cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.17028/rd.lboro.16774699.v1
title: Supplementary information files for: Machine learning force fields based on local parametrization of dispersion interactions: Application to the phase diagram of C<sub>60</sub>

description: Supplementary files for article: Machine learning force fields based on local parametrization of dispersion interactions: Application to the phase diagram of C<sub>60</sub>.We present a comprehensive methodology to enable the addition of van der Waals (vdW) corrections to machine learning (ML) atomistic force fields. Using a Gaussian approximation potential (GAP) [Bartók et al., Phys. Rev. Lett. 104, 136403 (2010)10.1103/PhysRevLett.104.136403] as a baseline, we accurately machine learn a local model of atomic polarizabilities based on Hirshfeld volume partitioning of the charge density [Tkatchenko and Scheffler, Phys. Rev. Lett. 102, 073005 (2009)10.1103/PhysRevLett.102.073005]. These environment-dependent polarizabilities are then used to parametrize a screened London-dispersion approximation to the vdW interactions. Our ML vdW model only needs to learn the charge density partitioning implicitly by learning the reference Hirshfeld volumes from density functional theory (DFT). In practice, we can predict accurate Hirshfeld volumes from the knowledge of the local atomic environment (atomic positions) alone, making the model highly computationally efficient. For additional efficiency, our ML model of atomic polarizabilities reuses the same many-body atomic descriptors used for the underlying GAP learning of bonded interatomic interactions. We also show how the method enables straightforward computation of gradients of the observables, even when these remain challenging for the reference method (e.g., calculating gradients of the Hirshfeld volumes in DFT). Finally, we demonstrate the approach by studying the phase diagram of C60, where vdW effects are important. The need for a highly accurate vdW-inclusive reactive force field is highlighted by modeling the decomposition of the C60 molecules taking place at high pressures and temperatures.<br>
DOI: 10.6084/m9.figshare.11531820
title: MOESM6 of Genetic regulatory networks for salt-alkali stress in Gossypium hirsutum with differing morphological characteristics

description: Additional file 6: Table S2. Gene ontology (GO) enrichment analysis of DEGs in root.
DOI: 10.6084/m9.figshare.11531820.v1
title: MOESM6 of Genetic regulatory networks for salt-alkali stress in Gossypium hirsutum with differing morphological characteristics

description: Additional file 6: Table S2. Gene ontology (GO) enrichment analysis of DEGs in root.
DOI: 10.6084/m9.figshare.11531823
title: MOESM7 of Genetic regulatory networks for salt-alkali stress in Gossypium hirsutum with differing morphological characteristics

description: Additional file 7: Table S3. Kyoto Encyclopedia of Genes and Genomes (KEGG) enrichment of DEGs in leaf.
DOI: 10.6084/m9.figshare.11531823.v1
title: MOESM7 of Genetic regulatory networks for salt-alkali stress in Gossypium hirsutum with differing morphological characteristics

description: Additional file 7: Table S3. Kyoto Encyclopedia of Genes and Genomes (KEGG) enrichment of DEGs in leaf.
DOI: 10.48597/ye4v-287f
title: Measurement of Inorganics in precipitation at Le Casset

description: Measurement of Inorganics in precipitation at Le Casset
DOI: 10.48597/ye6z-7wrn
title: Measurement of Pm10_pm25_mass at Birkenes II

description: Measurement of Pm10_pm25_mass at Birkenes II
DOI: 10.48597/yn78-sgaw
title: Measurement of Inorganics in precipitation at Donon

description: Measurement of Inorganics in precipitation at Donon
DOI: 10.6084/m9.figshare.11531829
title: MOESM8 of Genetic regulatory networks for salt-alkali stress in Gossypium hirsutum with differing morphological characteristics

description: Additional file 8: Table S4. Kyoto Encyclopedia of Genes and Genomes (KEGG) enrichment of DEGs in root.
DOI: 10.48597/ynxp-w6qk
title: Measurement of Ozone at La Coulonche

description: Measurement of Ozone at La Coulonche
DOI: 10.48597/yrqa-6qpc
title: Measurement of OC/EC at Hurdal

description: Measurement of OC/EC at Hurdal
DOI: 10.6084/m9.figshare.11531829.v1
title: MOESM8 of Genetic regulatory networks for salt-alkali stress in Gossypium hirsutum with differing morphological characteristics

description: Additional file 8: Table S4. Kyoto Encyclopedia of Genes and Genomes (KEGG) enrichment of DEGs in root.
DOI: 10.48597/yu42-4gxs
title: Measurement of Calcium at Oak Park

description: Measurement of Calcium at Oak Park
DOI: 10.48597/yyrf-pfpa
title: Measurement of OC/EC at Birkenes II

description: Measurement of OC/EC at Birkenes II
DOI: 10.48597/z3cc-v6j5
title: Measurement of PFAS (per- and polyfluoroalkyl substances) at Zeppelin mountain (Ny-Ålesund)

description: Measurement of PFAS (per- and polyfluoroalkyl substances) at Zeppelin mountain (Ny-Ålesund)
DOI: 10.48597/z7er-r3kc
title: Measurement of PFAS (per- and polyfluoroalkyl substances) at Andøya

description: Measurement of PFAS (per- and polyfluoroalkyl substances) at Andøya
DOI: 10.48597/z84p-s5j5
title: Measurement of Ozone at Saint-Nazaire-le-Désert

description: Measurement of Ozone at Saint-Nazaire-le-Désert
DOI: 10.48597/2ctz-tknq
title: Measurement of Particle_number_size_distribution at Kosetice (NOAK)

description: Measurement of Particle_number_size_distribution at Kosetice (NOAK)
DOI: 10.48597/2gp5-wsr5
title: Measurement of Sodium at Jungfraujoch

description: Measurement of Sodium at Jungfraujoch
DOI: 10.48597/3abu-nkc5
title: Measurement of Sulphate_total at Jungfraujoch

description: Measurement of Sulphate_total at Jungfraujoch
DOI: 10.48597/4gf7-9fsk
title: Measurement of Inorganics in air and particle phase at Virolahti II

description: Measurement of Inorganics in air and particle phase at Virolahti II
DOI: 10.48597/5b8t-38eh
title: Measurement of Ammonium_nitrate at Jungfraujoch

description: Measurement of Ammonium_nitrate at Jungfraujoch
DOI: 10.6084/m9.figshare.11531835
title: MOESM9 of Genetic regulatory networks for salt-alkali stress in Gossypium hirsutum with differing morphological characteristics

description: Additional file 9: Table S5. Number of members of different TF families showing in the upland cotton at different stages after alkali-salt stress treatment.
DOI: 10.6084/m9.figshare.11531835.v1
title: MOESM9 of Genetic regulatory networks for salt-alkali stress in Gossypium hirsutum with differing morphological characteristics

description: Additional file 9: Table S5. Number of members of different TF families showing in the upland cotton at different stages after alkali-salt stress treatment.
DOI: 10.48597/6kb8-ykgq
title: Measurement of Magnesium at Jungfraujoch

description: Measurement of Magnesium at Jungfraujoch
DOI: 10.48597/6swu-2v9e
title: Measurement of Nitrate at Jungfraujoch

description: Measurement of Nitrate at Jungfraujoch
DOI: 10.48597/72zh-5cse
title: Measurement of Nitrate at Vredepeel

description: Measurement of Nitrate at Vredepeel
DOI: 10.48597/7sn3-b66x
title: Measurement of Nitrate at Jungfraujoch

description: Measurement of Nitrate at Jungfraujoch
DOI: 10.48597/7z2w-vkty
title: Measurement of PM mass at Birkenes II

description: Measurement of PM mass at Birkenes II
DOI: 10.48597/8kap-w65e
title: Measurement of Particle_number_size_distribution at Kosetice (NOAK)

description: Measurement of Particle_number_size_distribution at Kosetice (NOAK)
DOI: 10.48597/8qsa-cery
title: Measurement of Inorganics in air and particle phase at Ähtäri II

description: Measurement of Inorganics in air and particle phase at Ähtäri II
DOI: 10.48597/8yd8-bp5a
title: Measurement of Sulphate_total at Vredepeel

description: Measurement of Sulphate_total at Vredepeel
DOI: 10.48597/asta-qwya
title: Measurement of Ammonium at Vredepeel

description: Measurement of Ammonium at Vredepeel
DOI: 10.48597/azuh-6ff9
title: Measurement of Particle_number_size_distribution at Kosetice (NOAK)

description: Measurement of Particle_number_size_distribution at Kosetice (NOAK)
DOI: 10.48597/bcdg-uxwd
title: Measurement of Nitrate at Jungfraujoch

description: Measurement of Nitrate at Jungfraujoch
DOI: 10.48597/c8hn-5mgj
title: Measurement of Sulphate_total at Jungfraujoch

description: Measurement of Sulphate_total at Jungfraujoch
DOI: 10.48597/csar-4ufv
title: Measurement of Ammonium at De Zilk

description: Measurement of Ammonium at De Zilk
DOI: 10.48597/cseg-3rvb
title: Measurement of Particle_number_size_distribution at Kosetice (NOAK)

description: Measurement of Particle_number_size_distribution at Kosetice (NOAK)
DOI: 10.48597/df8k-umuu
title: Measurement of Particle_number_size_distribution at Kosetice (NOAK)

description: Measurement of Particle_number_size_distribution at Kosetice (NOAK)
DOI: 10.48597/dydg-2jhx
title: Measurement of Pm10_mass at Poiana Stampei

description: Measurement of Pm10_mass at Poiana Stampei
DOI: 10.48597/eew7-uch7
title: Measurement of Precipitation_amount at Revin

description: Measurement of Precipitation_amount at Revin
DOI: 10.48597/em5t-3hde
title: Measurement of Chloride at Jungfraujoch

description: Measurement of Chloride at Jungfraujoch
DOI: 10.48597/evfb-tzkf
title: Measurement of Oxalate at Jungfraujoch

description: Measurement of Oxalate at Jungfraujoch
DOI: 10.48597/ex9m-hga7
title: Measurement of Nitrogen oxides and inorganics in air and particle phase at Poiana Stampei

description: Measurement of Nitrogen oxides and inorganics in air and particle phase at Poiana Stampei
DOI: 10.48597/f8aw-3hmy
title: Measurement of Inorganics in precipitation at Ulborg

description: Measurement of Inorganics in precipitation at Ulborg
DOI: 10.48597/fb56-v4xr
title: Measurement of Inorganics in air and particle phase at Pallas (Matorova)

description: Measurement of Inorganics in air and particle phase at Pallas (Matorova)
DOI: 10.48597/fd8y-sycd
title: Measurement of Sodium at Jungfraujoch

description: Measurement of Sodium at Jungfraujoch
DOI: 10.48597/fvrq-s7mh
title: Measurement of Chloride at Jungfraujoch

description: Measurement of Chloride at Jungfraujoch
DOI: 10.48597/fy8v-ebv3
title: Measurement of Ammonium_nitrate at Jungfraujoch

description: Measurement of Ammonium_nitrate at Jungfraujoch
DOI: 10.48597/g2d2-gvne
title: Measurement of Mercury at Harwell

description: Measurement of Mercury at Harwell
DOI: 10.48597/gnjk-3zgv
title: Measurement of Oxalate at Jungfraujoch

description: Measurement of Oxalate at Jungfraujoch
DOI: 10.48597/gqjb-fdt6
title: Measurement of Nitrate at Jungfraujoch

description: Measurement of Nitrate at Jungfraujoch
DOI: 10.48597/hzk5-2xus
title: Measurement of PAHs (polycyclic aromatic hydrocarbons) at Agia Marina Xyliatou / Cyprus Atmospheric Observatory

description: Measurement of PAHs (polycyclic aromatic hydrocarbons) at Agia Marina Xyliatou / Cyprus Atmospheric Observatory
DOI: 10.48597/jmja-fs5b
title: Measurement of Particle_number_size_distribution at Kosetice (NOAK)

description: Measurement of Particle_number_size_distribution at Kosetice (NOAK)
DOI: 10.48597/jszr-6cge
title: Measurement of Calcium at Jungfraujoch

description: Measurement of Calcium at Jungfraujoch
DOI: 10.48597/k9ep-jqnr
title: Measurement of Particle_number_size_distribution at Kosetice (NOAK)

description: Measurement of Particle_number_size_distribution at Kosetice (NOAK)
DOI: 10.48597/kmur-j6kq
title: Measurement of Particle_number_size_distribution at Kosetice (NOAK)

description: Measurement of Particle_number_size_distribution at Kosetice (NOAK)
DOI: 10.48597/q7h4-nkru
title: Measurement of Heavy metals at Waldhof

description: Measurement of Heavy metals at Waldhof
DOI: 10.48597/qtc3-ggen
title: Measurement of Potassium at Jungfraujoch

description: Measurement of Potassium at Jungfraujoch
DOI: 10.6084/m9.figshare.11531847
title: MOESM1 of Genome-wide analysis reveals the association between alternative splicing and DNA methylation across human solid tumors

description: Additional file 1: Table S1. The number of samples from TCGA SpliceSeq and TCGA we used in the analyses. Table S2. The number and distribution of cancer-specific AS events across different cancers. Table S3. The number and distribution of AS-associated CpGs across different cancers. Table S4. Correlation of cancer-specific AS and DNA methylation in tumor tissues and normal tissues. Table S5. GO biological processes that were enriched by genes harboring differentially regulated exon in ten human cancers. Table S6. KEGG pathway enrichment of genes with methylation-related cancer-specific AS events across ten human cancer types.
DOI: 10.48597/rjz7-umjt
title: Measurement of Particle_number_size_distribution at Kosetice (NOAK)

description: Measurement of Particle_number_size_distribution at Kosetice (NOAK)
DOI: 10.48597/rwqk-tarx
title: Measurement of Ammonium at Jungfraujoch

description: Measurement of Ammonium at Jungfraujoch
DOI: 10.6084/m9.figshare.11531847.v1
title: MOESM1 of Genome-wide analysis reveals the association between alternative splicing and DNA methylation across human solid tumors

description: Additional file 1: Table S1. The number of samples from TCGA SpliceSeq and TCGA we used in the analyses. Table S2. The number and distribution of cancer-specific AS events across different cancers. Table S3. The number and distribution of AS-associated CpGs across different cancers. Table S4. Correlation of cancer-specific AS and DNA methylation in tumor tissues and normal tissues. Table S5. GO biological processes that were enriched by genes harboring differentially regulated exon in ten human cancers. Table S6. KEGG pathway enrichment of genes with methylation-related cancer-specific AS events across ten human cancer types.
DOI: 10.48597/sbd2-vjnz
title: Measurement of Particle_number_size_distribution at Kosetice (NOAK)

description: Measurement of Particle_number_size_distribution at Kosetice (NOAK)
DOI: 10.48597/sqrc-nntq
title: Measurement of Magnesium at Jungfraujoch

description: Measurement of Magnesium at Jungfraujoch
DOI: 10.48597/sszn-9vvd
title: Measurement of Particle_number_size_distribution at Kosetice (NOAK)

description: Measurement of Particle_number_size_distribution at Kosetice (NOAK)
DOI: 10.48597/t8mv-4qk5
title: Measurement of Inorganics in air and particle phase at Semenic

description: Measurement of Inorganics in air and particle phase at Semenic
DOI: 10.48597/t9qc-uy9y
title: Measurement of Particle_number_size_distribution at Kosetice (NOAK)

description: Measurement of Particle_number_size_distribution at Kosetice (NOAK)
DOI: 10.48597/taru-v4wm
title: Measurement of Inorganics in air and particle phase at Finokalia

description: Measurement of Inorganics in air and particle phase at Finokalia
DOI: 10.48597/tfgq-6trq
title: Measurement of Mercury at Auchencorth Moss

description: Measurement of Mercury at Auchencorth Moss
DOI: 10.48597/tumy-hac7
title: Measurement of Nitrate at Jungfraujoch

description: Measurement of Nitrate at Jungfraujoch
DOI: 10.48597/uztq-4juy
title: Measurement of Nitrate at De Zilk

description: Measurement of Nitrate at De Zilk
DOI: 10.48597/vjde-sr5w
title: Measurement of Sulphate_corrected at Vredepeel

description: Measurement of Sulphate_corrected at Vredepeel
DOI: 10.6084/m9.figshare.23590476
title: Additional file 5 of Promoter hypermethylation and comprehensive regulation of ncRNA lead to the down-regulation of ZNF880, providing a new insight for the therapeutics and research of colorectal cancer

description: Additional file 5. Table S1. Interaction prediction between candidate miRNAs and lncRNAs.
DOI: 10.6084/m9.figshare.23590476.v1
title: Additional file 5 of Promoter hypermethylation and comprehensive regulation of ncRNA lead to the down-regulation of ZNF880, providing a new insight for the therapeutics and research of colorectal cancer

description: Additional file 5. Table S1. Interaction prediction between candidate miRNAs and lncRNAs.
DOI: 10.6084/m9.figshare.11531859
title: MOESM2 of Biosynthetic engineering of the antifungal, anti-MRSA auroramycin

description: Additional file 2: Table S3. Oligonucleotides used in this study.
DOI: 10.6084/m9.figshare.11531859.v1
title: MOESM2 of Biosynthetic engineering of the antifungal, anti-MRSA auroramycin

description: Additional file 2: Table S3. Oligonucleotides used in this study.
DOI: 10.6084/m9.figshare.23590486
title: Additional file 7 of RP11-296E3.2 acts as an important molecular chaperone for YBX1 and promotes colorectal cancer proliferation and metastasis by activating STAT3

description: Additional file 7. Complete results of the GSEA.
DOI: 10.6084/m9.figshare.23590486.v1
title: Additional file 7 of RP11-296E3.2 acts as an important molecular chaperone for YBX1 and promotes colorectal cancer proliferation and metastasis by activating STAT3

description: Additional file 7. Complete results of the GSEA.
DOI: 10.6084/m9.figshare.7861856
title: A modular toolset of phiC31-based fluorescent protein tagging vectors for <i>Drosophila</i>

description: The <i>Drosophila</i> transgenic technology and fluorescent protein fusions are powerful tools to analyze protein expression patterns, subcellular localization and protein dynamics. Recently, the <i>Drosophila</i> transgenic technology has been improved by the highly efficient phiC31 site-specific integration system. Many new and improved fluorescent proteins with desirable advantages have been developed. However, the phiC31 system and the newly developed fluorescent proteins have not been systematically applied in <i>Drosophila</i> transgenic vectors. Here, we have constructed a modular toolset of C-terminal fluorescent protein fusion vectors based on phiC31 site-specific integration system for the generation of transgenic <i>Drosophila</i> lines. These cloning vectors contain a variety of fluorescent tags, including blue, cyan, green or red fluorescent proteins, photoactivatable or photoswitchable fluorescent proteins, fluorescent timers, photosensitizers and bimolecular fluorescence complementation tags. These vectors provide a range of transcriptional regulation options including UAST, UASP, UASC, LexAop, QUAS, Ubi, αTub67C and αTub84B promoters, and two screening marker options including <i>white</i> and <i>vermilion</i> gene. The vectors have been tested <i>in vivo</i> and can produce fluorescent chimeric proteins that are functional.
DOI: 10.6084/m9.figshare.7861856.v1
title: A modular toolset of phiC31-based fluorescent protein tagging vectors for <i>Drosophila</i>

description: The <i>Drosophila</i> transgenic technology and fluorescent protein fusions are powerful tools to analyze protein expression patterns, subcellular localization and protein dynamics. Recently, the <i>Drosophila</i> transgenic technology has been improved by the highly efficient phiC31 site-specific integration system. Many new and improved fluorescent proteins with desirable advantages have been developed. However, the phiC31 system and the newly developed fluorescent proteins have not been systematically applied in <i>Drosophila</i> transgenic vectors. Here, we have constructed a modular toolset of C-terminal fluorescent protein fusion vectors based on phiC31 site-specific integration system for the generation of transgenic <i>Drosophila</i> lines. These cloning vectors contain a variety of fluorescent tags, including blue, cyan, green or red fluorescent proteins, photoactivatable or photoswitchable fluorescent proteins, fluorescent timers, photosensitizers and bimolecular fluorescence complementation tags. These vectors provide a range of transcriptional regulation options including UAST, UASP, UASC, LexAop, QUAS, Ubi, αTub67C and αTub84B promoters, and two screening marker options including <i>white</i> and <i>vermilion</i> gene. The vectors have been tested <i>in vivo</i> and can produce fluorescent chimeric proteins that are functional.
DOI: 10.6084/m9.figshare.23590513
title: Additional file 1 of A Mendelian randomization study on causal effects of 25(OH) vitamin D levels on diabetic nephropathy

description: Additional file 1.
DOI: 10.6084/m9.figshare.23590513.v1
title: Additional file 1 of A Mendelian randomization study on causal effects of 25(OH) vitamin D levels on diabetic nephropathy

description: Additional file 1.
DOI: 10.6084/m9.figshare.11531892
title: MOESM1 of Proteome analysis guided genetic engineering of Corynebacterium glutamicum S9114 for tween 40-triggered improvement in l-ornithine production

description: Additional file 1: Table S1. The profiles of whole protein information identified by MS.
DOI: 10.6084/m9.figshare.11531892.v1
title: MOESM1 of Proteome analysis guided genetic engineering of Corynebacterium glutamicum S9114 for tween 40-triggered improvement in l-ornithine production

description: Additional file 1: Table S1. The profiles of whole protein information identified by MS.
DOI: 10.6084/m9.figshare.11531898
title: MOESM2 of Proteome analysis guided genetic engineering of Corynebacterium glutamicum S9114 for tween 40-triggered improvement in l-ornithine production

description: Additional file 2: Table S2. Differentially expressed protein statistics induced by tween 40 addition.
DOI: 10.6084/m9.figshare.11531898.v1
title: MOESM2 of Proteome analysis guided genetic engineering of Corynebacterium glutamicum S9114 for tween 40-triggered improvement in l-ornithine production

description: Additional file 2: Table S2. Differentially expressed protein statistics induced by tween 40 addition.
DOI: 10.6084/m9.figshare.9959036
title: Metadata record for: Arabidopsis proteome and the mass spectral assay library

description: This dataset contains key characteristics about the data described in the Data Descriptor Arabidopsis proteome and the mass spectral assay library. <br>
 Contents: <br>
 
 1. human readable metadata summary table in CSV format
 
 
 2. machine readable metadata file in JSON format<br><br><br>Versioning Note:Version 2 was generated when the metadata format was updated from JSON to JSON-LD. This was an automatic process that changed only the format, not the contents, of the metadata.<br>
DOI: 10.6084/m9.figshare.9959036.v1
title: Metadata record for: Arabidopsis proteome and the mass spectral assay library

description: This dataset contains key characteristics about the data described in the Data Descriptor Arabidopsis proteome and the mass spectral assay library. <br>
 Contents: <br>
 
 1. human readable metadata summary table in CSV format
 
 
 2. machine readable metadata file in JSON format
DOI: 10.6084/m9.figshare.9959036.v2
title: Metadata record for: Arabidopsis proteome and the mass spectral assay library

description: This dataset contains key characteristics about the data described in the Data Descriptor Arabidopsis proteome and the mass spectral assay library. <br>
 Contents: <br>
 
 1. human readable metadata summary table in CSV format
 
 
 2. machine readable metadata file in JSON format<br><br><br>Versioning Note:Version 2 was generated when the metadata format was updated from JSON to JSON-LD. This was an automatic process that changed only the format, not the contents, of the metadata.<br>
DOI: 10.6084/m9.figshare.19396218
title: Additional file 5 of Thyroid hormone enhances stem cell maintenance and promotes lineage-specific differentiation in human embryonic stem cells

description: Additional file 5. Table S1. Primers used for real time PCR.
DOI: 10.6084/m9.figshare.19396218.v1
title: Additional file 5 of Thyroid hormone enhances stem cell maintenance and promotes lineage-specific differentiation in human embryonic stem cells

description: Additional file 5. Table S1. Primers used for real time PCR.
DOI: 10.6084/m9.figshare.19396221
title: Additional file 6 of Thyroid hormone enhances stem cell maintenance and promotes lineage-specific differentiation in human embryonic stem cells

description: Additional file 6. Table S2. LC-MS/MS analysis of intracellular levels of metabolites.
DOI: 10.6084/m9.figshare.19396221.v1
title: Additional file 6 of Thyroid hormone enhances stem cell maintenance and promotes lineage-specific differentiation in human embryonic stem cells

description: Additional file 6. Table S2. LC-MS/MS analysis of intracellular levels of metabolites.