cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.16736722
title: Supplementary Material for: Post hoc Analysis of Clinical Outcomes in Placebo- and Pirfenidone-Treated Patients with IPF Stratified by BMI and Weight Loss

description: <b><i>Background:</i></b> Weight loss is frequently reported in patients with idiopathic pulmonary fibrosis (IPF) and may be associated with worse outcomes in these patients. <b><i>Objective:</i></b> The aim of this study was to investigate the relationships between body mass index (BMI) and weight loss, and outcomes over 1 year in patients with IPF. <b><i>Methods:</i></b> Data were included from placebo patients enrolled in ASCEND (NCT01366209) and CAPACITY (NCT00287716 and NCT00287729), and all patients in INSPIRE (NCT00075998) and RIFF Cohort A (NCT01872689). An additional analysis included data from pirfenidone-treated patients. Outcomes (annualized change in percent predicted forced vital capacity [%FVC], percent predicted carbon monoxide diffusing capacity, 6-min walk distance, St. George’s Respiratory Questionnaire total score, hospitalization, mortality, and serious adverse events) were analyzed by baseline BMI (&lt;25 kg/m<sup>2</sup>, 25 kg/m<sup>2</sup>–&lt;30 kg/m<sup>2</sup>, or ≥30 kg/m<sup>2</sup>) and annualized percent change in body weight (no loss, &gt;0–&lt;5% loss, or ≥5% loss). <b><i>Results:</i></b> Placebo-treated patients with a baseline BMI &lt;25 kg/m<sup>2</sup> or annualized weight loss may experience worse outcomes versus those with a baseline BMI ≥25 kg/m<sup>2</sup> or no weight loss. The proportion of placebo-treated patients who experienced a relative decline of ≥10% in %FVC or death up to 1 year post-randomization was highest in patients with a baseline BMI &lt;25 kg/m<sup>2</sup>. Pirfenidone-treated patients with an annualized weight loss ≥5% may also experience worse outcomes versus those with no weight loss. <b><i>Conclusions:</i></b> Patients with a baseline BMI &lt;25 kg/m<sup>2</sup> or annualized weight loss of &gt;0–&lt;5% or ≥5% may experience worse outcomes over 1 year versus those with a baseline BMI ≥25 kg/m<sup>2</sup> or no weight loss.
DOI: 10.6084/m9.figshare.16736722.v1
title: Supplementary Material for: Post hoc Analysis of Clinical Outcomes in Placebo- and Pirfenidone-Treated Patients with IPF Stratified by BMI and Weight Loss

description: <b><i>Background:</i></b> Weight loss is frequently reported in patients with idiopathic pulmonary fibrosis (IPF) and may be associated with worse outcomes in these patients. <b><i>Objective:</i></b> The aim of this study was to investigate the relationships between body mass index (BMI) and weight loss, and outcomes over 1 year in patients with IPF. <b><i>Methods:</i></b> Data were included from placebo patients enrolled in ASCEND (NCT01366209) and CAPACITY (NCT00287716 and NCT00287729), and all patients in INSPIRE (NCT00075998) and RIFF Cohort A (NCT01872689). An additional analysis included data from pirfenidone-treated patients. Outcomes (annualized change in percent predicted forced vital capacity [%FVC], percent predicted carbon monoxide diffusing capacity, 6-min walk distance, St. George’s Respiratory Questionnaire total score, hospitalization, mortality, and serious adverse events) were analyzed by baseline BMI (&lt;25 kg/m<sup>2</sup>, 25 kg/m<sup>2</sup>–&lt;30 kg/m<sup>2</sup>, or ≥30 kg/m<sup>2</sup>) and annualized percent change in body weight (no loss, &gt;0–&lt;5% loss, or ≥5% loss). <b><i>Results:</i></b> Placebo-treated patients with a baseline BMI &lt;25 kg/m<sup>2</sup> or annualized weight loss may experience worse outcomes versus those with a baseline BMI ≥25 kg/m<sup>2</sup> or no weight loss. The proportion of placebo-treated patients who experienced a relative decline of ≥10% in %FVC or death up to 1 year post-randomization was highest in patients with a baseline BMI &lt;25 kg/m<sup>2</sup>. Pirfenidone-treated patients with an annualized weight loss ≥5% may also experience worse outcomes versus those with no weight loss. <b><i>Conclusions:</i></b> Patients with a baseline BMI &lt;25 kg/m<sup>2</sup> or annualized weight loss of &gt;0–&lt;5% or ≥5% may experience worse outcomes over 1 year versus those with a baseline BMI ≥25 kg/m<sup>2</sup> or no weight loss.
DOI: 10.5517/ccdc.csd.cc27rfk0
title: CCDC 2078102: Experimental Crystal Structure Determination

description: Related Article: Andreas T. Kell, Naim M. Obeid, Prasenjit Bag, Michael Zimmer, Volker Huch, David Scheschkewitz|2021|Z.Anorg.Allg.Chem.|647|1751|doi:10.1002/zaac.202100137
DOI: 10.5517/ccdc.csd.cc27rfl1
title: CCDC 2078103: Experimental Crystal Structure Determination

description: Related Article: Andreas T. Kell, Naim M. Obeid, Prasenjit Bag, Michael Zimmer, Volker Huch, David Scheschkewitz|2021|Z.Anorg.Allg.Chem.|647|1751|doi:10.1002/zaac.202100137
DOI: 10.5517/ccdc.csd.cc27rfm2
title: CCDC 2078104: Experimental Crystal Structure Determination

description: Related Article: Andreas T. Kell, Naim M. Obeid, Prasenjit Bag, Michael Zimmer, Volker Huch, David Scheschkewitz|2021|Z.Anorg.Allg.Chem.|647|1751|doi:10.1002/zaac.202100137
DOI: 10.5517/ccdc.csd.cc27rfn3
title: CCDC 2078105: Experimental Crystal Structure Determination

description: Related Article: Andreas T. Kell, Naim M. Obeid, Prasenjit Bag, Michael Zimmer, Volker Huch, David Scheschkewitz|2021|Z.Anorg.Allg.Chem.|647|1751|doi:10.1002/zaac.202100137
DOI: 10.5517/ccdc.csd.cc27rfp4
title: CCDC 2078106: Experimental Crystal Structure Determination

description: Related Article: Andreas T. Kell, Naim M. Obeid, Prasenjit Bag, Michael Zimmer, Volker Huch, David Scheschkewitz|2021|Z.Anorg.Allg.Chem.|647|1751|doi:10.1002/zaac.202100137
DOI: 10.5517/ccdc.csd.cc27rfq5
title: CCDC 2078107: Experimental Crystal Structure Determination

description: Related Article: Andreas T. Kell, Naim M. Obeid, Prasenjit Bag, Michael Zimmer, Volker Huch, David Scheschkewitz|2021|Z.Anorg.Allg.Chem.|647|1751|doi:10.1002/zaac.202100137
DOI: 10.5517/ccdc.csd.cc28312j
title: CCDC 2088286: Experimental Crystal Structure Determination

description: Related Article: Alexander Barham, Justin Neu, Cathleen L. Canter, Robert D. Pike, Yumin Li, Shouquan Huo|2021|Organometallics|40|3158|doi:10.1021/acs.organomet.1c00377
DOI: 10.5517/ccdc.csd.cc28314l
title: CCDC 2088288: Experimental Crystal Structure Determination

description: Related Article: Alexander Barham, Justin Neu, Cathleen L. Canter, Robert D. Pike, Yumin Li, Shouquan Huo|2021|Organometallics|40|3158|doi:10.1021/acs.organomet.1c00377
DOI: 10.5517/ccdc.csd.cc28315m
title: CCDC 2088289: Experimental Crystal Structure Determination

description: Related Article: Alexander Barham, Justin Neu, Cathleen L. Canter, Robert D. Pike, Yumin Li, Shouquan Huo|2021|Organometallics|40|3158|doi:10.1021/acs.organomet.1c00377
DOI: 10.5517/ccdc.csd.cc2871yj
title: CCDC 2092157: Experimental Crystal Structure Determination

description: Related Article: Kevin Lindenau, Edgar Zander, Claas Schünemann, Anke Spannenberg, Maxim V. Andreev, Vladimir V. Burlakov, Fabian Reiß, Torsten Beweries|2021|Organometallics|40|3177|doi:10.1021/acs.organomet.1c00385
DOI: 10.5517/ccdc.csd.cc2871zk
title: CCDC 2092158: Experimental Crystal Structure Determination

description: Related Article: Kevin Lindenau, Edgar Zander, Claas Schünemann, Anke Spannenberg, Maxim V. Andreev, Vladimir V. Burlakov, Fabian Reiß, Torsten Beweries|2021|Organometallics|40|3177|doi:10.1021/acs.organomet.1c00385
DOI: 10.5517/ccdc.csd.cc28720m
title: CCDC 2092159: Experimental Crystal Structure Determination

description: Related Article: Kevin Lindenau, Edgar Zander, Claas Schünemann, Anke Spannenberg, Maxim V. Andreev, Vladimir V. Burlakov, Fabian Reiß, Torsten Beweries|2021|Organometallics|40|3177|doi:10.1021/acs.organomet.1c00385
DOI: 10.5517/ccdc.csd.cc28721n
title: CCDC 2092160: Experimental Crystal Structure Determination

description: Related Article: Kevin Lindenau, Edgar Zander, Claas Schünemann, Anke Spannenberg, Maxim V. Andreev, Vladimir V. Burlakov, Fabian Reiß, Torsten Beweries|2021|Organometallics|40|3177|doi:10.1021/acs.organomet.1c00385
DOI: 10.17632/8pj73cy7vx.1
title: Towards determining the number of observable supermassive black hole shadows: data files

description: This repository contains (1) a library of synthetic spectral energy distributions (SEDs) for low-luminosity active galactic nuclei (LLAGN), and (2) several tables of black hole shadow source counts as a function of angular resolution, flux density sensitivity, and observing frequency.  All of these files have been generated as part of the analysis carried out in Pesce et al. (2021).

(1) The SED library has been generated using the advection-dominated accretion flow (ADAF) model described in Appendix A of Pesce et al. (2021).  The model SEDs sample the space of black hole mass and mass accretion rate, ranging between 10^5 and 10^11 solar masses in black hole mass and between 10^-10 and 10^-2 times the Eddington rate in mass accretion rate.  The models are organized such that the upper directory provides the logarithmic mass and the file name provides the logarithmic Eddington rate.  For example, an SED for a black hole with a mass of 10^9 solar masses and an accretion rate of 10^-5 times Eddington would be located at:

./SED_library/logm=9.0/logmdot=-5.0.txt

Each table contains two columns, the first listing the frequency (in log Hz, spanning 10^8 to 10^22 Hz) and the second listing the luminosity density (in log erg/s/Hz).  Each table also contains header information describing the global parameters: mass (in log solar masses), log accretion rate, peak synchrotron frequency (in log Hz), and electron temperature (in log K).

(2) The shadow source counts tables are split into two categories: the "population" source counts have been computed as described in Section 2 of Pesce et al. (2021), and the "interferometric" source counts have been computed as described in Section 3 of Pesce et al. (2021).  The tables are organized by type and by observing frequency.  For example, the tables containing the interferometric source counts for a 230 GHz observing frequency would be located at:

./source_counts/interferometric_source_counts_230GHz.txt

The population tables contain three columns: the first column contains the angular resolution (in log microarcseconds), the second column contains the flux density threshold (in log Jy), the third column contains the optically thin logarithmic source counts.  The interferometric tables contain five columns: the first column contains the angular resolution (in log microarcseconds), the second column contains the flux density threshold (in log Jy), the third column contains the logarithmic source counts for seeing photon rings with n >= 0, the fourth column contains the logarithmic source counts for seeing photon rings with n >= 1, and the fifth column contains the logarithmic source counts for seeing photon rings with n >= 2.
DOI: 10.17632/hbfczvng3w.2
title: Transcriptomic analysis of the major orphan ichthyosis subtypes reveals shared immune and barrier signatures 

description: Background: Preliminary work suggested upregulation of inflammatory pathways in patients with common forms of ichthyosis. However, a comprehensive characterization of skin from various ichthyosis subtypes is unavailable, precluding development of targeted treatments.
Objective:  To characterize the immune and barrier profiles of common and subtype-specific skin transcriptomes in a large group of ichthyosis patients.
Methods: We performed the first global RNA-seq analysis in 54 ichthyosis patients (7 Netherton syndrome/NS, 13 epidermolytic ichthyosis/EI, 16 lamellar ichthyosis/LI, 18 congenital ichthyosiform erythroderma/CIE) and 40 healthy controls using RNA-seq. Differentially expressed genes (DEGs) were defined based on fold changes/FCH>2 and false discovery rate/FDR<0.05 criteria. 
Results: We found robust and significant Th22/Th17 skewing in all subtypes (e.g. IL-17A/C/F, S100A7/8/9/12; p<0.001) with modest changes in Th2 pathway, primarily in NS. Across all subtypes (less evident in EI), lipid metabolism and barrier junction markers were downregulated (e.g. FA2H, CDH10/11/12/2; p<0.05), whereas epidermal cornification and proliferation measures were upregulated (e.g. SPRR1A/1B/2C/2G, EREG; p<0.05).
Limitations: Although the largest ichthyosis cohort to date, sample size by subtype is still limited due to rarity.
Conclusion: Our findings suggest that the common ichthyosis variants share aberrations in Th17/Th22, and barrier function, with minimal Th2 modulation. This may help elucidate the pathogeneses of these subtypes and inform the development of subtype-specific treatments.
DOI: 10.17632/p4dbr5kv9g.2
title: C. elegans wild strains SV

description: Structural variants dataset for 772 wild strains of Caenorhabditis elegans in vcf format.
DOI: 10.17632/d37kcsp8jg.1
title: Gender-based violence: Statistical data for four Colombian municipalities

description: This set of files contains the database of the survey of gender-based violence for four municipalities in Colombia (Cali, Buenaventura, Yumbo, and Jamundí) in two formats: .dta and .csv. The base questionnaire on which the digital questionnaire was built, the dictionary of variables are also included, and biosecurity and ethics protocol.
DOI: 10.17632/zgvsr65ngv.3
title: Hedonic use, gender and perceived stress predict the risk of smartphone addiction

description: Online, cross-sectional study with 410 participants showing through structural equation modeling that hedonic use, gender, and perceived stress predict the risk of smartphone addiction.
DOI: 10.15468/5v5cgp
title: Contribution to the Glolarnaca Gorochov, 2008 (Orthoptera: Gryllacrididae: Hyperbaeninae) from China

description: This dataset contains the digitized treatments in Plazi based on the original journal article Yang, Zizhon, Lu, Xiangyi, Bian, Xun (2021): Contribution to the Glolarnaca Gorochov, 2008 (Orthoptera: Gryllacrididae: Hyperbaeninae) from China. Zootaxa 5048 (1): 127-134, DOI: https://doi.org/10.11646/zootaxa.5048.1.7
DOI: 10.17632/6g4zsncw42.1
title: Data for Durability for Cement Concrete Pavement and Flexible Pavement in Expansive Soil Region

description: In India more than 70% of the population lives in villages and their main source of livelihood is agriculture. Because of stringent environmental rules industries are now shifting towards villages. Both of these activities require a better means of communication which can be provided by good conditioned roads. Earlier village roads had low volume of traffic, consisting mostly of rural transport vehicles, like agricultural tractors/trailers, light goods vehicles, buses, animal drawn vehicles, motorized two-wheelers and cycles. Some of the rural roads used to have light and medium trucks carrying sugarcane, timber, quarry materials, etc. Kumar et al. (1998) presented a case study of Jaipur district of India regarding rural travel characteristics and highlighted the importance of the contribution of the access roads in rural development. As of now flexible pavements are preferred for village connectivity because of the type of traffic and low initial cost of construction. But due to high cost of maintenance, sensitivity to water logging and lack of institutional set up for the maintenance, village roads deteriorate very fast especially in Expansive soil regions. Every year their several kilometers are washed away by floods and water logging. Moreover, the nature of traffic is also changing due to industrial growth in the nearby areas. Rigid pavement is an alternative to flexible pavement where the soil strength is poor, aggregate are costly and the drainage conditions are bad (as in portions of the roads passing through villages and water logged areas). However, they demand a high degree of professional expertise at the design stage, construction and maintenance besides high initial cost. The guidelines have been developed by Indian Road Congress (IRC) for the design and construction of cement concrete pavements for village roads in year 2014, named as IRC: SP: 62 – 2014 However cement Concrete Pavements are also not a sustainable option in expansive soil Thus, the policy makers, planners and engineers are bound to think about a more suitable alternative pavement for rural roads in expansive soil.
DOI: 10.17632/kcsm2xtz93.1
title: Data for the Study of Thickness for Rigid Pavement in Village Road of Expansive Soil Region

description: Due to the Submergence/during rainy session, CC Pavements which are constructed on the expansive soils sub grades are getting damaged due to the sub-grade soils are expansive nature. During the submerged condition/at the time of cyclones, Swell pressure develops in the sub-grade expansive soils, If this Swell pressure is more than the combined surcharge weight of Sub base and CC Pavement, uplift takes place. The swell pressure varies from 0 -2000 kN/m2 (for Bentonite) under the surcharge of 6.9 kN/m2 The surcharge weight of Granular sub base is 3.0 kN/m2 and CC Pavement is 4.80 kN/m2 resulting total surcharge weight is 7.80 kN/m2 over the sub grade. Due to confined edges of both Sub base and CC Pavement with the shoulder soils, the net uplift due to Swell pressure will be more in the middle of the pavement when compared at the edges. The rate of wetting and drying of the expansive sub grade soils always starts at edges to middle of the pavement. This leads the difference in the swell pressure more in the middle than the edges. Due to the high swell pressure at the centre of the pavement and early drying of the expansive sub grade soils at the edge of the road, longitudinal cracks will be formed almost in the middle of the road. When the expansive soil dries, due to the shrinkage in the sub grade, the pavement tries to settle down. Among both CC Pavement and Sub base, the sub-base over the sub grade will settle first leaving gaps in between CC Pavement and Sub base. At this stage, during the traffic flow, transverse cracks I crocodile cracks occurs. Also, after the formation of longitudinal cracks, the length to breadth ration of CC pavement panel will be double and influence the design of CC Pavement. The failure in the CC Pavement is due rigid and also weak in tension. Based on above observations from literature and field survey it is clear that existing design are not adequate for expansive soil hence an attempt will made to design rigid pavement for village road in expansive soil with modifications in some of existing provisions.
DOI: 10.17632/5wshj5y97n.1
title: DATA FOR FLOOD FREQUENCY ANALYSIS OF BHAKRA NANGAL DAM SITE BY STATISTICAL AND MATHEMATICAL COMPUTATION METHOD USING DISCHARGE DATA

description: A flood frequency analysis is a notable idea which helps in avoiding the casualties occurred during flood. It aids in finding out the frequencies of flood, is to come over specific area. In this research, statistical approach is used for three mathematical computing methods as Gumbel’s method, Log-Pearson method and Log-Normal method to find the frequency of floods at Sutlej River of Bhakra Nangal Dam site. These methods are compared and lowest value of D-index by Gumbel’s is considered as the most appropriate for flood analysis. Mathematical computation is done to predict the discharge of river Sutlej with their corresponding return period in which various distributions is done to estimate the statistical parameter such as mean standard deviation coefficient of variance, coefficient of skewness. As per CWC report, discharge data for the Sutlej River from 1954 to 2018 is used for flood frequency analysis, and also to estimate flood magnitude for different return periods for gauged catchment of the basin is 75369 km2, and the risk assessment calculated for 1000 years return period.
DOI: 10.17632/dfyfxk2mvf.1
title: Dataset for Autonomous Rail Transit Usage Intention in a Malaysian city

description: This dataset is comprised of 360 samples of data for Service Quality (SQ), Satisfaction (SAT), Attitude (ATT) and Behavioural Intention (BI) related to the intention to commute using  Autonomous Rail Transit in Malaysia. Socioeconomic data including gender, age, ethnic, level of education, occupation status, and monthly income.
DOI: 10.17632/b97d5nrb72.1
title: Mechanistic Insights into COVID-19 by Global Analysis of the SARS-CoV-2 3CLpro Substrate Degradome. Pablos et al.

description: This data comprises all the supplementary tables from the paper published in Cell Reports titled: "Mechanistic Insights into COVID-19 by Global Analysis of the SARS-CoV-2 3CLpro Substrate Degradome",  by Isabel Pablos, I., Machado, Y., Ramos de Jesus, H.C., Mohamud, Y., Kappelhoff, R., Lindskog, C., Vlok, M., Bell, P.A., Butler, G.S., Grin, P.M., Cao, Q.T., Nguyen, J.P., Solis, N., Abbina, S., Rut, W., Vederas, J.C., Szekely, L., Szakos, A., Drag, M., Kizhakkedathu, J.N., Mossman, K., Hirota, J.A., Jan, E., Luo, H., Banerjee, A., Overall, C.M.

Each table contains a legend and a brief experimental explanation of the proteomics and bioinformatics methods used to generate the data published in the Cell Reports paper.

In this paper, Pablos et al delineate the human protein substrate landscape of SARS-CoV-2 main protease, 3CLpro, by TAILS substrate-targeted N-terminomics. We identify >100 substrates in human lung and kidney cells supported by analyses of SARS-CoV-2-infected cells. Enzyme kinetics and molecular docking simulations of 3CLpro engaging substrates reveal how noncanonical cleavage sites, which diverge from SARS-CoV, guide substrate specificity. Cleaving the interactors of essential effector proteins, effectively stranding them from their binding partners, amplifies the consequences of proteolysis. We show that 3CLpro targets the Hippo pathway, including inactivation of MAP4K5, and key effectors of transcription, mRNA processing, and translation. We demonstrate that Spike glycoprotein directly binds galectin-8, with galectin-8 cleavage disengaging CALCOCO2/NDP52 to decouple antiviral autophagy. Indeed, in post-mortem COVID-19 lung samples, NDP52 rarely colocalizes with galectin-8, unlike healthy lung cells. The 3CLpro substrate degradome establishes a foundational substrate atlas to accelerate exploration of SARS-CoV-2 pathology and drug design.

TAILS and MS/MS
To induce interferon-stimulated gene proteins that may be 3CLpro substrates, HEK-293 and BEAS-2B cells were cultured in DMEM/F12 with 10% (v/v) FBS. BEAS-2B cells were treated with 10,000 U/ml carrier-free IFN-α2a or IFN-β1a or medium (control) for 18 h. Cells were harvested, and lysates were prepared under native conditions taking the necessary steps to reduce any cellular proteolytic activity. All steps were performed on ice. Protease inhibitor cocktail and 5 mM N-ethylmaleimide were added to the cell pellet in hypotonic lysis buffer and cells then pushed through a 27-gauge needle for 10 cycles and rested on ice for 1 h with agitations every 10 min. Cell lysates were flash-frozen in liquid N2 and stored at –80°C.

3CLpro or inactive 3CLpro-C145A (control) at 2.5 µM were incubated with 500 µg native cell protein, 37°C for 18 h (see paper: Figure 1A, panel a). The incubated samples were then analyzed by Terminal Amine Isotopic Labeling of Substrates (TAILS) and preTAILS shotgun proteomics (see paper: Figure 1 and Methods) using a modified protocol from (Kleifeld et al., 2011).
DOI: 10.17632/h7ms78tm83.1
title: Utilization of Online Platforms for Research Dissemination Questionnaire (UOPRDQ)

description: This survey has been designed to obtain information pertaining to academic staff utilisation of electronic platforms for the dissemination of research conducted in higher education. This survey is bounded geographically to cover the entire Africa, with a specific focus on lecturers in tertiary institutions. The survey would take less than 8 minutes to complete, please be honest in providing responses. All respondents’ personal information shall be treated aggregately and confidentially in realising the core and specific objectives of the study.