cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.22621394.v1
title: Additional file 4 of Modulation of long noncoding RNA (lncRNA) and messenger RNA (mRNA) expression in the liver of Beagle dogs by Toxocara canis infection

description: Additional file 4: Table S3. Immune- or inflammation-related GO terms of the differentially expressed mRNAs at three stages post Toxocara canis infection.
DOI: 10.6084/m9.figshare.22619041
title: Additional file 1 of Genome-centric metagenomics reveals the host-driven dynamics and ecological role of CPR bacteria in an activated sludge system

description: Additional file 1: Table S1. Summary of 43 CPR markers used by CheckM for genome quality estimation. Table S2. Summary of the studied CPR MAGs in the present study. Table S3. Pairwise ANI analysis of all studied CPR MAGs in the present study. Table S4. Relative abundance of CPR bacteria in Shatin activated sludge samples. Table S5. Estimated completeness (%) of KEGG modules in the recovered CPR MAGs from Shatin activated sludge. Table S6. The relative abundances of the newly recovered bacterial MAGs in penicillin treated activated sludge metagenome. Table S7. Summary of public CPR bacteria used for pangenomic analysis. Table S8. Carbohydrate-active enzymes frequency in CPR bacteria recovered from activated sludge metagenomes of Shatin WWTP. Table S9. Summary of potential lacterial gene transfer events between CPR bacteria and other prokaryotic organisms (non-CPR bacteria and archaea) in Shatin WWTP. Table S10. Eggnog annotation results of the ORFs on putative horizontal transferred DNA fragments between CPR bacteria and prokaryotic organisms in Shatin WWTP. Table S11. Summary of potential horizontal gene transfer events between CPR bacteria and phages in Shatin WWTP. Table S12. Eggnog annotation results of the ORFs on putative horizontal transferred DNA fragments between CPR bacteria and phages in Shatin WWTP.
DOI: 10.6084/m9.figshare.22619041.v1
title: Additional file 1 of Genome-centric metagenomics reveals the host-driven dynamics and ecological role of CPR bacteria in an activated sludge system

description: Additional file 1: Table S1. Summary of 43 CPR markers used by CheckM for genome quality estimation. Table S2. Summary of the studied CPR MAGs in the present study. Table S3. Pairwise ANI analysis of all studied CPR MAGs in the present study. Table S4. Relative abundance of CPR bacteria in Shatin activated sludge samples. Table S5. Estimated completeness (%) of KEGG modules in the recovered CPR MAGs from Shatin activated sludge. Table S6. The relative abundances of the newly recovered bacterial MAGs in penicillin treated activated sludge metagenome. Table S7. Summary of public CPR bacteria used for pangenomic analysis. Table S8. Carbohydrate-active enzymes frequency in CPR bacteria recovered from activated sludge metagenomes of Shatin WWTP. Table S9. Summary of potential lacterial gene transfer events between CPR bacteria and other prokaryotic organisms (non-CPR bacteria and archaea) in Shatin WWTP. Table S10. Eggnog annotation results of the ORFs on putative horizontal transferred DNA fragments between CPR bacteria and prokaryotic organisms in Shatin WWTP. Table S11. Summary of potential horizontal gene transfer events between CPR bacteria and phages in Shatin WWTP. Table S12. Eggnog annotation results of the ORFs on putative horizontal transferred DNA fragments between CPR bacteria and phages in Shatin WWTP.
DOI: 10.6084/m9.figshare.22621438.v1
title: Additional file 3 of Single-cell transcriptome analysis and in vitro differentiation of testicular cells reveal novel insights into male sterility of the interspecific hybrid cattle-yak

description: Additional file 3: Table S3. DEGs between the identified 17 testicular cell clusters in yak.
DOI: 10.6084/m9.figshare.22621415
title: Additional file 11 of Modulation of long noncoding RNA (lncRNA) and messenger RNA (mRNA) expression in the liver of Beagle dogs by Toxocara canis infection

description: Additional file 11: Table S7. Immune- or inflammation-related GO terms of the differentially expressed lncRNAs in the liver of puppies at three stages post Toxocara canis infection.
DOI: 10.25387/g3.12660074.v1
title: Supplemental Material for Halpern et al., 2020

description: <b>Table S1. </b>Summary of <i>Fusarium oxysporum</i> f. sp. <i>vasinfectum</i> isolates analyzed, and the number of isolates that possessed identical combinations of EF genotypes and DAPC group assignments.<b><br></b><b>Figure S1. </b>Genotype accumulation curve constructed from the <i>de novo-</i>based SNP dataset in poppr (version 2.0), showing the number of unique multilocus genotypes (MLGs) identified in the population of FOV, and the minimum number of SNPs needed to distinguish each MLG.<br><b>Figure S2. </b>Maximum likelihood (ML) trees constructed from the <i>de novo</i>-based SNP dataset in MEGA7 showing the phylogenetic relationships among <i>Fusarium oxysporum </i>isolates.<br><b>Figure S3.</b> Population genetic structure as determined from the <i>de novo</i>-based SNP dataset.<br><b>Figure S4. </b>Nine genetically distinct groups of FOV identified through K-means hierarchical clustering using the <i>de novo</i>-based dataset.
DOI: 10.6084/m9.figshare.22621385.v1
title: Additional file 1 of Modulation of long noncoding RNA (lncRNA) and messenger RNA (mRNA) expression in the liver of Beagle dogs by Toxocara canis infection

description: Additional file 1: Table S1. The differentially expressed mRNAs and lncRNAs in the liver of puppies at three stages post Toxocara canis infection.
DOI: 10.6084/m9.figshare.22621409
title: Additional file 9 of Modulation of long noncoding RNA (lncRNA) and messenger RNA (mRNA) expression in the liver of Beagle dogs by Toxocara canis infection

description: Additional file 9: Table S6. GO terms of the differentially expressed lncRNAs in the liver of puppies at three stages of infection.
DOI: 10.6084/m9.figshare.22619099
title: Additional file 1 of Genome-wide identification of the TIFY family reveals JAZ subfamily function in response to hormone treatment in Betula platyphylla

description: Additional file 1.
DOI: 10.6084/m9.figshare.22619102
title: Additional file 2 of Genome-wide identification of the TIFY family reveals JAZ subfamily function in response to hormone treatment in Betula platyphylla

description: Additional file 2.
DOI: 10.6084/m9.figshare.22619102.v1
title: Additional file 2 of Genome-wide identification of the TIFY family reveals JAZ subfamily function in response to hormone treatment in Betula platyphylla

description: Additional file 2.
DOI: 10.25387/g3.12660074
title: Supplemental Material for Halpern et al., 2020

description: <b>Table S1. </b>Summary of <i>Fusarium oxysporum</i> f. sp. <i>vasinfectum</i> isolates analyzed, and the number of isolates that possessed identical combinations of EF genotypes and DAPC group assignments.<b><br></b><b>Figure S1. </b>Genotype accumulation curve constructed from the <i>de novo-</i>based SNP dataset in poppr (version 2.0), showing the number of unique multilocus genotypes (MLGs) identified in the population of FOV, and the minimum number of SNPs needed to distinguish each MLG.<br><b>Figure S2. </b>Maximum likelihood (ML) trees constructed from the <i>de novo</i>-based SNP dataset in MEGA7 showing the phylogenetic relationships among <i>Fusarium oxysporum </i>isolates.<br><b>Figure S3.</b> Population genetic structure as determined from the <i>de novo</i>-based SNP dataset.<br><b>Figure S4. </b>Nine genetically distinct groups of FOV identified through K-means hierarchical clustering using the <i>de novo</i>-based dataset.
DOI: 10.6084/m9.figshare.22619105.v1
title: Additional file 3 of Genome-wide identification of the TIFY family reveals JAZ subfamily function in response to hormone treatment in Betula platyphylla

description: Additional file 3.
DOI: 10.6084/m9.figshare.8990237.v1
title: Additional file 7: of Gut microbiome affects the response to anti-PD-1 immunotherapy in patients with hepatocellular carcinoma

description: Table S2. Pathway assignment of the most significantly correlated KOs in R. (XLSX 14 kb)
DOI: 10.6084/m9.figshare.22621360
title: Additional file 1 of The peanut root exudate increases the transport and metabolism of nutrients and enhances the plant growth-promoting effects of burkholderia pyrrocinia strain P10

description: Additional file 1. Supplement Table. Table S1 Summary for the transcriptome assembly, Table S2 The FPKM of differential expressed genes (DEGs) in different samples, Table S3 Composition of peanut root exudates analyzed by gas chromatography-mass spectrometry, Table S4 Information of primers and gene used in this study, Table S5 Reaction Procedure of Q-RT-PCR.
DOI: 10.6084/m9.figshare.8990180.v1
title: Additional file 2: of Highly Stretchable All-Rubber-Based Thread-Shaped Wearable Electronics for Human Motion Energy-Harvesting and Self-Powered Biomechanical Tracking

description: Video S1. The SPST-cotton device can directly turn on LEDs. Video S2. The SPST-cotton device can power up a commercial electric watch by the electrical energy stored in the capacitor. Video S3. The SATT device was fixed on a subjectâ s index figure to respond five bending-releasing motion states. (ZIP 11240 kb)
DOI: 10.6084/m9.figshare.22621529
title: Additional file 4 of The co-development of a linguistic and culturally tailored tele-retinopathy screening intervention for immigrants living with diabetes from China and African-Caribbean countries in Ottawa, Canada

description: Additional file 4.
DOI: 10.6084/m9.figshare.22621553
title: Additional file 1 of Artificial intelligence of digital morphology analyzers improves the efficiency of manual leukocyte differentiation of peripheral blood

description: Additional file 1.
DOI: 10.6084/m9.figshare.22621553.v1
title: Additional file 1 of Artificial intelligence of digital morphology analyzers improves the efficiency of manual leukocyte differentiation of peripheral blood

description: Additional file 1.
DOI: 10.17632/xf8k4gn4zk.1
title: The Significance of Sociology in the 4th Industrial Revolution

description: The 4th industrial revolution is clearly the paradigm that most of the people from the past have really been dreaming of. In fact, if there could be much more superior than the 4th industrial revolution, people would be aiming for it drastically. Evidently, 4IR have been very helpful in making society to progress and develop from simple to complex. The luminous ideas and brilliance of the 4IR have caused so much blindness and neglected the importance of objectivity and subjectivity because most of the things in the status quo seem run by technology and created out of artificial intelligence.
DOI: 10.6084/m9.figshare.8990237
title: Additional file 7: of Gut microbiome affects the response to anti-PD-1 immunotherapy in patients with hepatocellular carcinoma

description: Table S2. Pathway assignment of the most significantly correlated KOs in R. (XLSX 14 kb)
DOI: 10.6084/m9.figshare.8990174
title: Additional file 2: of Use of barbed sutures in robotic bariatric bypass surgery: a single-center case series

description: Complete dataset of robotic RYGB surgeries. (CSV 3 kb)
DOI: 10.6084/m9.figshare.8990180
title: Additional file 2: of Highly Stretchable All-Rubber-Based Thread-Shaped Wearable Electronics for Human Motion Energy-Harvesting and Self-Powered Biomechanical Tracking

description: Video S1. The SPST-cotton device can directly turn on LEDs. Video S2. The SPST-cotton device can power up a commercial electric watch by the electrical energy stored in the capacitor. Video S3. The SATT device was fixed on a subjectâ s index figure to respond five bending-releasing motion states. (ZIP 11240 kb)
DOI: 10.6084/m9.figshare.22619140
title: Additional file 1 of Characterization of a novel papillomavirus identified from a whale (Delphinapterus leucas) pharyngeal metagenomic library

description: Supplementary Table 1. Summary of information for a whale pharyngeal metagenomic library.
DOI: 10.5281/zenodo.10200110
title: Personalized Large-scale Functional Networks in the Adolescent Brain Cognitive Development (ABCD) Children

description: Data for our paper "Personalized Large-scale Functional Networks in ABCD Children: Linking Functional Network Topography with Socioeconomic Status".
This dataset contains personalized functional networks for 3,921 participants (age 9- and 10-year-olds) who had more than 20 min of high-quality (mean motion < 0.2mm) resting-state fMRI data from the Adolescent Brain Cognitive Development (ABCD) Study.
Using regularized non-negative matrix factorization (NMF) and preprocessed resting-state fMRI data from the ABCD-BIDS Community Collection (https://github.com/ABCD-STUDY/nda-abcd-collection-3165, NDA Collection 3165), we parcellated the cortex (fsLR_32k space) into 17 functional networks for each ABCD participant.
We provided two kinds of atlas data: discrete network parcellation (IndivAtlasLabel) and probabilistic network parcellation (IndivAtlasLoading). For discrete network parcellation, each value in the dscalar indicates which network this vertex belongs to; for probabilistic network parcellation, each value indicates the probability that this vertex belongs to each network (17 in total). We also provided group atlas label and atlas loading for comparison.
For dscalars contain individual atlas loading, we separated participants into 10 parts, each has nearly 400 individuals for easily uploading and downloading.
Each value corresponds with the following key for discrete network parcellation: 1=FP1, 2=AU, 3=VS1, 4=DM1, 5=DA, 6=DM2, 7=DA2, 8=DM3, 9=VS2, 10=SM1, 11=TMP, 12=LB 13=VA1, 14=FP2, 15=SM2, 16=SM3, 17=DA3 (VS: visual; AU: auditory; SM: somatomotor; VA: ventral attention; DA: dorsal attention; FP: fronto-parietal; DM: default mode; TM: temporo-parietal; LB: limbic).
For each participant, we provide his or her subject-key in the ABCD Study. Other related information can be found at https://wiki.abcdstudy.org.
Relevant analysis scripts can be found in https://github.com/CuiLabCIBR/SingleFuncParcel_ABCD.
DOI: 10.5281/zenodo.10200111
title: Personalized Large-scale Functional Networks in the Adolescent Brain Cognitive Development (ABCD) Children

description: Data for our paper "Personalized Large-scale Functional Networks in ABCD Children: Linking Functional Network Topography with Socioeconomic Status".
This dataset contains personalized functional networks for 3,921 participants (age 9- and 10-year-olds) who had more than 20 min of high-quality (mean motion < 0.2mm) resting-state fMRI data from the Adolescent Brain Cognitive Development (ABCD) Study.
Using regularized non-negative matrix factorization (NMF) and preprocessed resting-state fMRI data from the ABCD-BIDS Community Collection (https://github.com/ABCD-STUDY/nda-abcd-collection-3165, NDA Collection 3165), we parcellated the cortex (fsLR_32k space) into 17 functional networks for each ABCD participant.
We provided two kinds of atlas data: discrete network parcellation (IndivAtlasLabel) and probabilistic network parcellation (IndivAtlasLoading). For discrete network parcellation, each value in the dscalar indicates which network this vertex belongs to; for probabilistic network parcellation, each value indicates the probability that this vertex belongs to each network (17 in total). We also provided group atlas label and atlas loading for comparison.
For dscalars contain individual atlas loading, we separated participants into 10 parts, each has nearly 400 individuals for easily uploading and downloading.
Each value corresponds with the following key for discrete network parcellation: 1=FP1, 2=AU, 3=VS1, 4=DM1, 5=DA, 6=DM2, 7=DA2, 8=DM3, 9=VS2, 10=SM1, 11=TMP, 12=LB 13=VA1, 14=FP2, 15=SM2, 16=SM3, 17=DA3 (VS: visual; AU: auditory; SM: somatomotor; VA: ventral attention; DA: dorsal attention; FP: fronto-parietal; DM: default mode; TM: temporo-parietal; LB: limbic).
For each participant, we provide his or her subject-key in the ABCD Study. Other related information can be found at https://wiki.abcdstudy.org.
Relevant analysis scripts can be found in https://github.com/CuiLabCIBR/SingleFuncParcel_ABCD.
DOI: 10.6084/m9.figshare.8990246
title: Additional file 8: of Gut microbiome affects the response to anti-PD-1 immunotherapy in patients with hepatocellular carcinoma

description: Table S3. Quality control of the sequencing data. (XLSX 19 kb)
DOI: 10.6084/m9.figshare.22619143.v1
title: Additional file 2 of Characterization of a novel papillomavirus identified from a whale (Delphinapterus leucas) pharyngeal metagenomic library

description: Supplementary Table 2. Supplementary information for distance matrix analysis of wPV.
DOI: 10.6084/m9.figshare.8990174.v1
title: Additional file 2: of Use of barbed sutures in robotic bariatric bypass surgery: a single-center case series

description: Complete dataset of robotic RYGB surgeries. (CSV 3 kb)
DOI: 10.6084/m9.figshare.22621637.v1
title: Additional file 3 of PES1 reduces CD8+ T cell infiltration and immunotherapy sensitivity via interrupting ILF3-IL15 complex in esophageal squamous cell carcinoma

description: Additional file 3. Additional dataset S2.
DOI: 10.6084/m9.figshare.14233228.v1
title: A risk score based on baseline risk factors for predicting mortality in COVID-19 patients

description: To develop a sensitive and clinically applicable risk assessment tool identifying coronavirus disease 2019 (COVID-19) patients with a high risk of mortality at hospital admission. This model would assist frontline clinicians in optimizing medical treatment with limited resources. 6,415 patients from seven hospitals in Wuhan city were assigned to the training and testing cohorts. A total of 6,351 patients from another three hospitals in Wuhan, 2,169 patients from outside of Wuhan, and 553 patients from Milan, Italy were assigned to three independent validation cohorts. A total of 64 candidate clinical variables at hospital admission were analyzed by random forest and least absolute shrinkage and selection operator (LASSO) analyses. Eight factors, namely, <b>O</b>xygen saturation, blood <b>U</b>rea nitrogen, <b>R</b>espiratory rate, admission before the date the national <b>M</b>aximum number of daily new cases was reached, <b>A</b>ge, <b>P</b>rocalcitonin, <b>C</b>-reactive protein (CRP), and absolute <b>N</b>eutrophil counts, were identified as having significant associations with mortality in COVID-19 patients. A composite score based on these eight risk factors, termed the OURMAPCN-score, predicted the risk of mortality among the COVID-19 patients, with a C-statistic of 0.92 (95% confidence interval [CI] 0.90-0.93). The hazard ratio for all-cause mortality between patients with OURMAPCN-score &gt;11 compared with those with scores ≤11 was 18.18 (95% CI 13.93-23.71; P &lt; 0.0001). The predictive performance, specificity, and sensitivity of the score were validated in three independent cohorts. The OURMAPCN score is a risk assessment tool to determine the mortality rate in COVID-19 patients based on a limited number of baseline parameters. This tool can assist physicians in optimizing the clinical management of COVID-19 patients with limited hospital resources.
DOI: 10.6084/m9.figshare.22621637
title: Additional file 3 of PES1 reduces CD8+ T cell infiltration and immunotherapy sensitivity via interrupting ILF3-IL15 complex in esophageal squamous cell carcinoma

description: Additional file 3. Additional dataset S2.
DOI: 10.5286/isis.e.rb1610286
title: A new approach to monitoring copper corrosion using polarised neutron reflection

description: The aim of this experiment is to test a new approach to monitoring the corrosion of copper using polarised neutron reflection to simultaneously measure two contrasts with time. This will aid the model fitting to the changing copper surface, providing greater mechanistic information about the corrosion process. Here this will be used to determine the effect of increasing amounts of organic thiol on the corrosion of copper by elemental sulphur in the presence of organic amine.
DOI: 10.5286/isis.e.rb1610459
title: Neutrons as a direct probe of low-temperature magnetic correlations in Pr2Ir2O7

description: This proposal is part of our project to investigate the unusual physics of 5d transition metal oxides (5dTMO).The compound of interest, Pr2Ir2O7, is an important member of the rare earth iridate R2Ir2O7 series. Several enticing theoretical proposals have focused the community's attention on this family; most importantly the prediction of topologically non-trivial electronic states in the bulk (the Weyl-semimetal). R2Ir2O7 exhibit an unusual metal-insulator transition that can be continuously suppressed by variation of the R ion. Pr227 is the critical compound, where this state is only just suppressed. This leaves behind an unprecedented ground state with negligible net magnetisation and a strong remanent anomalous Hall signal. We propose to follow a recent theoretical proposal which called for neutron diffraction to investigate the possibility of spiral magnetic order below 1.7 K.
DOI: 10.5286/isis.e.rb1610499
title: Neutron diffraction study of magnetic structure of PrFe2Al8

description: The crystal structure of PrFe2Al8 consists of a network of Al which forms quasi cage-like structure where the Pr and the Fe form chains of atoms along the c-axis. We propose magnetic structure study of PrFe2Al8 using WISH in order to understand the presence of ferromagnetic clusters of Fe (below 30K), the metamagnetic transition in low fields and the antiferromagnetic order of Pr3+ (below 5K), which we have observed through macroscopic measurements. In our recent HRPD experiment (RB1520106) we observed many new Bragg peaks below 5K, which we assumed that are related to an AFM ordering of Pr3+ moment. However, HRPD data alone could not give a unique solution for the propagation vector, we therefore propose here to use WISH to investigate magnetic structure. On WISH we will be able to observe magnetic Bragg peaks up to 50 ang, which are important to solve the magnetic structure of PrFe2Al8
DOI: 10.5286/isis.e.rb1620173
title: Use of nitric oxide radicals for the formation of a supramolecular hydrogel

description: The aim of this proposal is to study the structure of hydrogel systems formed from fluorenylmethyloxycarbonyl (FMOC) protected peptides, via the use of nitric oxide radicals. Novel self-assembled hydrogels will be studied using contrast variation SANS. These are hydrogels with tailored physical, chemical, electrical, mechanical (self-healing, shape memory) and biological properties. They are expected to be highly desired in a range of biomedical applications such as tissue engineering, controlled drug release, stem cell engineering, molecular therapies and cancer research. No SANS studies have been performed on these systems and due to their diverse potential applications, it is vital that their structure is understood. The data will provide insights into the molecular packing of gelator species and ultimately provide information on the local structure within the gel network.
DOI: 10.5286/isis.e.rb1620203
title: Investigation of deformation nano-twinning in FeCoCrNi FCC high entropy alloys at reduced temperatures

description: High entropy alloys, as a new approach for alloy design, have attracted significant research efforts recently. One of the most promising candidates are CrMnFeCoNi and its variants. They have shown an exceptional combination of strength and ductility at cryogenic temperature.  The underpinning mechanisms leading to such great properties have remained unclear. There are a few studies with EBSD/TEM at deformed states showing that twins induced by deformation may play a significant role. In situ studies are critically needed for the conformation of this mechanism. It is thus timely to use in situ neutron diffraction at EnginX combining with stress rig at reduced temperatures to determine the lattice strain evolution and twin fraction. The results will be of significance for the design of new high entropy alloys making full use of deformation induced-twin structure.