cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.4038366.v1
title: Golgi proteins in circulating human platelets are distributed across non-stacked, scattered structures

description: Platelets are small, anucleate cell fragments that are central to hemostasis, thrombosis, and inflammation. They are derived from megakaryocytes from which they inherit their organelles. As platelets can synthesize proteins and contain many of the enzymes of the secretory pathway, one might expect all mature human platelets to contain a stacked Golgi apparatus, the central organelle of the secretory pathway. By thin section electron microscopy, stacked membranes resembling the stacked Golgi compartment in megakaryocytes and other nucleated cells can be detected in both proplatelets and platelets. However, the incidence of such structures is low and whether each and every platelet contains such a structure remains an open question. By single-label, immunofluorescence staining, Golgi glycosyltransferases are found within each platelet and map to scattered structures. Whether these structures are positive for marker proteins from multiple Golgi subcompartments remains unknown. Here, we have applied state-of-the-art techniques to probe the organization state of the Golgi apparatus in resting human platelets. By the whole cell volume technique of serial-block-face scanning electron microscopy (SBF-SEM), we failed to observe stacked, Golgi-like structures in any of the 65 platelets scored. When antibodies directed against Golgi proteins were tested against HeLa cells, labeling was restricted to an elongated juxtanuclear ribbon characteristic of a stacked Golgi apparatus. By multi-label immunofluorescence microscopy, we found that each and every resting human platelet was positive for cis, trans, and trans Golgi network (TGN) proteins. However, in each case, the proteins were found in small puncta scattered about the platelet. At the resolution of deconvolved, widefield fluorescence microscopy, these proteins had limited tendency to map adjacent to one another. When the results of 3D structured illumination microscopy (3D SIM), a super resolution technique, were scored quantitatively, the Golgi marker proteins failed to map together indicating at the protein level considerable degeneration of the platelet Golgi apparatus relative to the layered stack as seen in the megakaryocyte. In conclusion, we suggest that these results have important implications for organelle structure/function relationships in the mature platelet and the extent to which Golgi apparatus organization is maintained in platelets. Our results suggest that Golgi proteins in circulating platelets are present within a series of scattered, separated structures. As separate elements, selective sets of Golgi enzymes or sugar nucleotides could be secreted during platelet activation. The establishment of the functional importance, if any, of these scattered structures in sequential protein modification in circulating platelets will require further research.
DOI: 10.7910/dvn/v1rjpf/t5whje
title: blc20170108_03.txt.gz

description: :unav
DOI: 10.7910/dvn/v1rjpf/tczhmz
title: blc20170820_03.txt.gz

description: :unav
DOI: 10.6084/m9.figshare.4038345
title: Mouse V1 vs model plaid vs grating decorrelation

description: Figure 5e from Muir et al. Accepted at Plos Comp Biol.
DOI: 10.6084/m9.figshare.4038345.v1
title: Mouse V1 vs model plaid vs grating decorrelation

description: Figure 5e from Muir et al. Accepted at Plos Comp Biol.
DOI: 10.7910/dvn/v1rjpf/p8mg7v
title: blc20170926_03.txt.gz

description: :unav
DOI: 10.7910/dvn/v1rjpf/qfjgoj
title: blc20170519_03.txt.gz

description: :unav
DOI: 10.7910/dvn/v1rjpf/lrxn7h
title: blc20170707_03.txt.gz

description: :unav
DOI: 10.7910/dvn/v1rjpf/n1obso
title: blc20170222_03.txt.gz

description: :unav
DOI: 10.6084/m9.figshare.4038333
title: DA 1 and 2 Receptor Behavioral Pharmacology in Green Anoles

description: DA 1 and 2 receptor agonist and antagonist behavioral pharmacology examining sexual and agonistic behaviors in green anoles
DOI: 10.6084/m9.figshare.4038336
title: Mouse V1 vs model facilitation and suppression

description: Figure 5g from Muir et al. Accepted at Plos Comp Biol.
DOI: 10.6084/m9.figshare.4038333.v1
title: DA 1 and 2 Receptor Behavioral Pharmacology in Green Anoles

description: DA 1 and 2 receptor agonist and antagonist behavioral pharmacology examining sexual and agonistic behaviors in green anoles
DOI: 10.7910/dvn/v1rjpf/eyg1xb
title: blc20170917_03.txt.gz

description: :unav
DOI: 10.6084/m9.figshare.4038330
title: GameBus Pilot Studies (4): Normative values of the SF-36v2 dimension scores

description: Normative values of the SF-36v2 survey are presented for the pre- and post-measurement of both GameBus trial locations. The sample showed overall statistically significant improvement in the mean mental health (MSC) scale score and the 'role limitations due to emotional problems '-scale on aggregate level.
DOI: 10.7910/dvn/v1rjpf/esfrry
title: blc20170107_03.txt.gz

description: :unav
DOI: 10.7910/dvn/v1rjpf/7rjyf2
title: blc20171227_03.txt.gz

description: :unav
DOI: 10.6084/m9.figshare.4038330.v1
title: GameBus Pilot Studies: Normative values of the SF-36v2 dimension scores

description: Normative values of the SF-36v2 survey are presented for the pre- and post-measurement of both GameBus trial locations. The sample showed overall statistically significant improvement in the mean mental health (MSC) scale score and the 'role limitations due to emotional problems '-scale on aggregate level.
DOI: 10.7910/dvn/v1rjpf/zjdwug
title: blc20170701_03.txt.gz

description: :unav
DOI: 10.6084/m9.figshare.4038330.v3
title: GameBus Pilot Studies (4): Normative values of the SF-36v2 dimension scores

description: Normative values of the SF-36v2 survey are presented for the pre- and post-measurement of both GameBus trial locations. The sample showed overall statistically significant improvement in the mean mental health (MSC) scale score and the 'role limitations due to emotional problems '-scale on aggregate level.
DOI: 10.6084/m9.figshare.4038312
title: GameBus Pilot Studies (2): Characteristics of study participants in both trials

description: In total, twelve participants were approached to participate in the ZuidZorg Trial and eighteen in the GGzE Trial. Effective pilot sample size for both pilot locations is nine participants.
DOI: 10.6084/m9.figshare.4038330.v2
title: GameBus Pilot Studies (3): Normative values of the SF-36v2 dimension scores

description: Normative values of the SF-36v2 survey are presented for the pre- and post-measurement of both GameBus trial locations. The sample showed overall statistically significant improvement in the mean mental health (MSC) scale score and the 'role limitations due to emotional problems '-scale on aggregate level.
DOI: 10.7910/dvn/v1rjpf/cemr2t
title: blc20170531_03.txt.gz

description: :unav
DOI: 10.7910/dvn/v1rjpf/51qqjm
title: blc20171220_03.txt.gz

description: :unav
DOI: 10.6084/m9.figshare.4038288
title: Mouse V1 plaid responses - facilitation

description: Figure 5f from Muir et al. Accepted at Plos Comp Biol.
DOI: 10.6084/m9.figshare.4038312.v1
title: Characteristics of study participants in both trials

description: In total, twelve participants were approached to participate in the ZuidZorg Trial and eighteen in the GGzE Trial. Effective pilot sample size for both pilot locations is nine participants.
DOI: 10.7910/dvn/v1rjpf/ayb1ip
title: blc20171026_03.txt.gz

description: :unav
DOI: 10.6084/m9.figshare.4038288.v1
title: Mouse V1 plaid responses - facilitation

description: Figure 5f from Muir et al. Accepted at Plos Comp Biol.
DOI: 10.6084/m9.figshare.4038312.v3
title: GameBus Pilot Studies (2): Characteristics of study participants in both trials

description: In total, twelve participants were approached to participate in the ZuidZorg Trial and eighteen in the GGzE Trial. Effective pilot sample size for both pilot locations is nine participants.
DOI: 10.6084/m9.figshare.4038312.v2
title: GameBus Pilot Studies: Characteristics of study participants in both trials

description: In total, twelve participants were approached to participate in the ZuidZorg Trial and eighteen in the GGzE Trial. Effective pilot sample size for both pilot locations is nine participants.
DOI: 10.7910/dvn/v1rjpf/bahy7f
title: blc20170716_03.txt.gz

description: :unav
DOI: 10.7910/dvn/v1rjpf/7x071j
title: blc20170827_03.txt.gz

description: :unav
DOI: 10.6084/m9.figshare.4038270
title: Mouse V1 grating and natural movie response relationship

description: Figure S1e from Muir et al. Accepted at Plos Comp Biol.
DOI: 10.7910/dvn/v1rjpf/talm1a
title: blc20170807_03.txt.gz

description: :unav
DOI: 10.6084/m9.figshare.4038270.v1
title: Mouse V1 grating and natural movie response relationship

description: Figure S1e from Muir et al. Accepted at Plos Comp Biol.
DOI: 10.6084/m9.figshare.4038240
title: Supplementary Material for: Chikungunya Virus Infection Alters Expression of MicroRNAs Involved in Cellular Proliferation, Immune Response and Apoptosis

description: <b><i>Objective(s):</i></b> Chikungunya virus (CHIKV) is a reemerging virus of significant importance that has caused large-scale outbreaks in the countries with a temperate climate. CHIKV causes debilitating arthralgia which can persist for weeks and up to a year. Fibroblast cells are the main target of CHIKV infection. In this study, we analyzed microRNA (miRNA) modulation in the fibroblast cells infected with CHIKV at an early stage of infection. <b><i>Methods:</i></b> 760 miRNAs were analyzed for modulation following infection with CHIKV at 6 h after infection. Bioinformatic analysis was done to identify the signaling pathway that may be targeted by the significantly modulated miRNAs. Validation of the miRNAs was done using a singleplex miRNA assay and protein target validation of modulated miRNAs was done by Western blot analysis. <b><i>Results:</i></b> Computational analysis of the significantly modulated miRNAs indicated their involvement in signaling pathways such as Toll-like receptor, mTOR, JAK-STAT and Pi3-Akt pathways, which have been shown to play important roles during CHIKV infection. Topoisomerase IIβ, a target of two of the modulated miRNAs, was downregulated upon CHIKV infection. <b><i>Conclusion(s):</i></b> We identified several miRNAs that may play important roles in early events after CHIKV infection and can be potential therapeutic targets against CHIKV infection.
DOI: 10.6084/m9.figshare.4038261
title: Blockchain-based behavioral research using smart contracts - The pirate game experiment

description: Material for conducting a blockchain-based pirate game experiment.<br>This contains:A smart contract implementation of the pirate gameWebinterface for subjectsManual for subjects<br>Contact florian@uekermann.me for support.<br><br>
DOI: 10.7910/dvn/v1rjpf/dxhag3
title: blc20170924_03.txt.gz

description: :unav
DOI: 10.6084/m9.figshare.4038240.v1
title: Supplementary Material for: Chikungunya Virus Infection Alters Expression of MicroRNAs Involved in Cellular Proliferation, Immune Response and Apoptosis

description: <b><i>Objective(s):</i></b> Chikungunya virus (CHIKV) is a reemerging virus of significant importance that has caused large-scale outbreaks in the countries with a temperate climate. CHIKV causes debilitating arthralgia which can persist for weeks and up to a year. Fibroblast cells are the main target of CHIKV infection. In this study, we analyzed microRNA (miRNA) modulation in the fibroblast cells infected with CHIKV at an early stage of infection. <b><i>Methods:</i></b> 760 miRNAs were analyzed for modulation following infection with CHIKV at 6 h after infection. Bioinformatic analysis was done to identify the signaling pathway that may be targeted by the significantly modulated miRNAs. Validation of the miRNAs was done using a singleplex miRNA assay and protein target validation of modulated miRNAs was done by Western blot analysis. <b><i>Results:</i></b> Computational analysis of the significantly modulated miRNAs indicated their involvement in signaling pathways such as Toll-like receptor, mTOR, JAK-STAT and Pi3-Akt pathways, which have been shown to play important roles during CHIKV infection. Topoisomerase IIβ, a target of two of the modulated miRNAs, was downregulated upon CHIKV infection. <b><i>Conclusion(s):</i></b> We identified several miRNAs that may play important roles in early events after CHIKV infection and can be potential therapeutic targets against CHIKV infection.
DOI: 10.6084/m9.figshare.4038261.v1
title: Blockchain-based behavioral research using smart contracts - The pirate game experiment

description: Material for conducting a blockchain-based pirate game experiment.<br>This contains:A smart contract implementation of the pirate gameWebinterface for subjectsManual for subjects<br>Contact florian@uekermann.me for support.<br><br>
DOI: 10.7910/dvn/v1rjpf/crxzxc
title: blc20170821_03.txt.gz

description: :unav
DOI: 10.7910/dvn/v1rjpf/hxmfgl
title: blc20170830_03.txt.gz

description: :unav
DOI: 10.6084/m9.figshare.4038213
title: Table S1 from Coordinated regulation of the ESCRT-III component CHMP4C by the chromosomal passenger complex and centralspindlin during cytokinesis

description: The chromosomal passenger complex (CPC) - composed of Aurora B kinase, Borealin, Survivin and INCENP - surveys the fidelity of genome segregation throughout cell division. The CPC has been proposed to prevent polyploidy by controlling the final separation or abscission, of the two daughter cells via regulation of the ESCRT-III CHMP4C component. The molecular details are, however, still unclear. Using atomic force microscopy, we show that CHMP4C binds to and remodels membranes <i>in vitro</i>. Borealin prevents the association of CHMP4C with membranes, whereas Aurora B interferes with CHMP4C's membrane remodelling activity. Moreover, we show that CHMP4C phosphorylation is not required for its assembly into spiral filaments at the abscission site and that two distinctly localized pools of phosphorylated CHMP4C exist during cytokinesis. We also characterized the CHMP4C interactome in telophase cells and show that the centralspindlin complex associates preferentially with unphosphorylated CHMP4C in cytokinesis. Our findings indicate that gradual dephosphorylation of CHMP4C triggers a 'relay' mechanism between the CPC and centralspindlin that regulates the timely distribution and activation of CHMP4C for the execution of abscission.
DOI: 10.6084/m9.figshare.4038213.v1
title: Table S1 from Coordinated regulation of the ESCRT-III component CHMP4C by the chromosomal passenger complex and centralspindlin during cytokinesis

description: The chromosomal passenger complex (CPC) - composed of Aurora B kinase, Borealin, Survivin and INCENP - surveys the fidelity of genome segregation throughout cell division. The CPC has been proposed to prevent polyploidy by controlling the final separation or abscission, of the two daughter cells via regulation of the ESCRT-III CHMP4C component. The molecular details are, however, still unclear. Using atomic force microscopy, we show that CHMP4C binds to and remodels membranes <i>in vitro</i>. Borealin prevents the association of CHMP4C with membranes, whereas Aurora B interferes with CHMP4C's membrane remodelling activity. Moreover, we show that CHMP4C phosphorylation is not required for its assembly into spiral filaments at the abscission site and that two distinctly localized pools of phosphorylated CHMP4C exist during cytokinesis. We also characterized the CHMP4C interactome in telophase cells and show that the centralspindlin complex associates preferentially with unphosphorylated CHMP4C in cytokinesis. Our findings indicate that gradual dephosphorylation of CHMP4C triggers a 'relay' mechanism between the CPC and centralspindlin that regulates the timely distribution and activation of CHMP4C for the execution of abscission.
DOI: 10.7910/dvn/v1rjpf/7bdtf1
title: blc20170813_03.txt.gz

description: :unav
DOI: 10.7910/dvn/v1rjpf/aalfeb
title: blc20170110_03.txt.gz

description: :unav
DOI: 10.7910/dvn/v1rjpf/c8uhun
title: blc20171207_03.txt.gz

description: :unav
DOI: 10.7910/dvn/v1rjpf/y5kn4b
title: blc20170503_03.txt.gz

description: :unav
DOI: 10.6084/m9.figshare.4038195
title: Supplemental File 4 weights from Hydration affects the physical and mechanical properties of baleen tissue

description: Baleen, an anisotropic oral filtering tissue found only in the mouth of mysticete whales and made solely of alpha-keratin, exhibits markedly differing physical and mechanical properties between dried or (as in life) hydrated states. On average baleen is 32.35% water by weight in North Atlantic right whales (<i>Eubalaena glacialis</i>) and 34.37% in bowhead whales (<i>Balaena mysticetus</i>). Baleen's wettability measured by water droplet contact angles shows that dried baleen is hydrophobic whereas hydrated baleen is highly hydrophilic. Three-point flexural bending tests of mechanical strength reveal that baleen is strong yet ductile. Dried baleen is brittle and shatters at about 20-30 N mm<sup>-2</sup> but hydrated baleen is less stiff; it bends with little force and absorbed water is squeezed out when force is applied. Maximum recorded stress was 4 times higher in dried (mean 14.29 N mm<sup>-2</sup>) versus hydrated (mean 3.69 N mm<sup>-2</sup>) baleen, and the flexural stiffness was &gt;10 times higher in dried (mean 633 N mm<sup>-2</sup>) versus hydrated (mean 58 N mm<sup>-2</sup>) baleen. In addition to documenting hydration's powerful effects on baleen, this study indicates that baleen is far more pliant and malleable than commonly supposed, with implications for studies of baleen's structure and function as well as its susceptibility to oil or other hydrophobic pollutants.
DOI: 10.7910/dvn/v1rjpf/lgazmk
title: blc20170103_03.txt.gz

description: :unav
DOI: 10.7910/dvn/v1rjpf/lqbxax
title: blc20170219_03.txt.gz

description: :unav
DOI: 10.6084/m9.figshare.4038189
title: Supplemental File 3 data plots from Hydration affects the physical and mechanical properties of baleen tissue

description: Baleen, an anisotropic oral filtering tissue found only in the mouth of mysticete whales and made solely of alpha-keratin, exhibits markedly differing physical and mechanical properties between dried or (as in life) hydrated states. On average baleen is 32.35% water by weight in North Atlantic right whales (<i>Eubalaena glacialis</i>) and 34.37% in bowhead whales (<i>Balaena mysticetus</i>). Baleen's wettability measured by water droplet contact angles shows that dried baleen is hydrophobic whereas hydrated baleen is highly hydrophilic. Three-point flexural bending tests of mechanical strength reveal that baleen is strong yet ductile. Dried baleen is brittle and shatters at about 20-30 N mm<sup>-2</sup> but hydrated baleen is less stiff; it bends with little force and absorbed water is squeezed out when force is applied. Maximum recorded stress was 4 times higher in dried (mean 14.29 N mm<sup>-2</sup>) versus hydrated (mean 3.69 N mm<sup>-2</sup>) baleen, and the flexural stiffness was &gt;10 times higher in dried (mean 633 N mm<sup>-2</sup>) versus hydrated (mean 58 N mm<sup>-2</sup>) baleen. In addition to documenting hydration's powerful effects on baleen, this study indicates that baleen is far more pliant and malleable than commonly supposed, with implications for studies of baleen's structure and function as well as its susceptibility to oil or other hydrophobic pollutants.
DOI: 10.7910/dvn/v1rjpf/yih0uj
title: blc20170421_03.txt.gz

description: :unav
DOI: 10.6084/m9.figshare.4038189.v1
title: Supplemental File 3 data plots from Hydration affects the physical and mechanical properties of baleen tissue

description: Baleen, an anisotropic oral filtering tissue found only in the mouth of mysticete whales and made solely of alpha-keratin, exhibits markedly differing physical and mechanical properties between dried or (as in life) hydrated states. On average baleen is 32.35% water by weight in North Atlantic right whales (<i>Eubalaena glacialis</i>) and 34.37% in bowhead whales (<i>Balaena mysticetus</i>). Baleen's wettability measured by water droplet contact angles shows that dried baleen is hydrophobic whereas hydrated baleen is highly hydrophilic. Three-point flexural bending tests of mechanical strength reveal that baleen is strong yet ductile. Dried baleen is brittle and shatters at about 20-30 N mm<sup>-2</sup> but hydrated baleen is less stiff; it bends with little force and absorbed water is squeezed out when force is applied. Maximum recorded stress was 4 times higher in dried (mean 14.29 N mm<sup>-2</sup>) versus hydrated (mean 3.69 N mm<sup>-2</sup>) baleen, and the flexural stiffness was &gt;10 times higher in dried (mean 633 N mm<sup>-2</sup>) versus hydrated (mean 58 N mm<sup>-2</sup>) baleen. In addition to documenting hydration's powerful effects on baleen, this study indicates that baleen is far more pliant and malleable than commonly supposed, with implications for studies of baleen's structure and function as well as its susceptibility to oil or other hydrophobic pollutants.
DOI: 10.7910/dvn/v1rjpf/5fzkxa
title: blc20170819_03.txt.gz

description: :unav
DOI: 10.6084/m9.figshare.4038180
title: Supplementary Table S3 from Physico-chemical properties that control protein aggregation also determine whether a protein is retained or released from necrotic cells

description: Complete list of enriched cellular compartments in NCC-participating and NCC-resistant protein subsets.
DOI: 10.7910/dvn/v1rjpf/adnyx7
title: blc20170630_03.txt.gz

description: :unav
DOI: 10.6084/m9.figshare.4038180.v1
title: Supplementary Table S3 from Physico-chemical properties that control protein aggregation also determine whether a protein is retained or released from necrotic cells

description: Complete list of enriched cellular compartments in NCC-participating and NCC-resistant protein subsets.
DOI: 10.6084/m9.figshare.4038174
title: Supplementary Table S1 from Physico-chemical properties that control protein aggregation also determine whether a protein is retained or released from necrotic cells

description: List of proteins identified in SILAC experiments (and other reference protein sets)
DOI: 10.6084/m9.figshare.4038177
title: Supplemental File 1 converted original test data from Hydration affects the physical and mechanical properties of baleen tissue

description: Baleen, an anisotropic oral filtering tissue found only in the mouth of mysticete whales and made solely of alpha-keratin, exhibits markedly differing physical and mechanical properties between dried or (as in life) hydrated states. On average baleen is 32.35% water by weight in North Atlantic right whales (<i>Eubalaena glacialis</i>) and 34.37% in bowhead whales (<i>Balaena mysticetus</i>). Baleen's wettability measured by water droplet contact angles shows that dried baleen is hydrophobic whereas hydrated baleen is highly hydrophilic. Three-point flexural bending tests of mechanical strength reveal that baleen is strong yet ductile. Dried baleen is brittle and shatters at about 20-30 N mm<sup>-2</sup> but hydrated baleen is less stiff; it bends with little force and absorbed water is squeezed out when force is applied. Maximum recorded stress was 4 times higher in dried (mean 14.29 N mm<sup>-2</sup>) versus hydrated (mean 3.69 N mm<sup>-2</sup>) baleen, and the flexural stiffness was &gt;10 times higher in dried (mean 633 N mm<sup>-2</sup>) versus hydrated (mean 58 N mm<sup>-2</sup>) baleen. In addition to documenting hydration's powerful effects on baleen, this study indicates that baleen is far more pliant and malleable than commonly supposed, with implications for studies of baleen's structure and function as well as its susceptibility to oil or other hydrophobic pollutants.
DOI: 10.7910/dvn/v1rjpf/1q3ynb
title: blc20170204_03.txt.gz

description: :unav
DOI: 10.6084/m9.figshare.4038174.v1
title: Supplementary Table S1 from Physico-chemical properties that control protein aggregation also determine whether a protein is retained or released from necrotic cells

description: List of proteins identified in SILAC experiments (and other reference protein sets)