cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.7936724
title: Single introductions of soil biota and plants generate long-term legacies in soil and plant community assembly

description: Plant and nematode community composition data from a field experiment. This shows responses of above-belowground community assembly in response to seed addition and/or soil inoculation over 20 years.
DOI: 10.6084/m9.figshare.7936706
title: gVCF_NA11933

description: 1000 Genomes gVCF mapped to hs37d5 for NA11933. Complete collection: https://doi.org/10.6084/m9.figshare.c.4414307
DOI: 10.6084/m9.figshare.7936709
title: gVCF_NA20355

description: 1000 Genomes gVCF mapped to hs37d5 for NA20355. Complete collection: https://doi.org/10.6084/m9.figshare.c.4414307
DOI: 10.6084/m9.figshare.7936721
title: Cutaneous metastases in renal cell carcinoma: a systematic review and a case report

description: <b>Objective:</b> Cutaneous metastases of renal cell carcinoma (C.M.R.C.C.) are rare and associated with a poor prognosis. The aim of this study is to evaluate the incidence and the prognosis of C.M.R.C.C. with a relevant case report. <b>Materials and methods:</b> The Preferred Reporting Items for Systematic Reviews and Meta-Analyses (P.R.I.S.M.A.) of existing literature in English and Scandinavian languages was used in t​​he period 1902–2017 with a literature search in PubMed, Embase, and Cochrane Library. <b>Results:</b> Nine original articles were found where the incidence of a C.M.R.C.C. was 3.3% (168/5017). In order to estimate the prognosis of C.M.R.C.C., 161 articles were found with a total of 334 cases. Survival was described in 40% of all cases (132/334). In 31% (102/334) of the cases the final time of death was stated and in this group the mean survival was 10.9 months. Ninety-six per cent died within 36 months after being diagnosed with C.M.R.C.C. <b>Conclusion:</b> C.M.R.C.C. are rare with an incidence of 3.3%. The prognosis is poor with a high mortality. It is suggested that the skin should be examined in the diagnostic evaluation and follow-up for patients with renal cell carcinoma.
DOI: 10.6084/m9.figshare.7936721.v1
title: Cutaneous metastases in renal cell carcinoma: a systematic review and a case report

description: <b>Objective:</b> Cutaneous metastases of renal cell carcinoma (C.M.R.C.C.) are rare and associated with a poor prognosis. The aim of this study is to evaluate the incidence and the prognosis of C.M.R.C.C. with a relevant case report. <b>Materials and methods:</b> The Preferred Reporting Items for Systematic Reviews and Meta-Analyses (P.R.I.S.M.A.) of existing literature in English and Scandinavian languages was used in t​​he period 1902–2017 with a literature search in PubMed, Embase, and Cochrane Library. <b>Results:</b> Nine original articles were found where the incidence of a C.M.R.C.C. was 3.3% (168/5017). In order to estimate the prognosis of C.M.R.C.C., 161 articles were found with a total of 334 cases. Survival was described in 40% of all cases (132/334). In 31% (102/334) of the cases the final time of death was stated and in this group the mean survival was 10.9 months. Ninety-six per cent died within 36 months after being diagnosed with C.M.R.C.C. <b>Conclusion:</b> C.M.R.C.C. are rare with an incidence of 3.3%. The prognosis is poor with a high mortality. It is suggested that the skin should be examined in the diagnostic evaluation and follow-up for patients with renal cell carcinoma.
DOI: 10.6084/m9.figshare.7936694
title: Spontaneous perception of numerosity in pre-school children

description: Raw data
DOI: 10.6084/m9.figshare.7936703
title: Supplementary Material for: Familial 3-Way Balanced Translocation Causes 1q43→qter Loss and 10q25.2→qter Gain in a Severely Affected Male Toddler

description: Constitutional complex chromosomal rearrangements (CCRs) are rare events that typically involve 2 or more chromosomes with at least 3 breakpoints and can result in normal or abnormal phenotypes depending on whether they disturb the euchromatic neighborhood. Here, we report an unusual balanced CCR involving chromosomes 1, 9, and 10 that causes an unbalanced karyotype in a severely affected toddler. The CCR was initially reported as a maternal 2-way translocation but was reclassified as a 3-way translocation after a microarray analysis of the propositus revealed the involvement of another chromosome not identified by G-banding in his phenotypically normal mother. FISH assays on maternal metaphase cells confirmed that the 1qter region of der(1) was translocated to der(10), whereas the 10qter segment was translocated to der(9), which in turn donated a segment to der(1). Subsequently, this CCR was also identified in her phenotypically normal father (the patient's grandfather). Thus, the patient inherited the previously unreported pathogenic combination of der(1) with a loss of 1q43→qter (including <i>AKT3</i>, <i>ZBTB18</i>, <i>HNRNPU</i>, and <i>SMYD3</i>) and der(9) with a gain of 10q25.2→qter (including <i>FGFR2</i>), leading to a compound phenotype with key features of the 1q43→qter deletion and distal 10q trisomy syndromes. Our observations suggest that the loss of <i>SMYD3</i> accounts for cardiac defects in a subset of patients. Moreover, due to recurrent miscarriages in this family, our findings allowed improved genetic counseling.
DOI: 10.6084/m9.figshare.7936706.v1
title: gVCF_NA11933

description: 1000 Genomes gVCF mapped to hs37d5 for NA11933. Complete collection: https://doi.org/10.6084/m9.figshare.c.4414307
DOI: 10.6084/m9.figshare.7936709.v1
title: gVCF_NA20355

description: 1000 Genomes gVCF mapped to hs37d5 for NA20355. Complete collection: https://doi.org/10.6084/m9.figshare.c.4414307
DOI: 10.6084/m9.figshare.7936691
title: gVCF_HG02700

description: 1000 Genomes gVCF mapped to hs37d5 for HG02700. Complete collection: https://doi.org/10.6084/m9.figshare.c.4414307
DOI: 10.6084/m9.figshare.7936700
title: First-principles study of electron dynamics with explicit treatment of momentum dispersion on Si nanowires along different directions

description: In this research, ground-state electronic structure and optical properties along with photoinduced electron dynamics of Si nanowires oriented in various directions are reviewed. These nanowires are significant functional units of future nano-electronic devices. All observables are computed for a distribution of wave vectors at ambient temperature. Optical properties are computed under the approximation of momentum conservation. The total absorption is composed of partial contributions from fixed values of momentum. The on-the-fly non-adiabatic couplings obtained along the <i>ab initio</i> molecular dynamics nuclear trajectories are used as parameters for Redfield density matrix equation of motion. The main outcomes of this study are transition energies, light absorption spectra, electron and hole relaxation rates, and electron transport properties. The results of these calculations would contribute to the understanding of the mechanism of electron transfer process on the Si nanowires for optoelectronic applications.
DOI: 10.6084/m9.figshare.7936694.v2
title: Spontaneous perception of numerosity in pre-school children

description: Raw data
DOI: 10.6084/m9.figshare.7936703.v1
title: Supplementary Material for: Familial 3-Way Balanced Translocation Causes 1q43→qter Loss and 10q25.2→qter Gain in a Severely Affected Male Toddler

description: Constitutional complex chromosomal rearrangements (CCRs) are rare events that typically involve 2 or more chromosomes with at least 3 breakpoints and can result in normal or abnormal phenotypes depending on whether they disturb the euchromatic neighborhood. Here, we report an unusual balanced CCR involving chromosomes 1, 9, and 10 that causes an unbalanced karyotype in a severely affected toddler. The CCR was initially reported as a maternal 2-way translocation but was reclassified as a 3-way translocation after a microarray analysis of the propositus revealed the involvement of another chromosome not identified by G-banding in his phenotypically normal mother. FISH assays on maternal metaphase cells confirmed that the 1qter region of der(1) was translocated to der(10), whereas the 10qter segment was translocated to der(9), which in turn donated a segment to der(1). Subsequently, this CCR was also identified in her phenotypically normal father (the patient's grandfather). Thus, the patient inherited the previously unreported pathogenic combination of der(1) with a loss of 1q43→qter (including <i>AKT3</i>, <i>ZBTB18</i>, <i>HNRNPU</i>, and <i>SMYD3</i>) and der(9) with a gain of 10q25.2→qter (including <i>FGFR2</i>), leading to a compound phenotype with key features of the 1q43→qter deletion and distal 10q trisomy syndromes. Our observations suggest that the loss of <i>SMYD3</i> accounts for cardiac defects in a subset of patients. Moreover, due to recurrent miscarriages in this family, our findings allowed improved genetic counseling.
DOI: 10.6084/m9.figshare.7936688
title: gVCF_NA20351

description: 1000 Genomes gVCF mapped to hs37d5 for NA20351. Complete collection: https://doi.org/10.6084/m9.figshare.c.4414307
DOI: 10.6084/m9.figshare.7936691.v1
title: gVCF_HG02700

description: 1000 Genomes gVCF mapped to hs37d5 for HG02700. Complete collection: https://doi.org/10.6084/m9.figshare.c.4414307
DOI: 10.6084/m9.figshare.7936685
title: gVCF_NA11932

description: 1000 Genomes gVCF mapped to hs37d5 for NA11932. Complete collection: https://doi.org/10.6084/m9.figshare.c.4414307
DOI: 10.6084/m9.figshare.7936694.v1
title: Spontaneous perception of numerosity in pre-school children

description: Raw data
DOI: 10.6084/m9.figshare.7936700.v2
title: First-principles study of electron dynamics with explicit treatment of momentum dispersion on Si nanowires along different directions

description: In this research, ground-state electronic structure and optical properties along with photoinduced electron dynamics of Si nanowires oriented in various directions are reviewed. These nanowires are significant functional units of future nano-electronic devices. All observables are computed for a distribution of wave vectors at ambient temperature. Optical properties are computed under the approximation of momentum conservation. The total absorption is composed of partial contributions from fixed values of momentum. The on-the-fly non-adiabatic couplings obtained along the <i>ab initio</i> molecular dynamics nuclear trajectories are used as parameters for Redfield density matrix equation of motion. The main outcomes of this study are transition energies, light absorption spectra, electron and hole relaxation rates, and electron transport properties. The results of these calculations would contribute to the understanding of the mechanism of electron transfer process on the Si nanowires for optoelectronic applications.
DOI: 10.6084/m9.figshare.7936685.v1
title: gVCF_NA11932

description: 1000 Genomes gVCF mapped to hs37d5 for NA11932. Complete collection: https://doi.org/10.6084/m9.figshare.c.4414307
DOI: 10.6084/m9.figshare.7936688.v1
title: gVCF_NA20351

description: 1000 Genomes gVCF mapped to hs37d5 for NA20351. Complete collection: https://doi.org/10.6084/m9.figshare.c.4414307
DOI: 10.6084/m9.figshare.7936700.v1
title: First-principles study of electron dynamics with explicit treatment of momentum dispersion on Si nanowires along different directions

description: In this research, ground-state electronic structure and optical properties along with photoinduced electron dynamics of Si nanowires oriented in various directions are reviewed. These nanowires are significant functional units of future nano-electronic devices. All observables are computed for a distribution of wave vectors at ambient temperature. Optical properties are computed under the approximation of momentum conservation. The total absorption is composed of partial contributions from fixed values of momentum. The on-the-fly non-adiabatic couplings obtained along the <i>ab initio</i> molecular dynamics nuclear trajectories are used as parameters for Redfield density matrix equation of motion. The main outcomes of this study are transition energies, light absorption spectra, electron and hole relaxation rates, and electron transport properties. The results of these calculations would contribute to the understanding of the mechanism of electron transfer process on the Si nanowires for optoelectronic applications.
DOI: 10.6084/m9.figshare.7936667
title: gVCF_NA11931

description: 1000 Genomes gVCF mapped to hs37d5 for NA11931. Complete collection: https://doi.org/10.6084/m9.figshare.c.4414307
DOI: 10.6084/m9.figshare.7936673
title: gVCF_NA20348

description: 1000 Genomes gVCF mapped to hs37d5 for NA20348. Complete collection: https://doi.org/10.6084/m9.figshare.c.4414307
DOI: 10.6084/m9.figshare.7936676
title: gVCF_HG02699

description: 1000 Genomes gVCF mapped to hs37d5 for HG02699. Complete collection: https://doi.org/10.6084/m9.figshare.c.4414307
DOI: 10.6084/m9.figshare.7936646
title: gVCF_NA20346

description: 1000 Genomes gVCF mapped to hs37d5 for NA20346. Complete collection: https://doi.org/10.6084/m9.figshare.c.4414307
DOI: 10.6084/m9.figshare.7936667.v1
title: gVCF_NA11931

description: 1000 Genomes gVCF mapped to hs37d5 for NA11931. Complete collection: https://doi.org/10.6084/m9.figshare.c.4414307
DOI: 10.6084/m9.figshare.7936673.v1
title: gVCF_NA20348

description: 1000 Genomes gVCF mapped to hs37d5 for NA20348. Complete collection: https://doi.org/10.6084/m9.figshare.c.4414307
DOI: 10.6084/m9.figshare.7936676.v1
title: gVCF_HG02699

description: 1000 Genomes gVCF mapped to hs37d5 for HG02699. Complete collection: https://doi.org/10.6084/m9.figshare.c.4414307
DOI: 10.6084/m9.figshare.7936637
title: gVCF_HG02697

description: 1000 Genomes gVCF mapped to hs37d5 for HG02697. Complete collection: https://doi.org/10.6084/m9.figshare.c.4414307
DOI: 10.6084/m9.figshare.7936646.v1
title: gVCF_NA20346

description: 1000 Genomes gVCF mapped to hs37d5 for NA20346. Complete collection: https://doi.org/10.6084/m9.figshare.c.4414307
DOI: 10.6084/m9.figshare.7936628
title: gVCF_NA20344

description: 1000 Genomes gVCF mapped to hs37d5 for NA20344. Complete collection: https://doi.org/10.6084/m9.figshare.c.4414307
DOI: 10.6084/m9.figshare.7936637.v1
title: gVCF_HG02697

description: 1000 Genomes gVCF mapped to hs37d5 for HG02697. Complete collection: https://doi.org/10.6084/m9.figshare.c.4414307
DOI: 10.6084/m9.figshare.7936625
title: gVCF_NA11930

description: 1000 Genomes gVCF mapped to hs37d5 for NA11930. Complete collection: https://doi.org/10.6084/m9.figshare.c.4414307
DOI: 10.6084/m9.figshare.7936610
title: gVCF_HG02696

description: 1000 Genomes gVCF mapped to hs37d5 for HG02696. Complete collection: https://doi.org/10.6084/m9.figshare.c.4414307
DOI: 10.6084/m9.figshare.7936625.v1
title: gVCF_NA11930

description: 1000 Genomes gVCF mapped to hs37d5 for NA11930. Complete collection: https://doi.org/10.6084/m9.figshare.c.4414307
DOI: 10.6084/m9.figshare.7936628.v1
title: gVCF_NA20344

description: 1000 Genomes gVCF mapped to hs37d5 for NA20344. Complete collection: https://doi.org/10.6084/m9.figshare.c.4414307
DOI: 10.6084/m9.figshare.7936604
title: Vertical stratification of peatland microbial communities follows a gradient of functional types across hummock–hollow microtopographies

description: Microbes play crucial roles in global carbon cycles, particularly in peatland ecosystems that store vast quantities of carbon. Boreal peatlands are under stress from commercial extraction of peat, drainage for conversion to forestry and agricultural lands, and climate change. In this study, we identify key microbial groups and their ecological functions across peatland depth profiles and provide insight into how environmental changes related to water table may alter microbial communities. We examined the diversity and composition of prokaryotic communities across a microtopographic hummock–hollow gradient using Illumina sequencing. Communities formed a gradient of species and functional groups with depth, with overlap in functional groups at lower layers of hummocks and upper layers of hollows. Yet, overall, we found significantly different prokaryotic communities in hollows than hummocks. Surfaces of hummocks were typified by aerobic chemoorganotrophs, methanotrophs and chemoheterotrophs, mid-depths were typified by aerobic chemoorganotrophs, nitrogen-fixing bacteria and anaerobic nitrate reducers, while lower depths in hollows were typified by anaerobic and facultative anaerobic chemoorganotrophs, nitrate reducers and methanogenic archaea. Microbial composition as a function of hydrology and moisture regimes suggests that environmental changes that alter hydrological regimes (e.g., climate change, peatland draining) may alter carbon and nutrient cycling regimes.
DOI: 10.6084/m9.figshare.7936607
title: gVCF_NA20342

description: 1000 Genomes gVCF mapped to hs37d5 for NA20342. Complete collection: https://doi.org/10.6084/m9.figshare.c.4414307
DOI: 10.6084/m9.figshare.7936607.v1
title: gVCF_NA20342

description: 1000 Genomes gVCF mapped to hs37d5 for NA20342. Complete collection: https://doi.org/10.6084/m9.figshare.c.4414307
DOI: 10.6084/m9.figshare.7936610.v1
title: gVCF_HG02696

description: 1000 Genomes gVCF mapped to hs37d5 for HG02696. Complete collection: https://doi.org/10.6084/m9.figshare.c.4414307
DOI: 10.6084/m9.figshare.7936577
title: gVCF_NA11920

description: 1000 Genomes gVCF mapped to hs37d5 for NA11920. Complete collection: https://doi.org/10.6084/m9.figshare.c.4414307
DOI: 10.6084/m9.figshare.7936580
title: gVCF_HG02694

description: 1000 Genomes gVCF mapped to hs37d5 for HG02694. Complete collection: https://doi.org/10.6084/m9.figshare.c.4414307
DOI: 10.6084/m9.figshare.7936583
title: gVCF_NA20341

description: 1000 Genomes gVCF mapped to hs37d5 for NA20341. Complete collection: https://doi.org/10.6084/m9.figshare.c.4414307
DOI: 10.6084/m9.figshare.7936583.v1
title: gVCF_NA20341

description: 1000 Genomes gVCF mapped to hs37d5 for NA20341. Complete collection: https://doi.org/10.6084/m9.figshare.c.4414307
DOI: 10.6084/m9.figshare.7936580.v1
title: gVCF_HG02694

description: 1000 Genomes gVCF mapped to hs37d5 for HG02694. Complete collection: https://doi.org/10.6084/m9.figshare.c.4414307
DOI: 10.6084/m9.figshare.7936538
title: gVCF_NA20339

description: 1000 Genomes gVCF mapped to hs37d5 for NA20339. Complete collection: https://doi.org/10.6084/m9.figshare.c.4414307
DOI: 10.6084/m9.figshare.7936550
title: gVCF_HG02691

description: 1000 Genomes gVCF mapped to hs37d5 for HG02691. Complete collection: https://doi.org/10.6084/m9.figshare.c.4414307
DOI: 10.6084/m9.figshare.7936571
title: gVCF_NA20340

description: 1000 Genomes gVCF mapped to hs37d5 for NA20340. Complete collection: https://doi.org/10.6084/m9.figshare.c.4414307
DOI: 10.6084/m9.figshare.7936577.v1
title: gVCF_NA11920

description: 1000 Genomes gVCF mapped to hs37d5 for NA11920. Complete collection: https://doi.org/10.6084/m9.figshare.c.4414307
DOI: 10.6084/m9.figshare.7936538.v1
title: gVCF_NA20339

description: 1000 Genomes gVCF mapped to hs37d5 for NA20339. Complete collection: https://doi.org/10.6084/m9.figshare.c.4414307
DOI: 10.6084/m9.figshare.7936571.v1
title: gVCF_NA20340

description: 1000 Genomes gVCF mapped to hs37d5 for NA20340. Complete collection: https://doi.org/10.6084/m9.figshare.c.4414307
DOI: 10.6084/m9.figshare.7936523
title: gVCF_NA20336

description: 1000 Genomes gVCF mapped to hs37d5 for NA20336. Complete collection: https://doi.org/10.6084/m9.figshare.c.4414307
DOI: 10.6084/m9.figshare.7936529
title: gVCF_NA11919

description: 1000 Genomes gVCF mapped to hs37d5 for NA11919. Complete collection: https://doi.org/10.6084/m9.figshare.c.4414307
DOI: 10.6084/m9.figshare.7936523.v1
title: gVCF_NA20336

description: 1000 Genomes gVCF mapped to hs37d5 for NA20336. Complete collection: https://doi.org/10.6084/m9.figshare.c.4414307
DOI: 10.6084/m9.figshare.7936529.v1
title: gVCF_NA11919

description: 1000 Genomes gVCF mapped to hs37d5 for NA11919. Complete collection: https://doi.org/10.6084/m9.figshare.c.4414307
DOI: 10.6084/m9.figshare.7936520
title: gVCF_HG02690

description: 1000 Genomes gVCF mapped to hs37d5 for HG02690. Complete collection: https://doi.org/10.6084/m9.figshare.c.4414307
DOI: 10.6084/m9.figshare.7936520.v1
title: gVCF_HG02690

description: 1000 Genomes gVCF mapped to hs37d5 for HG02690. Complete collection: https://doi.org/10.6084/m9.figshare.c.4414307
DOI: 10.6084/m9.figshare.7936445
title: Additional file 6: of Identification and reconstruction of novel antibiotic resistance genes from metagenomes

description: Table S2. A list of all reconstructed and predicted genes together with their amino acid sequences. (XLSX 48 kb)
DOI: 10.6084/m9.figshare.7936445.v1
title: Additional file 6: of Identification and reconstruction of novel antibiotic resistance genes from metagenomes

description: Table S2. A list of all reconstructed and predicted genes together with their amino acid sequences. (XLSX 48 kb)
DOI: 10.6084/m9.figshare.7936439
title: Additional file 4: of Proteome profiling of Pseudomonas aeruginosa PAO1 identifies novel responders to copper stress

description: Mass spectrometry data. (XLSX 2115 kb)
DOI: 10.6084/m9.figshare.7936439.v1
title: Additional file 4: of Proteome profiling of Pseudomonas aeruginosa PAO1 identifies novel responders to copper stress

description: Mass spectrometry data. (XLSX 2115 kb)
DOI: 10.6084/m9.figshare.7936421
title: Additional file 3: of Identification and reconstruction of novel antibiotic resistance genes from metagenomes

description: Table S1. Î˛-lactamases used to create all six models. (XLSX 18 kb)
DOI: 10.6084/m9.figshare.7936421.v1
title: Additional file 3: of Identification and reconstruction of novel antibiotic resistance genes from metagenomes

description: Table S1. Î˛-lactamases used to create all six models. (XLSX 18 kb)
DOI: 10.6084/m9.figshare.7936352
title: Additional file 8: of Discovery of isomiRs in PBMCs of diseased vis-Ă -vis healthy Indian water buffaloes

description: Predicted targets of common and unique microRNAs of various groups. (XLSX 52 kb)
DOI: 10.6084/m9.figshare.7936352.v1
title: Additional file 8: of Discovery of isomiRs in PBMCs of diseased vis-Ă -vis healthy Indian water buffaloes

description: Predicted targets of common and unique microRNAs of various groups. (XLSX 52 kb)
DOI: 10.6084/m9.figshare.7936187
title: Additional file 5: of Transcriptomic analysis of fetal membranes reveals pathways involved in preterm birth

description: Table S4. a. Full list of differentially expressed genes (FDR &lt; 0.05 and absolute logarithm log fold change &gt; 2) detected in the severe preterm vs. term pairwise comparison. b. Subset of DE genes that were also DE between labor and no labor conditions in the literature. c. Full list of differentially expressed genes (FDR &lt; 0.05 and absolute logarithm fold change &gt; 2) detected in the PROM vs. no PROM comparison. d. List of severe preterm DE genes already identified as associated with PTB in available databases. References are indicated in the manuscript. (XLSX 60 kb)
DOI: 10.6084/m9.figshare.7936187.v1
title: Additional file 5: of Transcriptomic analysis of fetal membranes reveals pathways involved in preterm birth

description: Table S4. a. Full list of differentially expressed genes (FDR &lt; 0.05 and absolute logarithm log fold change &gt; 2) detected in the severe preterm vs. term pairwise comparison. b. Subset of DE genes that were also DE between labor and no labor conditions in the literature. c. Full list of differentially expressed genes (FDR &lt; 0.05 and absolute logarithm fold change &gt; 2) detected in the PROM vs. no PROM comparison. d. List of severe preterm DE genes already identified as associated with PTB in available databases. References are indicated in the manuscript. (XLSX 60 kb)
DOI: 10.6084/m9.figshare.7936166
title: Additional file 3: of Transcriptomic analysis of fetal membranes reveals pathways involved in preterm birth

description: Table S3. Alignment statistics obtained by tophat2. Number of sequenced reads, total mapped reads and uniquely mapped reads for each of the 8 sequenced samples. (XLSX 4 kb)