cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.21701024
title: Supplementary Material for: B-Cell Acute Lymphoblastic Leukemia with iAMP21 in a Patient with Constitutional Ring Chromosome 21

description: Pediatric B-cell acute lymphoblastic leukemia (B-ALL) is associated with various specific cytogenetic and molecular markers that significantly influence treatment and prognosis. Intrachromosomal amplification of chromosome 21 (iAMP21) defines a rare distinct cytogenetic subgroup of childhood B-ALL, which is characterized by amplification of region 21q22.12 comprising the <i>RUNX1</i> gene. Constitutional structural chromosomal abnormalities involving chromosome 21 confer an increased risk for B-ALL with iAMP21. Here, we report the development of B-ALL with iAMP21 in a 9-year-old child with a constitutional ring chromosome 21, r(21)c, uncovered after B-ALL diagnosis. Cytogenetic and microarray analysis of the post-therapy sample revealed an abnormal chromosome 21 lacking a satellite and having a deletion of the terminal 22q22.3 region, consistent with a constitutional ring chromosome 21, r(21)(p11.2q22). On a retrospective analysis, this ring chromosome was observed in the normal cells in the pre-treatment diagnostic specimen. Constitutional ring chromosome 21 may remain undetected in patients with mild or no neurodevelopmental phenotype, posing an unknown lifelong risk of developing B-ALL with iAMP21. Individuals with constitutional structural chromosome 21 rearrangements such as ring 21 require a close surveillance and long-term follow-up studies to establish their risk of B-ALL relapse and possibility of developing other malignancies. Germline analysis is recommended to all pediatric patients with iAMP21-related B-ALL to rule out structural chromosome 21 rearrangements and to elucidate molecular mechanisms of iAMP21 formation.
DOI: 10.6084/m9.figshare.21701096
title: Supplementary Material for: Glans Penis Ischemia after Circumcision in a 15-Year-Old Patient Managed with Intravenous Pentoxifylline: A Case Report and a Diagnostic-Therapeutic Guideline Proposal

description: Glans ischemia is an extremely infrequent complication characterized by a total or partial compromise in the penile arterial perfusion. A 15-year-old male patient suffered an episode of ischemia in the glans penis post-circumcision 24 h after surgery. Intravenous treatment with continuous perfusion of pentoxifylline was started for 4 days, with favorable evolution. Complete resolution was observed with no sequelae. There is no consensus on the best therapeutic management. The favorable evolution reported in most of the cases despite different therapeutic approaches leads us to think that the role of the treatments proposed so far is probably less than we believe. Additionally, we present a proposal for a diagnostic and therapeutic guide for this entity. Although the evidence in the literature is scarce and this guideline should be interpreted with caution, we believe that it can constitute a support resource for cases similar to ours.
DOI: 10.6084/m9.figshare.21701219
title: Supplementary Material for: Epitope-Specific IgE at 1 Year of Age Can Predict Peanut Allergy Status at 5 Years

description: <b><i>Background:</i></b> Currently, there is no laboratory test that can accurately identify children at risk of developing peanut allergy. Utilizing a subset of children randomized to the peanut avoidance arm of the LEAP trial, we monitored the development of epitope-specific (ses-)IgE and ses-IgG4 from 4–11 months to 5 years of age. <b><i>Objective:</i></b> The aim of the study was to evaluate the prognostic ability of epitope-specific antibodies to predict the result of an oral food challenge (OFC) at 5 years. <b><i>Methods:</i></b> A Bead-Based Epitope Assay was used to quantitate IgE and IgG4 to 64 sequential (linear) epitopes from Ara h 1–3 proteins at 4–11 months, 1 and 2.5 years of age in 74 subjects (38 of them with a positive OFC at 5 years). Specific IgE (sIgE) to peanut and component proteins was measured using ImmunoCAP. Machine learning methods were used to identify the earliest time point to predict 5-year outcome, developing prognostic algorithms based only on 4–11 month samples, 1-year or 2.5-year, and a combination of them. Data from 74 children were iteratively split 3:1 into training and validation sets, and machine learning models were developed to predict the 5-year outcome. A test set (<i>n</i> = 90) from an independent cohort was used for final evaluation. <b><i>Results:</i></b> Elastic-Net algorithm combining ses-IgE and IgE to Ara h 1, 2, 3, and 9 proteins could predict the 5-year peanut allergy status of LEAP participants with an average validation accuracy of 64% at baseline. Samples taken at 1 year accurately predicted a 5-year OFC outcome with 83% accuracy. This performance remained consistent when evaluated on an independent CoFAR2 cohort with an accuracy of 78% for the 1-year model. <b><i>Conclusion:</i></b> IgE antibody profiles at 1 year of age are predictive of peanut OFC at 5 years in children avoiding peanuts. If further confirmed, this model may enable early identification of infants who may benefit from early immunotherapeutic interventions.
DOI: 10.6084/m9.figshare.21701015
title: Supplementary Material for: Quantitative Evaluation of Changes in Three-Dimensional CT Density Distributions in Pulmonary Alveolar Proteinosis after GM-CSF Inhalation

description: <b><i>Background:</i></b> A previous clinical trial for autoimmune pulmonary alveolar proteinosis (APAP) demonstrated that granulocyte-macrophage colony-stimulating factor (GM-CSF) inhalation reduced the mean density of the lung field on computed tomography (CT) across 18 axial slice planes at a two-dimensional level. In contrast, in this study, we challenged three-dimensional analysis for changes in CT density distribution using the same datasets. <b><i>Methods:</i></b> As a sub-study of the trial, CT data of 31 and 27 patients who received GM-CSF and placebo, respectively, were analyzed. To overcome the difference between various shooting conditions, a newly developed automatic lung field segmentation algorithm was applied to CT data to extract the whole lung volume, and the accuracy of the segmentation was evaluated by five pulmonary physicians independently. For normalization, the percent pixel (PP) in a certain density range was calculated as a percentage of the total number of pixels from −1,000 to 0 HU. <b><i>Results:</i></b> The automatically segmented images revealed that the lung field was accurately extracted except for 7 patients with minor deletion or addition. Using the change in PP from baseline to week 25 (ΔPP) as the vertical axis, we created a histogram with 143 HU bins set for each patient. The most significant difference in ΔPP between GM-CSF and placebo groups was observed in two ranges: from −1,000 to −857 and −143 to 0 HU. <b><i>Conclusion:</i></b> Whole lung extraction followed by density histogram analysis of ΔPP may be an appropriate evaluation method for assessing CT improvement in APAP.
DOI: 10.18140/flx/1669645
title: FLUXNET-CH4 IT-Cas Castellaro

description: This is the FLUXNET-CH4 version of the carbon flux data for the site IT-Cas Castellaro.
DOI: 10.5281/zenodo.4274954
title: European Literary Text Collection (ELTeC): Release with 10 collections of at least 50 novels.

description: This release contains 10 collections of at least 50 novels, 5 of which have reached 100 novels, and a total of 884 novels. Collections in this release include: German, English, French, Hungarian, Portuguese, Romanian, Slovenian, Spanish, Serbian and Swedish. Note that this is an umbrella release, referencing the collections included in the release, but not containing the actual files. Citation suggestion for ELTeC: <em>European Literary Text Collection (ELTeC)</em>, version 1.0.0, November 2020, edited by Carolin Odebrecht, Lou Burnard and Christof Schöch. COST Action <em>Distant Reading for European Literary History</em> (CA16204). DOI: doi.org/10.5281/zenodo.4274954. (See also the citation suggestions for individual ELTeC collections in their respective repositories on Github.)
description: Note that this is an umbrella release, referencing the collections included in the release, but not containing the actual files.
DOI: 10.5281/zenodo.7233561
title: Monthly changes in glacier surface elevation on HMA

description: Time_Series_Glacier_Surface_Elevation.rar is Monthly changes in glacier surface elevation on HMA by ICESat-2 from Oct. 2018 to Nov. 2020. F477_c.rar is the software used to calculate the undulation between the WGS84 ellipsoid (GPS height) and the EGM96 geoid (mean sea level) in C code (namely, f477.f).
DOI: 10.5281/zenodo.7291552
title: Carbon-isotope, geochemical, and biostratigraphic data from the Anchor 3 well, Green Canyon protraction area, Gulf of Mexico

description: Dataset that accompanies "Carbon-isotope chemostratigraphy, geochemistry, and biostratigraphy of the Paleocene-Eocene Thermal Maximum, deep-water Wilcox Group, Gulf of Mexico (U.S.A.)" To be submitted to <em>Climate of the Past</em>
DOI: 10.5281/zenodo.7385599
title: Supporting dataset for the publication "The Crucial Role of Solvation Forces in the Steric Stabilization of Nanoplatelets"

description: Here, we provide an example of our umbrella sampling simulations (35.6 nm²×1.5 nm, 4 ligand beads, 250k solvent molecules), the input and output data of our WHAM calculations, free energy curves, and simulation data from the comparison of the MARTINI force field to the TraPPE-UA force field. Additional, we provide a modified file of the HOOBAS molecular builder. This file includes the "platelet" class we use to create nonoplatelets in our simulations.
DOI: 10.6073/pasta/12276fbc0d68568177702aed0d4b44bc
title: Conductivity Temperature Depth (CTD) sensor profile data binned by depth from PAL LTER annual cruises, 1991 - 2017 (ongoing).

description: Since 1991 (and ongoing), the PAL LTER program has deployed a SeaBird 911+ CTD mounted on a 24-bottle rosette during annual (Austral Summer) cruises plus a few supplemental cruises at other times of the year. An equal area grid oriented parallel to the average coast provides the basis for sampling, as well as specific process studies and on-the-fly scientific needs. The CTD-rosette is lowered into the ocean (usually to just above the sea-floor) using the ship's conductive-wire winch. Data is collected and displayed real-time to ensure quality and make decisions about where to collect seawater with the bottles. Bottle data is typically collected extensively in the seasaonal mixed layer and pycnocline, plus at Tmin, in the permament pycnolcine and at Tmax and Smax, as well as near the bottom. Bottle data allows measurement adn calculation of additional variables and helps ensure quality data collected via sensors. Sensors include: Pressure, Conductivity (for Salinity), Temperature, Oxygen, Transmissometer, Flourometer, Photosynthetically Available Radiation (PAR/Irrandiance). Additional Bottle Data Variables include: Phosphate, Silicate, Nitrite, Nitrate, Ammonium. After each cruise, Temperature, Conductivity and Oxygen sensors are calbrated and post-crusie processing is applied, making use of pre- and post- cruise calibrations as well as SeaBird software and algorithms for getting the best quality data. Each profile is then inspected for any issues and if needed, suitable corrections are made such as using secondary sensors (temperature, conductivity and oxygen all currently measured in duplicate), using the upcast, or flagging the data as bad.
DOI: 10.6073/pasta/76f43144015ec795679bac508efa044b
title: A unified dataset of co-located sewage pollution, periphyton, and benthic macroinvertebrate community and food web structure from Lake Baikal (Siberia)

description: Sewage released from lakeside development can introduce nutrients and micropollutants that can restructure aquatic ecosystems. Lake Baikal, the world's most ancient, biodiverse, and voluminous lake, has been experiencing localized sewage pollution from lakeside settlements. Increasing filamentous algal abundance suggests benthic communities are responding to this localized pollution. We surveyed 40-km of Lake Baikal's southwestern shoreline 19-23 August 2015 for sewage indicators, including pharmaceuticals, personal care products, and microplastics with co-located periphyton, macroinvertebrate, stable isotope, and fatty acid sampling. Unique identifiers corresponding to sampling locations are retained throughout all data files to facilitate interoperability among the dataset's 150+ variables. The data are structured in a tidy format (a tabular arrangement familiar to limnologists) to encourage future reuse. For Lake Baikal studies, these data can support continued monitoring and research efforts. For global studies of lakes, these data can help characterize sewage prevalence and ecological consequences of anthropogenic disturbance across spatial scales.
DOI: 10.6084/m9.figshare.12192729.v1
title: Ceratosolen longevity data

description: The dataset was collected in 2017 and 2018. Three species of Ceratosolen fig wasps were subjected to different temperature and humidity conditions to see the effect of these factors on wasp longevity. Experiments were also performed in both seasons: dry and wet.
DOI: 10.5067/luhpnwakyio3
title: MERRA-2 tavgU_2d_flx_Nx: 2d,Diurnal,Time-Averaged,Single-Level,Assimilation,Surface Flux Diagnostics V5.12.4
DOI: 10.26167/cztb-1p42
title: First report of Rhizobium pusense within Voandzou (Vigna subterranea (L.) Verdc.) rhizosphere in Côte d’Ivoire

description: There is currently no information on the diversity of indigenous rhizobial populations associated with bambara groundnuts (Vigna subterranea L. Verdc.) in Côte d’Ivoire soils. The aim of this study was to assess the diversity of microsymbionts nodulating a Bambara groundnut landrace in north of Cote d'Ivoire. For this purpose, a local bambara groundnut accession was used to trap root nodules bacteria from three soils obtained from farmers’ fields in North Côte d'Ivoire. It was shown that all the isolates had very fast growth rates on YEMA and not absorbing Congo red. All isolates were gram negative rods and able to grow in a TY medium at pH ranging from 5.8 to 8.8 and at temperatures up to 45°C. The 16S RNA gene phylogeny showed three main clades including Rhizobium sp., an unclassified species and R. pusense. 16S RNA gene identification of the strain K39 as R. pusense was congruently confirmed by atpD gene phylogeny. Strain K39 did not nodulate bambara groundnut plants. This is the first report of the presence of R. pusense in Vigna subterranea (L.) Verdc.) rhizosphere in Côte d’Ivoire.

description: Il n’existe actuellement aucune information sur la diversité des populations rhizobiennes autochtones associées à l’arachide bambara (Vigna subterranea L. Verdc.) dans les sols de la Côte d’Ivoire. Le but de cette étude était d’évaluer la diversité des microsymbiontes nodulant une variété locale d’arachide Bambara au nord de la Côte d’Ivoire. À cette fin, une variété locale d’arachide bambara a été utilisée pour piéger les bactéries de trois sols provenant de champs d’agriculteurs situés au nord de la Côte d’Ivoire. Il a été démontré que tous les isolats avaient des vitesses de croissance très rapides sur le YEMA et n'absorbaient pas le rouge Congo. Tous les isolats étaient des bâtonnets Gram négatif. Tous les isolats ont pu croître dans un milieu TY à pH variant de 5.8 à 8.8  et à des températures allant jusqu'à 45°C. La phylogénie du gène de l'ARN 16S révélait trois clusters principaux, dont Rhizobium sp., une espèce non classée et R. pusense. La nature de la souche K39 en tant que R. pusense revélée par la phylogénie de l’ARN 16S a été confirmée par la phylogénie du gène atpD. Les tests de nodulation ont confirmé que la souche K39 ne nodule pas les plants d’arachide bambara. C’est la première fois que R. pusense est mise en évidence dans la rhizosphère de Vigna subterranea (L) Verdc en Côte d’Ivoire.
DOI: 10.6073/pasta/601ae427b99c240e6df52c0737efbab3
title: Seagrass growth rates and physical characteristics and measures of water temperature and salinity during a simulated green turtle grazing experiment in The Bahamas, 1999 – 2000.

description: This data set contains data from an experiment in which green turtle grazing was simulated in a Thalassia testudinum seagrass meadow in The Bahamas from July 1999 until December 2000. Measurements of water temperature and salinity were collected weekly. Seagrass meadow physical characteristics--blade length, blade width, number of blades per shoot, shoot density, and leaf area index--along with growth rates (both linear growth and production) were measured at various temporal intervals. Measurements were made in each of three treatments: 1) an unclipped reference treatment (representing ungrazed seagrass) in which measurements began in July 1999, 2) an experimentally clipped treatment (representing grazing) in which measurements began in July 1999, and 3) an experimentally clipped treatment (representing grazing) in which measurements began in February 2000. Data were used to investigate relationships between water temperature and salinity on seagrass growth and physical characteristics and how these relationships are affected by green turtle grazing.
DOI: 10.17183/mnt_may100m_homonim_wgs84
title: MNT bathymétrique de façade de Mayotte (Projet Homonim)

description: Le MNT bathymétrique de façade de Mayotte à une résolution de 0.001° (~ 111 m) a été réalisé dans le cadre du projet HOMONIM. 
		Il couvre intégralement l'île de Mayotte et s'étend à l'Ouest sur l'île d'Anjouan. Le MNT s'étend au large jusqu'à 3700 m de profondeur.
		Le MNT est destiné à être implémenté dans les modèles hydrodynamiques afin de produire des prévisions aussi précises que possible des hauteurs d’eau et d’états de mer à la côte et donc d’améliorer la pertinence de la Vigilance Vagues-Submersion.
DOI: 10.3886/e119601v1
title: Data and Code: Mobilizing the Masses for Genocide

description: Do political elites use armed groups to foster civilian participation in genocidal violence? Are armed groups employed strategically? How do they mobilize civilians? I investigate these questions using data from the Rwandan Genocide. To establish causality, I exploit exogenous variation in armed groups’ transport costs induced by weather ﬂuctuations: the shortest distance of each village to the main road interacted with rainfall along the dirt tracks between main road and village. I ﬁnd: (1) one additional armed-group member resulted in 7.3 more civilian perpetrators, (2) armed-group leaders employed their men strategically, and (3) armed groups invoked civilians’ obedience.
DOI: 10.3886/e120506v1
title: Data and Code for: "Going Negative at the Zero Lower Bound: The Effects of Negative Nominal Interest Rates"

description: After the Great Recession several central banks started setting negative nominal interest rates in an expansionary attempt, but the effectiveness of this measure remains unclear. Negative rates can stimulate the economy by lowering the rates that commercial banks charge on loans, but they can also erode bank profitability by squeezing deposit spreads. This paper studies the effects of negative rates in a new DSGE model where banks intermediate the transmission of monetary policy. I use bank-level data to calibrate the model and find that monetary policy in negative territory is between 60% and 90% as effective as in positive territory.
description: The paper uses data of three types of banks: 1) Bank Holding Companies, 2) Retail & Consumer Banks, 3) Universal Commercial Banks, as collected by Fitch Solutions, in 19 countries: 1) Australia, 2) Canada, 3) Norway, 4) United States, 5) United Kingdom, 6) Switzerland, 7) Denmark, 8) Japan, 9) Sweden, 10) Austria, 11) Belgium, 12) Finland, 13) France. 14) Germany, 15) Italy, 16) Luxembourg, 17) Netherlands, 18) Portugal, 19) Spain, annually between 1990 and 2018.
DOI: 10.5066/p9clfqmi
title: Traits and Factors Catalog (TRAFAC): Conifer specialists of North America

description: These data were compiled in support of the 'Predicting the next high-impact insect invasion: Elucidating traits and factors determining the risk of introduced herbivorous insects on North American native plants' project, supported by the U.S. Geological Survey John Wesley Powell Center for Analysis and Synthesis. The project working group compiled data for non-native insects herbivorous on three or fewer North American conifer families. Data were synthesized from existing resources for a variety of insect traits, traits of their North American conifer host trees, divergence time between the North American host trees and the host tree in the insects' native range, and native insects that feed on the same North American host conifer as the non-native insect (co-evolved). This dataset, referred to as the TRAFAC (Traits and Factors Catalogue) for conifers supports analysis performed by the working group on the drivers of non-native insect impact on North American conifers and also stands alone as a resource for additional analysis.
DOI: 10.5281/zenodo.11086
title: Astral-Scope Subset 2.04 In Activepapers Format

description: This ActivePaper contains the structures in version 2.04 of the ASTRAL SCOPe subset with less than 40% sequence identity. For more information about ASTRAL and SCOPe, see

  http://scop.berkeley.edu/astral/

Each ASTRAL entry describes a domain from a protein structure in the PDB. This ActivePaper contains these domains in the MOSAIC HDF5 format. For more information about MOSAIC, see

  http://mosaic-data-model.github.io/

The structures are arranged by its SCOPe classification. For example, ASTRAL entry d1v0aa1 is found under /data/b/18/1/30/d1v0aa1, because SCOPe classifies it as

  b: all-beta proteins<br>
  b.18: Galactose-binding domain-like<br>
  b.18.1: Galactose-binding domain-like<br>
  b.18.1.30: CBM11

For each entry, the ASTRAL database provides a reference to the PDB entry with chain and residue identifiers plus a sequence. The importlet in /code/import_structures reads this information, downloads the corresponding PDB entry in mmCIF format, extracts the domain, checks that its sequence matches the one given by ASTRAL, and stores the domain in MOSAIC format.

For a small number of ASTRAL entries, this process failed for various reasons: mismatch between the ASTRAL reference and the PDB data, mismatch in the sequences, a mistake in the PDB mmCIF file, or unjustified hypotheses in the conversion script. The number of failures was deemed sufficiently small (28 failures out of 13042 entries) for not attempting a time-consuming in-detail analysis of each failure. The list of missing entries (generated automatically during the import process) can be found in this ActivePaper under /documentation/missing-entries.
DOI: 10.5281/zenodo.4001920
title: Reconstructed high-rate SEIS data recorded during HP3 hammering from the NASA InSight mission to Mars

description: The NASA InSight lander successfully placed a seismometer on the surface of Mars. Alongside, a hammering device was deployed that penetrated into the ground to attempt the first measurements of the planetary heat flow of Mars. The hammering of the heat probe generated repeated seismic signals that were registered by the seismometer. However, the broad frequency content of the seismic signals generated by the hammering extends beyond the Nyquist frequency governed by the seismometer's sampling rate of 100 samples per second. Here, we provide data that was reconstructed at a higher sampling rate of 2000 samples per second using a dedicated de-aliasing algorithm described in the accompanying article. This archive will be updated regularly with new data acquired on Mars. For a detailed data description and instructions on how to cite this dataset, please refer to the README file.
description: {"references": ["Sollberger, David et al. (2020). A reconstruction algorithm for temporally aliased seismic signals recorded by the InSight Mars lander. ESSOAr. https://doi.org/10.1002/essoar.10502908.1"]}