cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.1571970
title: <i>Hormosira banksii</i> (Phaeophyceae): a tough survivor in the harsh conditions of high intertidal pools in southeast Australia

description: <i>Hormosira banksii</i>, the most successful intertidal fucoid in the southern hemisphere, usually inhabits only the lower shore. On Kainga Reef, at 36°S on the New South Wales coast, it is one of only two macroalgae in most of the pools on a platform above xthe lowest high water; 29 pools in the middle of the platform were monitored photographically for 12 years. Recruitment was not seasonal. It took about 5–8 months for germlings to become visible, when they consisted of about 3 vesicles. The growth rate of germlings was between linear and exponential. Individuals could become fertile when they were 11–14 months old. Adult frond growth rate in the mid-platform pools, measured <i>in situ</i>, was highest in autumn but similar in the other seasons. In summer, however, in pools at the edge of the reef, often flushed by waves, the growth rate was as fast in summer as in autumn, either because of better provision of scarce nutrients or because of less inhibition by high temperature. Mortality, both of individuals and of fronds, was highest in the summer when pool isolation for one or more tidal cycles, caused by the coincidence of low high tide levels and a calm sea, was more common. <i>Hormosira</i> could tolerate full summer sunlight, water temperatures of up to 40°C, 140 psu (four times the strength of seawater) but not dehydration. Dehydration caused inter-annual variation in cover and in the total number of plants present, but with no overall trend over 12 years. Sand cover and rotting cast weed could also cause mortality. Survivorship was Slobodkin’s Type IV, with few plants reaching 4 years but high longevity after that, due to the establishment of a holdfast which could regenerate new fronds. Compared with other fucoids, growth was slow. The lifestyle resembles that of <i>Ascophyllum nodosum</i>.
DOI: 10.6084/m9.figshare.1571970.v2
title: <i>Hormosira banksii</i> (Phaeophyceae): a tough survivor in the harsh conditions of high intertidal pools in southeast Australia

description: <i>Hormosira banksii</i>, the most successful intertidal fucoid in the southern hemisphere, usually inhabits only the lower shore. On Kainga Reef, at 36°S on the New South Wales coast, it is one of only two macroalgae in most of the pools on a platform above xthe lowest high water; 29 pools in the middle of the platform were monitored photographically for 12 years. Recruitment was not seasonal. It took about 5–8 months for germlings to become visible, when they consisted of about 3 vesicles. The growth rate of germlings was between linear and exponential. Individuals could become fertile when they were 11–14 months old. Adult frond growth rate in the mid-platform pools, measured <i>in situ</i>, was highest in autumn but similar in the other seasons. In summer, however, in pools at the edge of the reef, often flushed by waves, the growth rate was as fast in summer as in autumn, either because of better provision of scarce nutrients or because of less inhibition by high temperature. Mortality, both of individuals and of fronds, was highest in the summer when pool isolation for one or more tidal cycles, caused by the coincidence of low high tide levels and a calm sea, was more common. <i>Hormosira</i> could tolerate full summer sunlight, water temperatures of up to 40°C, 140 psu (four times the strength of seawater) but not dehydration. Dehydration caused inter-annual variation in cover and in the total number of plants present, but with no overall trend over 12 years. Sand cover and rotting cast weed could also cause mortality. Survivorship was Slobodkin’s Type IV, with few plants reaching 4 years but high longevity after that, due to the establishment of a holdfast which could regenerate new fronds. Compared with other fucoids, growth was slow. The lifestyle resembles that of <i>Ascophyllum nodosum</i>.
DOI: 10.6084/m9.figshare.1571970.v1
title: <i>Hormosira banksii</i> (Phaeophyceae): a tough survivor in the harsh conditions of high intertidal pools in southeast Australia

description: <i>Hormosira banksii</i>, the most successful intertidal fucoid in the southern hemisphere, usually inhabits only the lower shore. On Kainga Reef, at 36°S on the New South Wales coast, it is one of only two macroalgae in most of the pools on a platform above xthe lowest high water; 29 pools in the middle of the platform were monitored photographically for 12 years. Recruitment was not seasonal. It took about 5–8 months for germlings to become visible, when they consisted of about 3 vesicles. The growth rate of germlings was between linear and exponential. Individuals could become fertile when they were 11–14 months old. Adult frond growth rate in the mid-platform pools, measured <i>in situ</i>, was highest in autumn but similar in the other seasons. In summer, however, in pools at the edge of the reef, often flushed by waves, the growth rate was as fast in summer as in autumn, either because of better provision of scarce nutrients or because of less inhibition by high temperature. Mortality, both of individuals and of fronds, was highest in the summer when pool isolation for one or more tidal cycles, caused by the coincidence of low high tide levels and a calm sea, was more common. <i>Hormosira</i> could tolerate full summer sunlight, water temperatures of up to 40°C, 140 psu (four times the strength of seawater) but not dehydration. Dehydration caused inter-annual variation in cover and in the total number of plants present, but with no overall trend over 12 years. Sand cover and rotting cast weed could also cause mortality. Survivorship was Slobodkin’s Type IV, with few plants reaching 4 years but high longevity after that, due to the establishment of a holdfast which could regenerate new fronds. Compared with other fucoids, growth was slow. The lifestyle resembles that of <i>Ascophyllum nodosum</i>.
DOI: 10.6084/m9.figshare.1571948
title: Structural optimization of 10-methyl-aplog-1, a simplified analog of debromoaplysiatoxin, as an anticancer lead

description: Aplog-1 is a simplified analog of debromoaplysiatoxin (DAT) with potent tumor-promoting and proinflammatory activities. Aplog-1 and DAT exhibited anti-proliferative activities against several human cancer cell lines, whereas aplog-1 did not have tumor-promoting nor proinflammatory activities. We have recently found 10-methyl-aplog-1 (<b>1</b>) to have strong anti-proliferative activity compared with aplog-1. To further investigate the structural factors involved in the tumor-promoting, proinflammatory, and anti-proliferative activities, two dimethyl derivatives of aplog-1 (<b>2</b>, <b>3</b>) were synthesized, where two methyl groups were installed at positions 4 and 10 or 10 and 12. 10,12-Dimethyl-aplog-1 (<b>2</b>) had stronger inhibitory effects on the growth of several human cancer cell lines than <b>1</b> and DAT, but exhibited no tumor-promoting and proinflammatory activities. In contrast, 4,10-dimethyl-aplog-1 (<b>3)</b> displayed weak tumor-promoting and proinflammatory activities along with anti-proliferative activity similar to that of <b>1</b> and DAT. Compound <b>2</b> would be the optimized seed for anticancer drugs among the simplified analogs of DAT.
DOI: 10.6084/m9.figshare.1571945
title: Groningen frailty indicator in older patients with end-stage renal disease

description: <i>Background</i>: Currently over 55% of end-stage renal disease (ESRD) patients are aged ≥60 years and patients &gt;75 years represent the fastest growing segment of the dialysis population. We aimed to assess whether the Groningen frailty indicator (GFI) can be used to distinguish fit older ESRD patients, likely able to tolerate and benefit from dialysis, from frail older patients who need further evaluation with a geriatrician’s comprehensive assessment. <i>Methods</i>: All patients aged ≥65 years visiting the pre-dialysis unit at the Gelre hospital between 2007 and 2013 were included and underwent the GFI (<i>n</i> = 65). Patients with GFI ≥ 4 (frail) were referred for geriatric consultation (<i>n</i> = 13). Results of the GFI and nephrologists’ evaluation were compared with geriatrician’s assessment. Survival rates and outcomes after one year of follow up were recorded. <i>Results</i>: Twenty patients (32%) were identified as frail. Of the problems identified by the geriatrician in 13 patients, 55% were not reported in the nephrologists’ notes. The first year after inclusion, 30% of patients with a GFI ≥ 4 died, compared to 9% of fit patients (<i>p</i> = 0.04). Moreover, 90% of frail patients had been hospitalized one or more times, compared to 53% in the fit group (<i>p</i> = 0.005). <i>Conclusion</i>: Although the GFI can be a useful instrument to identify ESRD patients at risk, both the GFI and the nephrologists’ assessment failed to identify specific geriatric impairments. Further research is needed to develop a specific frailty indicator for ESRD patients and to determine the value and effect of a comprehensive geriatric assessment in ESRD patients.
DOI: 10.6084/m9.figshare.1571948.v1
title: Structural optimization of 10-methyl-aplog-1, a simplified analog of debromoaplysiatoxin, as an anticancer lead

description: Aplog-1 is a simplified analog of debromoaplysiatoxin (DAT) with potent tumor-promoting and proinflammatory activities. Aplog-1 and DAT exhibited anti-proliferative activities against several human cancer cell lines, whereas aplog-1 did not have tumor-promoting nor proinflammatory activities. We have recently found 10-methyl-aplog-1 (<b>1</b>) to have strong anti-proliferative activity compared with aplog-1. To further investigate the structural factors involved in the tumor-promoting, proinflammatory, and anti-proliferative activities, two dimethyl derivatives of aplog-1 (<b>2</b>, <b>3</b>) were synthesized, where two methyl groups were installed at positions 4 and 10 or 10 and 12. 10,12-Dimethyl-aplog-1 (<b>2</b>) had stronger inhibitory effects on the growth of several human cancer cell lines than <b>1</b> and DAT, but exhibited no tumor-promoting and proinflammatory activities. In contrast, 4,10-dimethyl-aplog-1 (<b>3)</b> displayed weak tumor-promoting and proinflammatory activities along with anti-proliferative activity similar to that of <b>1</b> and DAT. Compound <b>2</b> would be the optimized seed for anticancer drugs among the simplified analogs of DAT.
DOI: 10.6084/m9.figshare.1571369
title: recommendation datasets

description: jester,MovieLens,Netflix and EachMovie Datasets
DOI: 10.6084/m9.figshare.1571365
title: multi hot wire/film calibration method based on lookup table

description: Multi-hot-wire/film probes made from multiple sensors provide three components of velocity and velocity derivatives in a point. Typically the calibrations are using inverse polynomials to fit the angle dependence of each sensor. This code suggests a use of look-up tables for the task
DOI: 10.6084/m9.figshare.1571362
title: Poly(ADP-ribosyl)ation is recognized by ECT2 during mitosis

description: Poly(ADP-ribosyl)ation is an unique posttranslational modification and required for spindle assembly and function during mitosis. However, the molecular mechanism of poly(ADP-ribose) (PAR) in mitosis remains elusive. Here, we show the evidence that PAR is recognized by ECT2, a key guanine nucleotide exchange factor in mitosis. The BRCT domain of ECT2 directly binds to PAR both <i>in vitro</i> and <i>in vivo</i>. We further found that α-tubulin is PARylated during mitosis. PARylation of α-tubulin is recognized by ECT2 and recruits ECT2 to mitotic spindle for completing mitosis. Taken together, our study reveals a novel mechanism by which PAR regulates mitosis.
DOI: 10.6084/m9.figshare.1571362.v1
title: Poly(ADP-ribosyl)ation is recognized by ECT2 during mitosis

description: Poly(ADP-ribosyl)ation is an unique posttranslational modification and required for spindle assembly and function during mitosis. However, the molecular mechanism of poly(ADP-ribose) (PAR) in mitosis remains elusive. Here, we show the evidence that PAR is recognized by ECT2, a key guanine nucleotide exchange factor in mitosis. The BRCT domain of ECT2 directly binds to PAR both <i>in vitro</i> and <i>in vivo</i>. We further found that α-tubulin is PARylated during mitosis. PARylation of α-tubulin is recognized by ECT2 and recruits ECT2 to mitotic spindle for completing mitosis. Taken together, our study reveals a novel mechanism by which PAR regulates mitosis.
DOI: 10.6084/m9.figshare.1571360
title: The oncogene <i>EVI1</i> enhances transcriptional and biological responses of human myeloid cells to <i>all-trans</i> retinoic acid

description: The product of the <i>e</i>cotropic <i>v</i>irus <i>i</i>ntegration site 1 (<i>EVI1</i>) gene, whose overexpression is associated with a poor prognosis in myeloid leukemias and some epithelial tumors, regulates gene transcription both through direct DNA binding and through modulation of the activity of other sequence specific transcription factors. Previous results from our laboratory have shown that EVI1 influenced transcription regulation in response to the myeloid differentiation inducing agent, <i>all-trans</i> retinoic acid (ATRA), in a dual manner: it enhanced ATRA induced transcription of the <i>RAR</i>β gene, but repressed the ATRA induction of the <i>EVI1</i> gene itself. In the present study, we asked whether EVI1 would modulate the ATRA regulation of a larger number of genes, as well as biological responses to this agent, in human myeloid cells. U937 and HL-60 cells ectopically expressing <i>EVI1</i> through retroviral transduction were subjected to microarray based gene expression analysis, and to assays measuring cellular proliferation, differentiation, and apoptosis. These experiments showed that EVI1 modulated the ATRA response of several dozens of genes, and in fact reinforced it in the vast majority of cases. A particularly strong synergy between EVI1 and ATRA was observed for <i>GDF15</i>, which codes for a member of the TGF-β superfamily of cytokines. In line with the gene expression results, EVI1 enhanced cell cycle arrest, differentiation, and apoptosis in response to ATRA, and knockdown of <i>GDF15</i> counteracted some of these effects. The potential clinical implications of these findings are discussed.
DOI: 10.6084/m9.figshare.1571360.v1
title: The oncogene <i>EVI1</i> enhances transcriptional and biological responses of human myeloid cells to <i>all-trans</i> retinoic acid

description: The product of the <i>e</i>cotropic <i>v</i>irus <i>i</i>ntegration site 1 (<i>EVI1</i>) gene, whose overexpression is associated with a poor prognosis in myeloid leukemias and some epithelial tumors, regulates gene transcription both through direct DNA binding and through modulation of the activity of other sequence specific transcription factors. Previous results from our laboratory have shown that EVI1 influenced transcription regulation in response to the myeloid differentiation inducing agent, <i>all-trans</i> retinoic acid (ATRA), in a dual manner: it enhanced ATRA induced transcription of the <i>RAR</i>β gene, but repressed the ATRA induction of the <i>EVI1</i> gene itself. In the present study, we asked whether EVI1 would modulate the ATRA regulation of a larger number of genes, as well as biological responses to this agent, in human myeloid cells. U937 and HL-60 cells ectopically expressing <i>EVI1</i> through retroviral transduction were subjected to microarray based gene expression analysis, and to assays measuring cellular proliferation, differentiation, and apoptosis. These experiments showed that EVI1 modulated the ATRA response of several dozens of genes, and in fact reinforced it in the vast majority of cases. A particularly strong synergy between EVI1 and ATRA was observed for <i>GDF15</i>, which codes for a member of the TGF-β superfamily of cytokines. In line with the gene expression results, EVI1 enhanced cell cycle arrest, differentiation, and apoptosis in response to ATRA, and knockdown of <i>GDF15</i> counteracted some of these effects. The potential clinical implications of these findings are discussed.
DOI: 10.6084/m9.figshare.1571364.v1
title: The Syrian Refugee Crisis

description: This is a discussion on the philosophical and anthropological ramifications of the Syrian Refugee Crisis.
DOI: 10.6084/m9.figshare.1571354
title: Lack of centrioles and primary cilia in <i>STIL<sup>−/−</sup></i> mouse embryos

description: Although most animal cells contain centrosomes, consisting of a pair of centrioles, their precise contribution to cell division and embryonic development is unclear. Genetic ablation of <i>STIL</i>, an essential component of the centriole replication machinery in mammalian cells, causes embryonic lethality in mice around mid gestation associated with defective Hedgehog signaling. Here, we describe, by focused ion beam scanning electron microscopy, that <i>STIL<sup>−/−</sup></i> mouse embryos do not contain centrioles or primary cilia, suggesting that these organelles are not essential for mammalian development until mid gestation. We further show that the lack of primary cilia explains the absence of Hedgehog signaling in <i>STIL<sup>−/−</sup></i> cells. Exogenous re-expression of STIL or STIL microcephaly mutants compatible with human survival, induced non-templated, <i>de novo</i> generation of centrioles in <i>STIL<sup>−/−</sup></i> cells. Thus, while the abscence of centrioles is compatible with mammalian gastrulation, lack of centrioles and primary cilia impairs Hedgehog signaling and further embryonic development.
DOI: 10.6084/m9.figshare.1571356
title: The cyclin D1-CDK4 oncogenic interactome enables identification of potential novel oncogenes and clinical prognosis

description: Overexpression of cyclin D1 and its catalytic partner, CDK4, is frequently seen in human cancers. We constructed cyclin D1 and CDK4 protein interaction network in a human breast cancer cell line MCF7, and identified novel CDK4 protein partners. Among CDK4 interactors we observed several proteins functioning in protein folding and in complex assembly. One of the novel partners of CDK4 is FKBP5, which we found to be required to maintain CDK4 levels in cancer cells. An integrative analysis of the extended cyclin D1 cancer interactome and somatic copy number alterations in human cancers identified BAIAPL21 as a potential novel human oncogene. We observed that in several human tumor types BAIAPL21 is expressed at higher levels as compared to normal tissue. Forced overexpression of BAIAPL21 augmented anchorage independent growth, increased colony formation by cancer cells and strongly enhanced the ability of cells to form tumors in vivo. Lastly, we derived an Aggregate Expression Score (AES), which quantifies the expression of all cyclin D1 interactors in a given tumor. We observed that AES has a prognostic value among patients with ER-positive breast cancers. These studies illustrate the utility of analyzing the interactomes of proteins involved in cancer to uncover potential oncogenes, or to allow better cancer prognosis.
DOI: 10.6084/m9.figshare.1571356.v1
title: The cyclin D1-CDK4 oncogenic interactome enables identification of potential novel oncogenes and clinical prognosis

description: Overexpression of cyclin D1 and its catalytic partner, CDK4, is frequently seen in human cancers. We constructed cyclin D1 and CDK4 protein interaction network in a human breast cancer cell line MCF7, and identified novel CDK4 protein partners. Among CDK4 interactors we observed several proteins functioning in protein folding and in complex assembly. One of the novel partners of CDK4 is FKBP5, which we found to be required to maintain CDK4 levels in cancer cells. An integrative analysis of the extended cyclin D1 cancer interactome and somatic copy number alterations in human cancers identified BAIAPL21 as a potential novel human oncogene. We observed that in several human tumor types BAIAPL21 is expressed at higher levels as compared to normal tissue. Forced overexpression of BAIAPL21 augmented anchorage independent growth, increased colony formation by cancer cells and strongly enhanced the ability of cells to form tumors in vivo. Lastly, we derived an Aggregate Expression Score (AES), which quantifies the expression of all cyclin D1 interactors in a given tumor. We observed that AES has a prognostic value among patients with ER-positive breast cancers. These studies illustrate the utility of analyzing the interactomes of proteins involved in cancer to uncover potential oncogenes, or to allow better cancer prognosis.
DOI: 10.6084/m9.figshare.1571364.v2
title: The Syrian Refugee Crisis

description: This is a discussion on the philosophical and anthropological ramifications of the Syrian Refugee Crisis.
DOI: 10.6084/m9.figshare.1571349
title: <i>Fucci2a:</i> A bicistronic cell cycle reporter that allows Cre mediated tissue specific expression in mice

description: Markers of cell cycle stage allow estimation of cell cycle dynamics in cell culture and during embryonic development. The Fucci system incorporates genetically encoded probes that highlight G1 and S/G2/M phases of the cell cycle allowing live imaging. However the available mouse models that incorporate Fucci are beset by problems with transgene inactivation, varying expression level, lack of conditional potential and/or the need to maintain separate transgenes—there is no transgenic mouse model that solves all these problems. To address these shortfalls we re-engineered the Fucci system to create 2 bicistronic Fucci variants incorporating both probes fused using the <i>Thosea asigna</i> virus 2A (T2A) self cleaving peptide. We characterize these variants in stable 3T3 cell lines. One of the variants (termed Fucci2a) faithfully recapitulated the nuclear localization and cell cycle stage specific florescence of the original Fucci system. We go on to develop a conditional mouse allele (<i>R26Fucci2aR</i>) carefully designed for high, inducible, ubiquitous expression allowing investigation of cell cycle status in single cell lineages within the developing embryo. We demonstrate the utility of <i>R26Fucci2aR</i> for live imaging by using high resolution confocal microscopy of <i>ex vivo</i> lung, kidney and neural crest development. Using our 3T3 system we describe and validate a method to estimate cell cycle times from relatively short time-lapse sequences that we then apply to our neural crest data. The Fucci2a system and the <i>R26Fucci2aR</i> mouse model are compelling new tools for the investigation of cell cycle dynamics in cell culture and during mouse embryonic development.