cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.14095582.v1
title: c-Fos is upregulated in the genital tubercle of DEHP-induced hypospadiac rats and the prepuce of patients with hypospadias

description: This study aimed to investigate the expression of Fos proto-oncogene, AP-1 transcription factor subunit (c-Fos) in the genital tubercle (GT) of rats with di(2-ethylhexyl) phthalate (DEHP)-induced hypospadias and in the prepuce of patients with hypospadias compared with unaffected controls. Pregnant rats were given 750 mg/kg/day DEHP orally from gestational days 12–19. Western blotting showed that c-Fos expression was increased in DEHP-induced hypospadiac male offspring. In addition, 30 prepuce tissue specimens obtained during hypospadias repair surgery were divided into 2 groups: the mild hypospadias group (n = 15) and the severe hypospadias group (n = 15). Fifteen normal prepuce tissue specimens were harvested during elective circumcision as normal controls. Real-time quantitative polymerase chain reaction, western blotting and immunohistochemistry analyses were used to assess c-Fos expression. c-Fos protein levels were higher in the GT of DEHP-induced rats than in that of control rats. c-Fos mRNA and protein levels were also higher in the hypospadias groups than in the control group (<i>p</i> &lt; 0.05, <i>p</i> &lt; 0.001), and c-Fos protein levels were significantly higher in the severe hypospadias group than in the mild hypospadias group (<i>p</i> &lt; 0.01). The expression of c-Fos was increased in both the GT of DEHP-induced hypospadiac rats and the prepuce of hypospadias patients. Thus, c-Fos overexpression might contribute to hypospadias. <b>Abbreviations:</b> DEHP: di(2-ethylhexyl) phthalate; c-Fos: Fos proto-oncogene, AP-1 transcription factor subunit; Mafb: the masculinization-regulatory gene v-maf musculoaponeurotic fibrosarcoma oncogene family, protein B; GT: genital tubercle; ED: embryonic day; AGD: anogenital distance; AGI: anogenital distance index; ED: embryonic day.
DOI: 10.6084/m9.figshare.13246937
title: Pre-exposure to <i>Candida glabrata</i> protects <i>Galleria mellonella</i> against subsequent lethal fungal infections

description: Commensal fungi are an important part of human microbial community, among which <i>Candida albicans</i> and <i>Candida glabrata</i> are two common opportunistic pathogens. Unlike the high pathogenicity of <i>C. albicans, C. glabrata</i> is reported to show low pathogenicity to the host. Here, by using a <i>Galleria mellonella</i> infection model, we were able to confirm the much lower virulence of <i>C. glabrata</i> than <i>C. albicans</i>. Interestingly, pre-exposure to live <i>C. glabrata</i> (LCG) protects the larvae against subsequent various lethal fungal infections, including <i>C. albicans, Candida tropicalis,</i> and <i>Cryptococcus neoformans</i>. Inconsistently, heat-inactivated <i>C. glabrata</i> (HICG) pre-exposure can only protect against <i>C. albicans</i> or <i>C. tropicalis</i> re-infection, but not <i>C. neoformans</i>. Mechanistically, LCG or HICG pre-exposure enhanced the fungicidal activity of hemocytes against <i>C. albicans</i> or <i>C. tropicalis</i>. Meanwhile, LCG pre-exposure enhanced the humoral immunity by modulating the expression of fungal defending proteins in the cell-free hemolymph, which may contribute to the protection against <i>C. neoformans</i>. Together, this study suggests the important role of <i>C. glabrata</i> in enhancing host immunity, and demonstrates the great potential of <i>G. mellonella</i> model in studying the innate immune responses against infections.
DOI: 10.6084/m9.figshare.12204671
title: Ghurrah_genotypes

description: PorcineSNP60K genotypes of 11 Indian Ghurrah pigs collected from the ICAR - IVRI farm at Bareilly, India <br><br>(28.3670°
N, 79.4304° E)
DOI: 10.24403/jp.1328691
title: Haller, B. u. Probst, W.: Botanische Exkursionen, 2 : Exkursionen im Sommerhalbjahr. - 2. Aufl. - Stuttgart, New York : Gustav Fischer Verlag, 1989 / [rezensiert von] H. Manitz
DOI: 10.6084/m9.figshare.8010380
title: A fuzzy optimization model for the electric vehicle routing problem with time windows and recharging stations

description: This is the experimental data of the manuscript entitled "A fuzzy optimization model for the electric vehicle routing problem with time windows and recharging stations". All data are saved in the file with txt format.
DOI: 10.14469/hpc/13789
title: Compound 6 R. 1H Data

description: NMR data
DOI: 10.6084/m9.figshare.23733060
title: Additional file 6 of KRAS activation in gastric cancer stem-like cells promotes tumor angiogenesis and metastasis

description: Additional file 6: Supplemental Figure S6. A. These images are the original, unprocessed versions for western blots (Supple. Fig. S1E). B-C. These images are the original, unprocessed versions for western blots (Fig. 4A).
DOI: 10.6084/m9.figshare.23733060.v1
title: Additional file 6 of KRAS activation in gastric cancer stem-like cells promotes tumor angiogenesis and metastasis

description: Additional file 6: Supplemental Figure S6. A. These images are the original, unprocessed versions for western blots (Supple. Fig. S1E). B-C. These images are the original, unprocessed versions for western blots (Fig. 4A).
DOI: 10.6084/m9.figshare.12198588.v1
title: Lateral mechanical impedance rather than frontal promotes cortical expansion of roots

description: It has long been considered that mechanical impedance on root will restrict root elongation and consequently promote radial growth. When seedlings grew in sands, we did observe radial expansion of roots and it, however, arose before elongation restriction. Mechanical impedance of sands can be classified into frontal- and lateral-type based on the interaction site of root. Therefore, we suspected that radial expansion might be mainly stimulated by lateral- rather than frontal-impedance. To verify our speculation, roots were exposed to frontal- and lateral-impedance separately. Small plastic caps were used to provide pure frontal impedance on root tips and cylindrical plastic containers were used to provide pure lateral impedance. Root elongation was remarkably suppressed under the frontal impedance of plastic caps, and more than that in sand-condition. However, the radial expansion of the plastic-cap-fitted roots was far inferior to that of the sand-cultured roots. Microstructural analysis revealed that sand-condition thickened root largely dependents on cortical expansion, whereas plastic cap did it mainly by thickening stele. In cylindrical plastic containers, mechanical impedance came only from the lateral direction and promoted the expansion of cortex like sand-condition. Thus, we proposed that the expansion of cortex and the consequent radial growth of roots were mainly due to lateral impedance when seedlings grew in sands.
DOI: 10.6084/m9.figshare.11673999.v2
title: Optimal Permutation Recovery in Permuted Monotone Matrix Model

description: <b>Motivated by recent research on quantifying bacterial growth dynamics based on genome assemblies, we consider a permuted monotone matrix model</b>Y=ΘΠ+Z<b>, where the rows represent different samples, the columns represent contigs in genome assemblies and the elements represent log-read counts after preprocessing steps and Guanine-Cytosine (GC) adjustment. In this model, Θ is an unknown mean matrix with monotone entries for each row, Π is a permutation matrix that permutes the columns of Θ, and <i>Z</i> is a noise matrix. This article studies the problem of estimation/recovery of Π given the observed noisy matrix <i>Y</i>. We propose an estimator based on the best linear projection, which is shown to be minimax rate-optimal for both exact recovery, as measured by the 0-1 loss, and partial recovery, as quantified by the normalized Kendall’s tau distance. Simulation studies demonstrate the superior empirical performance of the proposed estimator over alternative methods. We demonstrate the methods using a synthetic metagenomics dataset of 45 closely related bacterial species and a real metagenomic dataset to compare the bacterial growth dynamics between the responders and the nonresponders of the IBD patients after 8 weeks of treatment. Supplementary materials for this article are available online.</b>
DOI: 10.6084/m9.figshare.13246934.v2
title: MoSec61β, the beta subunit of Sec61, is involved in fungal development and pathogenicity, plant immunity, and ER-phagy in <i>Magnaporthe oryzae</i>

description: The process of protein translocation into the endoplasmic reticulum (ER) is the initial and decisive step in the biosynthesis of all secretory proteins and many soluble organelle proteins. In this process, the Sec61 complex is the protein-conducting channel for transport. In this study, we identified and characterized the β subunit of the Sec61 complex in <i>Magnaporthe oryzae</i> (MoSec61β). Compared with the wild-type strain Guy11, the Δ<i>Mosec61β</i> mutant exhibited highly branched mycelial morphology, reduced conidiation, high sensitivity to cell wall integrity stress, severely reduced virulence to rice and barley, and restricted biotrophic invasion. The turgor pressure of Δ<i>Mosec61β</i> was notably reduced, which affected the function of appressoria. Moreover, Δ<i>Mosec61β</i> was also sensitive to oxidative stress and exhibited a reduced ability to overcome plant immunity. Further examination demonstrated that MoSec61β affected the normal secretion of the apoplastic effectors Bas4 and Slp1. In addition, Δ<i>Mosec61β</i> upregulated the level of ER-phagy. In conclusion, our results demonstrate the importance of the roles played by MoSec61β in the fungal development and pathogenesis of <i>M. oryzae</i>.
DOI: 10.6084/m9.figshare.21111210
title: Rapid and sensitive detection of flubendiamide in grapes and tomatoes using a colloidal gold immunochromatography assay

description: In this study, we developed a monoclonal antibody (mAb)-based colloidal gold immunochromatography assay (CG-ICA) strip for the rapid and sensitive detection of flubendiamide (FBD) in food samples. Our anti-FBD mAb 2B1 was highly specific and had a half-maximal inhibitory concentration (IC<sub>50</sub>) of 1.55 ng/mL under optimal conditions. It belongs to the IgG2a isotype and has a K<sub>aff</sub> value of 1.52 × 10<sup>9</sup> mol/L. The strip provided a visual detection limit of 50 ng/g for both grapes and tomatoes, with a cut-off value of 1,000 ng/g and these qualitative results were observed within 15 min. For quantitative analysis, the calculated detection limits were 6 ng/g and 5 ng/g in grapes and tomatoes, respectively. The average recoveries of FBD ranged from 88.8% to 111.8% in grapes and 94.5% to 110.6% in tomatoes. The proposed strip assay is highly practical for screening FDB in food samples.
DOI: 10.6084/m9.figshare.12198660.v1
title: Additional file 5 of LBX2-AS1 up-regulated by NFIC boosts cell proliferation, migration and invasion in gastric cancer through targeting miR-491-5p/ZNF703

description: Additional file 5: Table 2 List of miR-491-5p-targeted mRNAs predicted by starBase.
DOI: 10.6084/m9.figshare.22684261
title: A meta-analysis of epigenome-wide association studies on pregnancy vitamin B12 concentrations and offspring DNA methylation

description: Circulating vitamin B12 concentrations during pregnancy are associated with offspring health. Foetal DNA methylation changes could underlie these associations. Within the Pregnancy And Childhood Epigenetics Consortium, we meta-analysed epigenome-wide associations of circulating vitamin B12 concentrations in mothers during pregnancy (<i>n</i> = 2,420) or cord blood (<i>n</i> = 1,029), with cord blood DNA methylation. Maternal and newborn vitamin B12 concentrations were associated with DNA methylation at 109 and 7 CpGs, respectively (False Discovery Rate <i>P</i>-value &lt;0.05). Persistent associations with DNA methylation in the peripheral blood of up to 482 children aged 4–10 y were observed for 40.7% of CpGs associated with maternal vitamin B12 and 57.1% of CpGs associated with newborn vitamin B12. Of the CpGs identified in the maternal meta-analyses, 4.6% were associated with either birth weight or gestational age in a previous work. For the newborn meta-analysis, this was the case for 14.3% of the identified CpGs. Also, of the CpGs identified in the newborn meta-analysis, 14.3% and 28.6%, respectively, were associated with childhood cognitive skills and nonverbal IQ. Of the 109 CpGs associated with maternal vitamin B12, 18.3% were associated with nearby gene expression. In this study, we showed that maternal and newborn vitamin B12 concentrations are associated with DNA methylation at multiple CpGs in offspring blood (<i>P</i><sub>FDR</sub>&lt;0.05). Whether this differential DNA methylation underlies associations of vitamin B12 concentrations with child health outcomes, such as birth weight, gestational age, and childhood cognition, should be further examined in future studies.
DOI: 10.6084/m9.figshare.13246934.v1
title: MoSec61β, the beta subunit of Sec61, is involved in fungal development and pathogenicity, plant immunity, and ER-phagy in <i>Magnaporthe oryzae</i>

description: The process of protein translocation into the endoplasmic reticulum (ER) is the initial and decisive step in the biosynthesis of all secretory proteins and many soluble organelle proteins. In this process, the Sec61 complex is the protein-conducting channel for transport. In this study, we identified and characterized the β subunit of the Sec61 complex in <i>Magnaporthe oryzae</i> (MoSec61β). Compared with the wild-type strain Guy11, the Δ<i>Mosec61β</i> mutant exhibited highly branched mycelial morphology, reduced conidiation, high sensitivity to cell wall integrity stress, severely reduced virulence to rice and barley, and restricted biotrophic invasion. The turgor pressure of Δ<i>Mosec61β</i> was notably reduced, which affected the function of appressoria. Moreover, Δ<i>Mosec61β</i> was also sensitive to oxidative stress and exhibited a reduced ability to overcome plant immunity. Further examination demonstrated that MoSec61β affected the normal secretion of the apoplastic effectors Bas4 and Slp1. In addition, Δ<i>Mosec61β</i> upregulated the level of ER-phagy. In conclusion, our results demonstrate the importance of the roles played by MoSec61β in the fungal development and pathogenesis of <i>M. oryzae</i>.
DOI: 10.6084/m9.figshare.13246937.v3
title: Pre-exposure to <i>Candida glabrata</i> protects <i>Galleria mellonella</i> against subsequent lethal fungal infections

description: Commensal fungi are an important part of human microbial community, among which <i>Candida albicans</i> and <i>Candida glabrata</i> are two common opportunistic pathogens. Unlike the high pathogenicity of <i>C. albicans, C. glabrata</i> is reported to show low pathogenicity to the host. Here, by using a <i>Galleria mellonella</i> infection model, we were able to confirm the much lower virulence of <i>C. glabrata</i> than <i>C. albicans</i>. Interestingly, pre-exposure to live <i>C. glabrata</i> (LCG) protects the larvae against subsequent various lethal fungal infections, including <i>C. albicans, Candida tropicalis,</i> and <i>Cryptococcus neoformans</i>. Inconsistently, heat-inactivated <i>C. glabrata</i> (HICG) pre-exposure can only protect against <i>C. albicans</i> or <i>C. tropicalis</i> re-infection, but not <i>C. neoformans</i>. Mechanistically, LCG or HICG pre-exposure enhanced the fungicidal activity of hemocytes against <i>C. albicans</i> or <i>C. tropicalis</i>. Meanwhile, LCG pre-exposure enhanced the humoral immunity by modulating the expression of fungal defending proteins in the cell-free hemolymph, which may contribute to the protection against <i>C. neoformans</i>. Together, this study suggests the important role of <i>C. glabrata</i> in enhancing host immunity, and demonstrates the great potential of <i>G. mellonella</i> model in studying the innate immune responses against infections.
DOI: 10.6084/m9.figshare.23733057.v1
title: Additional file 5 of KRAS activation in gastric cancer stem-like cells promotes tumor angiogenesis and metastasis

description: Additional file 5: Supplemental Figure S5. A-B.These images are the original, unprocessed versions for western blots (Fig. 1C).C. These images are the original, unprocessed versions for western blots (Suppl. Fig. S1F).
DOI: 10.6084/m9.figshare.13246937.v2
title: Pre-exposure to <i>Candida glabrata</i> protects <i>Galleria mellonella</i> against subsequent lethal fungal infections

description: Commensal fungi are an important part of human microbial community, among which <i>Candida albicans</i> and <i>Candida glabrata</i> are two common opportunistic pathogens. Unlike the high pathogenicity of <i>C. albicans, C. glabrata</i> is reported to show low pathogenicity to the host. Here, by using a <i>Galleria mellonella</i> infection model, we were able to confirm the much lower virulence of <i>C. glabrata</i> than <i>C. albicans</i>. Interestingly, pre-exposure to live <i>C. glabrata</i> (LCG) protects the larvae against subsequent various lethal fungal infections, including <i>C. albicans, Candida tropicalis,</i> and <i>Cryptococcus neoformans</i>. Inconsistently, heat-inactivated <i>C. glabrata</i> (HICG) pre-exposure can only protect against <i>C. albicans</i> or <i>C. tropicalis</i> re-infection, but not <i>C. neoformans</i>. Mechanistically, LCG or HICG pre-exposure enhanced the fungicidal activity of hemocytes against <i>C. albicans</i> or <i>C. tropicalis</i>. Meanwhile, LCG pre-exposure enhanced the humoral immunity by modulating the expression of fungal defending proteins in the cell-free hemolymph, which may contribute to the protection against <i>C. neoformans</i>. Together, this study suggests the important role of <i>C. glabrata</i> in enhancing host immunity, and demonstrates the great potential of <i>G. mellonella</i> model in studying the innate immune responses against infections.
DOI: 10.6084/m9.figshare.16923589
title: DDD

description: In the environment with and without obstacles, the distance
deviation to the target and the distance deviation to the two nearest neighbors
obtained after 30 simulations of 500 steps each time by ADM, LCPSO, SMCH,
ADM_VFH, LCPSO_VFH, SMCH_MWF, ADM_VFH_CDTA, ADM_VFH_GDTA, LCPSO_VFH_CDTA,
LCPSO_VFH_GDTA, and SMCH_MWF_MSTA algorithms.
DOI: 10.6084/m9.figshare.24039444.v1
title: Training Areas

description: The compressed folder contains shapefiles with all crowdsourced and expert Training Areas (TAs). The TAs were collected in three rounds. The shapefiles are named in the format of "LCZ_RX.shp" and the number of "X" represents the round number. The original TAs are 500m × 500m polygons, however, all the TAs in this folder have been pre-processed into 200m × 200m polygons for training data sampling. The attribute tables include LCZ labels for each year from 1986 to 2020 indicated by numbers 1-16. Class -1 represents no valid label. Class 7 represents LCZ F water.
DOI: 10.6084/m9.figshare.24039447.v1
title: Raw LCZ maps without post-classification processing

description: The compressed folder contains the raw LCZ maps generated directly from the Random Forest model without the spatial and temporal post-classification processing. The aim of this folder is to provide data users the flexibility to employ different post-classification techniques as needed. The format of the raw maps are the same as the final product, i.e., each Geo Tiff file represents one year of map from 1986 to 2020. All LCZ maps have a spatial resolution at 100m and projection of USA Contiguous Albers Equal Area Conic (EPSG=5070). The LCZ classes are indicated by numbers 1-17.
DOI: 10.6084/m9.figshare.24039444
title: Training Areas

description: The compressed folder contains shapefiles with all crowdsourced and expert Training Areas (TAs). The TAs were collected in three rounds. The shapefiles are named in the format of "LCZ_RX.shp" and the number of "X" represents the round number. The original TAs are 500m × 500m polygons, however, all the TAs in this folder have been pre-processed into 200m × 200m polygons for training data sampling. The attribute tables include LCZ labels for each year from 1986 to 2020 indicated by numbers 1-16. Class -1 represents no valid label. Class 7 represents LCZ F water.
DOI: 10.6084/m9.figshare.24039498
title: ReadMe file

description: The ReadMe file provides the overall descriptions for the dataset "CONUS longitudinal local climate zone maps from 1986 to 2020", including author information, dataset summary, data structures and descriptions.
DOI: 10.6084/m9.figshare.24039498.v1
title: ReadMe file

description: The ReadMe file provides the overall descriptions for the dataset "CONUS longitudinal local climate zone maps from 1986 to 2020", including author information, dataset summary, data structures and descriptions.
DOI: 10.6084/m9.figshare.24964275
title: Final LCZ maps with post-classification processing

description: This compressed folder contains annual CONUS-wide LCZ maps ranging from 1986 to 2020, which is the main and final LCZ product of this dataset. The maps are derived from a lightweight contextual Random Forest model with spatial and temporal post-classification processing. Each map is provided in the Geo TIFF file format with representing year indicated in the file name. For example, the file "TP_2020.tif" represents the LCZ map for 2020. All LCZ maps have a spatial resolution at 100m and projection of USA Contiguous Albers Equal Area Conic (EPSG=5070). The LCZ classes are indicated by numbers 1-17. Note that LCZ class 7 (Lightweight low-rise) is not present in this dataset. Pixels of value 0 represents NoData.
DOI: 10.6084/m9.figshare.24039447
title: Raw LCZ maps without post-classification processing

description: The compressed folder contains the raw LCZ maps generated directly from the Random Forest model without the spatial and temporal post-classification processing. The aim of this folder is to provide data users the flexibility to employ different post-classification techniques as needed. The format of the raw maps are the same as the final product, i.e., each Geo Tiff file represents one year of map from 1986 to 2020. All LCZ maps have a spatial resolution at 100m and projection of USA Contiguous Albers Equal Area Conic (EPSG=5070). The LCZ classes are indicated by numbers 1-17.
DOI: 10.14469/hpc/13791
title: Compound 6 S 1H Data

description: NMR Data
DOI: 10.6084/m9.figshare.23733057
title: Additional file 5 of KRAS activation in gastric cancer stem-like cells promotes tumor angiogenesis and metastasis

description: Additional file 5: Supplemental Figure S5. A-B.These images are the original, unprocessed versions for western blots (Fig. 1C).C. These images are the original, unprocessed versions for western blots (Suppl. Fig. S1F).
DOI: 10.15468/dl.ztuqg3
title: Occurrence Download

description: A dataset containing 233 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Peucedanum medicum Dunn"
 ]
}

 The dataset includes 233 records from 20 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0072633-240321170329656/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.9f8692
title: Occurrence Download

description: A dataset containing 21 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Phyllanthus chamaepeuce Ridl."
 ]
}

 The dataset includes 21 records from 10 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0072634-240321170329656/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.qr5ejg
title: Occurrence Download

description: A dataset containing 361 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Listronotus bonariensis"
 ]
}

 The dataset includes 361 records from 14 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0072635-240321170329656/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.