cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.7105937.v3
title: Inductively coupled plasma mass spectrometry (ICP-MS) on Rhodospirillum rubrum, Pyrococcus furiosus and Haliangium ochraceum encapsulated ferritis (EncFtn)

description: ICP-MS was conducted on purified fractions of Rhodospirillum rubrum, Pyrococcus furiosus, and Haliangium ochraceum encapsulated ferritin variants (EncFtn_Strep) in order to quantify 56-57Fe and 65-66Zn content.Samples were diluted 10-fold into a solution of 2.5 % HNO3 containing 20 ug/L Pt and 20 ug/L Ag as internal standards. Matrix-matched elemental standards, were prepared by serial dilution by individual metal stocks (VWR) with identical solution composition, including the internal standard. All standards and samples were analysed by ICP-MS using a Thermo x-series instrument (Thermo Fisher scientific) operating in collision cell mode.
DOI: 10.6084/m9.figshare.7105937.v2
title: Inductively coupled plasma mass spectrometry (ICP-MS) on Rhodospirillum rubrum, Pyrococcus furiosus and Haliangium ochraceum encapsulated ferritis (EncFtn)

description: ICP-MS was conducted on purified fractions of Rhodospirillum rubrum, Pyrococcus furiosus, and Haliangium ochraceum encapsulated ferritin variants (EncFtn_Strep) in order to quantify 56-57Fe and 65-66Zn content.Samples were diluted 10-fold into a solution of 2.5 % HNO3 containing 20 ug/L Pt and 20 ug/L Ag as internal standards. Matrix-matched elemental standards, were prepared by serial dilution by individual metal stocks (VWR) with identical solution composition, including the internal standard. All standards and samples were analysed by ICP-MS using a Thermo x-series instrument (Thermo Fisher scientific) operating in collision cell mode.
DOI: 10.6084/m9.figshare.7105913
title: AICAR_ALL_DATA.xlsx

description: Raw data underlying the manuscript entitled "Effects of intravenous AICAR (5'-aminoimidazole-4-carboximide ribosie) administration on insulin signaling and resistance in premature baboons, Papio sp."<br>
DOI: 10.6084/m9.figshare.7105916
title: <i>H</i><sub>2</sub> optimal model order reduction on the Stiefel manifold for the MIMO discrete system by the cross Gramian

description: In this paper, the <i>H</i><sub>2</sub> optimal model order reduction method for the large-scale multiple-input multiple-output (MIMO) discrete system is investigated. First, the MIMO discrete system is resolved into a number of single-input single-output (SISO) subsystems, and the <i>H</i><sub>2</sub> norm of the original MIMO discrete system is expressed by the cross Gramian of each subsystem. Then, the retraction and the vector transport on the Stiefel manifold are introduced, and the geometric conjugate gradient model order reduction method is proposed. The reduced system of the original MIMO discrete system is generated by using the proposed method. Finally, two numerical examples show the efficiency of the proposed method.
DOI: 10.6084/m9.figshare.7105913.v1
title: AICAR_ALL_DATA.xlsx

description: Raw data underlying the manuscript entitled "Effects of intravenous AICAR (5'-aminoimidazole-4-carboximide ribosie) administration on insulin signaling and resistance in premature baboons, Papio sp."<br>
DOI: 10.6084/m9.figshare.7105916.v1
title: <i>H</i><sub>2</sub> optimal model order reduction on the Stiefel manifold for the MIMO discrete system by the cross Gramian

description: In this paper, the <i>H</i><sub>2</sub> optimal model order reduction method for the large-scale multiple-input multiple-output (MIMO) discrete system is investigated. First, the MIMO discrete system is resolved into a number of single-input single-output (SISO) subsystems, and the <i>H</i><sub>2</sub> norm of the original MIMO discrete system is expressed by the cross Gramian of each subsystem. Then, the retraction and the vector transport on the Stiefel manifold are introduced, and the geometric conjugate gradient model order reduction method is proposed. The reduced system of the original MIMO discrete system is generated by using the proposed method. Finally, two numerical examples show the efficiency of the proposed method.
DOI: 10.6084/m9.figshare.7105907
title: Gel filtration traces of purified Rhodospirillum rubrum, Pyrococcus furiosus, Haliangium ochraceum encapsulated ferritin variants (Strep- or His-tagged)

description: Strep- and His-tagged protein variants were analysed by size-exclusion gel-filtration chromatography using an S200 16/60 column equilibrated with 50 mM Tris-HCl, pH 8.0, 150 mM NaCl.Data were internally normalised in order to allow comparison.
DOI: 10.6084/m9.figshare.7105907.v1
title: Gel filtration traces of purified Rhodospirillum rubrum, Pyrococcus furiosus, Haliangium ochraceum encapsulated ferritin variants (Strep- or His-tagged)

description: Strep- and His-tagged protein variants were analysed by size-exclusion gel-filtration chromatography using an S200 16/60 column equilibrated with 50 mM Tris-HCl, pH 8.0, 150 mM NaCl.Data were internally normalised in order to allow comparison.
DOI: 10.6084/m9.figshare.7105901
title: So Far, Yet So Close

description: The rise of digital journalism allows users to access regional news content from anywhere in the world. In this situation the content is local, but the audience may not be. Drawing on the sociological concept of translocality, the communicative linkage of dispersed geographic locations, this study investigated these emerging long-distance audiences. We combined automated and manual content analyses to (a) investigate the Twitter followership of 146 regional German newspapers and (b) explain the proportion of translocal followers they attract. Roughly one third of followers came from a different German federal state than the newspaper they followed. Papers with a high percentage of translocal followers tended to have older Twitter accounts and came from larger cities than those with fewer translocal followers. Furthermore, they covered regional sports and human-interest stories more, while those with fewer translocal followers placed greater emphasis on infrastructure, event notes, and current traffic information.
DOI: 10.6084/m9.figshare.7105901.v1
title: So Far, Yet So Close

description: The rise of digital journalism allows users to access regional news content from anywhere in the world. In this situation the content is local, but the audience may not be. Drawing on the sociological concept of translocality, the communicative linkage of dispersed geographic locations, this study investigated these emerging long-distance audiences. We combined automated and manual content analyses to (a) investigate the Twitter followership of 146 regional German newspapers and (b) explain the proportion of translocal followers they attract. Roughly one third of followers came from a different German federal state than the newspaper they followed. Papers with a high percentage of translocal followers tended to have older Twitter accounts and came from larger cities than those with fewer translocal followers. Furthermore, they covered regional sports and human-interest stories more, while those with fewer translocal followers placed greater emphasis on infrastructure, event notes, and current traffic information.
DOI: 10.6084/m9.figshare.7105892
title: 18PwalRNA-seq SuppData3

description: Supplementary Data 3: Gene ontology terms of P. waltl gene models (PLEWA04_ORF). Output of BLAST2GO.<br><br>
DOI: 10.6084/m9.figshare.7105892.v1
title: 18PwalRNA-seq SuppData3

description: Supplementary Data 3: Gene ontology terms of P. waltl gene models (PLEWA04_ORF). Output of BLAST2GO.<br><br>
DOI: 10.6084/m9.figshare.7105877
title: 18PwalRNA-seq SuppData1

description: Supplementary Data 1: BLASTP search of P. waltl gene models (PLEWA04_ORF) against NCBI nr database. Top hit of each model is summarized in the table.
DOI: 10.6084/m9.figshare.7105886
title: 18PwalRNA-seq SuppData2

description: Supplementary Data 2: Protein motifs of P. waltl gene models (PLEWA04_ORF). Output of InterProScan.
DOI: 10.6084/m9.figshare.7105886.v1
title: 18PwalRNAseq SuppData2

description: Supplementary Data 2: Protein motifs of P. waltl gene models (PLEWA04_ORF). Output of InterProScan.
DOI: 10.6084/m9.figshare.7105871
title: Effects of agomelatine on behaviour, circadian expression of period 1 and period 2 clock genes and neuroplastic markers in the predator scent stress rat model of PTSD

description: <b>Objectives:</b> The therapeutic value of the antidepressant agomelatine in the aftermath of traumatic experience and early post-reminder has been questioned. Herein, agomelatine, its vehicle or melatonin agonist were administered either acutely 1 h post-stressor or repeatedly (7 days) after early post-reminder in a post-traumatic stress rat model (PSS) using the scent of predator urine. <b>Methods:</b> Behavioural responses, and brain molecular and morphological changes were evaluated after each treatment procedure in PSS-exposed and unexposed rats. <b>Results:</b> When administered immediately after PSS, agomelatine induced a significant reduction of anxiety-like behaviour as assessed in the elevated-plus-maze and acoustic startle response at 8 days post-administration. Concomitantly, agomelatine significantly decreased Per1/Per2 expression in the CA1/CA3 areas, suprachiasmatic nucleus and basolateral amygdala, thereby partially restoring genes expression overregulated by PSS. Agomelatine further significantly increased cell growth and facilitated dendritic growth and arbour in dentate gyrus (DG) granule and apical CA1 cells and upregulated brain-derived neurotrophic factor protein in the DG and cortex III versus vehicle. When administered early post-reminder over 7 days before testing, agomelatine was ineffective on behavioural responses pattern, molecular and morphological changes induced by PSS. <b>Conclusions:</b> These findings suggest that agomelatine may be a potential agent in the acute aftermath of traumatic stress exposure.
DOI: 10.6084/m9.figshare.7105877.v1
title: 18PwalRNAseq SuppData1

description: Supplementary Data 1: BLASTP search of P. waltl gene models (PLEWA04_ORF) against NCBI nr database. Top hit of each model is summarized in the table.
DOI: 10.6084/m9.figshare.7105844
title: Randomized crossover feasibility trial of helminthic <i>Trichuris suis</i> ova versus placebo for repetitive behaviors in adult autism spectrum disorder

description: <b>Objectives:</b> Inflammatory mechanisms are implicated in the aetiology of autism spectrum disorder (ASD), and use of the immunomodulator <i>Trichuris suis</i> Ova (TSO) is a novel treatment approach. This pilot study determined the effect sizes for TSO versus placebo on repetitive behaviours, irritability and global functioning in adults with ASD. <b>Methods:</b> A 28-week double-blind, randomised two-period crossover study of TSO versus placebo in ten ASD adults, aged 17–35, was completed, with a 4-week washout between each 12-week period at Montefiore Medical Center, Albert Einstein College of Medicine. Subjects with ASD, history of seasonal, medication or food allergies, Y-BOCS ≥6 and IQ ≥70 received 2,500 TSO ova or matching placebo every 2 weeks of each 12-week period. <b>Results:</b> Large effect sizes for improvement in repetitive behaviours (<i>d</i> = 1.0), restricted interests (<i>d</i> = 0.82), rigidity (<i>d</i> = 0.79) and irritability (<i>d</i> = 0.78) were observed after 12 weeks of treatment. No changes were observed in the social-communication domain. Differences between treatment groups did not reach statistical significance. TSO had only minimal, non-serious side effects. <b>Conclusions:</b> This proof-of-concept study demonstrates the feasibility of TSO for the treatment of ASD, including a favourable safety profile, and moderate to large effect sizes for reducing repetitive behaviours and irritability. <b>Clinicaltrials.gov:</b> NCT01040221
DOI: 10.6084/m9.figshare.7105871.v2
title: Effects of agomelatine on behaviour, circadian expression of period 1 and period 2 clock genes and neuroplastic markers in the predator scent stress rat model of PTSD

description: <b>Objectives:</b> The therapeutic value of the antidepressant agomelatine in the aftermath of traumatic experience and early post-reminder has been questioned. Herein, agomelatine, its vehicle or melatonin agonist were administered either acutely 1 h post-stressor or repeatedly (7 days) after early post-reminder in a post-traumatic stress rat model (PSS) using the scent of predator urine. <b>Methods:</b> Behavioural responses, and brain molecular and morphological changes were evaluated after each treatment procedure in PSS-exposed and unexposed rats. <b>Results:</b> When administered immediately after PSS, agomelatine induced a significant reduction of anxiety-like behaviour as assessed in the elevated-plus-maze and acoustic startle response at 8 days post-administration. Concomitantly, agomelatine significantly decreased Per1/Per2 expression in the CA1/CA3 areas, suprachiasmatic nucleus and basolateral amygdala, thereby partially restoring genes expression overregulated by PSS. Agomelatine further significantly increased cell growth and facilitated dendritic growth and arbour in dentate gyrus (DG) granule and apical CA1 cells and upregulated brain-derived neurotrophic factor protein in the DG and cortex III versus vehicle. When administered early post-reminder over 7 days before testing, agomelatine was ineffective on behavioural responses pattern, molecular and morphological changes induced by PSS. <b>Conclusions:</b> These findings suggest that agomelatine may be a potential agent in the acute aftermath of traumatic stress exposure.
DOI: 10.6084/m9.figshare.7105844.v2
title: Randomized crossover feasibility trial of helminthic <i>Trichuris suis</i> ova versus placebo for repetitive behaviors in adult autism spectrum disorder

description: <b>Objectives:</b> Inflammatory mechanisms are implicated in the aetiology of autism spectrum disorder (ASD), and use of the immunomodulator <i>Trichuris suis</i> Ova (TSO) is a novel treatment approach. This pilot study determined the effect sizes for TSO versus placebo on repetitive behaviours, irritability and global functioning in adults with ASD. <b>Methods:</b> A 28-week double-blind, randomised two-period crossover study of TSO versus placebo in ten ASD adults, aged 17–35, was completed, with a 4-week washout between each 12-week period at Montefiore Medical Center, Albert Einstein College of Medicine. Subjects with ASD, history of seasonal, medication or food allergies, Y-BOCS ≥6 and IQ ≥70 received 2,500 TSO ova or matching placebo every 2 weeks of each 12-week period. <b>Results:</b> Large effect sizes for improvement in repetitive behaviours (<i>d</i> = 1.0), restricted interests (<i>d</i> = 0.82), rigidity (<i>d</i> = 0.79) and irritability (<i>d</i> = 0.78) were observed after 12 weeks of treatment. No changes were observed in the social-communication domain. Differences between treatment groups did not reach statistical significance. TSO had only minimal, non-serious side effects. <b>Conclusions:</b> This proof-of-concept study demonstrates the feasibility of TSO for the treatment of ASD, including a favourable safety profile, and moderate to large effect sizes for reducing repetitive behaviours and irritability. <b>Clinicaltrials.gov:</b> NCT01040221
DOI: 10.6084/m9.figshare.7105871.v1
title: Effects of Agomelatine on behavior, circadian expression of Period 1 and Period 2 clock genes and neuroplastic markers in the predator scent stress rat model of PTSD

description: <b>Objectives</b>: The therapeutic value of the antidepressant agomelatine in the aftermath of traumatic experience and early post-reminder has been questioned. Herein, agomelatine, its vehicle or melatonin agonist were administered either acutely 1 hour post-stressor or repeatedly (7 days) after early post-reminder in a posttraumatic stress rat model (PSS) using the scent of predator urine. <b>Methods</b>: Behavioral responses, brain molecular and morphological changes were evaluated after each treatment procedure in PSS-exposed and unexposed rats. <b>Results</b>: When administered immediately after PSS, agomelatine induced a significant reduction of anxiety-like behavior as assessed in the elevated-plus-maze and acoustic startle response at 8 days post-administration. Concomitantly, agomelatine significantly decreased Per1/Per2 expression in the CA1/CA3 areas, suprachiasmatic nucleus and basolateral amygdala, thereby partially restoring genes expression overregulated by PSS. Agomelatine further significantly increased cell growth and facilitated dentritic growth and arbor in dentate gyrus (DG) granule and apical CA1 cells and upregulated brain derived neurotrophic factor protein in the DG and cortex III <i>versus</i> vehicle. When administered early post reminder over 7 days before testing, agomelatine was ineffective on behavioral responses pattern, molecular and morphological changes induced by PSS. <b>Conclusion</b>: These findings suggest that agomelatine may be a potential agent in the acute aftermath of traumatic stress exposure.
DOI: 10.6084/m9.figshare.7105817
title: Adapting Data Management Education to Support Clinical Research Projects in an Academic Medical Center

description: This dataset consists of an evaluation form, resulting data, and a slide deck from a case study describing the development, implementation, and evaluation of a 1.5 hour clinical research data management workshop for an academic medical center research community. This workshop was developed by the health sciences library.
DOI: 10.6084/m9.figshare.7105844.v1
title: Randomized Crossover Feasibility Trial of Helminthic Trichuris Suis Ova vs. Placebo for Repetitive Behaviors in Adult Autism Spectrum Disorder

description: Objectives: Inflammatory mechanisms are implicated in the etiology of Autism Spectrum Disorder (ASD), and use of the immunomodulator Trichuris Suis Ova (TSO) is a novel treatment approach. This pilot study determined the effect sizes for TSO vs. placebo on repetitive behaviors, irritability and global functioning in adults with ASD. Methods: A 28-week double-blind, randomized two-period crossover study of TSO vs. placebo in 10 ASD adults, ages 17 to 35, was completed, with a 4-week washout between each 12-week period at Montefiore Medical Center, Albert Einstein College of Medicine. Subjects with ASD, history of seasonal, medication or food allergies, Y-BOCS ≥ 6 and IQ ≥70 received 2500 TSO ova or matching placebo every two weeks of each 12-week period. Results: Large effect sizes for improvement in repetitive behaviors (d = 1.0), restricted interests (d = 0.82), rigidity (d = 0.79), and irritability (d = 0.78) were observed after 12 weeks of treatment. No changes were observed in the social-communication domain. Differences between treatment groups did not reach statistical significance. TSO had only minimal, non-serious side effects. Conclusions: This proof-of-concept study demonstrates the feasibility of TSO for the treatment of ASD, including a favorable safety profile, and moderate to large effect sizes for reducing repetitive behaviors and irritability.
DOI: 10.6084/m9.figshare.7105817.v2
title: Adapting Data Management Education to Support Clinical Research Projects in an Academic Medical Center

description: This dataset consists of an evaluation form, resulting data, and a slide deck from a case study describing the development, implementation, and evaluation of a 1.5 hour clinical research data management workshop for an academic medical center research community. This workshop was developed by the health sciences library.
DOI: 10.6084/m9.figshare.7105796.v1
title: Impaired copper transport in schizophrenia results in a copper-deficient brain state: a new side to the dysbindin story

description: Several schizophrenia brain regions exhibit decreased dysbindin. Dysbindin modulates copper transport crucial for myelination, monoamine metabolism, and cellular homeostasis. Schizophrenia patients (SZP) exhibit increased plasma copper, while copper-decreasing agents produce schizophrenia-like behavioral and pathological abnormalities. Therefore, we sought to determine dysbindin and copper transporter protein expression and copper content in SZP. We studied the copper-rich substantia nigra (SN) using Western blot and inductively-coupled plasma mass spectrometry. We characterized specific protein domains of copper transporters ATP7A, CTR1, ATP7B, and dysbindin isoforms 1A and 1B/C in SZP (n = 15) and matched controls (n = 11), and SN copper content in SZP (n = 14) and matched controls (n = 11). As a preliminary investigation, we compared medicated (ON; n = 11) versus unmedicated SZP (OFF; n = 4). SZP exhibited increased C-terminus, but not N-terminus, ATP7A. SZP expressed less transmembrane CTR1 and dysbindin 1B/C than controls. ON exhibited increased C-terminus ATP7A protein versus controls. OFF exhibited less N-terminus ATP7A protein than controls and ON, suggesting medication-induced rescue of the ATP7A N-terminus. SZP exhibited less SN copper content than controls. These results provide the first evidence of disrupted copper transport in schizophrenia SN that appears to result in a copper-deficient state. Furthermore, copper homeostasis may be modulated by specific dysbindin isoforms and antipsychotic treatment.
DOI: 10.6084/m9.figshare.7105796.v3
title: Impaired copper transport in schizophrenia results in a copper-deficient brain state: A new side to the dysbindin story

description: <b>Objectives: </b>Several schizophrenia brain regions exhibit decreased dysbindin. Dysbindin modulates copper transport crucial for myelination, monoamine metabolism and cellular homeostasis. Schizophrenia patients (SZP) exhibit increased plasma copper, while copper-decreasing agents produce schizophrenia-like behavioural and pathological abnormalities. Therefore, we sought to determine dysbindin and copper transporter protein expression and copper content in SZP. <b>Methods: </b>We studied the copper-rich substantia nigra (SN) using Western blot and inductively-coupled plasma mass spectrometry. We characterised specific protein domains of copper transporters ATP7A, CTR1, ATP7B and dysbindin isoforms 1 A and 1B/C in SZP (<i>n</i> = 15) and matched controls (<i>n</i> = 11), and SN copper content in SZP (<i>n</i> = 14) and matched controls (<i>n</i> = 11). As a preliminary investigation, we compared medicated (ON; <i>n</i> = 11) versus unmedicated SZP (OFF; <i>n</i> = 4). <b>Results: </b>SZP exhibited increased C terminus, but not N terminus, ATP7A. SZP expressed less transmembrane CTR1 and dysbindin 1B/C than controls. ON exhibited increased C terminus ATP7A protein versus controls. OFF exhibited less N terminus ATP7A protein than controls and ON, suggesting medication-induced rescue of the ATP7A N terminus. SZP exhibited less SN copper content than controls. <b>Conclusions: </b>These results provide the first evidence of disrupted copper transport in schizophrenia SN that appears to result in a copper-deficient state. Furthermore, copper homeostasis may be modulated by specific dysbindin isoforms and antipsychotic treatment.