cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.5120995.v1
title: Supplementary Material for: Traumafolgestörungen bei Pflegekindern nach Misshandlung und Vernachlässigung

description: <i>Hintergrund: </i>Pflegekinder haben hÄufig traumatisierende Situationen erlebt, die ihre Fremdunterbringung erforderlich machten. Dennoch gibt es bislang kaum Untersuchungen zu TraumafolgestÖrungen in dieser Risikopopulation. <i>Patienten und Methoden: </i>Die traumatische Belastung bei 20 7-bis 16-jÄhrigen Pflegekindern (10 Jungen, 10 MÄdchen) aus der Inanspruchnahmepopulation einer kinder-und jugendpsychiatrischen Sprechstunde wurde mit einer hinsichtlich Alter und Geschlecht vergleichbaren klinischen Kontrollgruppe von 20 Patienten, die bei wenigstens einem biologischen Elternteil leben, verglichen. Die Diagnostik erfolgte anhand des UCLA PTSD Reaction Index fÜr DSM-IV und des semi-strukturierten Diagnostikinterviews K-SADS Present und Lifetime Version<i>. </i><i>Ergebnisse: </i>Bei den Pflegekindern liegen hÄufig multiple und chronische Traumata durch Misshandlung und/oder VernachlÄssigung vor (n = 19); die Kinder der Kontrollgrupper hingegen weisen hÄufiger einmalige, umschriebene Traumata auf (n = 9). Die PrÄvalenz posttraumatischer Stresssymptome bei Pflegekindern ist signifikant hÖher als bei den Kindern der Kontrollgruppe. <i>Schlussfolgerungen: </i>Pflegekinder entwickeln vor dem Hintergrund ihrer Misshandlungs-und VernachlÄssigungsvorgeschichte gehÄuft TraumafolgestÖrungen. Werden Pflegekinder wegen psychischer AuffÄlligkeiten zur Diagnostik vorgestellt, sollte daher eine gezielte Traumadiagnostik und bei Bedarf eine traumafokussierte Psychotherapie erfolgen.
DOI: 10.5281/zenodo.4011607
title: LiDAR dataset

description: These are the modified LiDAR data used in Bernard et al. (2020). Original pre-earthquake LiDAR can be found at: http://dx.doi.org/10.5069/G9G44N75 Original post-earthquake data can be accessible on request.
DOI: 10.6084/m9.figshare.5120977
title: Supplementary Material for: Phase II Evaluation of Liposomal Doxorubicin with Docetaxel in Patients with Metastatic Breast Cancer

description: <i>Background: </i>Taxanes are effective in treating metastatic breast cancer. Liposomal doxorubicin (LD) is as effective as doxorubicin but less toxic. <i>Patients and Methods: </i>This phase II trial assessed the combination of LD and docetaxel (D). Between 12/2002 and 9/2005, 12 women received monthly LD (30 mg/m<sup>2</sup>) and weekly D (30 mg/m<sup>2</sup>). Cycles were continued until progression or toxicity. Primary outcome was time to progression. Secondary endpoints included response rate, time to treatment failure, duration of response, survival, and toxicity. <i>Results: </i>Median age was 49 (31–60) years. 9 (75%) patients had estrogen receptor-positive or progesterone receptor-positive tumors. 5 (41.7%) women had her-2/neu-positive tumors. 4 women stopped participation due to toxicity, and 7 due to progression. 8 (67%) participants (95% confidence interval (CI) 51.6–94.5%) had a partial response, and 2 (16.7%) had stable disease. Median time to progression was 9.6 months (95% CI 4.7– 12.2). Median time to treatment failure was 6.5 months (95% CI 4.4–10.5). Median survival was 22.1 months (95% CI 9.6– 40.8). Median duration of partial response was 2.7 months (95% CI 2.4–10.5). 10 (83%) women experienced grade 3/4 toxicities: neutropenia 3 (25%), infection 3 (25%), stomatitis 5 (41.7%), nausea 2 (16.7%), vomiting 1 (8.3%), dyspnea 2 (16.7%), pericardial effusion 1 (8.3), and palmarplantar erythrodysesthesia 1 (8.3%). <i>Conclusions: </i>LD and D resulted in an encouraging response and unacceptable toxicities.
DOI: 10.6084/m9.figshare.5120980
title: Supplementary Material for: Breast Cancer Proteomics – Differences in Protein Expression between Estrogen Receptor-Positive and -Negative Tumors Identified by Tandem Mass Tag Technology

description: <i>Background: </i>Proteomic analysis has become an effective tool in breast cancer research. In this study, we applied the new gel-free tandem mass tag (TMT) reference method for the first time in breast cancer. <i>Materials and Methods: </i>Proteomic analysis was used to compare 10 estrogen receptor (ER)-positive and 10 ER-negative samples. The results of the proteomic approach were validated by Western blot, immunohistochemistry and gene expression analysis. <i>Results: </i>17 proteins with significant differences in expression were identified. 13 proteins were overexpressed in ER-negative tumors and 4 were overexpressed in ER-positive samples. All these proteins were characterized by relatively high cellular abundance. <i>Conclusions: </i>Our results demonstrate that the gel-free TMT approach allows the quantification of differences in protein expression levels. Further improvement of the sensitivity by subfractionation of the tissue should allow also the identification of low-abundance proteins and might lead to the use of this method in breast cancer research.
DOI: 10.6084/m9.figshare.5120986
title: Supplementary Material for: A Molecular Diagnostic Test for Persistent Müllerian Duct Syndrome in Miniature Schnauzer Dogs

description: In persistent Müllerian duct syndrome (PMDS), Müllerian ducts fail to regress in males during sexual differentiation. In the canine miniature schnauzer model, PMDS is caused by a C to T transition in exon 3 of the Müllerian inhibiting substance type II receptor <i>(MISRII)</i>, which introduces a <i>Dde</i>I restriction site. Here we report a molecular diagnostic test for PMDS in the miniature schnauzer to identify affected dogs and carriers. As our test results suggest that the mutation is identical by descent in affected dogs of this breed, the test could be used to eliminate this mutation from the miniature schnauzer breed worldwide.
DOI: 10.6084/m9.figshare.5120983
title: Supplementary Material for: Molecular Cytogenetics of the California Condor: Evolutionary and Conservation Implications

description: Evolutionary cytogenetic comparisons involved 5 species of birds (California condor, chicken, zebra finch, collared flycatcher and black stork) belonging to divergent taxonomic orders. Seventy-four clones from a condor BAC library containing 80 genes were mapped to condor chromosomes using FISH, and 15 clones containing 16 genes were mapped to the stork Z chromosome. Maps for chicken and finch were derived from genome sequence databases, and that for flycatcher from the published literature. Gene content and gene order were highly conserved when individual condor, chicken, and zebra finch autosomes were compared, confirming that these species largely retain karyotypes close to the ancestral condition for neognathous birds. However, several differences were noted: zebra finch chromosomes 1 and 1A are homologous to condor and chicken chromosomes 1, the <i>CHUNK1</i> gene appears to have transposed on condor chromosome 1, condor chromosomes 4 and 9 and zebra finch chromosomes 4 and 4A are homologous to chicken chromosome arms 4q and 4p, and novel inversions on chromosomes 4, 12 and 13 were found. Condor and stork Z chromosome gene orders are collinear and differentiated by a series of inversions/transpositions when compared to chicken, zebra finch, or flycatcher; phylogenetic analyses suggest independent rearrangement along the chicken, finch, and flycatcher lineages.
DOI: 10.6084/m9.figshare.5120974
title: Supplementary Material for: MTHFR C677T Homozygous Mutation in a Patient with Pigmentary Glaucoma and Central Retinal Vein Occlusion

description: <i>Purpose:</i> We present the rare case of a young male patient with asymmetric ocular findings: pigmentary ocular hypertension associated with nonischemic central retinal vein occlusion (CRVO) in the right eye and pigmentary glaucoma (PG) with progressive glaucomatous optic damage in the left eye. <i>Patients and Methods:</i> A 31-year-old man showed nonischemic CRVO in the right eye and the clinical triad of pigment dispersion syndrome in both eyes, however more marked in the left eye. Best-corrected visual acuity was logMAR 0.3 in the right eye and 1.0 in the left eye at presentation. The single risk for developing PG and CRVO was hyperhomocysteinemia. The patient was a carrier of the methylenetetrahydrofolate reductase C677 homozygous mutation. <i>Results:</i> At 18 months of follow-up, visual acuity remained stable, intraocular pressure was in the normal range, but retinal tomography indicated an increase in glaucomatous optic damage to the nerve fiber layer in almost the complete temporal-inferior sector of the left eye, but without visual field defects in the left eye. Retinal tomography and automated perimetry were normal in the right eye. The patient received topical antiglaucomatous therapy. <i>Conclusion:</i> Higher levels of plasma homocysteine, even mildly elevated ones, could be associated with nonischemic CRVO and PG, especially when related to genetic risk factors or C677T mutation.
DOI: 10.6084/m9.figshare.5120980.v1
title: Supplementary Material for: Breast Cancer Proteomics – Differences in Protein Expression between Estrogen Receptor-Positive and -Negative Tumors Identified by Tandem Mass Tag Technology

description: <i>Background: </i>Proteomic analysis has become an effective tool in breast cancer research. In this study, we applied the new gel-free tandem mass tag (TMT) reference method for the first time in breast cancer. <i>Materials and Methods: </i>Proteomic analysis was used to compare 10 estrogen receptor (ER)-positive and 10 ER-negative samples. The results of the proteomic approach were validated by Western blot, immunohistochemistry and gene expression analysis. <i>Results: </i>17 proteins with significant differences in expression were identified. 13 proteins were overexpressed in ER-negative tumors and 4 were overexpressed in ER-positive samples. All these proteins were characterized by relatively high cellular abundance. <i>Conclusions: </i>Our results demonstrate that the gel-free TMT approach allows the quantification of differences in protein expression levels. Further improvement of the sensitivity by subfractionation of the tissue should allow also the identification of low-abundance proteins and might lead to the use of this method in breast cancer research.
DOI: 10.6084/m9.figshare.5120983.v1
title: Supplementary Material for: Molecular Cytogenetics of the California Condor: Evolutionary and Conservation Implications

description: Evolutionary cytogenetic comparisons involved 5 species of birds (California condor, chicken, zebra finch, collared flycatcher and black stork) belonging to divergent taxonomic orders. Seventy-four clones from a condor BAC library containing 80 genes were mapped to condor chromosomes using FISH, and 15 clones containing 16 genes were mapped to the stork Z chromosome. Maps for chicken and finch were derived from genome sequence databases, and that for flycatcher from the published literature. Gene content and gene order were highly conserved when individual condor, chicken, and zebra finch autosomes were compared, confirming that these species largely retain karyotypes close to the ancestral condition for neognathous birds. However, several differences were noted: zebra finch chromosomes 1 and 1A are homologous to condor and chicken chromosomes 1, the <i>CHUNK1</i> gene appears to have transposed on condor chromosome 1, condor chromosomes 4 and 9 and zebra finch chromosomes 4 and 4A are homologous to chicken chromosome arms 4q and 4p, and novel inversions on chromosomes 4, 12 and 13 were found. Condor and stork Z chromosome gene orders are collinear and differentiated by a series of inversions/transpositions when compared to chicken, zebra finch, or flycatcher; phylogenetic analyses suggest independent rearrangement along the chicken, finch, and flycatcher lineages.
DOI: 10.6084/m9.figshare.5120986.v1
title: Supplementary Material for: A Molecular Diagnostic Test for Persistent Müllerian Duct Syndrome in Miniature Schnauzer Dogs

description: In persistent Müllerian duct syndrome (PMDS), Müllerian ducts fail to regress in males during sexual differentiation. In the canine miniature schnauzer model, PMDS is caused by a C to T transition in exon 3 of the Müllerian inhibiting substance type II receptor <i>(MISRII)</i>, which introduces a <i>Dde</i>I restriction site. Here we report a molecular diagnostic test for PMDS in the miniature schnauzer to identify affected dogs and carriers. As our test results suggest that the mutation is identical by descent in affected dogs of this breed, the test could be used to eliminate this mutation from the miniature schnauzer breed worldwide.
DOI: 10.6084/m9.figshare.5120965
title: Supplementary Material for: Toll-Like Receptor Responses in IRAK-4-Deficient Neutrophils

description: Human neutrophils were found to express all known Toll-like receptors (TLRs) except TLR3 and TLR7. IRAK-4-deficient neutrophils were tested for their responsiveness to various TLR ligands. Essentially all TLR responses in neutrophils, including the induction of reactive oxygen species generation, adhesion, chemotaxis and IL-8 secretion, were found to be dependent on IRAK-4. Surprisingly, the reactivity towards certain established TLR ligands, imiquimod and ODN-CpG, was unaffected by IRAK-4 deficiency, demonstrating their activity is independent of TLR. TLR-4-dependent signaling in neutrophils was totally dependent on IRAK-4 without any major TRIF-mediated contribution. We did not observe any defects in killing capacity of IRAK-4-deficient neutrophils for <i>Staphylococcus aureus</i>, <i>Escherichia coli</i> and <i>Candida albicans</i>, suggesting that microbial killing is primarily TLR independent.
DOI: 10.6084/m9.figshare.5120968
title: Supplementary Material for: Tötungsdelikte an Kindern – erste Eindrücke aus einem kriminologischen Forschungsprojekt

description: <i>Hintergrund: </i>TÖtungsdelikte an Kindern in Deutschland sind trotz des großen medialen und politischen Interesses bisher nicht ausreichend erforscht. Das hier vorgestellte kriminologische Forschungsprojekt strebt an, verlÄssliche Daten zu Erscheinungsbild, HintergrÜnden und strafrechtlicher Aufarbeitung zu erlangen. <i>Methoden und Ergebnisse: </i>Empirische Grundlage ist die Analyse der Strafakten aller vorsÄtzlichen, vollendeten TÖtungsdelikte an Kindern &lt;6 Jahren im Zeitraum 1997–2006 in Deutschland. Im ersten Teil des Beitrags werden einige Ergebnisse zur PhÄnomenologie skizziert. Erste vorlÄufige Auswertungen auf der Basis etwa der HÄlfte der FÄlle lassen erkennen, dass eine Differenzierung nach Fallgruppen unerlÄsslich ist, um sinnvolle Analysen durchzufÜhren. Vorgeschlagen wird folgende Unterscheidung: Neonatizide, MisshandlungstÖtungen, TÖtungen durch VernachlÄssigung, TÖtungen im Zusammenhang mit einer akuten, schweren psychischen Erkrankung, erweiterte Suizide, gezielte TÖtungen und sonstige TÖtungen. Diese Fallgruppen sind in sich durchaus heterogen und nicht Überschneidungsfrei. <i>Diskussion: </i>Im zweiten Teil des Beitrags werden einige Probleme der strafrechtlichen Bewertung der FÄlle dargestellt, die sich daraus ergeben, dass es einerseits nicht selten schwierig ist, die Tat vollstÄndig aufzuklÄren, andererseits immer auch wertende AbwÄgungen zu treffen sind.
DOI: 10.6084/m9.figshare.5120971
title: Supplementary Material for: Novel Method to Process Cystic Fibrosis Sputum for Determination of Oxidative State

description: <i>Background:</i> Induced sputum is the most commonly used method to analyze airway inflammation in cystic fibrosis (CF) patients ex vivo. Due to the complex matrix of the sample material, precise and reliable analysis of sputum constituents depends critically on preanalytical issues. <i>Objectives:</i> Here we compared the commonly used method for sputum processing by dithiothreitol (DTT) with a novel mechanical method in regard to basal cellular parameters, neutrophil markers and glutathione (GSH) levels. <i>Methods:</i> Sputum samples from CF patients were processed in parallel with or without the use of DTT. The key improvement of the mechanical method was the processing in many very small aliquots. Cellular and humoral markers were assessed and compared according to Bland-Altman. <i>Results:</i> Total cell count, cell viability, differential cell count, neutrophil elastase levels and flow cytometrically analyzed neutrophil markers (CD63, CD11b, DHR) did not differ between the two methods. Intracellular and extracellular GSH levels were significantly higher in DTT-treated samples (p = 0.002). <i>Conclusion:</i> The mechanical sputum-processing method presented had a similar yield of cells and fluids as the conventional DTT method and the advantage of omitting the introduction of reducing agents. This method allows a more reliable analysis of redox-dependent airway inflammation in sputum cells and fluid from CF patients than methods utilizing DTT.
DOI: 10.6084/m9.figshare.5120962
title: Supplementary Material for: Distal Migration of Thrombus during Intra-Arterial Thrombolysis

description: Medicine
DOI: 10.6084/m9.figshare.5120974.v1
title: Supplementary Material for: MTHFR C677T Homozygous Mutation in a Patient with Pigmentary Glaucoma and Central Retinal Vein Occlusion

description: <i>Purpose:</i> We present the rare case of a young male patient with asymmetric ocular findings: pigmentary ocular hypertension associated with nonischemic central retinal vein occlusion (CRVO) in the right eye and pigmentary glaucoma (PG) with progressive glaucomatous optic damage in the left eye. <i>Patients and Methods:</i> A 31-year-old man showed nonischemic CRVO in the right eye and the clinical triad of pigment dispersion syndrome in both eyes, however more marked in the left eye. Best-corrected visual acuity was logMAR 0.3 in the right eye and 1.0 in the left eye at presentation. The single risk for developing PG and CRVO was hyperhomocysteinemia. The patient was a carrier of the methylenetetrahydrofolate reductase C677 homozygous mutation. <i>Results:</i> At 18 months of follow-up, visual acuity remained stable, intraocular pressure was in the normal range, but retinal tomography indicated an increase in glaucomatous optic damage to the nerve fiber layer in almost the complete temporal-inferior sector of the left eye, but without visual field defects in the left eye. Retinal tomography and automated perimetry were normal in the right eye. The patient received topical antiglaucomatous therapy. <i>Conclusion:</i> Higher levels of plasma homocysteine, even mildly elevated ones, could be associated with nonischemic CRVO and PG, especially when related to genetic risk factors or C677T mutation.
DOI: 10.6084/m9.figshare.5120956
title: Supplementary Material for: Molecular Characterization of the <i>DDX3Y</i> Gene and Its Homologs in Cattle

description: <i>DDX3Y</i> (also known as <i>DBY</i>) is a member of the DEAD box protein family, which is involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. In the human, <i>DDX3Y </i>is located in the <i>AZFa</i> interval in the Y chromosome. Deletion of the <i>AZFa</i> region has been shown to disrupt spermatogenesis, causing subfertility and infertility in otherwise healthy men. Here, we report the characterization of the bovine (b) <i>DDX3Y</i> gene and its homologs <i>DDX3X </i>and <i>PL10</i>. We found 2 transcripts for the b<i>DDX3Y</i> (b<i>DDX3Y</i>-L and -S), which correspond to the long and short transcripts of the human <i>DDX3Y</i> and mouse <i>Ddx3y</i> gene. The 2 transcripts are identical except for a 3-bp (AGT) insertion at the position of nt 2025 and an expanded 3′UTR (nt 2155–2769) in b<i>DDX3Y</i>-L. The b<i>DDX3Y</i>-S encodes a peptide of 660 amino acids (aa), while the b<i>DDX3Y</i>-L encodes a peptide of 661 aa as the result of an additional serine (S) insertion at the position of aa 634. Both b<i>DDX3Y</i> isoforms contain the conserved DEAD-box motif. The b<i>DDX3Y </i>is composed of 17 exons. The homologous gene on the X chromosome, b<i>DDX3X</i>, is highly conserved to the Y-copy at mRNA (83%) and protein (88%) levels as well as in the genomic structure. The autosomal copy, b<i>PL10</i>, mapped on BTA15, is a processed pseudogene with a similarity of 88.1% to b<i>DDX3Y</i> and 93.7% to b<i>DDX3X</i> mRNA, suggesting that <i>PL10</i> is a retroposon of <i>DDX3X</i>. RT-PCR analyses showed that b<i>DDX3Y</i>-L, -S, b<i>DDX3X</i> and b<i>PL10</i> were all widely expressed with predominant expression in testis and brain. Testicular section in situ hybridization revealed that sense and anti-sense RNAs of b<i>DDX3Y</i>-L, -S, and b<i>DDX3X</i> were expressed in interstitial cells. These results together with the finding that the pseudogene b<i>PL10</i> is transcriptionally active in this study provide a basis for further investigating the <i>DDX3</i> gene function in spermatogenesis, male fertility and gene evolution in mammals.
DOI: 10.6084/m9.figshare.5120959
title: Supplementary Material for: Improved Synthesis of ADAM10 Inhibitor GI254023X

description: <i>Background:</i> The metalloproteinases ADAM10 and ADAM17 are involved in various diseases: neurodegeneration, cancer and inflammation. <i>Objective:</i> The inhibition of these proteases is a promising target in the treatment of inflammation and cancer. <i>Methods and Results:</i> In this study, we present an improved synthesis of the ADAM10 reference inhibitor GI254023X with a higher overall yield, enhanced detection ability and increased acid stability, providing easier handling. <i>Conclusion:</i> This upscaled synthesis, free of diastereomeric intermediates, ensures single-batch identity, thus warranting its reproducibility in further biological investigations.
DOI: 10.6084/m9.figshare.5120962.v1
title: Supplementary Material for: Distal Migration of Thrombus during Intra-Arterial Thrombolysis

description: Medicine
DOI: 10.6084/m9.figshare.5120965.v1
title: Supplementary Material for: Toll-Like Receptor Responses in IRAK-4-Deficient Neutrophils

description: Human neutrophils were found to express all known Toll-like receptors (TLRs) except TLR3 and TLR7. IRAK-4-deficient neutrophils were tested for their responsiveness to various TLR ligands. Essentially all TLR responses in neutrophils, including the induction of reactive oxygen species generation, adhesion, chemotaxis and IL-8 secretion, were found to be dependent on IRAK-4. Surprisingly, the reactivity towards certain established TLR ligands, imiquimod and ODN-CpG, was unaffected by IRAK-4 deficiency, demonstrating their activity is independent of TLR. TLR-4-dependent signaling in neutrophils was totally dependent on IRAK-4 without any major TRIF-mediated contribution. We did not observe any defects in killing capacity of IRAK-4-deficient neutrophils for <i>Staphylococcus aureus</i>, <i>Escherichia coli</i> and <i>Candida albicans</i>, suggesting that microbial killing is primarily TLR independent.