cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5517/ccdc.csd.cc2gr5jy
title: CCDC 2286390: Experimental Crystal Structure Determination

description: Related Article: Alpesh Ramanlal Patel, Aggie Lawer, Mohan Bhadbhade, Luke Hunter|2024|Org.Biomol.Chem.|22|1608|doi:10.1039/D3OB02016A
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.6073/pasta/0319ec83dc385ff970f3cd6946b4bee6
title: Seagrass Epiphyte Accumulation: Epiphyte Loads on Thalassia testudinum in Rabbit Key Basin, Florida Bay (FCE) from March 2000 to April 2001

description: Total epiphyte and epiphyte chlorophyll-a loads and leaf nutrients were measured on Thalassia seagrass short-shoots from Rabbit Key Basin, Florida Bay.
DOI: 10.5281/zenodo.10685380
title: Functional annotation of the reference transcriptome for Karenia papilionacea

description: De novo transcriptomes generated using both Trinity and velvet-oases were merged with CD-HIT-EST to reduce the transcript redundancy to 90% similarity and generate unique genes. Functional annotation was performed using DIAMOND blastp function (Buchfink et al. 2021).
DOI: 10.5281/zenodo.10685381
title: Functional annotation of the reference transcriptome for Karenia papilionacea

description: De novo transcriptomes generated using both Trinity and velvet-oases were merged with CD-HIT-EST to reduce the transcript redundancy to 90% similarity and generate unique genes. Functional annotation was performed using DIAMOND blastp function (Buchfink et al. 2021).
DOI: 10.7934/x29678
title: A new archosauriform species from the Panchet Formation of India and the diversification of Proterosuchidae after the end-Permian mass extinction [X29678] Matrix
DOI: 10.26183/g5v3-je82
title: The role of midwives in Australian medical schools dataset

description: This descriptive qualitative research project will explore the experiences and roles of the midwifery educator within Australian medical schools. The Australian medical curricula commonly expect that medical students witness a natural labour and birth however maternity units may give priority to midwifery students resulting in fewer opportunities for medical students1. The employment of midwifery educators by Australian medical schools is to facilitate medical students access to labour and births and enhance their education and experiences. Despite the valuable role that midwifery educators play in Australian medical schools, there is little information about this role and their perceived benefits for medical student learning.2 Therefore the aim of this research project will identify those Australian medical schools which employ these midwifery educators and invite them to participate in semi-structured interviews to understand their experiences and the role they play as a midwifery educator within Australian medical schools.
<p>This dataset contains transcripts of qualitative interviews with 12 participants including a semi-structured interview guide. Participants were midwives who educate medical students for Australian universities. 
<p> The dataset is not able to be shared publicly due to ethics approval restrictions. Please contact Janie Leggett to discuss this research project. J.leggett@westernsydney.edu.au ORCID 0000-0002-2144-2321
<p>
DOI: 10.5281/zenodo.10689539
title: Myroides odoratus BIGb0203

description: This is one of the Wormbiome database archive file.This enrty includes all the geonome annotation files related to Myroides odoratum BIGb0203, an Flavobacteriia.The Wormbiome collection is an online database dedicated to centralizing all the information related to bacteria associated with C. elegans. More information on wormbiome.org and our bitbucket page.
DOI: 10.5281/zenodo.10689538
title: Myroides odoratus BIGb0203

description: This is one of the Wormbiome database archive file.This enrty includes all the geonome annotation files related to Myroides odoratum BIGb0203, an Flavobacteriia.The Wormbiome collection is an online database dedicated to centralizing all the information related to bacteria associated with C. elegans. More information on wormbiome.org and our bitbucket page.
DOI: 10.5281/zenodo.7310089
title: Data: Elastic deformation as a tool to investigate watershed storage connectivity

description: Data and scripts for the publication: Elastic deformation as a tool to investigate watershed storage connectivity, published in Nature Communications Earth and Environmental Sciences
DOI: 10.5281/zenodo.7310090
title: Data: Elastic deformation as a tool to investigate watershed storage connectivity

description: Data and scripts for the publication: Elastic deformation as a tool to investigate watershed storage connectivity, published in Nature Communications Earth and Environmental Sciences
DOI: 10.5281/zenodo.10067240
title: Stack Overflow Duplicate Post Dataset

description: As a part of the supplimentary material for the paper "Refining GPT-3 Embeddings with a Siamese Structure for Technical Post Duplicate Detection".

dup_post_csv.tar.gz: The dataset contains all duplicate post pairs from Stack Overflow up to December 2022, with an 80%/20% split between the training and test sets.

CQADupStack.tar: The CQADupStack Benchmark dataset. The package contains training and test sets from nine sub-domains. GPT-3 embeddings for all posts are appended.
DOI: 10.5281/zenodo.10067241
title: Stack Overflow Duplicate Post Dataset

description: The dataset contains all duplicate post pairs from Stack Overflow up to December 2022, with an 80%/20% split between the training and test sets.
As a part of the supplimentary material for the paper "Identifying and Exploiting Duplicate Technical Forum Posts with GPT-3".
DOI: 10.5281/zenodo.10067702
title: Stack Overflow Duplicate Post Dataset

description: As a part of the supplimentary material for the paper "Refining GPT-3 Embeddings with a Siamese Structure for Technical Post Duplicate Detection".

dup_post_csv.tar.gz: The dataset contains all duplicate post pairs from Stack Overflow up to December 2022, with an 80%/20% split between the training and test sets.

CQADupStack.tar: The CQADupStack Benchmark dataset. The package contains training and test sets from nine sub-domains. GPT-3 embeddings for all posts are appended.
DOI: 10.5281/zenodo.10689751
title: sRNA
DOI: 10.5281/zenodo.10689752
title: sRNA
DOI: 10.5281/zenodo.10672567
title: De novo transcriptome assembly for Karenia mikimotoi ARC164 using Illumina sequencing

description: Raw reads were pre-processed by removing the adaptors and low-quality reads using BBMap. The filtered reads were normalized for depth based on kmer counts using BBNorm function. De novo transcriptomes were generated using both Trinity and velvet-oases. CD-HIT-EST was used to merge the resulting two de novo transcriptomes and reduce the transcript redundancy to 90% similarity and unique genes were predicted using transdecoder. Raw reads can be found in GenBank PRJNA912133.
DOI: 10.5281/zenodo.10672566
title: De novo transcriptome assembly for Karenia mikimotoi ARC164 using Illumina sequencing

description: Raw reads were pre-processed by removing the adaptors and low-quality reads using BBMap. The filtered reads were normalized for depth based on kmer counts using BBNorm function. De novo transcriptomes were generated using both Trinity and velvet-oases. CD-HIT-EST was used to merge the resulting two de novo transcriptomes and reduce the transcript redundancy to 90% similarity and unique genes were predicted using transdecoder. Raw reads can be found in GenBank PRJNA912133.
DOI: 10.6084/m9.figshare.22822838
title: Annual time-series 1-km maps of crop area and types in the conterminous US (CropAT-US) during 1850-2021

description: By integrating multi-source cross-scale inventories and satellite-based datasets, we reconstructed the annual crop density and crop type map (excluding summer idle/fallow, cropland pasture) in the contiguous US at 1km×1km resolution from 1850 to 2021. The annual crop density map depicts the distribution and fraction of cultivated land, while the crop type map displays the corresponding crop type. The developed datasets fill the data gap in lacking of crop type extent and type maps, which can support the environmental assessment and socioeconomic analysis related to agricultural activities. (Supplement to: Shuchao, Ye et al. (2023): Annual time-series 1-km maps of crop area and types in the conterminous US (CropAT-US): cropping diversity changes during 1850-2021.)
DOI: 10.6084/m9.figshare.25076129.v2
title: Consistent Community Detection in Inter-Layer Dependent Multi-Layer Networks

description: Community detection in multi-layer networks, which aims at finding groups of nodes with similar connective patterns among all layers, has attracted tremendous interests in multi-layer network analysis. Most existing methods are extended from those for single-layer networks, which assume that different layers are independent. In this article, we propose a novel community detection method in multi-layer networks with inter-layer dependence, which integrates the stochastic block model (SBM) and the Ising model. The community structure is modeled by the SBM model and the inter-layer dependence is incorporated via the Ising model. An efficient alternative updating algorithm is developed to tackle the resultant optimization task. Moreover, the asymptotic consistencies of the proposed method in terms of both parameter estimation and community detection are established, which are supported by extensive simulated examples and a real example on a multi-layer malaria parasite gene network. Supplementary materials for this article are available online.
DOI: 10.6084/m9.figshare.25076129.v1
title: Consistent community detection in inter-layer dependent multi-layer networks

description: Community detection in multi-layer networks, which aims at finding groups of nodes with similar connective patterns among all layers, has attracted tremendous interests in multi-layer network analysis. Most existing methods are extended from those for single-layer networks, which assume that different layers are independent. In this paper, we propose a novel community detection method in multi-layer networks with inter-layer dependence, which integrates the stochastic block model (SBM) and the Ising model. The community structure is modeled by the SBM model and the inter-layer dependence is incorporated via the Ising model. An efficient alternative updating algorithm is developed to tackle the resultant optimization task. Moreover, the asymptotic consistencies of the proposed method in terms of both parameter estimation and community detection are established, which are supported by extensive simulated examples and a real example on a multi-layer malaria parasite gene network.
DOI: 10.5281/zenodo.10689714
title: GCMS data for Rosser et al. 2024 Hybrid speciation driven by multilocus introgression of ecological traits.

description: Raw GCMS data analysed in Rosser et al. 2024 Hybrid speciation driven by multilocus introgression of ecological traits. See Supplementary Information for details.
DOI: 10.5281/zenodo.10689715
title: GCMS data for Rosser et al. 2024 Hybrid speciation driven by multilocus introgression of ecological traits.

description: Raw GCMS data analysed in Rosser et al. 2024 Hybrid speciation driven by multilocus introgression of ecological traits. See Supplementary Information for details.
DOI: 10.25345/c5nz8116v
title: MassIVE MSV000094145 - Organomercury-based capture of S-nitrosated proteins links protein quality control to fertility defects in Arabidopsis
title: Pistils of hot5-2 and WT at stages before pollination (FD 12-13) were harvested and immediately shock frozen in lN2. Around 50 pistils per genotype were pooled and represent one biological replicate with a total of three biological replicates per genotype. Proteins were extracted using diluted HENS buffer (25mM HEPES pH 7.7, 1mM EDTA, 2.5 % SDS, protease inhibitor cocktail (Pierce A32955), TCA precipitated and resuspended in the same buffer. After BCA protein determination, 50 ug of each whole cell lysate was run on a 4-20% SDS-PAGE for approx. 15 min to separate proteins from lower molecular weight contaminants. The entire protein region was excised of the gel and subjected to in-gel trypsin digestion after reduction with dithiothreitol and alkylation with iodoacetamide as described in (Treffon et al., 2021). Peptides eluted from the gel were lyophilized and re-suspended in 50uL of 5% acetonitrile (0.1% (v/v) FA). For each biological replicate, three technical replicates were measured by LC-MS/MS. A 2 uL injection was loaded by a Waters NanoAcquity UPLC in 5% acetonitrile (0.1% formic acid) at 4.0 uL/min for 4.0 min onto a 100 um I.D. fused-silica pre-column packed with 2 cm of 5 um (200A) Magic C18AQ (Bruker-Michrom). Peptides were eluted at 300 nL/min from a 75 um I.D. gravity-pulled analytical column packed with 25 cm of 3 um (100A) Magic C18AQ particles using a linear gradient from 5-35% of mobile phase B (acetonitrile + 0.1% formic acid) in mobile phase A (water + 0.1% formic acid) over 90 minutes. Ions were introduced by positive electrospray ionization via liquid junction at 1.4kV into a Thermo Scientific Q Exactive hybrid mass spectrometer. Mass spectra were acquired over m/z 300-1750 at 70,000 resolution (m/z 200) with an AGC target of 1e6, and data-dependent acquisition selected the top 10 most abundant precursor ions for tandem mass spectrometry by HCD fragmentation using an isolation width of 1.6 Da, max fill time of 110ms, and AGC target of 1e5. Peptides were fragmented by a normalized collisional energy of 27, and fragment spectra acquired at a resolution of 17,500 (m/z 200).
DOI: 10.25345/c5j67973h
title: MassIVE MSV000094146 - Organomercury-based capture of S-nitrosated proteins links protein quality control to fertility defects in Arabidopsis
title: Pooled sepals and petals (hereafter referred to as SePel) of hot5-2 and WT were harvested from the same plants of which pistils have been isolated. Material from around 50 flowers at stages before pollination (floral developmental stage, FD 12-13) were pooled and represent one biological replicate. A total of five biological replicates were further processed as mentioned for the pistil proteome. For the LC-MS\MS run, a 3 uL injection was loaded by a Thermo Easy nLC 1000 UPLC on to a 2 cm trapping column and desalted with 8 uL mobile phase A (0.1% formic acid in water). Peptides were eluted at 300 nL/min on to a 75 um x 15 cm RSLC column (Thermo) using a linear gradient of 5-35% mobile phase B (0.1% formic acid in acetonitrile) over 90 minutes. Ions were introduced by positive ESI using a stainless steel capillary at 2.1 kV into a Thermo Orbitrap Fusion tribrid mass spectrometer. Mass spectra were acquired over m/z 300-1750 at 120,000 resolution (m/z 200) with an AGC target of 1e6, and data-dependent acquisition selected the top 10 most abundant precursor ions for tandem mass spectrometry by HCD fragmentation using an isolation width of 1.6 Da, maximum fill time 110 ms and AGC target 1e5. Peptides were fragmented with a normalized collision energy 27, and fragment spectra acquired at a resolution of 15,000 (m/z 200).
DOI: 10.34740/kaggle/dsv/7673958
title: crypto-data-daily-updates
DOI: 10.34703/gzx1-9v95/uh2kg7
title: Replication Data for: The only effective pollinators of Guettarda scabra are nocturnal hawkmoths: a re-examination and refutation of earlier conclusions

description: Field experiments in a pine rockland were conducted to determine the effective pollinators of Guettarda scabra (Rubiaceae).
DOI: 10.34703/gzx1-9v95/uh2kg7/bhhmbk
title: Observations_DATA.tab

description: Data of flower visitors and number of visits registered during the morning and at night on Guettarda scabra (Rubiaceae) plants during the flowering season of 2019 at Larry and Penny Thompson Memorial Park (25°35′55″N 80°23′55″W), Miami-Dade County, Florida, USA. Observations were conducted simultaneously on a varied number of plants based on flower availability. Only legitimate visits were recorded. A total of seven Lepidoptera species were identified visiting G. scabra flowers, with six species observed during the morning and one species at night.
DOI: 10.34703/gzx1-9v95/uh2kg7/gu5d25
title: ExclusionExp_DATA.tab

description: Data from a pollinator exclusion experiment conducted on a natural Guettarda scabra (Rubiaceae) population during the flowering season of 2019 at Larry and Penny Thompson Memorial Park (25°35′55″N 80°23′55″W), Miami-Dade County, Florida, USA. The experiment consisted of four distinct treatments based on flower accessibility to visitors: Nocturnal pollination, flowers available only at night; Diurnal pollination, flowers available only during the day; Closed, flowers never available (negative control); and Open, flowers always available (positive control). Nocturnal visitors had access to flowers from 1900 to 0700 h, and diurnal from 0700 to 1900 h. Each treatment consisted of 33 plants, 2 inflorescences per plant;132 plants total. Each plant received one of the four treatments.
DOI: 10.34740/kaggle/dsv/7673986
title: Public Opinion Russia Ukraine War (Updated Daily)
DOI: 10.26093/cds/vizier.36570080
title: Asteroids phase curves using SLOAN MOC

description: VizieR online Data Catalogue associated with article published in journal Astronomy and Astrophysics with title 'Phase curves of small bodies from the SLOAN Moving Objects Catalog.' (bibcode: 2022A&A...657A..80A)
DOI: 10.25345/c5dj58t35
title: MassIVE MSV000094147 - Enhanced surface accessibility of SARS-CoV-2 Omicron spike protein due to an altered glycosylation profile
title: SARS-CoV-2 spike (S) proteins undergo extensive glycosylation, aiding proper folding, enhancing stability, and evading host immune surveillance. In this study, we used mass spectrometric analysis to elucidate the N-glycosylation characteristics and disulfide bonding of recombinant spike proteins derived from the SARS-CoV-2 Omicron variant (B.1.1.529) in comparison with the D614G spike variant. Furthermore, we conducted microsecond-long molecular dynamics simulations on spike proteins to resolve how the different N-glycans impact spike conformational sampling in the two variants. Our findings reveal that the Omicron spike protein maintains an overall resemblance to the D614G spike variant in terms of site-specific glycan processing and disulfide bond formation. Nonetheless, alterations in glycans were observed at certain N-glycosylation sites. These changes, in synergy with mutations within the Omicron spike protein, result in increased surface accessibility of the macromolecule, including ectodomain, receptor-binding domain, and N-terminal domain. These insights contribute to our understanding of the interplay between structure and function, thereby advancing effective vaccination and therapeutic strategies.
DOI: 10.6084/m9.figshare.24220798
title: Data File 1.csv

description: In this supplementary document we provide data points corresponding to nonlinear transfer functions of reconfigurable activation unit for a range of frequency detunings, in the case of input Gaussian optical signals with FWHM = 40 ps ( underlying values of data points in Fig. 1(c)).
DOI: 10.6084/m9.figshare.24220804
title: Data File 2.csv

description: In this supplementary document we provide data points corresponding to nonlinear transfer functions of reconfigurable activation unit for a range of frequency detunings, in the case of input Gaussian optical signals with FWHM = 45 ps.
DOI: 10.6084/m9.figshare.24220798.v1
title: Data File 1.csv

description: In this supplementary document we provide data points corresponding to nonlinear transfer functions of reconfigurable activation unit for a range of frequency detunings, in the case of input Gaussian optical signals with FWHM = 40 ps ( underlying values of data points in Fig. 1(c)).
DOI: 10.6084/m9.figshare.24220804.v1
title: Data File 2.csv

description: In this supplementary document we provide data points corresponding to nonlinear transfer functions of reconfigurable activation unit for a range of frequency detunings, in the case of input Gaussian optical signals with FWHM = 45 ps.
DOI: 10.5517/ccdc.csd.cc2gvhtn
title: CCDC 2289592: Experimental Crystal Structure Determination

description: Related Article: Suryakant S. Chaudhari, Chandrakant B. Nichinde, Baliram R. Patil, Amardipsing S. Girase, Gamidi Rama Krishna, Anil K. Kinage|2024|Org.Biomol.Chem.|22|1727|doi:10.1039/D3OB01794J
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc2gvhvp
title: CCDC 2289593: Experimental Crystal Structure Determination

description: Related Article: Suryakant S. Chaudhari, Chandrakant B. Nichinde, Baliram R. Patil, Amardipsing S. Girase, Gamidi Rama Krishna, Anil K. Kinage|2024|Org.Biomol.Chem.|22|1727|doi:10.1039/D3OB01794J
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc2gvhwq
title: CCDC 2289594: Experimental Crystal Structure Determination

description: Related Article: Suryakant S. Chaudhari, Chandrakant B. Nichinde, Baliram R. Patil, Amardipsing S. Girase, Gamidi Rama Krishna, Anil K. Kinage|2024|Org.Biomol.Chem.|22|1727|doi:10.1039/D3OB01794J
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc2gvhxr
title: CCDC 2289595: Experimental Crystal Structure Determination

description: Related Article: Suryakant S. Chaudhari, Chandrakant B. Nichinde, Baliram R. Patil, Amardipsing S. Girase, Gamidi Rama Krishna, Anil K. Kinage|2024|Org.Biomol.Chem.|22|1727|doi:10.1039/D3OB01794J
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc2h6350
title: CCDC 2299771: Experimental Crystal Structure Determination

description: Related Article: Dmitry A. Tatarinov, Elina A. Mikulenkova, Igor A. Litvinov, Khasan R. Khayarov, Vladimir F. Mironov|2024|Org.Biomol.Chem.|22|1629|doi:10.1039/D3OB01718D
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.