cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.17632/8zxtjh8fjs
title: Lineage-specific protein repeat expansions and contractions reveal malleable regions of immune genes

description: Functional diversification, a higher evolutionary rate, and intense positive selection help a limited number of immune genes interact with many pathogens. Repeats in protein-coding regions are a well-known source of functional diversification, adaptive variation, and evolutionary novelty in a short time. Repeats play a crucial role in biochemical functions like functional diversification of transcription regulation, protein kinases, cell adhesion, signaling pathways, morphogenesis, DNA repair, recombination, and RNA processing. Repeat length variation can change the associated protein's interaction, efficacy, and overall protein network. Repeats have an intrinsic unstable nature and can potentially evolve rapidly and expedite the acquisition of complex phenotypic traits and functions. Because of their ability to generate rapid, adaptive variations over short evolutionary distances, repeats are considered "tuning knobs." Repeat length variation in specific genes, like RUNX2 and ALX4, is associated with morphological and physiological changes across vertebrates. Here we study repeat length variation as a potent source of species-specific immune diversification across several clades of tetrapods. Moreover, we provide a clade-wise comprehensive list of immune genes with repeat types for future studies of morphological/evolutionary changes within species groups. We observe significant repeat length variation of FASLG and C1QC in Rodentia and Primates' contrasting species groups, respectively.
DOI: 10.17632/9bkjs4j73f
title: The Supplemental information of the manuscript "Human SRY expression at the sex determining period is insufficient to drive testis development in mouse"

description: The dataset is supplemental information of our paper entitled "Human SRY expression at the sex determining period is insufficient to drive testis development in mouse."  This file includes 1) the non-cropped gel images, 2) the supplemental gel images for genetic analysis, 3) the details about our genetic analysis protocol and the sequence result of our analyzed animals, and 4) the in vitro study data of translation study on human SRY at the murine Sry locus.
DOI: 10.3535/7a0-y9y-f26
title: †Glassia Davidson, 1881

description: Digital Specimen for the physical specimen hosted at Tallinn University of Technology.
DOI: 10.3535/rwk-ddh-2c4
title: †Glassia Davidson, 1881

description: Digital Specimen for the physical specimen hosted at Tallinn University of Technology.
DOI: 10.17632/4fh8x2k4km
title: Data for: The impact of real-time clinical alerts on the compliance of anesthesia documentation: a retrospective observational study

description: Introduction: Clinical alert systems have been used to analyze deviations from hospital standards in the electronic medical record to identify missing documentations and send alerts to the appropriate providers to increase adherence to required elements. To improve compliance, an alert system for documentation of the Immediate Preoperative Assessment was implemented at our institution in August 2018 with the goal of improving documentation compliance rates. We hypothesized that implementation of this alert system would increase the compliance of on-time documentation of the IPOA. Methods: An initial data query in our institutional data warehouse was made for all patients who had a completed anesthetic during our study period. This date range corresponded to 6 months before and after August 2nd, 2018, the date when the IPOA alert was implemented and the anesthesiology department. The following analyses were performed: testing the proportion of cases compliant with on-time documentation of the IPOA pre- versus post-implementation for the full cohort and among subsets of interest, testing the time when the IPOA was completed relative to anesthesia end, and testing whether time of day of when surgery occurred had an impact on the time when the IPOA was completed relative to the drapes off/IPOA alert sent time. The proportion of compliance for pre- versus post-implementation was tested by Chi-square test. Results: Through retrospective chart review of electronic patient records, 47,417 cases matched our inclusion criteria of patients that had a completed anesthetic between February 2nd, 2018 to February 2nd, 2019. In total, we excluded 5132 cases. The compliance rate of IPOA completion increased from 76% to 88% (P &lt; 0.001) before and after the alert implementation date. In the initial month following alert implementation, the compliance rate immediately increased to 83% and stayed in the high 80’s for the balance of the study period. Conclusion: In summary, we demonstrate that automated Clinical Alert Systems operating via a single page notification can improve the compliance rate for documentation of key anesthesia events and that this observation is sustained six months after the implementation date. Furthermore, improvement in compliance is highest shorter cases and cases that occur early in the day. This study shows promising results in the use of automatic CAS system alerts to help hospitals meet TJC and CMS standards.
DOI: 10.3535/1zc-lha-bj9
title: Brachiopoda Duméril, 1805

description: Digital Specimen for the physical specimen hosted at Tallinn University of Technology.
DOI: 10.3535/kft-h0y-1p6
title: Brachiopoda Duméril, 1805

description: Digital Specimen for the physical specimen hosted at Tallinn University of Technology.
DOI: 10.6084/m9.figshare.28589684.v1
title: Brownbanded bamboo shark gene models

description: Gene models inferred with Braker3 on the genome assembly sChiPun1.3
DOI: 10.6084/m9.figshare.c.3887488_d7.v1
title: MOESM4 of Integrative analysis associates monocytes with insufficient erythropoiesis during acute Plasmodium cynomolgi malaria in rhesus macaques

description: Additional file 4. Complete list of pathways that are upregulated in the bone marrow during acuteÂ P. cynomolgiÂ infections of rhesus macaques using theÂ MetacoreÂ database.
DOI: 10.3535/hax-ske-1e7
title: Brachiopoda Duméril, 1805

description: Digital Specimen for the physical specimen hosted at Tallinn University of Technology.
DOI: 10.3535/qsy-9zt-txj
title: Echinodermata

description: Digital Specimen for the physical specimen hosted at Tallinn University of Technology.
DOI: 10.17632/56mdx3yzds
title: Identification and counting of diatoms in the reconstruction of seismic and tsunami history along the Rio Grande Coast, Oaxaca, Mexico.

description: Summary of the identified diatoms, including their count and environment. Microfossils obtained from a coastal core of a tropical estuary in Mexico.
Excel file with information.
DOI: 10.3535/3qp-2g0-qsr
title: Echinodermata

description: Digital Specimen for the physical specimen hosted at Tallinn University of Technology.
DOI: 10.3535/wk3-d9t-7r2
title: †Spiriferinae King, 1846

description: Digital Specimen for the physical specimen hosted at Tallinn University of Technology.
DOI: 10.6084/m9.figshare.929608.v1
title: Nick Goldman's publications encoded in DNA

description: Nick Goldman's publications encoded in DNA as described in: Nick Goldman,Paul Bertone,Siyuan Chen,Christophe Dessimoz,Emily M. LeProust,Botond Sipos& Ewan Birney (2013) Towards practical, high-capacity, low-maintenance information storage in synthesized DNA. Nature doi:10.1038/nature11875
DOI: 10.3535/ee1-8sx-a5v
title: Brachiopoda Duméril, 1805

description: Digital Specimen for the physical specimen hosted at Tallinn University of Technology.
DOI: 10.3535/te2-rz5-af1
title: Echinodermata

description: Digital Specimen for the physical specimen hosted at Tallinn University of Technology.
DOI: 10.6084/m9.figshare.20141003.v1
title: SPSS data key Coding explained.xlsx

description: This is an excellent spreadsheet for explaining the data key for the SPSS.
DOI: 10.6084/m9.figshare.21657503.v1
title: Data and Scripts V1.0

description: This archive contains the following files: <br> a) <strong>Data_DGRP.csv</strong>, containing viral load data for single and coinfections of DCV and CrPV across DGRP genotypes. <br> b) <strong>Data_DGRP_Deltas.csv</strong>, containing data on changes in viral load during coinfection for DCV and CrPV across DGRP genotypes. <br> c) <strong>Data_Drosophilidae.csv</strong>, containing viral load data for single and coinfections of DCV and CrPV across <em>Drosophilidae </em>species. <br> d) <strong>Data_Drosophilidae_Deltas.csv</strong>, containing data on changes in viral load during coinfection for DCV and CrPV across <em>Drosophilidae</em> species. <br> e) <strong>Models.R</strong>, an R script containing all statistical models and interpretation used in this study. <br> f) <strong>Tree_Drosophilidae.nwk</strong>, phylogeny of <em>Drosophilidae</em> host species.
DOI: 10.3535/y0z-vcz-fep
title: †Orthoidea Woodward, 1852

description: Digital Specimen for the physical specimen hosted at Tallinn University of Technology.
DOI: 10.17632/3mnrgjbg7m
title: Rapid-onset antidepressant-like effect of sub-therapeutic dose of iron in combination with citalopram or imipramine in mice

description: In this study, we hypothesize that sub-therapeutic dose of iron combined with classical antidepressants such as citalopram and imipramine  will produce rapid-onset antidepressant-like effect in mice.  First, the study assessed the antidepressant effects of iron, citalopram or imipramine alone in murine behavioral models. Behavioral tests such as forced swim, tail suspension and open space swim tests were used to collect data on depression-related symptoms. We used the open field test to assess locomotor activity. After the first phase of experiments, dose response curves were plotted and the median dose (ED50) of drugs were calculated using non-linear regression analysis of the dose response curves. From this analysis, the sub-therapeutic dose of iron was selected. In phase 2, the effect of sub-therapeutic dose of iron plus imipramine or citalopram on depression was evaluated using the murine models stated previously. After these behavioral tests, the ELISA test was used to assess concentration of brain-derived neurotrophic factor levels while the Golgi-Cox technique provided information on dendritic spine density of treatment mice.
DOI: 10.3535/0b6-7l7-rg8
title: †Glassia Davidson, 1881

description: Digital Specimen for the physical specimen hosted at Tallinn University of Technology.
DOI: 10.3535/6bq-pjn-wee
title: Brachiopoda Duméril, 1805

description: Digital Specimen for the physical specimen hosted at Tallinn University of Technology.
DOI: 10.3535/a8n-f5v-hvf
title: Echinodermata

description: Digital Specimen for the physical specimen hosted at Tallinn University of Technology.
DOI: 10.3535/hbc-c74-1qw
title: Brachiopoda Duméril, 1805

description: Digital Specimen for the physical specimen hosted at Tallinn University of Technology.
DOI: 10.3535/m8q-2r6-ase
title: Calcite

description: Digital Specimen for the physical specimen hosted at Tallinn University of Technology.
DOI: 10.6084/m9.figshare.3543875.v1
title: Appendix B. Maximum-likelihood method and Akaike weights.

description: Maximum-likelihood method and Akaike weights.
DOI: 10.17632/m3gbbjb2xd
title: Appendices for "The safety of rituximab for the treatment of autoimmune blistering diseases: a systematic review"

description: Attached are appendices for "The safety of rituximab for the treatment of autoimmune blistering diseases: a systematic review"
DOI: 10.3535/e4a-s32-emb
title: Brachiopoda Duméril, 1805

description: Digital Specimen for the physical specimen hosted at Tallinn University of Technology.
DOI: 10.3535/ye5-a4k-hlq
title: Cephalopoda Cuvier, 1795

description: Digital Specimen for the physical specimen hosted at Tallinn University of Technology.
DOI: 10.3535/k90-l63-3v3
title: Brachiopoda Duméril, 1805

description: Digital Specimen for the physical specimen hosted at Tallinn University of Technology.
DOI: 10.3535/qhc-gtn-19d
title: †Dalmanella Hall & Clarke, 1892

description: Digital Specimen for the physical specimen hosted at Tallinn University of Technology.
DOI: 10.6084/m9.figshare.16877122.v1
title: Global dataset beneficial plants

description: Dataset used in Molina-Venegas (in review) Conserving evolutionarily distinct species is critical to safeguard human well-being.
DOI: 10.3535/5n5-pvg-a9n
title: Brachiopoda Duméril, 1805

description: Digital Specimen for the physical specimen hosted at Tallinn University of Technology.
DOI: 10.3535/ccq-zhq-feb
title: Calcite

description: Digital Specimen for the physical specimen hosted at Tallinn University of Technology.
DOI: 10.6084/m9.figshare.28559780.v1
title: Data for "Tethys2025: A fusion 3D velocity model of the Tethyan crust and mantle"

description: The tectonic evolution of the Tethyan realm, spanning the boundaries of Eurasia, Africa, India, and Australia, significantly influences today's climate, biodiversity, and geology. Establishing a three-dimensional Tethyan crust-mantle velocity model provides an instantaneous view of this process, essential for understanding major events like the Tethys closure, India-Eurasia collision, and Himalayan formation. However, existing seismic tomographic results of the region are inconsistent, increasing the uncertainty in geological interpretations. By deconstructing and refitting multiple-scale features in existing models, we conducted a secondary inversion for 129 previously published models. The resulting fusion model, named Tethys2025, provides a unified crust-mantle image of the entire Tethyan realm. This study also presents a strategy for progressively aligning the fusion model with the actual crust-mantle structure.
DOI: 10.3535/96q-014-4rc
title: †Meristinae Hall & Clarke, 1893

description: Digital Specimen for the physical specimen hosted at Tallinn University of Technology.
DOI: 10.3535/t4v-5fq-pk4
title: Brachiopoda Duméril, 1805

description: Digital Specimen for the physical specimen hosted at Tallinn University of Technology.
DOI: 10.3535/epr-7v8-ffh
title: Calcite

description: Digital Specimen for the physical specimen hosted at Tallinn University of Technology.
DOI: 10.3535/ztw-pxl-e94
title: †Skenidioides Schuchert & Cooper, 1931

description: Digital Specimen for the physical specimen hosted at Tallinn University of Technology.
DOI: 10.6084/m9.figshare.28028162.v2
title: Annotation of Ctenoplusia agnata genome (GCA_041146325.1)

description: 1. General annotation information of Ctenoplusia agnata genome (GCA_041146325.1)2. Annotation of detoxification genes from Ctenoplusia agnata genome- Cytochrome P450s (CYPs), carboxyl/cholinesterases (CCEs), glutathione S-transferases (GSTs), UDP-glucuronosyltransferases (UGTs), and ATP-binding cassette (ABC) transporters<br>Gene Ontology (GO) resultsBLAST nr resultsInterProScan resultsPore-C resultsUsed files for orthovenn3
DOI: 10.3535/5lw-vl4-3g7
title: Brachiopoda Duméril, 1805

description: Digital Specimen for the physical specimen hosted at Tallinn University of Technology.
DOI: 10.3535/q26-1kg-p44
title: †Meifodia Williams, 1951

description: Digital Specimen for the physical specimen hosted at Tallinn University of Technology.
DOI: 10.6084/m9.figshare.19683768.v1
title: Language as a tool for social bonding: evidence from wild chimpanzee gestural, vocal and bimodal signals: Supplementary Information

description: This is the Supplementary Information for the paper entitled: Language as a tool for social bonding evolved from gestures: evidence from wild chimpanzee gestural, vocal and bimodal signals <br> This paper is forthcoming in Philososhopical Transacations of the Royal Society B.
DOI: 10.6084/m9.figshare.23632392.v1
title: FourRoom_r44_2020-03-18_12_egf7

description: 4800 Hz resolution local field potential (LFP) files recorded from tetrode 7, rat 44, session 12 which contains 5 sessions in the four-room task and 5 rest periods after each of these sessions. Relates to publication "Hippocampal place cells encode global location but not connectivity in a complex space" (https://www.sciencedirect.com/science/article/pii/S0960982221000385) and open dataset https://doi.org/10.25493/7NJQ-ANH. All authors and funding sources for the current item are identical to these.
DOI: 10.6084/m9.figshare.27083080.v1
title: Descriptive Characteristics of Analyzed FRESH Product Assortment Matrices in Retail Chain Outlets - Cluster Approach

description: <b>ASSESSMENT OF THE ECONOMIC EFFICIENCY OF FEDERAL FMCG RETAIL CHAINS IN RUSSIA: A CLUSTER APPROACH</b>
DOI: 10.6084/m9.figshare.28300559.v2
title: raw data amyloidosis.docx

description: Hyperglycemia is a risk factor for Alzheimer's disease due to increased amyloid beta (αβ) buildup, while fish oil with omega-3 fatty acids reduces Alzheimer's risk. However, the mechanisms of fish oil in preventing hyperglycemia associated with Alzheimer's disease are still unclear. This study was designed to examine the effects of fish oil on brain amyloidogenesis in hyperglycemic Alzheimer's disease animal models.
DOI: 10.3535/4r5-fkg-019
title: Brachiopoda Duméril, 1805

description: Digital Specimen for the physical specimen hosted at Tallinn University of Technology.
DOI: 10.3535/6za-gv7-lwp
title: Brachiopoda Duméril, 1805

description: Digital Specimen for the physical specimen hosted at Tallinn University of Technology.
DOI: 10.3535/g0j-xnh-8ae
title: Brachiopoda Duméril, 1805

description: Digital Specimen for the physical specimen hosted at Tallinn University of Technology.
DOI: 10.3535/tz0-rxh-10g
title: Brachiopoda Duméril, 1805

description: Digital Specimen for the physical specimen hosted at Tallinn University of Technology.
DOI: 10.6084/m9.figshare.c.3723835_d1.v1
title: MOESM1 of Growth curve registration for evaluating salinity tolerance in barley

description: Additional file 1. Dataset for Run 1.
DOI: 10.25381/cput.24042582.v1
title: The influence of leadership styles on job satisfaction amongst employees at a landscaping organisation in the Cape Metropolis.

description: <b>Ethical Clearance reference number: 2022_FBMSREC 049</b>This study was done at a Landscaping organisation in Cape Town. Cape Town has more than 50 Landscaping organisations. The participants in this study are based in Cape Town and only one landscaping company in Cape Town was chosen. There were 110 participants who willingly answered all questions in the survey that was used to collect data. The survey had 3 sections, the biography, Likert scale and open ended questions.
DOI: 10.3535/dks-570-4bs
title: Brachiopoda Duméril, 1805

description: Digital Specimen for the physical specimen hosted at Tallinn University of Technology.
DOI: 10.3535/evs-yl0-ahm
title: Brachiopoda Duméril, 1805

description: Digital Specimen for the physical specimen hosted at Tallinn University of Technology.
DOI: 10.6084/m9.figshare.3453770.v1
title: Marine cements reveal the structure of an anoxic, ferruginous Neoproterozoic ocean

description: Neoproterozoic oceans provided the setting for the rise of animals, yet little is known of their chemical composition. Marine carbonates from the Cryogenian Oodnaminta Reef Complex, South Australia, reveal the chemical structure of a Neoproterozoic ocean. Pseudo-depth profiles from shallow- to deep-water reef facies have been constructed from geochemical and sedimentological analysis of marine cements. Evidence suggests that under a peritidal oxic–anoxic chemocline, the water column was largely anoxic, strongly ferruginous and had a chemistry profoundly different from that of modern seawater. These geochemical data suggest early Archaean-like conditions for this late Cryogenian ocean, posing problems for metazoan evolution in extremely anoxic conditions.
DOI: 10.17632/yh96wfvh5v
title: Genome-Wide Analysis of Dynamic RNA Profiles During Toxoplasma gondii Infection in the Felines- SI_1

description: SI_1_1.fq
DOI: 10.3535/6ak-wyb-myg
title: Calcite

description: Digital Specimen for the physical specimen hosted at Tallinn University of Technology.
DOI: 10.3535/czj-2y6-1bv
title: Calcite

description: Digital Specimen for the physical specimen hosted at Tallinn University of Technology.
DOI: 10.3535/dyf-5kr-2n6
title: Brachiopoda Duméril, 1805

description: Digital Specimen for the physical specimen hosted at Tallinn University of Technology.
DOI: 10.3535/gwj-8md-ve5
title: Brachiopoda Duméril, 1805

description: Digital Specimen for the physical specimen hosted at Tallinn University of Technology.
DOI: 10.3535/6p3-bx6-qdd
title: †Leptaena Dalman, 1828

description: Digital Specimen for the physical specimen hosted at Tallinn University of Technology.
DOI: 10.3535/fn4-8g5-vyn
title: Calcite

description: Digital Specimen for the physical specimen hosted at Tallinn University of Technology.
DOI: 10.6084/m9.figshare.25513780.v1
title: The blood RNA-seq data for dairy cows

description: Twenty-three healthy and lactating Holstein cows receiving similar feeding and management practices from a dairy farm were used for sample collection as RNA-seq dataset. Peripheral blood sample from these 23 individuals were collected at the lactation stage of DIM 100 to 200 in lactations 1 and 2. Peripheral venous blood (10 mL) was collected through the coccygeal vein into EDTA tubes. These blood samples were centrifuged at 3,500 rpm for 15 min within 1 h. The buffy coat (leukocytes) was immediately separated into new tubes, after adding 1 mL Trizol (Invitrogen, Carlsbad, CA, USA). Samples were frozen at –20℃ and then stored at –80℃ before RNA isolation.
DOI: 10.6084/m9.figshare.28229411.v1
title: Ustekinumab concentrations and outcomes

description: Ustekinumab (UST) is a monoclonal antibody targeting the p40 subunit of interleukin-12/23. Evidence suggests a relationship between UST concentrations and therapeutic outcomes. This study aimed to evaluate the association between UST trough concentrations during the induction phase and clinical and especially endoscopic outcomes at week 24 in patients with Crohn’s disease (CD) and ulcerative colitis (UC).MethodsPatients with CD and UC were included from the start of UST treatment. Intensification and maintenance regimens were based on standard clinical practice. The primary objective was to assess endoscopic remission at week 24, defined as a simple-endoscopic-score (SES-CD) ≤2 for CD and a Mayo endoscopic score (MES) ≤1 for UC. Quartile analysis and logistic regression assessed the relationship between UST concentrations and endoscopic outcomes, while logistic and Cox proportional hazards regressions identified variables associated with endoscopic remission and treatment discontinuation, respectively.ResultsSeventy patients (45 with CD) were enrolled. Those achieving endoscopic response and remission at week 24 had higher UST levels at week 8 (4.0 μg/mL vs. 2.5 μg/mL, p=0.002; 3.9 μg/mL vs. 2.9 μg/mL, p=0.047). Patients with UST concentrations in the fourth quartile (Q4) at week 8 (&gt; 4.5 μg/mL) had higher rates of endoscopic remission (69% [Q4] vs. 23% [Q1], p=0.014; 24% [Q2], p=0.003; 31% [Q3], p=0.024). A UST concentration threshold of 4.5 μg/mL at week 8 was the best predictor of endoscopic remission (AUC=0.678, sensitivity 52.5%, specificity 84.6%), while 3.5 μg/mL predicted endoscopic response (AUC=0.732, sensitivity 63.6 %, specificity 73.1 %). Logistic regression did not reveal other predictive factors for response. Longer disease duration correlated with a higher risk of UST discontinuation (OR 1.034, 95% CI 1.002-1.068, p=0.035). Higher UST concentrations in Q4 did not result in greater drug persistence (p=0.319).ConclusionUST concentrations at week 8 were positively associated with endoscopic outcomes at week 24, with a threshold of 4.5 μg/mL reliably predicting endoscopic remission. Further randomized clinical trials are warranted to explore whether optimizing UST treatment based on post-induction concentrations can enhance therapeutic outcomes.