Alien Registration- Daigle, Ben (Upton, Oxford County)

https://digitalmaine.com/alien_docs/13976/thumbnail.jp

Getting Unstuck: A Collaborative Approach to Getting Started with Digital Preservation

How can we collaborate across our institutions to preserve the digital objects we\u27re responsible for creating and collecting in our libraries? That’s the question five small liberal arts college libraries asked themselves that sparked a collaborative digital preservation initiative. The diversity of our institutions’ missions and collections present challenges to collaboration, particularly in the areas of records management and born-digital materials for which heightened security concerns and a greater risk of loss are paramount. Those challenges may not only prevent collaboration. They may also prevent institutions from taking action to address them on their own campuses, partially due to the relatively high cost of the more comprehensive digital preservation software solutions on the market, or the lack of technical expertise to implement and support sustainable open source solutions. Acknowledging our diversity, we discovered that while it was unlikely we would be able to collaboratively address all of our individual digital preservation challenges, we found that we could get started on developing digital preservation plans and expertise by shifting a large volume of digitized content with an inherently lower risk of permanent loss to a shared storage service and distribute the cost of hosting that content, allowing those institutions with mandates to preserve their campus’ digital legacies, manifested in personal, born-digital files, to experiment more readily with all-in-one preservation systems at a lower price point. In this session, we will describe how we came to select a shared cloud-based solution to serve as a collaborative platform on which to cut our teeth on digital preservation practices, learn from each other about best practices, and most importantly, to simply get started on developing realistic digital preservation strategies based on direct experience

Site fidelity and range size of wintering Barnacle Geese Branta leucopsis

Barnacle Geese restrict their movements to relatively few key sites and exhibit considerable variation in ranging behaviour. To examine individual and seasonal variation in site fidelity, habitat use, range size and foraging strategies of Barnacle Geese Branta leucopsis, the movements of 18 male Barnacle Geese tagged in two discrete areas were tracked for 3–6 months from late autumn until departure on the spring migration. Tagged geese concentrated their feeding in a relatively small proportion of apparently suitable habitat. Geese moved increasingly further afield in midwinter, and there was a clear predeparture shift to the largest area of relatively undisturbed, and possibly more nitrogen-rich, saltmarsh on the Solway. Birds from one of the two capture sites tended to be more sedentary and have smaller home ranges

Markovian Dynamics on Complex Reaction Networks

Complex networks, comprised of individual elements that interact with each other through reaction channels, are ubiquitous across many scientific and engineering disciplines. Examples include biochemical, pharmacokinetic, epidemiological, ecological, social, neural, and multi-agent networks. A common approach to modeling such networks is by a master equation that governs the dynamic evolution of the joint probability mass function of the underling population process and naturally leads to Markovian dynamics for such process. Due however to the nonlinear nature of most reactions, the computation and analysis of the resulting stochastic population dynamics is a difficult task. This review article provides a coherent and comprehensive coverage of recently developed approaches and methods to tackle this problem. After reviewing a general framework for modeling Markovian reaction networks and giving specific examples, the authors present numerical and computational techniques capable of evaluating or approximating the solution of the master equation, discuss a recently developed approach for studying the stationary behavior of Markovian reaction networks using a potential energy landscape perspective, and provide an introduction to the emerging theory of thermodynamic analysis of such networks. Three representative problems of opinion formation, transcription regulation, and neural network dynamics are used as illustrative examples.Comment: 52 pages, 11 figures, for freely available MATLAB software, see http://www.cis.jhu.edu/~goutsias/CSS%20lab/software.htm

A survey of modern exogenous fault detection and diagnosis methods for swarm robotics

Swarm robotic systems are heavily inspired by observations of social insects. This often leads to robust-ness being viewed as an inherent property of them. However, this has been shown to not always be thecase. Because of this, fault detection and diagnosis in swarm robotic systems is of the utmost importancefor ensuring the continued operation and success of the swarm. This paper provides an overview of recentwork in the field of exogenous fault detection and diagnosis in swarm robotics, focusing on the four areaswhere research is concentrated: immune system, data modelling, and blockchain-based fault detectionmethods and local-sensing based fault diagnosis methods. Each of these areas have significant advan-tages and disadvantages which are explored in detail. Though the work presented here represents a sig-nificant advancement in the field, there are still large areas that require further research. Specifically,further research is required in testing these methods on real robotic swarms, fault diagnosis methods,and integrating fault detection, diagnosis and recovery methods in order to create robust swarms thatcan be used for non-trivial tasks

RecV recombinase system for in vivo targeted optogenomic modifications of single cells or cell populations

Brain circuits comprise vast numbers of interconnected neurons with diverse molecular, anatomical and physiological properties. To allow targeting of individual neurons for structural and functional studies, we created light-inducible site-specific DNA recombinases based on Cre, Dre and Flp (RecVs). RecVs can induce genomic modifications by one-photon or two-photon light induction in vivo. They can produce targeted, sparse and strong labeling of individual neurons by modifying multiple loci within mouse and zebrafish genomes. In combination with other genetic strategies, they allow intersectional targeting of different neuronal classes. In the mouse cortex they enable sparse labeling and whole-brain morphological reconstructions of individual neurons. Furthermore, these enzymes allow single-cell two-photon targeted genetic modifications and can be used in combination with functional optical indicators with minimal interference. In summary, RecVs enable spatiotemporally precise optogenomic modifications that can facilitate detailed single-cell analysis of neural circuits by linking genetic identity, morphology, connectivity and function

RecV recombinase system for in vivo targeted optogenomic modifications of single cells or cell populations

Brain circuits comprise vast numbers of interconnected neurons with diverse molecular, anatomical and physiological properties. To allow targeting of individual neurons for structural and functional studies, we created light-inducible site-specific DNA recombinases based on Cre, Dre and Flp (RecVs). RecVs can induce genomic modifications by one-photon or two-photon light induction in vivo. They can produce targeted, sparse and strong labeling of individual neurons by modifying multiple loci within mouse and zebrafish genomes. In combination with other genetic strategies, they allow intersectional targeting of different neuronal classes. In the mouse cortex they enable sparse labeling and whole-brain morphological reconstructions of individual neurons. Furthermore, these enzymes allow single-cell two-photon targeted genetic modifications and can be used in combination with functional optical indicators with minimal interference. In summary, RecVs enable spatiotemporally precise optogenomic modifications that can facilitate detailed single-cell analysis of neural circuits by linking genetic identity, morphology, connectivity and function

The creatine kinase pathway is a metabolic vulnerability in EVI1-positive acute myeloid leukemia

Expression of the MECOM (also known as EVI1) proto-oncogene is deregulated by chromosomal translocations in some cases of acute myeloid leukemia (AML) and is associated with poor clinical outcome. Here, through transcriptomic and metabolomic profiling of hematopoietic cells, we reveal that EVI1 overexpression alters cellular metabolism. A screen using pooled short hairpin RNAs (shRNAs) identified the ATP-buffering, mitochondrial creatine kinase CKMT1 as necessary for survival of EVI1-expressing cells in subjects with EVI1-positive AML. EVI1 promotes CKMT1 expression by repressing the myeloid differentiation regulator RUNX1. Suppression of arginine-creatine metabolism by CKMT1-directed shRNAs or by the small molecule cyclocreatine selectively decreased the viability, promoted the cell cycle arrest and apoptosis of human EVI1-positive cell lines, and prolonged survival in both orthotopic xenograft models and mouse models of primary AML. CKMT1 inhibition altered mitochondrial respiration and ATP production, an effect that was abrogated by phosphocreatine-mediated reactivation of the arginine-creatine pathway. Targeting CKMT1 is thus a promising therapeutic strategy for this EVI1-driven AML subtype that is highly resistant to current treatment regimens. Keywords: AML; RUNX1; CKMT1; cyclocreatine; arginine metabolismNational Cancer Institute (U.S.) (NIH 1R35 CA210030-01)Stand Up To CancerBridge ProjectNational Cancer Institute (U.S.) (David H. Koch Institute for Integrative Cancer Research at MIT. Grant P30-CA14051

Silencing Nuclear Pore Protein Tpr Elicits a Senescent-Like Phenotype in Cancer Cells

Background: Tpr is a large coiled-coil protein located in the nuclear basket of the nuclear pore complex for which many different functions were proposed from yeast to human. Methodology/Principal Findings: Here we show that depletion of Tpr by RNA interference triggers G0–G1 arrest and ultimately induces a senescent-like phenotype dependent on the presence of p53. We also found that Tpr depletion impairs the NES [nuclear export sequence]-dependent nuclear export of proteins and causes partial co-depletion of Nup153. In addition Tpr depletion impacts on level and function of the SUMO-protease SENP2 thus affecting SUMOylation regulation at the nuclear pore and overall SUMOylation in the cell. Conclusions: Our data for the first time provide evidence that a nuclear pore component plays a role in controlling cellular senescence. Our findings also point to new roles for Tpr in the regulation of SUMO-1 conjugation at the nuclear pore and directly confirm Tpr involvement in the nuclear export of NES-proteins

Large expert-curated database for benchmarking document similarity detection in biomedical literature search

Document recommendation systems for locating relevant literature have mostly relied on methods developed a decade ago. This is largely due to the lack of a large offline gold-standard benchmark of relevant documents that cover a variety of research fields such that newly developed literature search techniques can be compared, improved and translated into practice. To overcome this bottleneck, we have established the RElevant LIterature SearcH consortium consisting of more than 1500 scientists from 84 countries, who have collectively annotated the relevance of over 180 000 PubMed-listed articles with regard to their respective seed (input) article/s. The majority of annotations were contributed by highly experienced, original authors of the seed articles. The collected data cover 76% of all unique PubMed Medical Subject Headings descriptors. No systematic biases were observed across different experience levels, research fields or time spent on annotations. More importantly, annotations of the same document pairs contributed by different scientists were highly concordant. We further show that the three representative baseline methods used to generate recommended articles for evaluation (Okapi Best Matching 25, Term Frequency-Inverse Document Frequency and PubMed Related Articles) had similar overall performances. Additionally, we found that these methods each tend to produce distinct collections of recommended articles, suggesting that a hybrid method may be required to completely capture all relevant articles. The established database server located at https://relishdb.ict.griffith.edu.au is freely available for the downloading of annotation data and the blind testing of new methods. We expect that this benchmark will be useful for stimulating the development of new powerful techniques for title and title/abstract-based search engines for relevant articles in biomedical research.Peer reviewe