cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.17632/srt2xpdt3f.2
title: Splicing modulators elicit global translational repression by condensate-prone proteins translated from introns

description: Chemical splicing modulators that bind to the spliceosome have provided an attractive avenue for cancer treatment. Splicing modulators induce accumulation and subsequent translation of a subset of intron-retained mRNAs. Yet, the biological effect of proteins containing translated intron sequences remains unclear. Here we identified a number of truncated proteins generated upon treatment with the splicing modulator spliceostatin A (SSA) using genome-wide ribosome profiling and bio-orthogonal non-canonical amino-acid tagging (BONCAT) mass spectrometry. A subset of these truncated proteins has intrinsically disordered regions, forms insoluble cellular condensates, and triggers the proteotoxic stress response through JNK phosphorylation, thereby inhibiting the mTORC1 pathway. In turn, this reduces global translation. These findings indicate that creating an overburden of condensate-prone proteins derived from introns represses translation and prevents further production of harmful truncated proteins. This mechanism appears to contribute to the antiproliferative and proapoptotic activity of splicing modulators.
DOI: 10.17632/z9s6nk6s99.1
title: Infra-low frequency neurofeedback in primary headache: a cross-over sham-controlled study

description: The dataset represents two studies on the efficacy of infra-low frequency neurofeedback in primary headache. The migraine study included 10 patients and the TTH study included 8 patients. The studies included 4 phases: (1) pre-intervention (at least 2 weeks in migraine and at least 3 weeks in the TTH study), (2) first intervention (neurofeedback or sham, 5 weeks), (3) second intervention (neurofeedback or sham, 5 weeks), (4) catamnesis (at least 3 weeks). The order of neurofeedback and sham phases was randomized. The neurofeedback phase included 10 sessions of infra-low frequency neurofeedback. In the TTH group, we made a 2-week brake between the end of second and the start of the third phases.
At enrollment, demographic and psychometric scales data were collected, as described in the migraine_demographic.csv and TTH demographic.csv files: MHDs - monthly headache days, STAI - Spielberger State-Trait Anxiety Inventory, BDI - Beck Depression Inventory, MMPI - Minnesota Multiphasic Personality Inventory, TAS - Toronto Alexithymia Scale 20.
During the study, the participants filled the headache diary – files migraine_diary.csv and TTH_diary.csv, including duration of pain (“pain_hours”) and its intensity (“pain_intensity”). Neurofeedback and sham neurofeedback sessions are indicated in the diary in the “nf_session” and “placebo_session” columns, with total count being accumulated in the “nf_to_date” and “placebo_to_date” columns. “Visits” corresponds to both real and sham neurofeedback sessions.
DOI: 10.17632/xn3y2yx9wj.1
title: RF-transpond: A 1D coupled cold plasma wave and plasma transport model for ponderomotive force driven density modification parallel to B_0

description: The RF-Transpond code couples a fluid plasma transport solver with a frequency domain cold plasma RF wave solver in a 1D domain parallel to a strong background magnetic field. A ponderomotive force term proportional to parallel gradients in the electric field strength is included in the transport model in order to describe ponderomotive effects in the scrape-off layer (SOL) of fusion plasmas. The transport and wave codes are verified independently and a coupled case corresponding to experimental parameters from the LArge Plasma Device (LAPD) is presented. The density perturbation ratio R_n, calculated to describe ponderomotive force driven modifications, is up to 20% for the simulation inputs used.
DOI: 10.17632/jyzk4gfytx.1
title: HADOKEN: An open-source software package for predicting electron confinement effects in various nanowire geometries and configurations

description: We present an open-source software package, HADOKEN (High-level Algorithms to Design, Optimize, and Keep Electrons in Nanowires), for predicting electron confinement/localization effects in nanowires with various geometries, arbitrary number of concentric shell layers, doping densities, and external boundary conditions. The HADOKEN code is written in the MATLAB programming environment to aid in its readability and general accessibility to both users and practitioners. We provide several examples and outputs on a variety of different nanowire geometries, boundary conditions, and doping densities to demonstrate the capabilities of the HADOKEN software package. As such, the use of this predictive and versatile tool by both experimentalists and theorists could lead to further advances in both understanding and tailoring electron confinement effects in these nanosystems.
DOI: 10.6084/m9.figshare.19229907
title: Correlates of Quality of Life among persons living with tuberculosis

description: This data set is on the Quality of Life of persons living with tuberculosis<br>
DOI: 10.25345/c5cv4bs8c
title: MassIVE MSV000088915 - IgA1 presents both clonal and structural (dis)similarities within single donors serum and milk
title: The most abundant immunoglobulin present in the human body is IgA1. It has the highest concentrations at the mucosal lining and in biofluids such as milk and is the second most abundant class of antibodies in serum. We assessed the structural diversity and clonal repertoire of IgA1 containing molecular assemblies longitudinally in human serum and milk from three donors using a mass spectrometry-based approach. IgA-containing molecules purified from serum or milk were assessed by the release and subsequent analysis of the Fab fragments. Our data revealed that serum IgA1 consists of two distinct structural populations, namely monomeric IgA1 (80%) and dimeric joining (J-) chain coupled IgA1 (20%). Our data also confirmed that IgA1 in milk is present as SIgA, consisting of two (50%), three (33%) or four (17%) IgA1 molecules assembled with a J-chain and pIgR. Interestingly, the IgA1-Fab repertoire was distinct between the monomeric and the dimeric IgA1. The serum dimeric J-chain-coupled IgA1 repertoire contained several abundant clones also observed in the milk IgA1 repertoire. The latter had little to no overlap with the serum monomeric IgA1 repertoire. This suggests that human IgA1s have two distinct origins; one that produces dimeric J-chain-coupled IgA1 molecules that in human serum and milk, and another that produces monomeric IgA1 ending up exclusively in serum.
DOI: 10.5281/zenodo.6260896
title: DATASET RELATED TO ARTICLE "A cross-sectional, prospective ocular motor study in 72 patients with Niemann-Pick disease type C"

description: data related to article at title
description: Study supported by Support of Actelion, Ltd, a Janssen company of Johnson & Johnsons
DOI: 10.5281/zenodo.6260895
title: DATASET RELATED TO ARTICLE "A cross-sectional, prospective ocular motor study in 72 patients with Niemann-Pick disease type C"

description: data related to article at title
description: Study supported by Support of Actelion, Ltd, a Janssen company of Johnson & Johnsons
DOI: 10.6084/m9.figshare.19230045
title: Data for "Artificial light at night has species-specific effects on oviposition behavior of mosquitoes"

description: In a field mesocosm experiment, we exposed artificial pools to light-emitting diode (LED) luminaires (3000K, ~13 lux) or ambient skyglow (control). We assayed the oviposition behavior of natural populations of mosquitoes by quantifying mosquito eggs (Culex and Ochlerotatus) oviposited in the experiment over seven days. Mosquitoes had species-specific responses to ALAN. Mean nightly Culex egg raft oviposition was greater in control pools (20.97 ± 2.85) than in ALAN pools (10.13 ± 1.58). We observed no response of Ochlerotatus, potentially reflecting the risk associated with the alternative oviposition of the two species (eggs rafts vs. skip oviposition). <br>
DOI: 10.6084/m9.figshare.19230045.v1
title: Data for "Artificial light at night has species-specific effects on oviposition behavior of mosquitoes"

description: In a field mesocosm experiment, we exposed artificial pools to light-emitting diode (LED) luminaires (3000K, ~13 lux) or ambient skyglow (control). We assayed the oviposition behavior of natural populations of mosquitoes by quantifying mosquito eggs (Culex and Ochlerotatus) oviposited in the experiment over seven days. Mosquitoes had species-specific responses to ALAN. Mean nightly Culex egg raft oviposition was greater in control pools (20.97 ± 2.85) than in ALAN pools (10.13 ± 1.58). We observed no response of Ochlerotatus, potentially reflecting the risk associated with the alternative oviposition of the two species (eggs rafts vs. skip oviposition). <br>
DOI: 10.5281/zenodo.6260753
title: Research Integrity Promotion Work

description: The aim of the research was to delve into the meaningfulness of such work as promotion of research integrity. The following research questions were formulated: 1) What aspects of the role of research integrity promoter are meaningful? Why? 2) To what changes does research integrity promotion as meaningful work lead? To answer these research questions, a qualitative research approach was employed using individual semi-structured interviews for data collection. The population of interest were national research integrity promoters: national ombudspersons for research integrity (coded as OMB), representatives for research integrity/misconduct from research funding organizations (RFO) and representatives from national research integrity networks (RIN) in European countries. Purposive sampling method was used to select informants. To identify potential informants, we used website of European Network of Research Integrity Offices (http://www.enrio.eu/) and official websites of target organizations; in addition, snowball method was used to identify potential informants who corresponded to sampling criteria but were not part of the ENRIO membership. At the first stage, 32 potential informants were identified; due to missing contact information or irrelevance of activities as defined in sampling criteria, only 21 informants were invited to participate in the research. Overall, 10 national research integrity promoters (7 females and 3 males; all hold PhD degree and were or currently are part of academia) consented to take part in the research: 5 national ombudspersons for research integrity, 3 representatives for research integrity/misconduct from research funding organizations and 2 representatives from national research integrity networks. Semi-structured questionnaire (interview guide) consisting of five key topics (self-identity, goals, impediments to meaning, enablers to meaning, rewards for meaning-making) and the closing section was used. Interviews were conducted remotely. The interview language was English. Each interview was audio-recorded, transcribed, and anonymized. Average length of interview was 53 minutes; average non-anonymized interview transcript contained 6851 words. Each transcript was validated by two researchers for data accuracy and clarification of inaudible responses; anonymization of each transcript was validated by two researchers and a respective informant. Due to uniqueness of the national status of informants, two informants asked to change their initial consent to disclose anonymized transcript (i.e., they agreed on the use of their interview transcripts for data analysis but not on granting open access to them). The research is published as Tauginienė, L., Gaižauskaitė, I. (2022). Jumping with a Parachute – Is Promoting Research Integrity Meaningful? <em>Accountability in Research: Policies and Quality Assurance</em>. https://doi.org/10.1080/08989621.2022.2044318
DOI: 10.5281/zenodo.6260752
title: Research Integrity Promotion Work

description: The aim of the research was to delve into the meaningfulness of such work as promotion of research integrity. The following research questions were formulated: 1) What aspects of the role of research integrity promoter are meaningful? Why? 2) To what changes does research integrity promotion as meaningful work lead? To answer these research questions, a qualitative research approach was employed using individual semi-structured interviews for data collection. The population of interest were national research integrity promoters: national ombudspersons for research integrity (coded as OMB), representatives for research integrity/misconduct from research funding organizations (RFO) and representatives from national research integrity networks (RIN) in European countries. Purposive sampling method was used to select informants. To identify potential informants, we used website of European Network of Research Integrity Offices (http://www.enrio.eu/) and official websites of target organizations; in addition, snowball method was used to identify potential informants who corresponded to sampling criteria but were not part of the ENRIO membership. At the first stage, 32 potential informants were identified; due to missing contact information or irrelevance of activities as defined in sampling criteria, only 21 informants were invited to participate in the research. Overall, 10 national research integrity promoters (7 females and 3 males; all hold PhD degree and were or currently are part of academia) consented to take part in the research: 5 national ombudspersons for research integrity, 3 representatives for research integrity/misconduct from research funding organizations and 2 representatives from national research integrity networks. Semi-structured questionnaire (interview guide) consisting of five key topics (self-identity, goals, impediments to meaning, enablers to meaning, rewards for meaning-making) and the closing section was used. Interviews were conducted remotely. The interview language was English. Each interview was audio-recorded, transcribed, and anonymized. Average length of interview was 53 minutes; average non-anonymized interview transcript contained 6851 words. Each transcript was validated by two researchers for data accuracy and clarification of inaudible responses; anonymization of each transcript was validated by two researchers and a respective informant. Due to uniqueness of the national status of informants, two informants asked to change their initial consent to disclose anonymized transcript (i.e., they agreed on the use of their interview transcripts for data analysis but not on granting open access to them). The research is published as Tauginienė, L., Gaižauskaitė, I. (2022). Jumping with a Parachute – Is Promoting Research Integrity Meaningful? <em>Accountability in Research: Policies and Quality Assurance</em>. https://doi.org/10.1080/08989621.2022.2044318
DOI: 10.5519/qd.nifsewnm
title: Query on the Natural History Museum Data Portal (data.nhm.ac.uk) (125 records)
DOI: 10.5281/zenodo.4636358
title: Raw Data for the article: Transcatheter Aortic Valve Replacement with Self-Expandable ACURATE neo as Compared to Balloon-Expandable SAPIEN 3 in Patients with Severe Aortic Stenosis: Meta-Analysis of Randomized and Propensity-Matched Studies

description: Frequent occurrence of paravalvular leak (PVL) after transcatheter aortic valve replacement (TAVR) was the main concern with earlier-generation devices. Current meta-analysis compared outcomes of TAVR with next-generation devices: ACURATE neo and SAPIEN 3. In random-effects meta-analysis, the pooled incidence rates of procedural, clinical and functional outcomes according to VARC-2 definitions were assessed. One randomized controlled trial and five observational studies including 2818 patients (ACURATE neo <em>n</em> = 1256 vs. SAPIEN 3 <em>n</em> = 1562) met inclusion criteria. ACURATE neo was associated with a 3.7-fold increase of moderate-to-severe PVL (RR (risk ratio): 3.70 (2.04-6.70); <em>P</em> &lt; 0.0001), which was indirectly related to higher observed 30-day mortality with ACURATE valve (RR: 1.77 (1.03-3.04); <em>P</em> = 0.04). Major vascular complications, acute kidney injury, periprocedural myocardial infarction, stroke and serious bleeding events were similar between devices. ACURATE neo demonstrated lower transvalvular pressure gradients both at discharge (<em>P</em> &lt; 0.00001) and at 30 days (<em>P</em> &lt; 0.00001), along with lower risk of patient-prosthesis mismatch (RR: 0.29 (0.10-0.87); <em>P</em> = 0.03) and pacemaker implantation (RR: 0.64 (0.50-0.81); <em>P</em> = 0.0002), but no differences were observed regarding composite endpoints early safety and device success. In conclusion, ACURATE neo, as compared with SAPIEN 3, was associated with higher rates of moderate-to-severe PVL, which were indirectly linked with increased observed 30-day all-cause mortality.
DOI: 10.5281/zenodo.4636357
title: Raw Data for the article: Transcatheter Aortic Valve Replacement with Self-Expandable ACURATE neo as Compared to Balloon-Expandable SAPIEN 3 in Patients with Severe Aortic Stenosis: Meta-Analysis of Randomized and Propensity-Matched Studies

description: Frequent occurrence of paravalvular leak (PVL) after transcatheter aortic valve replacement (TAVR) was the main concern with earlier-generation devices. Current meta-analysis compared outcomes of TAVR with next-generation devices: ACURATE neo and SAPIEN 3. In random-effects meta-analysis, the pooled incidence rates of procedural, clinical and functional outcomes according to VARC-2 definitions were assessed. One randomized controlled trial and five observational studies including 2818 patients (ACURATE neo <em>n</em> = 1256 vs. SAPIEN 3 <em>n</em> = 1562) met inclusion criteria. ACURATE neo was associated with a 3.7-fold increase of moderate-to-severe PVL (RR (risk ratio): 3.70 (2.04-6.70); <em>P</em> &lt; 0.0001), which was indirectly related to higher observed 30-day mortality with ACURATE valve (RR: 1.77 (1.03-3.04); <em>P</em> = 0.04). Major vascular complications, acute kidney injury, periprocedural myocardial infarction, stroke and serious bleeding events were similar between devices. ACURATE neo demonstrated lower transvalvular pressure gradients both at discharge (<em>P</em> &lt; 0.00001) and at 30 days (<em>P</em> &lt; 0.00001), along with lower risk of patient-prosthesis mismatch (RR: 0.29 (0.10-0.87); <em>P</em> = 0.03) and pacemaker implantation (RR: 0.64 (0.50-0.81); <em>P</em> = 0.0002), but no differences were observed regarding composite endpoints early safety and device success. In conclusion, ACURATE neo, as compared with SAPIEN 3, was associated with higher rates of moderate-to-severe PVL, which were indirectly linked with increased observed 30-day all-cause mortality.
DOI: 10.6084/m9.figshare.19230021
title: Table S1 Morphological data of Patagifer bilobus.xlsx

description: Morphological data of each specimen from Patagifer bilobus associated to Educimus albus and Plegadis chihi collected from Mexico.
DOI: 10.6084/m9.figshare.19230021.v1
title: Table S1 Morphological data of Patagifer bilobus.xlsx

description: Morphological data of each specimen from Patagifer bilobus associated to Educimus albus and Plegadis chihi collected from Mexico.
DOI: 10.5281/zenodo.4639594
title: Raw Data for the article: The safety and efficacy of a new 20-mm lumen apposing metal stent (lams) for the endoscopic treatment of pancreatic and peripancreatic fluid collections: a large international, multicenter study

description: <strong>Background: </strong>Lumen apposing metal stent (LAMS) allows an easy access to peripancreatic fluid collections (PPFCs) and the possibility of performing direct endoscopic necrosectomy (DEN). The aim of our study was to evaluate the safety and efficacy of a new 20-mm LAMS in the management of PPFCs. This novel stent represents the largest diameter LAMS available on the market to date. <strong>Methods: </strong>This is an international, multicenter retrospective study involving 20 centers. Consecutive patients who underwent EUS-guided PPFC drainage using a 20-mm LAMS were included. Primary outcomes were technical and clinical success. Secondary outcomes were rate and the severity of adverse events. <strong>Results: </strong>A total 105 patients underwent PPFC drainage using the new 20-mm LAMS and 106 LAMS were placed. Technical success was 100% (106/106). 7/105 patients died due to causes not related to the stent. Clinical success was achieved in 92/98 patients (93.9%). Significant adverse events occurred in 8/98 patients (8.16%): 4 cases (4.08%) of bleeding, 3 cases (3.06%) of suprainfection, 1 case of gastric outlet obstruction. <strong>Conclusions: </strong>This multicenter study demonstrated acceptable rates of technical and clinical success using a new 20-mm LAMS for PPFC, including walled-off pancreatic necrosis (WOPN). The results of our study suggest that a new 20-mm LAMS is non-inferior in terms of safety, efficacy, and adverse events as compared to smaller diameter LAMS in the management of PPFCs, including pancreatic psuedocysts (PP) and WOPN. Randomized controlled studies will be needed to determine the ideal size of LAMS need to achieve the greatest clinical benefit with the minimized risk exposure for this high-risk patient population.
DOI: 10.5281/zenodo.4639593
title: Raw Data for the article: The safety and efficacy of a new 20-mm lumen apposing metal stent (lams) for the endoscopic treatment of pancreatic and peripancreatic fluid collections: a large international, multicenter study

description: <strong>Background: </strong>Lumen apposing metal stent (LAMS) allows an easy access to peripancreatic fluid collections (PPFCs) and the possibility of performing direct endoscopic necrosectomy (DEN). The aim of our study was to evaluate the safety and efficacy of a new 20-mm LAMS in the management of PPFCs. This novel stent represents the largest diameter LAMS available on the market to date. <strong>Methods: </strong>This is an international, multicenter retrospective study involving 20 centers. Consecutive patients who underwent EUS-guided PPFC drainage using a 20-mm LAMS were included. Primary outcomes were technical and clinical success. Secondary outcomes were rate and the severity of adverse events. <strong>Results: </strong>A total 105 patients underwent PPFC drainage using the new 20-mm LAMS and 106 LAMS were placed. Technical success was 100% (106/106). 7/105 patients died due to causes not related to the stent. Clinical success was achieved in 92/98 patients (93.9%). Significant adverse events occurred in 8/98 patients (8.16%): 4 cases (4.08%) of bleeding, 3 cases (3.06%) of suprainfection, 1 case of gastric outlet obstruction. <strong>Conclusions: </strong>This multicenter study demonstrated acceptable rates of technical and clinical success using a new 20-mm LAMS for PPFC, including walled-off pancreatic necrosis (WOPN). The results of our study suggest that a new 20-mm LAMS is non-inferior in terms of safety, efficacy, and adverse events as compared to smaller diameter LAMS in the management of PPFCs, including pancreatic psuedocysts (PP) and WOPN. Randomized controlled studies will be needed to determine the ideal size of LAMS need to achieve the greatest clinical benefit with the minimized risk exposure for this high-risk patient population.