cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.c.3624017_d15.v1
title: Additional file 4: of Modeling hormonal and inflammatory contributions to preterm and term labor using uterine temporal transcriptomics

description: Loadings derived from the OSC-PLS modeling of the 4142 DEGs detected in three models of parturition (term gestation, RU486-induced PTL, and LPS-induced PTL). (XLSX 256 kb)
DOI: 10.6084/m9.figshare.c.3624017_d16.v1
title: Additional file 13: of Modeling hormonal and inflammatory contributions to preterm and term labor using uterine temporal transcriptomics

description: List of genes exclusively changing in the LPS-induced PTL model. (XLS 1767 kb)
DOI: 10.6084/m9.figshare.c.3624524_d1.v1
title: Additional file 1: of Rubella immune status of neonates â   a window towards seroprevalence among childbearing women

description: Serology results with basic demographic and clinical data for the studied population. (XLSX 106 kb)
DOI: 10.6084/m9.figshare.c.3624539_d2.v1
title: Additional file 1: Table S1. of The first whole genome and transcriptome of the cinereous vulture reveals adaptation in the gastric and immune defense systems and possible convergent evolution between the Old and New World vultures

description: Sequencing and analysis statistics of the cinereous vultureâ  s WGS relative to the bald eagle genome. Table S2 17-mer statistics. Table S3 Summary of SNVs and small indel in the cinereous vulture. Table S4 PSGs list of the Accipitrimorphae using a branch-site model. Table S5 PSGs list of the Accipitrimorphae using a branch model. Table S6 Functional annotation chart of PSGs of the Accipitrimorphae. Table S7 PSGs list of the cinereous vulture using a branch-site model. Table S8 PSGs list of the cinereous vulture using a branch model. Table S9 PSGs list of the turkey vulture using a branch-site model. Table S10 PSGs list of the turkey vulture using a branch model. Table S11 Functional annotation chart of PSGs of the cinereous vulture. Table S12 Functional annotation chart of PSGs of the turkey vulture. Table S13 Unique amino acid changes of the turkey vulture. Table S14 Unique amino acid changes of the cinereous vulture Table S15 Unique amino acid changes of the Accipitridae. Table S16 Unique amino acid changes on sites between Accipitridae and Cathartidae of the digestive system-related proteins. Table S17 Unique amino acid changes on sites between Accipitridae and Cathartidae of the gastric acid secretion-related proteins. Table S18 Statistics regarding whole-transcriptome sequences and unigene construction. Table S19 GO analysis for the blood transcriptome of the cinereous vulture. Table S20 KEGG pathway analysis for the blood transcriptome of the cinereous vulture. Table S21 Gene expression in the cinereous vulture compared to the other avian species. Table S22 Immune related genes expression in the cinereous vulture compared to the other avian species. (XLSX 635 kb)
DOI: 10.6084/m9.figshare.c.3624998_d7.v1
title: Additional file 3: Table S3. of Critical evaluation of the Illumina MethylationEPIC BeadChip microarray for whole-genome DNA methylation profiling

description: Genomic regions complementary to cross-reactive probes on the EPIC array with 47 base pair homology. Individual BLAT hits corresponding to the cross-reactive regions in Additional file 1: Table S1. Zero-based coordinates are used. Hits homologous with the reverse complement have been oriented in the forward direction, to be consistent with the annotation in the Illumina manifest file. Reads map to either forward methylated (FM), forward unmethylated (FU), reverse methylated (RM), reverse unmethylated (RU), forward methylated and unmethylated (FMU), or reverse methylated and unmethylated (RMU) in silico versions of the genome. (CSV 46885 kb)
DOI: 10.6084/m9.figshare.c.3625019_d5.v1
title: Additional file 8: Table S4. of Genetic and root phenotype diversity in Sri Lankan rice landraces may be related to drought resistance

description: Mean of traits measured in hydroponics with summary test statistics for one way ANOVA at the bottom. (XLSX 16.2 kb)
DOI: 10.60841/000000005
title: Data from: Unveiling What Makes Saturn Ring: Quantifying the Amplitudes of Saturn's Planetary Normal-Mode Oscillations and Trends in C-Ring Properties Using Kronoseismology (VII)

description: Certain spiral density waves in Saturn's rings are generated through resonances with planetary normal modes, making them valuable probes of Saturn's internal structure. Previous research has primarily focused on the rotation rates of these waves. However, other characteristics of these waves also contain valuable information about the planet's interior. In this work, we investigate the amplitudes of the waves across the C-ring by analyzing high signal-to-noise profiles derived from phase-corrected averages of occultation profiles obtained by Cassini's Visual and Infrared Mapping Spectrometer (VIMS). By fitting these wave profiles to linear density wave models, we estimate the ring's surface mass density, mass extinction coefficient and effective kinematic viscosity at 34 locations in the C-ring, as well as the amplitude of the gravitational potential perturbations associated with 6 satellite resonances and 28 planetary normal mode resonances.
description: Our estimates of the C-ring's mass extinction coefficient, indicate that the typical particle mass density is around 0.3 g/cm^3 interior to 84,000 km, but can get as low as 0.03 g/cm^3 exterior to 84,000 km. We also find the ring's viscosity is reduced in the outer C-ring, which is consistent with the exceptionally high porosity of the particles in this region. Meanwhile, we find the amplitudes of Saturn's normal modes are complex functions of frequency, l and m, implying that multiple factors influence how efficiently these modes are excited. This analysis identified two primary sources of these normal-mode oscillations: a deep source located close to Saturn's core, and a shallow source residing near the surface.
DOI: 10.6084/m9.figshare.c.3624998_d8.v1
title: Additional file 6: Table S6. of Critical evaluation of the Illumina MethylationEPIC BeadChip microarray for whole-genome DNA methylation profiling

description: Probes with genetic variants overlapping the body of the probe: 48 base pairs for Infinium Type I probes and 49 base pairs for Infinium Type II probes. (CSV 11599 kb)
DOI: 10.6084/m9.figshare.c.3625049_d1.v1
title: MOESM2 of Integration event induced changes in recombinant protein productivity in Pichia pastoris discovered by whole genome sequencing and derived vector optimization

description: Additional file 2. Detailed genome sequencing statistics for all sequenced clones.
DOI: 10.6084/m9.figshare.c.3625019_d7.v1
title: Additional file 4: of Genetic and root phenotype diversity in Sri Lankan rice landraces may be related to drought resistance

description: Online Resource 1 (NEXML tree of SL and OryzaSNP accessions 152 kb)
DOI: 10.6084/m9.figshare.c.3625058_d1.v1
title: Additional file 7: of Tactile feedback for relief of deafferentation pain using virtual reality system: a pilot study

description: Similarities of bilateral arm trajectory. (XLSX 14Â kb)
DOI: 10.6084/m9.figshare.c.3625061_d1.v1
title: Additional file 1: of Lower hypoxic ventilatory response in smokers compared to non-smokers during abstinence from cigarettes

description: Supportive information. (XLSX 22Â kb)
DOI: 10.6084/m9.figshare.c.3625019_d8.v1
title: Additional file 3: Table S2. of Genetic and root phenotype diversity in Sri Lankan rice landraces may be related to drought resistance

description: Genotype of 326 SNPs for 135 Sri Lankan landraces plus 18 OryzaSNP accessions (the last 18 entries). (XLSX 198 kb)
DOI: 10.6084/m9.figshare.c.3625058_d2.v1
title: Additional file 6: of Tactile feedback for relief of deafferentation pain using virtual reality system: a pilot study

description: Scores of sense of reality. (XLSX 28Â kb)
DOI: 10.6084/m9.figshare.c.3625049_d4.v1
title: MOESM1 of Integration event induced changes in recombinant protein productivity in Pichia pastoris discovered by whole genome sequencing and derived vector optimization

description: Additional file 1. Criteria used for sorting P. pastoris strains into different groups of “regular” and “irregular” clones, as well as scoring system for selection of clones for sequencing.
DOI: 10.6084/m9.figshare.c.3625454_d1.v1
title: Aditional file 2.

description: Gametocyte density of P. vivax cultured with different sources of reticulocytes in 7 days. Reticulocytes purified from peripheral blood (red line), cord blood (blue line) and hematopoietic stem cell (green line) were used to cultured fresh isolates of P. vivax (11 isolates). Reticulocytes were added to the cultures daily at a final 4% and the gametocyte density was determined for 7 days from Giemsa-stained thick smears (1 Âľl packed cells). Each line represents average parasite density from 7 days obtained from 11 P. vivax isolates. Cord blood-reticulocytes has highly expression of fetal hemoglobin but still shown better support gametocyte production in some parasite isolates (VKTS33, VKBT59, VKBT63, and VKBT81).
DOI: 10.6084/m9.figshare.c.3625442_d3.v1
title: Additional file 6: of Granulocyte macrophage colony-stimulating factor receptor Îą expression and its targeting in antigen-induced arthritis and inflammation

description: Array data supporting Additional file 4. Data shown as normalised intensities. (XLSX 11003 kb)
DOI: 10.6084/m9.figshare.c.3625454_d2.v1
title: Aditional file 1.

description: Parasite density of P. vivax cultured with different sources of reticulocytes in 7 days. Reticulocytes purified from peripheral blood (red line), cord blood (blue line) and hematopoietic stem cell (green line) were used to cultured fresh isolates of P. vivax (11 isolates). Reticulocytes were added to the cultures daily at a final 4% and the parasite density was determined for 7 days from Giemsa-stained thick smears (1 Âľl packed cells). Each line represents average parasite density from 7 days obtained from 11 P. vivax isolates.
DOI: 10.6084/m9.figshare.c.3625454_d3.v1
title: Aditional file 3.

description: The RT-QMAL result of P. vivax from in vitro cultures. The RT-QMAL was performed from 50 Âľl packed cells of parasite cultures. The standard curve was generated from assay-specific control plasmid at concentration of 102-106 copies/reaction. The total RNA of P. falciparum was used as a positive control. Three out of thirty isolates were positive for RT-QMAL, VKTS38, VKP7, and VKBT139
DOI: 10.6084/m9.figshare.c.3625466_d2.v1
title: Additional file 3: of A novel two-step genome editing strategy with CRISPR-Cas9 provides new insights into telomerase action and TERT gene expression

description: Data file 3, is a detailed description of data files 4-15. Data files 4-15, which are maximum intensity projections of images for all cell biological experiments, including images of an experiment using a FLAG antibody to detect FLAG-SNAP-TERT in HeLa cells. (ZIP 43134 kb)
DOI: 10.6084/m9.figshare.c.3625466_d4.v1
title: Additional file 4: of A novel two-step genome editing strategy with CRISPR-Cas9 provides new insights into telomerase action and TERT gene expression

description: Data files 16-19, which are sequences of all the DT plasmids, as indicated by their names. Plasmids will be deposited to Addgene. For the single base-pair modification step 1/2 DT (Data files 4 and 5 in Additional file 3), the −124 and −146 positions were modified with the C &gt; T mutations based on the detailed situation. (ZIP 13 kb)
DOI: 10.6084/m9.figshare.c.3625457_d5.v1
title: Additional file 4: Table S4. of Gene expression changes in the salivary glands of Anopheles coluzzii elicited by Plasmodium berghei infection

description: List of genes expressed in the female salivary glands of An. coluzzii of the group infected with P. berghei vs. uninfected. The excel file has two sheets: Sheet 1 list the genes that are expressed using one standard deviations above or below the average fold change across all genes. Sheet 2 lists the genes that are expressed using cut-off 1.25. The gene list is further sorted into different functional groups, according to the predicted function of the genes. Functional sub-classes, Biological process and Molecular Functional information were obtained according to Gene Ontology annotation, Ensembl metazoa (metazoa.ensembl.org) and Uniprot (uniprot.org). (XLSX 338 kb)
DOI: 10.6084/m9.figshare.c.3625487_d1.v1
title: MOESM2 of Engineering Aspergillus niger for galactaric acid production: elimination of galactaric acid catabolism by using RNA sequencing and CRISPR/Cas9

description: Additional file 2: Table S2. DNA primer and sgRNA sequences used in the study.
DOI: 10.6084/m9.figshare.c.3625595_d19.v1
title: Additional file 6: of Dynamic transcriptome profiling of Bean Common Mosaic Virus (BCMV) infection in Common Bean (Phaseolus vulgaris L.)

description: Variants from BCMVS2 reads on the BCMVS2 genome assembly. Variant-call-format file, showing single-nucleotide variants within the BCMVS2 genome. (ZIP 3Â kb)
DOI: 10.6084/m9.figshare.c.3625676_d4.v1
title: Additional file 6: Table S5. of Genome-wide identification of microRNAs in pomegranate (Punica granatum L.) by high-throughput sequencing

description: miRNA nucleotide bias at each position of 24-nt small RNAs. (XLSX 9Â kb)
DOI: 10.6084/m9.figshare.c.3625676_d5.v1
title: Additional file 3: Table S2. of Genome-wide identification of microRNAs in pomegranate (Punica granatum L.) by high-throughput sequencing

description: Total counts of variants of known miRNAs. (XLSX 11Â kb)
DOI: 10.6084/m9.figshare.c.3625595_d21.v1
title: Additional file 14: of Dynamic transcriptome profiling of Bean Common Mosaic Virus (BCMV) infection in Common Bean (Phaseolus vulgaris L.)

description: Significant alternate-splice transcripts for BCMV-S2 at 4Â days after infection. (ZIP 4Â kb)
DOI: 10.6084/m9.figshare.c.3625676_d6.v1
title: Additional file 4: Table S3. of Genome-wide identification of microRNAs in pomegranate (Punica granatum L.) by high-throughput sequencing

description: List of novel miRNAs, their precursors with hairpin structure sequences. (XLSX 10Â kb)
DOI: 10.6084/m9.figshare.c.3625676_d7.v1
title: Additional file 7: Table S6. of Genome-wide identification of microRNAs in pomegranate (Punica granatum L.) by high-throughput sequencing

description: List of target candidates of novel miRNAs. (XLSX 112Â kb)
DOI: 10.6084/m9.figshare.c.3625595_d23.v1
title: Additional file 11: of Dynamic transcriptome profiling of Bean Common Mosaic Virus (BCMV) infection in Common Bean (Phaseolus vulgaris L.)

description: Alternate splice events from the bean genome assembly. (ZIP 82Â kb)
DOI: 10.6084/m9.figshare.c.3625700_d1.v1
title: Additional file 1: File S1. of Gender differences in murine pulmonary responses elicited by cellulose nanocrystals

description: Differentially expressed mRNA profiles upon pharyngeal aspiration exposure to CNC. The differentially up and down-regulated mRNAs in the lungs of male and female mice 3Â months after repeated pharyngeal aspiration with CNC (cumulative dose of 240Â Îźg/mouse). (XLSX 140 kb)
DOI: 10.6084/m9.figshare.c.3625676_d9.v1
title: Additional file 8: Table S7. of Genome-wide identification of microRNAs in pomegranate (Punica granatum L.) by high-throughput sequencing

description: List of different KEGG pathways. (XLSX 19Â kb)
DOI: 10.6084/m9.figshare.c.3625700_d3.v1
title: Additional file 2: Table S1. of Gender differences in murine pulmonary responses elicited by cellulose nanocrystals

description: Broad groups of enriched GO_terms based on the GO_slim classification system. The Cellular Component, Biological Process and Molecular Function annotations were classified into broad groups based on the GO-slim classification system using CateGOrizer. (XLSX 18 kb)
DOI: 10.6084/m9.figshare.c.3625925_d1.v1
title: Additional file 1: of Accurate prediction of nuclear receptors with conjoint triad feature

description: Dataset. (RAR 140Â kb)
DOI: 10.6084/m9.figshare.c.3625928_d1.v1
title: Additional file 2: of A scoping review of indirect comparison methods and applications using individual patient data

description: Data abstraction file used to extract information from all eligible studies with individual patient data indirect comparison methods. (XLSX 52 kb)
DOI: 10.6084/m9.figshare.c.3625925_d2.v1
title: Additional file 2: of Accurate prediction of nuclear receptors with conjoint triad feature

description: P-values of CTF features in statistical test bewteen positive samples and negative samples. (XLS 43Â kb)
DOI: 10.6084/m9.figshare.c.3625943_d1.v1
title: Additional file 2: of Analysis of nucleosome positioning landscapes enables gene discovery in the human malaria parasite Plasmodium falciparum

description: List of predicted gene regions and their characteristics. (XLSX 79 kb)
DOI: 10.6084/m9.figshare.c.3625946_d1.v1
title: Additional file 4: Table S4. of Insights into transcriptional changes that accompany organelle sequestration from the stolen nucleus of Mesodinium rubrum

description: Description and classification of DESeq log2FC over-expressed genes in KN. Genes of note are in bold with parenthetical notation indicating the pathway to which they belong. (XLSX 37 kb)
DOI: 10.6084/m9.figshare.c.3625943_d2.v1
title: Additional file 3: of Analysis of nucleosome positioning landscapes enables gene discovery in the human malaria parasite Plasmodium falciparum

description: Primes used for predicted gene validation. (XLSX 12 kb)
DOI: 10.6084/m9.figshare.c.3626165_d1.v1
title: Additional file 1: of The genomic and transcriptomic landscape of anaplastic thyroid cancer: implications for therapy

description: Supplementary tables listing the identified mutations, copy number variations and structural events. (XLSX 2590 kb)
DOI: 10.6084/m9.figshare.c.3626174_d1.v1
title: Additional file 4: Table S3. of Comparative transcriptome analysis by RNAseq of necrotic enteritis Clostridium perfringens during in vivo colonization and in vitro conditions

description: Genes significantly differentially expressed of the virulome of NE C. perfringens CP1 strain. (XLSX 38Â kb)
DOI: 10.6084/m9.figshare.c.3626174_d2.v1
title: Additional file 5: Table S4. of Comparative transcriptome analysis by RNAseq of necrotic enteritis Clostridium perfringens during in vivo colonization and in vitro conditions

description: Genes significantly differentially expressed of the Two-Component system (TCS) of NE C. perfringens CP1 strain. (XLSX 42Â kb)
DOI: 10.6084/m9.figshare.c.3626177_d1.v1
title: Additional file 1: Table S1. of A subtracted cDNA library identifies genes up-regulated during PHOT1-mediated early step of de-etiolation in tomato (Solanum lycopersicum L.)

description: Gene ontology and functional annotation of the expressed sequence tags (ESTs) up-regulated by 30 min of exposure to blue light. (XLSX 68 kb)
DOI: 10.6084/m9.figshare.c.3626174_d3.v1
title: Additional file 3: Table S2. of Comparative transcriptome analysis by RNAseq of necrotic enteritis Clostridium perfringens during in vivo colonization and in vitro conditions

description: Total number of NE C. perfringens CP1 strain genes significantly differentially expressed genes by RNASeq in different comparisons IV vs RM, IV vs PM, IV vs OS, PM vs RM, OS vs RM. (XLSX 200Â kb)
DOI: 10.6084/m9.figshare.28049780
title: Colvillea racemosa raw GC-MS files

description: Metabolite extraction from Colvillea racemosa seeds
DOI: 10.6084/m9.figshare.28049780.v1
title: Colvillea racemosa raw GC-MS files

description: Metabolite extraction from Colvillea racemosa seeds
DOI: 10.6084/m9.figshare.c.3626174_d5.v1
title: Additional file 6: Table S5. of Comparative transcriptome analysis by RNAseq of necrotic enteritis Clostridium perfringens during in vivo colonization and in vitro conditions

description: The total number of differentially expressed genes of IV vs RM (673), IV vs PM (382), IV vs OS (521) and PM vs RM (600) classified in three different GO terms: biological process (BP), molecular function (MF) and cellular component (CC). (XLSX 64Â kb)
DOI: 10.6084/m9.figshare.c.3626174_d6.v1
title: Additional file 1: Table S1. of Comparative transcriptome analysis by RNAseq of necrotic enteritis Clostridium perfringens during in vivo colonization and in vitro conditions

description: Gene-specific primers for Quantitative Real-Time PCR (qRT-PCR)-sheet:AddTable01-primers and validation of RNAseq-sheet:AddTable01-qRT-PCRvsRNASeq. (XLSX 36Â kb)
DOI: 10.6084/m9.figshare.c.3626195_d1.v1
title: Additional file 3: of End-to-end automated microfluidic platform for synthetic biology: from design to functional analysis

description: PR-PR scripts.zip. Zip file containing files Gibson_Assembly.pr, IHDC_1.pr, IHDC_2.pr, IHDC_3.pr, Induction.pr, MBTH.pr and Transformation.pr, input script files for PR-PR. (ZIP 5.73 kb)
DOI: 10.5281/zenodo.10952376
title: A New Representation of Crystal Systems and Space Groups based on the Variance of Atomic Positions (VAP): Case of 2D materials

description: Please see ref:

 

(under review)
DOI: 10.6084/m9.figshare.c.3626699_d3.v1
title: Additional file 6: of Conservation analysis of sequences flanking the testis-determining gene Sry in 17 mammalian species

description: CentriMo input sequences. The 600Â bp 5â   flanking sequences used in the CentriMo analysis. (TXT 10Â kb)
DOI: 10.6084/m9.figshare.c.3626711_d1.v1
title: MOESM4 of Significant geographical differences in prevalence of mutations associated with Plasmodium falciparum and Plasmodium 
                     vivax drug resistance in two regions from Papua New Guinea

description: Additional file 4: Table S4. Pvdhfr, pvdhps and pvmdr1 genotypes prevalence in all P. vivax infections.
DOI: 10.5066/p1brsrtx
title: Arsenic levels in necropsied Sonora mud turtles from Montezuma Well, Arizona in 2015

description: Montezuma Well is an unusual fishless desert wetland in central Arizona. Water in the Well is naturally enriched with >100 g/L dissolved geogenic arsenic (As) and supports a relatively simple aquatic desert food web with several endemic invertebrate species. Previous studies of As among various environmental compartments and organisms in Montezuma Well have not included turtles despite their potential importance in the As cycle by virtue of their substantial biomass and role as top predators. We measured As concentrations in water, sediment, and organisms (macrophytes, amphipods, insects, leeches, and turtles) representing a range of food web trophic levels, in order to document the importance of turtles in the As cycle at the apex of the Montezuma Well food web.
DOI: 10.6084/m9.figshare.c.3626699_d4.v1
title: Additional file 4: of Conservation analysis of sequences flanking the testis-determining gene Sry in 17 mammalian species

description: Sequence of the SPCI. The sequence of the SPCI from human and mouse. (TXT 250 bytes)
DOI: 10.6084/m9.figshare.c.3626711_d2.v1
title: MOESM1 of Significant geographical differences in prevalence of mutations associated with Plasmodium falciparum and Plasmodium 
                     vivax drug resistance in two regions from Papua New Guinea

description: Additional file 1: Table S1. Sequences of PCR primers.
DOI: 10.6084/m9.figshare.c.3626708_d4.v1
title: Additional file 1: of Transcriptome profiling of differentially expressed genes in floral buds and flowers of male sterile and fertile lines in watermelon

description: RNA-seq analysis results. The spreadsheet file contains statistical analysis results including FDR adjusted P-values of the 2-way ANODEV and Fisherâ  s exact test as well as gene annotation. (XLSX 1795 kb)
DOI: 10.6084/m9.figshare.c.3626699_d5.v1
title: Additional file 1: of Conservation analysis of sequences flanking the testis-determining gene Sry in 17 mammalian species

description: Sry coding sequences. (TXT 12Â kb)
DOI: 10.6084/m9.figshare.c.3626723_d1.v1
title: MOESM1 of Evaluation of the biomarker candidate MFAP4 for non-invasive assessment of hepatic fibrosis in hepatitis C patients

description: Additional file 1. Clinical cohort characteristics and MFAP4 serum levels.