cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.7291085.v1
title: Raw_data.zip

description: Raw GPS location fixes of four African wild dog individuals in the Limpopo and Mpumalanga provinces in South Africa. Data were collected from collared individuals from 2012 to 2014. the Skukuza and Opren individuals occurred within the Kruger National Park, whilst the Bluebank and Waterberg individuals occurred outside the boundaries of the park.
DOI: 10.7284/105529
title: Meteorological Station data collected during research cruise SAV-11-44 using a RM Young 26800 instrument system onboard the platform RV Savannah

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/105714
title: Singlebeam Echosounder data collected during research cruise SAV-11-44 using a Furuno FCV-582 instrument system onboard the platform RV Savannah

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7290980
title: Extensive mitochondrial heteroplasmy in the neotropical ants of the <i>Ectatomma ruidum</i> complex (Formicidae: Ectatomminae)

description: We assembled mitogenomes from 21 ant workers assigned to four morphospecies (<i>E. ruidum</i> spp. 1-4) and putative hybrids of the <i>Ectatomma ruidum</i> complex (<i>E. ruidum</i> spp. 2x3), and to <i>E. tuberculatum</i> using NGS data. Mitogenomes from specimens of <i>E. ruidum</i> spp. 3, 4 and 2 × 3 had a high proportion of polymorphic sites. We investigated whether polymorphisms in mitogenomes are due to nuclear mt paralogues (<i>numts</i>) or due to the presence of more than one mitogenome within an individual (heteroplasmy). We did not find loss of function signals in polymorphic protein-coding genes, and observed strong evidence for purifying selection in two haplotype-phased genes, which indicate the presence of two functional mitochondrial genomes coexisting within individuals instead of <i>numts</i>. Heteroplasmy due to hybrid paternal leakage is not supported by phylogenetic analyses. Our results reveal the presence of a fast-evolving secondary mitochondrial lineage of uncertain origin in the <i>E. ruidum</i> complex.
DOI: 10.7284/105572
title: TSG (Thermosalinograph) data collected during research cruise SAV-11-44 using a Sea-Bird SBE-21 instrument system onboard the platform RV Savannah

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7290980.v1
title: Extensive mitochondrial heteroplasmy in the neotropical ants of the <i>Ectatomma ruidum</i> complex (Formicidae: Ectatomminae)

description: We assembled mitogenomes from 21 ant workers assigned to four morphospecies (<i>E. ruidum</i> spp. 1-4) and putative hybrids of the <i>Ectatomma ruidum</i> complex (<i>E. ruidum</i> spp. 2x3), and to <i>E. tuberculatum</i> using NGS data. Mitogenomes from specimens of <i>E. ruidum</i> spp. 3, 4 and 2 × 3 had a high proportion of polymorphic sites. We investigated whether polymorphisms in mitogenomes are due to nuclear mt paralogues (<i>numts</i>) or due to the presence of more than one mitogenome within an individual (heteroplasmy). We did not find loss of function signals in polymorphic protein-coding genes, and observed strong evidence for purifying selection in two haplotype-phased genes, which indicate the presence of two functional mitochondrial genomes coexisting within individuals instead of <i>numts</i>. Heteroplasmy due to hybrid paternal leakage is not supported by phylogenetic analyses. Our results reveal the presence of a fast-evolving secondary mitochondrial lineage of uncertain origin in the <i>E. ruidum</i> complex.
DOI: 10.6084/m9.figshare.7290971
title: Analysis of interleukin 23 and 7G10 interactions for computational design of lead antibodies against immune-mediated inflammatory diseases

description: Wealth of structural data on theurapeutic targets in complex with monoclonal antibodies (mAbs) and advances in molecular modeling algorithms present exciting opportunities in the field of novel biologic design. Interleukin 23 (IL23), a well-known drug target for autoimmune diseases, in complex with mAb 7G10 offers prospect to design potent lead antibodies by traversing the complete epitope–paratope interface. Herein, key interactions aiding antibody-based neutralization in IL23–7G10 complex are resolute through PyMOL, LigPlot<sup>+</sup>, Antibody i-Patch, DiscoTope and FoldX. Six amino acids Ser31, Val33, Asn55, Lys59 in heavy chain and His34, Ser93 in light chain are subjected to in silico mutagenesis with residues Met, Trp, Ile, Leu and Arg. A set of 431 mutant macromolecules are outlined. Binding affinities of these molecules with IL23 are estimated through protein–protein docking by employing ZDOCK, ClusPro and RosettaDock. Subsequently, the macromolecules revealed comparable result with 7G10 are cross validated through binding free-energy calculations by applying Molecular Mechanics/Poisson Boltzman Surface Area method in CHARMM. Thirty nine designed theoretical antibodies showed improved outcome in all evaluations; from these, top 10 molecules showed at least nine unit better binding affinity compared to the known mAb. These molecules have the potential to act as lead antibodies. Subsequent molecular dynamics simulations too favored prospective of best ranked molecule to have therapeutic implications in autoimmune and inflammatory diseases. <b>Abbreviations:</b> IL23: interleukin 23; IL17: interleukin17; Ab: antibody; Ag: antigen; mAbs: monoclonal antibodies; STAT3: signal transducer and activator of transcription 3; STAT4: signal transducer and activator of transcription 4; PDB: protein databank; MM/PBSA: molecular mechanics Poisson-Boltzmann surface area; Ag–Ab: antigen– antibody complex; SPC/E: extended simple point charge; SD: steepest descents; PME: particle mesh ewald; dG: binding free energies; Fv: variable fragment
DOI: 10.7284/106139
title: CTD (Conductivity, Temperature, Depth) data collected during research cruise SAV-12-01 using a Sea-Bird SBE-25 instrument system onboard the platform RV Savannah

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7290971.v1
title: Analysis of interleukin 23 and 7G10 interactions for computational design of lead antibodies against immune-mediated inflammatory diseases

description: Wealth of structural data on theurapeutic targets in complex with monoclonal antibodies (mAbs) and advances in molecular modeling algorithms present exciting opportunities in the field of novel biologic design. Interleukin 23 (IL23), a well-known drug target for autoimmune diseases, in complex with mAb 7G10 offers prospect to design potent lead antibodies by traversing the complete epitope–paratope interface. Herein, key interactions aiding antibody-based neutralization in IL23–7G10 complex are resolute through PyMOL, LigPlot<sup>+</sup>, Antibody i-Patch, DiscoTope and FoldX. Six amino acids Ser31, Val33, Asn55, Lys59 in heavy chain and His34, Ser93 in light chain are subjected to in silico mutagenesis with residues Met, Trp, Ile, Leu and Arg. A set of 431 mutant macromolecules are outlined. Binding affinities of these molecules with IL23 are estimated through protein–protein docking by employing ZDOCK, ClusPro and RosettaDock. Subsequently, the macromolecules revealed comparable result with 7G10 are cross validated through binding free-energy calculations by applying Molecular Mechanics/Poisson Boltzman Surface Area method in CHARMM. Thirty nine designed theoretical antibodies showed improved outcome in all evaluations; from these, top 10 molecules showed at least nine unit better binding affinity compared to the known mAb. These molecules have the potential to act as lead antibodies. Subsequent molecular dynamics simulations too favored prospective of best ranked molecule to have therapeutic implications in autoimmune and inflammatory diseases. <b>Abbreviations:</b> IL23: interleukin 23; IL17: interleukin17; Ab: antibody; Ag: antigen; mAbs: monoclonal antibodies; STAT3: signal transducer and activator of transcription 3; STAT4: signal transducer and activator of transcription 4; PDB: protein databank; MM/PBSA: molecular mechanics Poisson-Boltzmann surface area; Ag–Ab: antigen– antibody complex; SPC/E: extended simple point charge; SD: steepest descents; PME: particle mesh ewald; dG: binding free energies; Fv: variable fragment
DOI: 10.6084/m9.figshare.7290959
title: Supplementary data.xlsx

description: Supplementary Data for 'Early diagnosis of trisomy 21, trisomy 18 and trisomy 13 using both nuchal translucency thickness and ductus venous blood flow waveform in West China' .<b></b>
DOI: 10.6084/m9.figshare.7290968
title: Radiation and the heart: systematic review of dosimetry and cardiac endpoints

description: <b>Introduction</b>: Recent trials in radiotherapy have associated heart dose and survival, inadequately explained by the existing literature for radiation-related late cardiac effects. Authors aimed to review the recent literature on cardiac dosimetry and survival/cardiac endpoints. <b>Areas covered</b>: Systematic review of the literature in the past 10 years (2008–2017) was performed to identify manuscripts reporting both cardiac dosimetry and survival/cardiac endpoints. Authors identified 64 manuscripts for inclusion, covering pediatrics, breast cancer, lung cancer, gastrointestinal diseases (primarily esophageal cancer), and adult lymphoma. <b>Expert commentary</b>: In the first years after radiotherapy, high doses (&gt;40 Gy) to small volumes of the heart are associated with decreased survival from an unknown cause. In the long-term, mean heart dose is associated with a small increased absolute risk of cardiac death. For coronary disease, relative risk increases roughly 10% per Gy mean heart dose, augmented by age and cardiac risk factors. For valvular disease and heart failure, doses &gt;15 Gy substantially increase risk, augmented by anthracyclines. Arrhythmias after radiotherapy are poorly described but may account for the association between upper heart dose and survival. Symptomatic pericardial effusion typically occurs with doses &gt;40 Gy. Close follow-up and mitigation of cardiovascular risk factors are necessary after thoracic radiotherapy.
DOI: 10.7284/106134
title: GNSS (Global Navigation Satellite System) data collected during research cruise SAV-12-01 using a Furuno GP-90 instrument system onboard the platform RV Savannah

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7290968.v1
title: Radiation and the heart: systematic review of dosimetry and cardiac endpoints

description: <b>Introduction</b>: Recent trials in radiotherapy have associated heart dose and survival, inadequately explained by the existing literature for radiation-related late cardiac effects. Authors aimed to review the recent literature on cardiac dosimetry and survival/cardiac endpoints. <b>Areas covered</b>: Systematic review of the literature in the past 10 years (2008–2017) was performed to identify manuscripts reporting both cardiac dosimetry and survival/cardiac endpoints. Authors identified 64 manuscripts for inclusion, covering pediatrics, breast cancer, lung cancer, gastrointestinal diseases (primarily esophageal cancer), and adult lymphoma. <b>Expert commentary</b>: In the first years after radiotherapy, high doses (&gt;40 Gy) to small volumes of the heart are associated with decreased survival from an unknown cause. In the long-term, mean heart dose is associated with a small increased absolute risk of cardiac death. For coronary disease, relative risk increases roughly 10% per Gy mean heart dose, augmented by age and cardiac risk factors. For valvular disease and heart failure, doses &gt;15 Gy substantially increase risk, augmented by anthracyclines. Arrhythmias after radiotherapy are poorly described but may account for the association between upper heart dose and survival. Symptomatic pericardial effusion typically occurs with doses &gt;40 Gy. Close follow-up and mitigation of cardiovascular risk factors are necessary after thoracic radiotherapy.
DOI: 10.6084/m9.figshare.7290896
title: Updated dataset for Dysmorphic concern: A new method of assessing selective attention and its comparative associations with perfectionism

description: Updated dataset for the study entitled "Dysmorphic concern: A new method of assessing selective attention and its comparative associations with perfectionism"
DOI: 10.6084/m9.figshare.7290956
title: Detection and analysis of genome-wide copy number variation in the pig genome using an 80K SNP Beadchip

description: This "Raw data for LRR and BAF.txt" contains the 1199 individuals of total signal intensity (LRR) and B Allele frequency (BAF) data in this study.<br>
DOI: 10.7284/106135
title: Gyrocompass data collected during research cruise SAV-12-01 using a Yokogawa CMZ700B instrument system onboard the platform RV Savannah

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/106137
title: Meteorological Station data collected during research cruise SAV-12-01 using a RM Young 26800 instrument system onboard the platform RV Savannah

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7290878
title: MOESM9 of The large fraction of heterochromatin in Drosophila neurons is bound by both B-type lamin and HP1a

description: Additional file 9.Â Table S7: HTS raw data parameters.
DOI: 10.6084/m9.figshare.7290878.v1
title: MOESM9 of The large fraction of heterochromatin in Drosophila neurons is bound by both B-type lamin and HP1a

description: Additional file 9.Â Table S7: HTS raw data parameters.
DOI: 10.7284/106136
title: Singlebeam Echosounder data collected during research cruise SAV-12-01 using a Furuno FCV-582 instrument system onboard the platform RV Savannah

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7290872
title: MOESM7 of The large fraction of heterochromatin in Drosophila neurons is bound by both B-type lamin and HP1a

description: Additional file 7. Table S5: List of ubiquitously expressed genes based on microarray expression data from [51]Â with the indication of promoter location within the conserved HP1a, Lam and Pc domains or within the conserved inter-domains.
DOI: 10.6084/m9.figshare.7290875
title: MOESM8 of The large fraction of heterochromatin in Drosophila neurons is bound by both B-type lamin and HP1a

description: Additional file 8. Table S6: Distances from the CenpA signals to the nuclear lamina in Elav-positive neurons andÂ Kc167 cells.
DOI: 10.6084/m9.figshare.7290872.v1
title: MOESM7 of The large fraction of heterochromatin in Drosophila neurons is bound by both B-type lamin and HP1a

description: Additional file 7. Table S5: List of ubiquitously expressed genes based on microarray expression data from [51]Â with the indication of promoter location within the conserved HP1a, Lam and Pc domains or within the conserved inter-domains.
DOI: 10.6084/m9.figshare.7290875.v1
title: MOESM8 of The large fraction of heterochromatin in Drosophila neurons is bound by both B-type lamin and HP1a

description: Additional file 8. Table S6: Distances from the CenpA signals to the nuclear lamina in Elav-positive neurons andÂ Kc167 cells.
DOI: 10.7284/106138
title: TSG (Thermosalinograph) data collected during research cruise SAV-12-01 using a Sea-Bird SBE-21 instrument system onboard the platform RV Savannah

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7290869
title: MOESM6 of The large fraction of heterochromatin in Drosophila neurons is bound by both B-type lamin and HP1a

description: Additional file 6. Table S4: Differentially expressed gene list upon HP1a KD in Kc167 cells with the indication of intersection of gene bodies with HP1a, Lam or Pc domains. Microarray expression data were from [50].
DOI: 10.6084/m9.figshare.7290869.v1
title: MOESM6 of The large fraction of heterochromatin in Drosophila neurons is bound by both B-type lamin and HP1a

description: Additional file 6. Table S4: Differentially expressed gene list upon HP1a KD in Kc167 cells with the indication of intersection of gene bodies with HP1a, Lam or Pc domains. Microarray expression data were from [50].
DOI: 10.7284/106142
title: ADCP (Acoustic Doppler Current Profiler) data collected during research cruise SAV-12-02 using a RDI WM-300 instrument system onboard the platform RV Savannah

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7290863
title: MOESM5 of The large fraction of heterochromatin in Drosophila neurons is bound by both B-type lamin and HP1a

description: Additional file 5. Table S3: Expression of genes according toÂ the RNA-seq data from [44, 49] with the indication of promoter location within HP1a, Lam or Pc domains in the central brain, fat body and Kc167 cells.
DOI: 10.6084/m9.figshare.7290863.v1
title: MOESM5 of The large fraction of heterochromatin in Drosophila neurons is bound by both B-type lamin and HP1a

description: Additional file 5. Table S3: Expression of genes according toÂ the RNA-seq data from [44, 49] with the indication of promoter location within HP1a, Lam or Pc domains in the central brain, fat body and Kc167 cells.
DOI: 10.7284/106146
title: CTD (Conductivity, Temperature, Depth) data collected during research cruise SAV-12-02 using a Sea-Bird SBE-25 instrument system onboard the platform RV Savannah

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7290854
title: MOESM4 of The large fraction of heterochromatin in Drosophila neurons is bound by both B-type lamin and HP1a

description: Additional file 4. Table S2: The percentage of intersected domain length from total POI domain length (where POI is HP1a, Lam or Pc) in the central brain, neurons, glia, fat body and Kc167 cells separately for ChAs, CHet, 4th chromosome and non-repetitive part of X chromosome.
DOI: 10.6084/m9.figshare.7290854.v1
title: MOESM4 of The large fraction of heterochromatin in Drosophila neurons is bound by both B-type lamin and HP1a

description: Additional file 4. Table S2: The percentage of intersected domain length from total POI domain length (where POI is HP1a, Lam or Pc) in the central brain, neurons, glia, fat body and Kc167 cells separately for ChAs, CHet, 4th chromosome and non-repetitive part of X chromosome.
DOI: 10.7284/106140
title: GNSS (Global Navigation Satellite System) data collected during research cruise SAV-12-02 using a Furuno GP-90 instrument system onboard the platform RV Savannah

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/106141
title: Gyrocompass data collected during research cruise SAV-12-02 using a Yokogawa CMZ700B instrument system onboard the platform RV Savannah

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7290845
title: MOESM3 of The large fraction of heterochromatin in Drosophila neurons is bound by both B-type lamin and HP1a

description: Additional file 3. Table S1: HP1a, Lam and Pc domain coordinates in the central brain, neurons, glia and fat body.
DOI: 10.6084/m9.figshare.7290845.v1
title: MOESM3 of The large fraction of heterochromatin in Drosophila neurons is bound by both B-type lamin and HP1a

description: Additional file 3. Table S1: HP1a, Lam and Pc domain coordinates in the central brain, neurons, glia and fat body.
DOI: 10.6084/m9.figshare.7290839
title: Additional file 8: of Comparative genomics reveals the distinct evolutionary trajectories of the robust and complex coral lineages

description: Amino acid sequences of robust coral proteins implicated in histidine biosynthesis and the corresponding SwissProt homologues that were used for the identification of functional residues (as shown in Additional fileÂ 2: Table S24). (FASTA 10 kb)
DOI: 10.7284/106144
title: Meteorological Station data collected during research cruise SAV-12-02 using a RM Young 26800 instrument system onboard the platform RV Savannah

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7290839.v1
title: Additional file 8: of Comparative genomics reveals the distinct evolutionary trajectories of the robust and complex coral lineages

description: Amino acid sequences of robust coral proteins implicated in histidine biosynthesis and the corresponding SwissProt homologues that were used for the identification of functional residues (as shown in Additional fileÂ 2: Table S24). (FASTA 10 kb)
DOI: 10.7284/106143
title: Singlebeam Echosounder data collected during research cruise SAV-12-02 using a Furuno FCV-582 instrument system onboard the platform RV Savannah

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/106145
title: TSG (Thermosalinograph) data collected during research cruise SAV-12-02 using a Sea-Bird SBE-21 instrument system onboard the platform RV Savannah

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7290824
title: Additional file 2: of Population genomics and climate adaptation of a C4 perennial grass, Panicum hallii (Poaceae)

description: Table S1. GO terms significantly associated with each climate variable. Table S2. Candidate genes containing climate associated SNPs. Table S3. Collection locations and SRA accession numbers for sequenced plants. Table S4. RDA analysis of SNP variation. Table S5. Analysis of isolation by distance. (XLSX 26 kb)
DOI: 10.6084/m9.figshare.7290827
title: Additional file 2 of ALPHLARD: a Bayesian method for analyzing HLA genes from whole genome sequence data

description: Tables S6-S13. The validated HLA genotypes and the results of ALPHLARD, OptiType, and PHLAT from 25 WGS data. (XLSX 31 kb)
DOI: 10.6084/m9.figshare.7290824.v1
title: Additional file 2: of Population genomics and climate adaptation of a C4 perennial grass, Panicum hallii (Poaceae)

description: Table S1. GO terms significantly associated with each climate variable. Table S2. Candidate genes containing climate associated SNPs. Table S3. Collection locations and SRA accession numbers for sequenced plants. Table S4. RDA analysis of SNP variation. Table S5. Analysis of isolation by distance. (XLSX 26 kb)
DOI: 10.6084/m9.figshare.7290827.v1
title: Additional file 2 of ALPHLARD: a Bayesian method for analyzing HLA genes from whole genome sequence data

description: Tables S6-S13. The validated HLA genotypes and the results of ALPHLARD, OptiType, and PHLAT from 25 WGS data. (XLSX 31 kb)
DOI: 10.7284/106149
title: ADCP (Acoustic Doppler Current Profiler) data collected during research cruise SAV-12-03 using a RDI WM-300 instrument system onboard the platform RV Savannah

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7290821
title: Additional file 7: of Comparative genomics reveals the distinct evolutionary trajectories of the robust and complex coral lineages

description: Imidazoleglycerol-phosphate dehydratase (K01693) protein sequences that were used for phylogeny construction shown in Additional fileÂ 3: Figure S11. (FASTA 5 kb)
DOI: 10.6084/m9.figshare.7290821.v1
title: Additional file 7: of Comparative genomics reveals the distinct evolutionary trajectories of the robust and complex coral lineages

description: Imidazoleglycerol-phosphate dehydratase (K01693) protein sequences that were used for phylogeny construction shown in Additional fileÂ 3: Figure S11. (FASTA 5 kb)
DOI: 10.7284/106153
title: CTD (Conductivity, Temperature, Depth) data collected during research cruise SAV-12-03 using a Sea-Bird SBE-25 instrument system onboard the platform RV Savannah

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7290809
title: Additional file 1 of ALPHLARD: a Bayesian method for analyzing HLA genes from whole genome sequence data

description: Tables S1-S5. The validated HLA genotypes and the results of ALPHLARD, OptiType, and PHLAT from 253 HapMap WES data. (XLSX 218 kb)