653594.v2
title: Adherence to typical antipsychotics

description: There has been a recent transition from typical to atypical antipsychotics in the management of schizophrenia. This has been attributed to the acute side effects experienced by patients on typical antipsychotics that lead to non-adherence. However, the treatment cost with typical antipsychotics is cheaper (preferred in low-income settings) and there is no difference in the effectiveness, efficacy, discontinuation rate, side effects symptom burden with atypical antipsychotics. This study aims to determine the prevalence of non-adherence and the associated factors to typical antipsychotics among patients with schizophrenia attending a psychiatric outpatient clinic at rural tertiary facility in Uganda.
DOI: 10.6084/m9.figshare.19653594.v1
title: Adherence to typical antipsychotics

description: There has been a recent transition from typical to atypical antipsychotics in the management of schizophrenia. This has been attributed to the acute side effects experienced by patients on typical antipsychotics that lead to non-adherence. However, the treatment cost with typical antipsychotics is cheaper (preferred in low-income settings) and there is no difference in the effectiveness, efficacy, discontinuation rate, side effects symptom burden with atypical antipsychotics. This study aims to determine the prevalence of non-adherence and the associated factors to typical antipsychotics among patients with schizophrenia attending a psychiatric outpatient clinic at rural tertiary facility in Uganda.
DOI: 10.17632/ftm7dv42dp.1
title: This dataset is related to the manuscript: "An exceptional record of millennial-scale climate variability in the Southern Iberian margin during MIS 6: Impact on Mediterranean overturning and sapropel formation"

description: This dataset contains oxygen isotope measurements in the planktic foraminifer species Globigerina bulloides and oxygen and carbon isotopes in the benthic foraminifer Cibicidoides pachyderma from IODP Site U1389 (South Iberian Margin) for the penultimate glacial period. Data of the percentage of fine sand content in the sediments from the same Site is also provided.
The high resolution oxygen isotope record obtained in the planktic foraminifer species led to recognize millennial-scale climate variability during the penultimate glacial period with unprecedented resolution that could be correlated with similar records from core MD01-2444 in the western Portuguese margin and Antarctic hydrogen isotopes from Epica Dome C.  A series of stadial interstadial episodes were regognized that were similar to the Dansgaard-Oestchger events during the last glacial period. Unlike the planktic d18O record that mainly reflects sea surface temperature variability in the NE Atlantic, the Cibicidoides pachyderma benthic foraminifer stable isotope record reflects millennial-scale climate variability in the Mediterranean. Changes in the percent fine sand (weight% of the fine sand fraction 62-150 microns relative to dry bulk weight) was used as a proxy for the strength of the Mediterranean Overflow Water (MOW)
DOI: 10.6084/m9.figshare.19497704
title: Rahnella sp., a dominant symbiont of the core gut bacteriome of Dendroctonus species, has metabolic capacity to degrade xylan by bifunctional xylanase-ferulic acid esterase

description: Table S1Table S2Figure S1Figure S2<br>
DOI: 10.17632/kvp23k439m.1
title: CD8+ T cells and fatty acids orchestrate tumor ferroptosis and immunity via ACSL4 

description: IFNgamma reprograms ACSL4 associated phospholipids to induce tumor ferroptosis
DOI: 10.6084/m9.figshare.19497704.v8
title: Rahnella sp., a dominant symbiont of the core gut bacteriome of Dendroctonus species, has metabolic capacity to degrade xylan by bifunctional xylanase-ferulic acid esterase

description: Table S1Table S2Figure S1Figure S2<br>
DOI: 10.17632/dkfpvn98w4.1
title: Archived data for: Fisheries restrictions and their cascading effects on herbivore abundance and macroalgae removal at Kenyan coral reefs

description: Dataset for the article "Fisheries restrictions and their cascading effects on herbivore abundance and macroalgae removal at Kenyan coral reefs" including raw Excel data of (1) macroalgae buffet assays and (2) remote underwater video counts.
DOI: 10.17632/gd24nvncvf.1
title: No evidence of strong costs on life-history trait associated with immune priming in Armadillidium vulgare against Salmonella enterica: clues of adaptive features?

description: Dataset and statistical script of the article : 
"No evidence of strong costs on life-history trait associated with immune priming in Armadillidium vulgare against Salmonella enterica: clues of adaptive features?"
Cybèle PRIGOT-MAURICE1*, Charlotte DEPEUX1*, Hélène PAULHAC1, Christine BRAQUART-VARNIER1#, Sophie BELTRAN-BECH1#
1 Université de Poitiers, Laboratoire Ecologie et Biologie des Interactions, UMR CNRS 7267, 5 rue Jacques Fort, 86000 POITIERS, France.
* Co-first authors
# Co-last authors
Contact : cybele.prigot@univ-poitiers.fr

Experimental design of the article :

Firstly, we performed the priming procedure on three females’ treatments: either primed with low dose of living S. enterica (SAP, for S. enterica-primed), with sterile LB broth (LPB, for LB-primed) or without priming injection (NP, for non-primed; Fig.1). We added a fourth treatment in which the females have never been injected (NI, for non-injected, Control females). We used a total of 123 females, including 33 NP, 33 LBP, 32 SA and 25 NI (Control). 7 days after the priming procedure, SAP, NP and LBP females were injected with a LD50 of S. enterica and their survival rates were monitored for 22 days. Surviving females (NP = 20, LBP = 27, SAP= 26, NI, Control = 25) were weighted and placed onto a box (5x8cm) with one virgin non-injected male of same age. Each pair of individuals were kept on moistened potting mix with linden leaves and carrot slices ad libitum under a stimulating photoperiod (18:6, D/N) at room temperature.
Every three days for around 8 months, we monitored survival rates and physiological states of all females by observing their ventral face. The females that were about to lay eggs develop a marsupium following a parturial moult, which is observable under a binocular loupe (Moreau and Rigaud 2002). Once females were ready to deliver their offspring, they were placed alone in a box with soft humid paper. For each female, we counted the number of clutches (one or two), the number of days that they took to produce each clutch (i.e. from the contact with male to the delivery of offspring; or the time between the first and the second clutch), the number of offspring in each clutch and the total number of produced offspring. After the second clutch (when it occurred), we washed the females (0.28% NaClO then water) and measured the viable haemocyte size, viability (% of living cells), and concentration. We dissected the nervous chord to quantify the β-galactosidase activity. Because not all females produced a second clutch, we decided to sample and dissect the females having only one clutch at the same time we did this for the last females producing the second clutch (around 8 months after the beginning of the experiment).
DOI: 10.6084/m9.figshare.19497704.v7
title: Rahnella sp., a dominant symbiont of the core gut bacteriome of Dendroctonus species, has metabolic capacity to degrade xylan by bifunctional xylanase-ferulic acid esterase

description: Table S1Table S2Figure S1Figure S2<br>
DOI: 10.17632/t3rwv64364.1
title: Malaria and Anaemia: Prevalence, Risk Factors and Impact of Preventive Methods among Pregnant Women in the Akatsi South District, Ghana: A Hospital-Based Cross-Sectional Study.

description: This study entailed a hospital based cross-sectional study using simple random sampling technique among 200 pregnant women receiving antenatal care and laboratory services at the Akatsi South District Hospital, Ghana from May to July, 2016. 

Data collection
A semi-structured questionnaire was administered to the pregnant women by the researchers. Data collected included
sociodemographic characteristics of the respondents i.e., maternal age, level of education, occupation, location etc.; 
Obstetric details included gravidity, parity, gestational period in weeks; Malaria preventive methods i.e., IPTp-SP use, sleeping under LLIN and mosquito repellent use.

Laboratory investigations
Blood film for malaria parasites
The blood film preparation and observation was done following standard procedures outlined by Monica Chesbrough (District Laboratory Practice in Tropical Countries. Second ed. New York: Cambridge University Press; 2009. 244-8 p.). Reading of the slides were carried out by two trained microscopists. Absence of malaria parasite after 200 high power fields were examined was considered negative for malaria. A discrepancy in the slide reading outcome between the two initial scientists was resolved by a third opinion from a senior microscopist.

Hemoglobin estimation
Participant’s haemoglobin concentration was determined using the fully automated Sysmex XS-800i hematology analyzer (https://www.sysmex-europe.com/n/products/products-detail/xs-800i.html; Europe) following standard quality-controlled procedures. Anaemia in pregnant women was defined as hemoglobin concentration less than 11.0 g/dL while hemoglobin concentrations greater than or equal to 11.0 g/dL was considered normal. Anemia was further subclassified as mild (hemoglobin :10-10.9 g/dL), moderate (hemoglobin: 7-9.9 g/dL) and severe anemia (hemoglobin <7 g/dL)  [16].

Brief Findings
Prevalence of anaemia in pregnancy (AiP), malaria in pregnancy (MiP) and AiP/MiP comorbidity was 63.5% (95% CI:56.4-70.2), 11.0% (96% CI:7.0-16.2) and 10.5% (95% CI:6.6-15.6) respectively. Prevalence rates of AiP (66.7%) and MiP (18.5%) predominated among pregnant women aged < 20 years. High IPTp-SP (64.0%) and LLIN (90.0%) use was observed in this study. Only 42.0% used repellent. Not being on the IPTp-SP program independently posed a 10.44 times risk of malaria (95% CI:2.01-54.19; p=0.005) compared to pregnant women on the IPTp-SP program. Similarly, not sleeping under LLIN posed a 6.63 risk of malaria (95% CI:1.51-29.01; p=0.012) compared to pregnant women who slept under LLIN. Meanwhile, being positive for malaria posed a significantly 10.73 times risk (95% CI:1.35-85.06; p=0.025) of anemia compared to those negative for malaria whereas failure to adhere to IPTp-SP posed 6.24 times risk (95% CI:1.78-21.89; p=0.004) of anemia among the pregnant women studied.

Data is an SPSS file and coded with appropriate labels. All reference variables are coded 0.
DOI: 10.6084/m9.figshare.19653609
title: Adherence to typical antipsychotics

description: There has been a recent transition from typical to atypical antipsychotics in the management of schizophrenia. This has been attributed to the acute side effects experienced by patients on typical antipsychotics that lead to non-adherence. However, the treatment cost with typical antipsychotics is cheaper (preferred in low-income settings) and there is no difference in the effectiveness, efficacy, discontinuation rate, side effects symptom burden with atypical antipsychotics. This study aims to determine the prevalence of non-adherence and the associated factors to typical antipsychotics among patients with schizophrenia attending a psychiatric outpatient clinic at rural tertiary facility in Uganda.
DOI: 10.6084/m9.figshare.19653609.v1
title: Adherence to typical antipsychotics

description: There has been a recent transition from typical to atypical antipsychotics in the management of schizophrenia. This has been attributed to the acute side effects experienced by patients on typical antipsychotics that lead to non-adherence. However, the treatment cost with typical antipsychotics is cheaper (preferred in low-income settings) and there is no difference in the effectiveness, efficacy, discontinuation rate, side effects symptom burden with atypical antipsychotics. This study aims to determine the prevalence of non-adherence and the associated factors to typical antipsychotics among patients with schizophrenia attending a psychiatric outpatient clinic at rural tertiary facility in Uganda.