cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.6456821
title: Dataset of ipsilateral motor-evoked potentials induced by transcranial magnetic stimulation

description: The dataset includes 2546 trials of EMG recordings after ipsilateral TMS under muscle contraction. This data was used for the evaluation of the DiMEP toolbox https://pypi.org/project/dimep/ All subjects provided written, informed consent before participation and following approval by the local ethics committee. Subjects had no contraindications to TMS. TMS was delivered with a MagVenture MagPro-R30 with MagOption and a MCF-B70 figure 8-coil at an orientation of 45° to the midsagittal plane (see figure 1A). First, the motor hotspot of the contralateral, i.e., right, extensor digitorum communis (EDC) was determined by applying 40 stimuli to the left hemisphere. 40% MSO was used as the starting intensity and increased in steps of 5% MSO in case no MEPs could be elicited. Next, at the locations of the three stimuli that resulted in the greatest MEP, i.e., the largest MEP peak-to-peak amplitude, additional three stimuli were applied. The stimulation location that consistently elicited the largest MEPs in the contralateral EDC was then selected as the hotspot. A neuro-navigation system (TMS Navigator, Localite GmbH, Germany) supported coil positioning throughout the measurements. In order to measure ipsilateral MEPs, TMS pulses were applied to the motor hotspot with 5s ± 1.25 s between pulses (at an intensity of 90% MSO). To increase the likelihood of exhibiting ipsilateral MEPs, subjects were requested to isometrically contract their left biceps brachii (BB) to 30% of its maximum voluntary contraction while receiving visual feedback of the BB activity relative to the required target level of contraction on a computer display. The electromyographical response (EMG) to TMS was recorded with a BrainProducts ExG bipolar amplifier from the ipsilateral EDC. All trials were divided into 1s segments, i.e., 500 ms before and after each TMS pulse, and sampled at 1000 Hz. We removed artifacts due to coil placement with a Heaviside fit removal, a Hampel filter of 20 ms width, and a polynomial detrending of 5<sup>th</sup> order. Trials with remaining artifacts were rejected, resulting in an average of 47 trials per subject.
DOI: 10.48370/ofd/bpiatc
title: Purpuricenus longevittatus (Pic, 1941), C-744

description: Coleoptera collection
DOI: 10.5281/zenodo.6456830
title: Dataset of ipsilateral motor-evoked potentials induced by transcranial magnetic stimulation

description: The dataset includes 4244 trials of EMG recordings after ipsilateral TMS under muscle contraction. This data was used for the evaluation of the DiMEP toolbox https://pypi.org/project/dimep/ All subjects provided written, informed consent before participation and following approval by the local ethics committee. Subjects had no contraindications to TMS. TMS was delivered with a MagVenture MagPro-R30 with MagOption and a MCF-B70 figure 8-coil at an orientation of 45° to the midsagittal plane (see figure 1A). First, the motor hotspot of the contralateral, i.e., right, extensor digitorum communis (EDC) was determined by applying 40 stimuli to the left hemisphere. 40% MSO was used as the starting intensity and increased in steps of 5% MSO in case no MEPs could be elicited. Next, at the locations of the three stimuli that resulted in the greatest MEP, i.e., the largest MEP peak-to-peak amplitude, additional three stimuli were applied. The stimulation location that consistently elicited the largest MEPs in the contralateral EDC was then selected as the hotspot. A neuro-navigation system (TMS Navigator, Localite GmbH, Germany) supported coil positioning throughout the measurements. In order to measure ipsilateral MEPs, TMS pulses were applied to the motor hotspot with 5s ± 1.25 s between pulses (at an intensity of 90% MSO). To increase the likelihood of exhibiting ipsilateral MEPs, subjects were requested to isometrically contract their left biceps brachii (BB) to 30% of its maximum voluntary contraction while receiving visual feedback of the BB activity relative to the required target level of contraction on a computer display. The electromyographical response (EMG) to TMS was recorded with a BrainProducts ExG bipolar amplifier from the ipsilateral EDC. All trials were divided into 1s segments, i.e., 500 ms before and after each TMS pulse, and sampled at 1000 Hz.
DOI: 10.5281/zenodo.5266491
title: Dataset of ipsilateral motor-evoked potentials induced by transcranial magnetic stimulation

description: The dataset includes 4244 trials of EMG recordings after ipsilateral TMS under muscle contraction. This data was used for the evaluation of the DiMEP toolbox https://pypi.org/project/dimep/ All subjects provided written, informed consent before participation and following approval by the local ethics committee. Subjects had no contraindications to TMS. TMS was delivered with a MagVenture MagPro-R30 with MagOption and a MCF-B70 figure 8-coil at an orientation of 45° to the midsagittal plane (see figure 1A). First, the motor hotspot of the contralateral, i.e., right, extensor digitorum communis (EDC) was determined by applying 40 stimuli to the left hemisphere. 40% MSO was used as the starting intensity and increased in steps of 5% MSO in case no MEPs could be elicited. Next, at the locations of the three stimuli that resulted in the greatest MEP, i.e., the largest MEP peak-to-peak amplitude, additional three stimuli were applied. The stimulation location that consistently elicited the largest MEPs in the contralateral EDC was then selected as the hotspot. A neuro-navigation system (TMS Navigator, Localite GmbH, Germany) supported coil positioning throughout the measurements. In order to measure ipsilateral MEPs, TMS pulses were applied to the motor hotspot with 5s ± 1.25 s between pulses (at an intensity of 90% MSO). To increase the likelihood of exhibiting ipsilateral MEPs, subjects were requested to isometrically contract their left biceps brachii (BB) to 30% of its maximum voluntary contraction while receiving visual feedback of the BB activity relative to the required target level of contraction on a computer display. The electromyographical response (EMG) to TMS was recorded with a BrainProducts ExG bipolar amplifier from the ipsilateral EDC. All trials were divided into 1s segments, i.e., 500 ms before and after each TMS pulse, and sampled at 1000 Hz.
DOI: 10.6084/m9.figshare.19588450
title: Supplemantary Table.docx

description: Specifications of root canal filler
DOI: 10.6084/m9.figshare.19588450.v1
title: Supplemantary Table.docx

description: Specifications of root canal filler
DOI: 10.6084/m9.figshare.19588471
title: Supplementary Material for: Non-Atopic Chronic Nodular Prurigo (Prurigo Nodularis Hyde): A Systematic Review of Best-Evidenced Treatment Options

description: <b><i>Background:</i></b> Chronic nodular prurigo (CNPG) is a chronic, inflammatory skin disease, characterized by intense and debilitating pruritus. The pathophysiology is not fully understood, and the condition is difficult to treat with no targeted therapies. The aim of this systematic review was to review the evidence of therapies for non-atopic CNPG and conduct a meta-analysis of the results. <b><i>Summary:</i></b> We conducted a systematic review of the literature concerning effect of treatment for non-atopic CNPG. Due to few randomized controlled trials (RCTs) and case series, the literature was unfortunately too sparse to conduct a meta-analysis of the results. Instead, we thoroughly report important data from the three existing RCTs and 6 case studies with more than 15 patients. Evaluated therapies include nemolizumab, aprepitant, topical therapy with hydrocortisone and pimecrolimus, thalidomide, UVA phototherapy, pregabalin, and naltrexone. Included RCTs and case studies all had a heterogeneous methodology making direct comparison almost impossible. <b><i>Key Messages:</i></b> There is sparse evidence for the currently used therapies for non-atopic CNPG. Several RCTs on new therapies are running or in the pipeline, hopefully providing new, effective, and targeted treatment possibilities for CNPG patients both with and without an atopic predisposition.
DOI: 10.6084/m9.figshare.19588471.v1
title: Supplementary Material for: Non-Atopic Chronic Nodular Prurigo (Prurigo Nodularis Hyde): A Systematic Review of Best-Evidenced Treatment Options

description: <b><i>Background:</i></b> Chronic nodular prurigo (CNPG) is a chronic, inflammatory skin disease, characterized by intense and debilitating pruritus. The pathophysiology is not fully understood, and the condition is difficult to treat with no targeted therapies. The aim of this systematic review was to review the evidence of therapies for non-atopic CNPG and conduct a meta-analysis of the results. <b><i>Summary:</i></b> We conducted a systematic review of the literature concerning effect of treatment for non-atopic CNPG. Due to few randomized controlled trials (RCTs) and case series, the literature was unfortunately too sparse to conduct a meta-analysis of the results. Instead, we thoroughly report important data from the three existing RCTs and 6 case studies with more than 15 patients. Evaluated therapies include nemolizumab, aprepitant, topical therapy with hydrocortisone and pimecrolimus, thalidomide, UVA phototherapy, pregabalin, and naltrexone. Included RCTs and case studies all had a heterogeneous methodology making direct comparison almost impossible. <b><i>Key Messages:</i></b> There is sparse evidence for the currently used therapies for non-atopic CNPG. Several RCTs on new therapies are running or in the pipeline, hopefully providing new, effective, and targeted treatment possibilities for CNPG patients both with and without an atopic predisposition.
DOI: 10.34740/kaggle/dsv/3453220
title: BBC News
DOI: 10.6084/m9.figshare.19588486
title: Supplementary Material for: Associations of the Methylation Levels of <b><i>NFAT5</i></b>, <b><i>PVT1</i></b>, <b><i>RPS6KA1</i></b>, and <b><i>MIB1</i></b> with Steroid-Resistant Asthma

description: <b><i>Background:</i></b> This study detected the methylation levels of nuclear factor-5 <i>(NFAT5)</i>, <i>PVT1</i>, ribosomal protein S6 kinase A-1 (<i>RPS6KA1</i>), and <i>MIB1</i> in patients with steroid-resistant asthma (SRA) and explored their associations with SRA. <b><i>Methods:</i></b> In our pilot study, we found abnormal methylation of <i>NFAT5</i>, <i>PVT1</i>, <i>RPS6KA1,</i> and <i>MIB1</i> in SRA patients according to genome-wide methylation screening. This study expanded the sample size to further validate the results of the pilot study. Twenty patients with SRA, 20 patients with bronchial asthma, and 20 healthy volunteers constituted the SRA group, asthma control group, and healthy control group, respectively. The clinical data of all the participants were collected. Peripheral blood was taken for DNA extraction. The methylation loci and levels of <i>NFAT5</i>, <i>PVT1</i>, <i>RPS6KA1,</i> and <i>MIB1</i> were detected using the Sequenom MassARRAY Nanodispenser RS1000. Data were processed and analyzed with SPSS 22.0 software. <b><i>Results:</i></b> There were 24 CpG loci detected in the <i>NFAT5</i> segment 7 in the <i>PVT1</i> segment, 4 in the <i>RPS6KA1</i> segment, and 3 in the <i>MIB1</i> segment. Among these genes, RPS6KA exhibited hypomethylation in the SRA group, which showed significant differences at the CpG_1, CpG_2, and CpG_3 loci compared with the other groups (<i>p</i> &lt; 0.05). No significant differences in the methylation levels of <i>NFAT5</i>, <i>PVT1</i>, and <i>MIB1</i> were observed among the groups (<i>p</i> &gt; 0.05). <b><i>Conclusions:</i></b> <i>RPS6KA1</i> is hypomethylated in SRA patients, which may play a role in the development of SRA via the MAPK signaling pathway. However, the influence of the methylation of <i>NFAT5</i>, <i>PVT1,</i> and <i>MIB1</i> on SRA development remains to be explored.
DOI: 10.48370/ofd/5cp300/fjt9lw
title: Betula pendula_korzenie - ekstrakt eterowy.pdf

description: :unav
DOI: 10.48370/ofd/5cp300
title: Betula pendula_korzenie - ekstrakt eterowy

description: ekstrakt eterowy
DOI: 10.48370/ofd/cnljbo/oiong8
title: Betula pendula_korzenie zainfekowane Almillaria gallica - ekstrakt eterowy.pdf

description: :unav
DOI: 10.48370/ofd/cnljbo
title: Betula pendula_korzenie zainfekowane Almillaria gallica - ekstrakt eterowy

description: ekstrakt eterowy
DOI: 10.48370/ofd/lngae2/5sfbnj
title: Betula pendula_korzenie zainfekowane Phytophthora cactorum - ekstrakt eterowy.pdf

description: :unav
DOI: 10.48370/ofd/lngae2
title: Betula pendula_korzenie zainfekowane Phytophthora cactorum - ekstrakt eterowy

description: ekstrakt eterowy
DOI: 10.5281/zenodo.6456945
title: Auto-session-encoder

description: data
DOI: 10.48370/ofd/ko1xmp/pirw9j
title: Betula pendula_korzenie z defoliacją 50 procent - ekstrakt eterowy.pdf

description: :unav
DOI: 10.48370/ofd/ko1xmp
title: Betula pendula_korzenie z defoliacją 50 procent - ekstrakt eterowy

description: ekstrakt eterowy
DOI: 10.6084/m9.figshare.19576072
title: Original analysis results of GSEA and AS in human spermatozoa

description: The Gene Set Enrichment Analysis (GSEA) and Alternative Splicing (AS) events were found in RNA-sequencing data for human spermatozoa. This study aimed to compare the unknown micro epigenetics alternations in fresh and cryopreserved spermatozoa for evaluation of the effectivity of respective cryopreservation protocols. Materials and Methods Spermatozoa were divided into three groups: fresh spermatozoa (Group 1), cryoprotectant-free vitrified spermatozoa (Group 2), and conventionally frozen spermatozoa (Group 3). Nine RNA samples (3 replicates in each group) were detected, and they were applied for library preparation using Illumina compatible kit and sequencing by the Illumina platform. Results There are three Gene Ontology (GO) terms that have been enriched: Mitochondrial tRNA aminoacylation, ATP dependent microtubule motor activity, and male meiotic nuclear division in vitrified spermatozoa in contrast with fresh spermatozoa. For Alternative Splicing (AS) analysis, it was found a number of unknown AS events. Including functional genes Extron Skipping (ES), alternative 5′ splice sites (A5SS), alternative 3′ splice sites (A3SS), mutually exclusive Extron (MXE), and retained intron (RI).
DOI: 10.6084/m9.figshare.19576072.v1
title: Original analysis results of GSEA and AS in human spermatozoa

description: The Gene Set Enrichment Analysis (GSEA) and Alternative Splicing (AS) events were found in RNA-sequencing data for human spermatozoa. This study aimed to compare the unknown micro epigenetics alternations in fresh and cryopreserved spermatozoa for evaluation of the effectivity of respective cryopreservation protocols. Materials and Methods Spermatozoa were divided into three groups: fresh spermatozoa (Group 1), cryoprotectant-free vitrified spermatozoa (Group 2), and conventionally frozen spermatozoa (Group 3). Nine RNA samples (3 replicates in each group) were detected, and they were applied for library preparation using Illumina compatible kit and sequencing by the Illumina platform. Results There are three Gene Ontology (GO) terms that have been enriched: Mitochondrial tRNA aminoacylation, ATP dependent microtubule motor activity, and male meiotic nuclear division in vitrified spermatozoa in contrast with fresh spermatozoa. For Alternative Splicing (AS) analysis, it was found a number of unknown AS events. Including functional genes Extron Skipping (ES), alternative 5′ splice sites (A5SS), alternative 3′ splice sites (A3SS), mutually exclusive Extron (MXE), and retained intron (RI).
DOI: 10.5281/zenodo.6456306
title: DECIMER - Hand-drawn molecule images dataset

description: <strong>DECIMER - Hand-drawn molecule images dataset</strong> The translation of images of chemical structures into machine-readable representations of the depicted molecules is known as optical chemical structure recognition (OCSR). There has been a lot of progress over the last three decades in this field, but the development of systems for the recognition of complex hand-drawn structure depictions is still at the beginning. Currently, there is no data for the systematic evaluation of OCSR methods on hand-drawn structures available. Here we present DECIMER - Hand-drawn molecule images, a standardised, openly available benchmark dataset of 5088 hand-drawn depictions of diversely picked chemical structures. Every structure depiction in the dataset is mapped to a machine-readable representation of the underlying molecule. The dataset is openly available and published under the CC-BY 4.0 licence which applies very few limitations. We hope that it will contribute to the further development of the field.
DOI: 10.15151/esrf-es-686689060
title: Southampton, Bristol, Exeter, KCL, Portsmouth, UCL Royal Free Block Allocation Group (BAG)

description: This BAG coordinates activities of groups from the South-West of the UK. The focus is on projects in Immunology, transcriptional regulation, and enzymology. A particular strength are the macromolecular complexes that several of the groups target. The activities in rational protein design (Bristol) and enzyme design (Portsmouth) are particular highlight and have enriched the portfolio of projects of this ag since joining in 2020.
DOI: 10.15151/esrf-es-748850843
title: Southampton, Bristol, Exeter, KCL, Portsmouth, UCL Royal Free Block Allocation Group (BAG)

description: This BAG coordinates activities of groups from the South-West of the UK. The focus is on projects in Immunology, transcriptional regulation, and enzymology. A particular strength are the macromolecular complexes that several of the groups target. The activities in rational protein design (Bristol) and enzyme design (Portsmouth) are particular highlight and have enriched the portfolio of projects of this ag since joining in 2020.
DOI: 10.5281/zenodo.6453024
title: Cyclone classification image sets and metadata

description: Tropical cyclone and background images and their metadata generated from the meterological reanalysis ERA5 and MERRA-2 according to the HURDAT2 cyclone tracks.
DOI: 10.48370/ofd/2wszut/pjkiw4
title: Betula pendula_korzenie z defoliacją 50 procent i zainfekowane Almillaria gallica - ekstrakt eterowy.pdf

description: :unav
DOI: 10.48370/ofd/2wszut
title: Betula pendula_korzenie z defoliacją 50 procent i zainfekowane Almillaria gallica - ekstrakt eterowy

description: ekstrakt eterowy
DOI: 10.5281/zenodo.6453070
title: Classification of tropical cyclone containing images using a convolutional neural network: performance and sensitivity to the learning dataset

description: NXTensor extraction library, experiment code, tropical cyclone and background images and their metadata generated from the meterological reanalysis ERA5 and MERRA-2 according to the HURDAT2 cyclone tracks. Version specifications: NXTensor: v0.3.3.10 Experiment code: v2.0.2 Image sets: v1
DOI: 10.48370/ofd/sazvlg/wlljb3
title: HMW_Rumex_maritimus_L._H_2077.jpg

description: :unav
DOI: 10.48370/ofd/sazvlg
title: Szczaw nadmorski (Rumex maritimus L.), 2077

description: Herbarium
DOI: 10.48370/ofd/udjefz/1mbhin
title: HMW_Salix_purpurea_L._H_6492.tif

description: :unav
DOI: 10.48370/ofd/udjefz
title: Wierzba purpurowa (Salix purpurea L.), 6492

description: Herbarium
DOI: 10.48370/ofd/qy7zol/cmf1mt
title: Betula pendula_korzenie z defoliacją 50 procent i zainfekowane Phytophthora cactorum - ekstrakt eterowy.pdf

description: :unav
DOI: 10.48370/ofd/qy7zol
title: Betula pendula_korzenie z defoliacją 50 procent i zainfekowane Phytophthora cactorum - ekstrakt eterowy

description: ekstrakt eterowy
DOI: 10.5281/zenodo.5155037
title: Performance of chemical structure string representations for chemical image recognition using transformers dataset

description: The datasets contain string representations used for DECIMER short communication paper. <strong>ChEMBL dataset:</strong> Train and test datasets downloaded from ChEMBL and curated. Contains data with and without stereochemistry. Separated as Canonical and Isomeric. String representations contain SMILES, DeepSMILES, SELFIES and InChIs. Train dataset: 1.5 Mio molecules Test dataset: ~100K molecules <strong>Pubchem dataset:</strong> Train and test datasets downloaded from PubChem and curated. Contains data with and without stereochemistry. Separated as Canonical and Isomeric. String representations contain SMILES, DeepSMILES and SELFIES. Train dataset: 3 Mio molecules Test dataset: 250K molecules
DOI: 10.5281/zenodo.5155036
title: Performance of chemical structure string representations for chemical image recognition using transformers dataset

description: The datasets contain string representations used for DECIMER short communication paper. <strong>ChEMBL dataset:</strong> Train and test datasets downloaded from ChEMBL and curated. Contains data with and without stereochemistry. Separated as Canonical and Isomeric. String representations contain SMILES, DeepSMILES, SELFIES and InChIs. Train dataset: 1.5 Mio molecules Test dataset: ~100K molecules <strong>Pubchem dataset:</strong> Train and test datasets downloaded from PubChem and curated. Contains data with and without stereochemistry. Separated as Canonical and Isomeric. String representations contain SMILES, DeepSMILES and SELFIES. Train dataset: 3 Mio molecules Test dataset: 250K molecules
DOI: 10.48370/ofd/zkg3lj/xzlrni
title: Zgrzytnica zawciągowa (Agapanthia intrmedia).JPG

description: :unav
DOI: 10.48370/ofd/zkg3lj
title: Zgrzytnica zawciągowa (Agapanthia intermedia (Ganglbauer, 1884)), C-213

description: Coleoptera collection
DOI: 10.25345/c5833n279
title: MassIVE MSV000089248 - Deciphering the tumor-specific immunopeptidome in vivo with genetically engineered mouse models
title: Effective immunosurveillance of cancer requires the presentation of peptide antigens on major histocompatibility complex Class I (MHC-I). Recent developments in proteomics have improved the identification of peptides that are naturally presented by MHC-I, collectively known as the immunopeptidome. Current approaches to profile tumor immunopeptidomes have been limited to in vitro investigation, which fails to capture the in vivo repertoire of MHC-I peptides, or bulk tumor lysates, which are obscured by the lack of cancer cell-specific MHC-I isolation. To overcome these limitations, we report here the engineering of a Cre recombinase-inducible affinity tag into the endogenous mouse MHC-I gene and targeting of this allele to the KrasLSL-G12D/+; p53fl/fl (KP) mouse model (KP/KbStrep). This novel approach has allowed us to precisely isolate MHC-I peptides from autochthonous pancreatic ductal adenocarcinoma (PDAC) and lung adenocarcinoma (LUAD) in vivo. With this powerful analytical tool, we were able to profile the evolution of the LUAD immunopeptidome from the alveolar type 2 cell-of-origin through late-stage disease. Differential peptide presentation in LUAD is not driven by increased mRNA expression or translation rate and is likely driven by post-translational mechanisms. Vaccination of mice with peptides presented by LUAD in vivo provoked CD8 T-cell responses in naive and tumor bearing mice. Many peptides unique to LUAD, including immunogenic peptides, exhibited very low expression of the cognate mRNA provoking reconsideration of antigen prediction pipelines that triage peptides according to transcript abundance. Beyond cancer, the KbStrep allele is compatible with a broad range of Cre-driver lines to explore antigen presentation in vivo in the pursuit of understanding basic immunology, infectious disease, and autoimmunity.
DOI: 10.48370/ofd/is6yff/v6vsmf
title: Betula pendula_korzenie z defoliacją 50 procent i zainfekowane Almillaria gallica oraz Phytophthora cactorum - ekstrakt eterowy.pdf

description: :unav
DOI: 10.48370/ofd/is6yff
title: Betula pendula_korzenie z defoliacją 50 procent i zainfekowane Almillaria gallica oraz Phytophthora cactorum - ekstrakt eterowy

description: ekstrakt eterowy
DOI: 10.6084/m9.figshare.19074509
title: Data of Research on Desktop Object Grasping Based on Ellipse Fitting

description: Data of Research on Desktop Object Grasping Based on Ellipse Fitting