cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.1332515.v1
title: Late Triassic tanystropheids (Reptilia, Archosauromorpha) from northern New Mexico (Petrified Forest Member, Chinle Formation) and the biogeography, functional morphology, and evolution of Tanystropheidae

description: ABSTRACTWe report on tanystropheids from the Late Triassic (middle Norian) Hayden Quarry of northern New Mexico (Chinle Formation, Hayden Quarry). These elements, consisting of isolated vertebrae and appendicular bones, represent the first unambiguously identified tanystropheid from western North America and likely the latest occurrence of the group, postdating <i>Tanytrachelos</i> in the eastern United States. A new phylogenetic analysis of early saurians identifies synapomorphies of tanystropheid subclades, which are recognized in the recovered vertebrae and a calcaneum. The femora are consistent with referral to Tanystropheidae. There is no clear association of the remains, however, so we refrain from erecting a new taxon. The analysis also indicates that the Hayden Quarry tanystropheid fossils belong to a newly recognized clade including the Late Triassic taxa <i>Langobardisaurus</i> and <i>Tanytrachelos</i>. Because most tanystropheid specimens are two-dimensionally crushed skeletons, the Hayden Quarry tanystropheid fossils provide valuable insights into the three-dimensional osteology of derived tanystropheids. The most striking feature of the Hayden vertebrae is a rugose, flattened expansion of the neural spines in the dorsal, sacral, and caudal regions, probably linked to a ligamentous bracing system. These fossils and others from Late Triassic sites in the American West suggest that tanystropheids underwent a previously unrecognized radiation in North America just prior to their extinction.SUPPLEMENTAL DATA—Supplemental materials are available for this article for free at www.tandfonline.com/UJVP
DOI: 10.6084/m9.figshare.1332512
title: microRNA-449a functions as a tumor suppressor in neuroblastoma through inducing cell differentiation and cell cycle arrest

description: microRNA-449a (miR-449a) has been identified to function as a tumor suppressor in several types of cancers. However, the role of miR-449a in neuroblastoma has not been intensively investigated. We recently found that the overexpression of miR-449a significantly induces neuroblastoma cell differentiation, suggesting its potential tumor suppressor function in neuroblastoma. In this study, we further investigated the mechanisms underlying the tumor suppressive function of miR-449a in neuroblastoma. We observed that miR-449a inhibits neuroblastoma cell survival and growth through 2 mechanisms—inducing cell differentiation and cell cycle arrest. Our comprehensive investigations on the dissection of the target genes of miR-449a revealed that 3 novel targets- MFAP4, PKP4 and TSEN15 -play important roles in mediating its differentiation-inducing function. In addition, we further found that its function in inducing cell cycle arrest involves down-regulating its direct targets CDK6 and LEF1. To determine the clinical significance of the miR-449a-mediated tumor suppressive mechanism, we examined the correlation between the expression of these 5 target genes in neuroblastoma tumor specimens and the survival of neuroblastoma patients. Remarkably, we noted that high tumor expression levels of all the 3 miR-449a target genes involved in regulating cell differentiation, but not the target genes involved in regulating cell cycle, are significantly correlated with poor survival of neuroblastoma patients. These results suggest the critical role of the differentiation-inducing function of miR-449a in determining neuroblastoma progression. Overall, our study provides the first comprehensive characterization of the tumor-suppressive function of miR-449a in neuroblastoma, and reveals the potential clinical significance of the miR-449a-mediated tumor suppressive pathway in neuroblastoma prognosis.
DOI: 10.6084/m9.figshare.1332512.v1
title: microRNA-449a functions as a tumor suppressor in neuroblastoma through inducing cell differentiation and cell cycle arrest

description: microRNA-449a (miR-449a) has been identified to function as a tumor suppressor in several types of cancers. However, the role of miR-449a in neuroblastoma has not been intensively investigated. We recently found that the overexpression of miR-449a significantly induces neuroblastoma cell differentiation, suggesting its potential tumor suppressor function in neuroblastoma. In this study, we further investigated the mechanisms underlying the tumor suppressive function of miR-449a in neuroblastoma. We observed that miR-449a inhibits neuroblastoma cell survival and growth through two mechanisms — inducing cell differentiation and cell cycle arrest. Our comprehensive investigations on the dissection of the target genes of miR-449a revealed that three novel targets– MFAP4, PKP4 and TSEN15 –play important roles in mediating its differentiation-inducing function. In addition, we further found that its function in inducing cell cycle arrest involves down-regulating its direct targets CDK6 and LEF1. To determine the clinical significance of the miR-449a-mediated tumor suppressive mechanism, we examined the correlation between the expression of these five target genes in neuroblastoma tumor specimens and the survival of neuroblastoma patients. Remarkably, we noted that high tumor expression levels of all the three miR-449a target genes involved in regulating cell differentiation, but not the target genes involved in regulating cell cycle, are significantly correlated with poor survival of neuroblastoma patients. These results suggest the critical role of the differentiation-inducing function of miR-449a in determining neuroblastoma progression. Overall, our study provides the first comprehensive characterization of the tumor-suppressive function of miR-449a in neuroblastoma, and reveals the potential clinical significance of the miR-449a-mediated tumor suppressive pathway in neuroblastoma prognosis.
DOI: 10.6084/m9.figshare.1332503
title: Iris Stability Dataset - Visit 6

description: Dataset for Iris Stability Scores - Visit 6
DOI: 10.6084/m9.figshare.1332504
title: Iris Stability Dataset - Visit 4

description: Dataset for Iris Stability Scores - Visit 4
DOI: 10.6084/m9.figshare.1332501
title: Iris Stability Dataset - Visit 2

description: Dataset for Iris Stability Scores - Visit 2
DOI: 10.6084/m9.figshare.1332502
title: Iris Stability Dataset - Visit 5

description: Dataset for Iris Stability Scores - Visit 5
DOI: 10.6084/m9.figshare.1332503.v1
title: Iris Stability Dataset - Visit 6

description: Dataset for Iris Stability Scores - Visit 6
DOI: 10.6084/m9.figshare.1332504.v1
title: Iris Stability Dataset - Visit 4

description: Dataset for Iris Stability Scores - Visit 4
DOI: 10.6084/m9.figshare.1332502.v1
title: Iris Stability Dataset - Visit 5

description: Dataset for Iris Stability Scores - Visit 5
DOI: 10.6084/m9.figshare.1332512.v2
title: microRNA-449a functions as a tumor suppressor in neuroblastoma through inducing cell differentiation and cell cycle arrest

description: microRNA-449a (miR-449a) has been identified to function as a tumor suppressor in several types of cancers. However, the role of miR-449a in neuroblastoma has not been intensively investigated. We recently found that the overexpression of miR-449a significantly induces neuroblastoma cell differentiation, suggesting its potential tumor suppressor function in neuroblastoma. In this study, we further investigated the mechanisms underlying the tumor suppressive function of miR-449a in neuroblastoma. We observed that miR-449a inhibits neuroblastoma cell survival and growth through 2 mechanisms—inducing cell differentiation and cell cycle arrest. Our comprehensive investigations on the dissection of the target genes of miR-449a revealed that 3 novel targets- MFAP4, PKP4 and TSEN15 -play important roles in mediating its differentiation-inducing function. In addition, we further found that its function in inducing cell cycle arrest involves down-regulating its direct targets CDK6 and LEF1. To determine the clinical significance of the miR-449a-mediated tumor suppressive mechanism, we examined the correlation between the expression of these 5 target genes in neuroblastoma tumor specimens and the survival of neuroblastoma patients. Remarkably, we noted that high tumor expression levels of all the 3 miR-449a target genes involved in regulating cell differentiation, but not the target genes involved in regulating cell cycle, are significantly correlated with poor survival of neuroblastoma patients. These results suggest the critical role of the differentiation-inducing function of miR-449a in determining neuroblastoma progression. Overall, our study provides the first comprehensive characterization of the tumor-suppressive function of miR-449a in neuroblastoma, and reveals the potential clinical significance of the miR-449a-mediated tumor suppressive pathway in neuroblastoma prognosis.
DOI: 10.6084/m9.figshare.1332498
title: Deciphering the dual effect of lipopolysaccharides from plant pathogenic <i>Pectobacterium</i>

description: Lipopolysaccharides (LPS) are a component of the outer cell surface of almost all Gram-negative bacteria and play an essential role for bacterial growth and survival. Lipopolysaccharides represent typical microbe-associated molecular pattern (MAMP) molecules and have been reported to induce defense-related responses, including the expression of defense genes and the suppression of the hypersensitive response in plants. However, depending on their origin and the challenged plant, LPS were shown to have complex and different roles. In this study we showed that LPS from plant pathogens <i>Pectobacterium atrosepticum</i> and <i>Pectobacterium carotovorum subsp. carotovorum</i> induce common and different responses in <i>A. thaliana</i> cells when compared to those induced by LPS from non-phytopathogens <i>Escherichia coli</i> and <i>Pseudomonas aeruginosa</i>. Among common responses to both types of LPS are the transcription of defense genes and their ability to limit of cell death induced by <i>Pectobacterium carotovorum subsp carotovorum</i>. However, the differential kinetics and amplitude in reactive oxygen species (ROS) generation seemed to regulate defense gene transcription and be determinant to induce programmed cell death in response to LPS from the plant pathogenic <i>Pectobacterium</i>. These data suggest that different signaling pathways could be activated by LPS in <i>A. thaliana</i> cells.
DOI: 10.6084/m9.figshare.1332499
title: Iris Stability Dataset - Visit 1

description: Dataset for Iris Stability Scores - Visit 1
DOI: 10.6084/m9.figshare.1332500
title: Iris Stability Dataset - Visit 3

description: Dataset for Iris Stability Scores - Visit 3
DOI: 10.6084/m9.figshare.1332501.v1
title: Iris Stability Dataset - Visit 2

description: Dataset for Iris Stability Scores - Visit 2
DOI: 10.6084/m9.figshare.1332500.v1
title: Iris Stability Dataset - Visit 3

description: Dataset for Iris Stability Scores - Visit 3
DOI: 10.6084/m9.figshare.1332512.v3
title: microRNA-449a functions as a tumor suppressor in neuroblastoma through inducing cell differentiation and cell cycle arrest

description: microRNA-449a (miR-449a) has been identified to function as a tumor suppressor in several types of cancers. However, the role of miR-449a in neuroblastoma has not been intensively investigated. We recently found that the overexpression of miR-449a significantly induces neuroblastoma cell differentiation, suggesting its potential tumor suppressor function in neuroblastoma. In this study, we further investigated the mechanisms underlying the tumor suppressive function of miR-449a in neuroblastoma. We observed that miR-449a inhibits neuroblastoma cell survival and growth through 2 mechanisms—inducing cell differentiation and cell cycle arrest. Our comprehensive investigations on the dissection of the target genes of miR-449a revealed that 3 novel targets- MFAP4, PKP4 and TSEN15 -play important roles in mediating its differentiation-inducing function. In addition, we further found that its function in inducing cell cycle arrest involves down-regulating its direct targets CDK6 and LEF1. To determine the clinical significance of the miR-449a-mediated tumor suppressive mechanism, we examined the correlation between the expression of these 5 target genes in neuroblastoma tumor specimens and the survival of neuroblastoma patients. Remarkably, we noted that high tumor expression levels of all the 3 miR-449a target genes involved in regulating cell differentiation, but not the target genes involved in regulating cell cycle, are significantly correlated with poor survival of neuroblastoma patients. These results suggest the critical role of the differentiation-inducing function of miR-449a in determining neuroblastoma progression. Overall, our study provides the first comprehensive characterization of the tumor-suppressive function of miR-449a in neuroblastoma, and reveals the potential clinical significance of the miR-449a-mediated tumor suppressive pathway in neuroblastoma prognosis.
DOI: 10.6084/m9.figshare.1332495
title: A Polynomial Time Solution to Solving Clique Problems, Proving P=NP

description: I present a constructive prove that there exists a polynomial time algorithm to solve clique problems, thereby solving the open question posed by the Cook-Levin Theorem, that P = NP.
DOI: 10.6084/m9.figshare.1332496
title: Western Ghats Barb Phylogenetics - Data

description: This zip file contains data for the upcoming WG Barb phylogenetic revision paper. This file contains the alignment (phylip format) and the best ML tree by GARLI (methods obvious from the paper), the best ML tree with bootstrap probablities and bayesian posterior probablities. The zip file is currently locked (protected) but will be unlocked once the paper is accepted for publication.
DOI: 10.6084/m9.figshare.1332512.v5
title: microRNA-449a functions as a tumor suppressor in neuroblastoma through inducing cell differentiation and cell cycle arrest

description: microRNA-449a (miR-449a) has been identified to function as a tumor suppressor in several types of cancers. However, the role of miR-449a in neuroblastoma has not been intensively investigated. We recently found that the overexpression of miR-449a significantly induces neuroblastoma cell differentiation, suggesting its potential tumor suppressor function in neuroblastoma. In this study, we further investigated the mechanisms underlying the tumor suppressive function of miR-449a in neuroblastoma. We observed that miR-449a inhibits neuroblastoma cell survival and growth through 2 mechanisms—inducing cell differentiation and cell cycle arrest. Our comprehensive investigations on the dissection of the target genes of miR-449a revealed that 3 novel targets- MFAP4, PKP4 and TSEN15 -play important roles in mediating its differentiation-inducing function. In addition, we further found that its function in inducing cell cycle arrest involves down-regulating its direct targets CDK6 and LEF1. To determine the clinical significance of the miR-449a-mediated tumor suppressive mechanism, we examined the correlation between the expression of these 5 target genes in neuroblastoma tumor specimens and the survival of neuroblastoma patients. Remarkably, we noted that high tumor expression levels of all the 3 miR-449a target genes involved in regulating cell differentiation, but not the target genes involved in regulating cell cycle, are significantly correlated with poor survival of neuroblastoma patients. These results suggest the critical role of the differentiation-inducing function of miR-449a in determining neuroblastoma progression. Overall, our study provides the first comprehensive characterization of the tumor-suppressive function of miR-449a in neuroblastoma, and reveals the potential clinical significance of the miR-449a-mediated tumor suppressive pathway in neuroblastoma prognosis.
DOI: 10.6084/m9.figshare.1332498.v1
title: Deciphering the dual effect of lipopolysaccharides from plant pathogenic <i>Pectobacterium</i>

description: Lipopolysaccharides (LPS) are a component of the outer cell surface of almost all Gram-negative bacteria and play an essential role for bacterial growth and survival. Lipopolysaccharides represent typical microbe-associated molecular pattern (MAMP) molecules and have been reported to induce defense-related responses, including the expression of defense genes and the suppression of the hypersensitive response in plants. However, depending on their origin and the challenged plant, LPS were shown to have complex and different roles. In this study we showed that LPS from plant pathogens <i>Pectobacterium atrosepticum</i> and <i>Pectobacterium carotovorum subsp. carotovorum</i> induce common and different responses in <i>A. thaliana</i> cells when compared to those induced by LPS from non-phytopathogens <i>Escherichia coli</i> and <i>Pseudomonas aeruginosa</i>. Among common responses to both types of LPS are the transcription of defense genes and their ability to limit of cell death induced by <i>Pectobacterium carotovorum subsp. carotovorum</i>. However, the differential kinetics and amplitude in reactive oxygen species (ROS) generation seemed to regulate defense gene transcription and be determinant to induce programmed cell death in response to LPS from the plant pathogenic <i>Pectobacterium</i>. These data suggest that different signaling pathways could be activated by LPS in <i>A. thaliana</i> cells.
DOI: 10.6084/m9.figshare.1332512.v4
title: microRNA-449a functions as a tumor suppressor in neuroblastoma through inducing cell differentiation and cell cycle arrest

description: microRNA-449a (miR-449a) has been identified to function as a tumor suppressor in several types of cancers. However, the role of miR-449a in neuroblastoma has not been intensively investigated. We recently found that the overexpression of miR-449a significantly induces neuroblastoma cell differentiation, suggesting its potential tumor suppressor function in neuroblastoma. In this study, we further investigated the mechanisms underlying the tumor suppressive function of miR-449a in neuroblastoma. We observed that miR-449a inhibits neuroblastoma cell survival and growth through 2 mechanisms—inducing cell differentiation and cell cycle arrest. Our comprehensive investigations on the dissection of the target genes of miR-449a revealed that 3 novel targets- MFAP4, PKP4 and TSEN15 -play important roles in mediating its differentiation-inducing function. In addition, we further found that its function in inducing cell cycle arrest involves down-regulating its direct targets CDK6 and LEF1. To determine the clinical significance of the miR-449a-mediated tumor suppressive mechanism, we examined the correlation between the expression of these 5 target genes in neuroblastoma tumor specimens and the survival of neuroblastoma patients. Remarkably, we noted that high tumor expression levels of all the 3 miR-449a target genes involved in regulating cell differentiation, but not the target genes involved in regulating cell cycle, are significantly correlated with poor survival of neuroblastoma patients. These results suggest the critical role of the differentiation-inducing function of miR-449a in determining neuroblastoma progression. Overall, our study provides the first comprehensive characterization of the tumor-suppressive function of miR-449a in neuroblastoma, and reveals the potential clinical significance of the miR-449a-mediated tumor suppressive pathway in neuroblastoma prognosis.
DOI: 10.6084/m9.figshare.1332496.v1
title: Western Ghats Barb Phylogenetics - Data

description: This zip file contains data for the upcoming WG Barb phylogenetic revision paper. This file contains the alignment (phylip format) and the best ML tree by GARLI (methods obvious from the paper), the best ML tree with bootstrap probablities and bayesian posterior probablities. The zip file is currently locked (protected) but will be unlocked once the paper is accepted for publication.
DOI: 10.6084/m9.figshare.1332487
title: Data for "Signatures of value comparison in ventral striatum neurons"

description: Data for the PLoS Biology article, "Signatures of value comparison in ventral striatum neurons," by Caleb E. Strait, Brianna J. Sleezer, and Benjamin Y. Hayden. S1 Data: VS dataset. S2 Data: VM dataset.
DOI: 10.6084/m9.figshare.1332498.v2
title: Deciphering the dual effect of lipopolysaccharides from plant pathogenic <i>Pectobacterium</i>

description: Lipopolysaccharides (LPS) are a component of the outer cell surface of almost all Gram-negative bacteria and play an essential role for bacterial growth and survival. Lipopolysaccharides represent typical microbe-associated molecular pattern (MAMP) molecules and have been reported to induce defense-related responses, including the expression of defense genes and the suppression of the hypersensitive response in plants. However, depending on their origin and the challenged plant, LPS were shown to have complex and different roles. In this study we showed that LPS from plant pathogens <i>Pectobacterium atrosepticum</i> and <i>Pectobacterium carotovorum subsp. carotovorum</i> induce common and different responses in <i>A. thaliana</i> cells when compared to those induced by LPS from non-phytopathogens <i>Escherichia coli</i> and <i>Pseudomonas aeruginosa</i>. Among common responses to both types of LPS are the transcription of defense genes and their ability to limit of cell death induced by <i>Pectobacterium carotovorum subsp carotovorum</i>. However, the differential kinetics and amplitude in reactive oxygen species (ROS) generation seemed to regulate defense gene transcription and be determinant to induce programmed cell death in response to LPS from the plant pathogenic <i>Pectobacterium</i>. These data suggest that different signaling pathways could be activated by LPS in <i>A. thaliana</i> cells.
DOI: 10.6084/m9.figshare.1332498.v3
title: Deciphering the dual effect of lipopolysaccharides from plant pathogenic <i>Pectobacterium</i>

description: Lipopolysaccharides (LPS) are a component of the outer cell surface of almost all Gram-negative bacteria and play an essential role for bacterial growth and survival. Lipopolysaccharides represent typical microbe-associated molecular pattern (MAMP) molecules and have been reported to induce defense-related responses, including the expression of defense genes and the suppression of the hypersensitive response in plants. However, depending on their origin and the challenged plant, LPS were shown to have complex and different roles. In this study we showed that LPS from plant pathogens <i>Pectobacterium atrosepticum</i> and <i>Pectobacterium carotovorum subsp. carotovorum</i> induce common and different responses in <i>A. thaliana</i> cells when compared to those induced by LPS from non-phytopathogens <i>Escherichia coli</i> and <i>Pseudomonas aeruginosa</i>. Among common responses to both types of LPS are the transcription of defense genes and their ability to limit of cell death induced by <i>Pectobacterium carotovorum subsp carotovorum</i>. However, the differential kinetics and amplitude in reactive oxygen species (ROS) generation seemed to regulate defense gene transcription and be determinant to induce programmed cell death in response to LPS from the plant pathogenic <i>Pectobacterium</i>. These data suggest that different signaling pathways could be activated by LPS in <i>A. thaliana</i> cells.