Investigating Information Flows in Spiking Neural Networks With High Fidelity

The brains of many organisms are capable of a wide variety of complex computations. This capability must be undergirded by a more general purpose computational capacity. The exact nature of this capacity, how it is distributed across the brains of organisms and how it arises throughout the course of development is an open topic of scientific investigation. Individual neurons are widely considered to be the fundamental computational units of brains. Moreover, the finest scale at which large scale recordings of brain activity can be performed is the spiking activity of neurons and our ability to perform these recordings over large numbers of neurons and with fine spatial resolution is increasing rapidly. This makes the spiking activity of individual neurons a highly attractive data modality on which to study neural computation. The framework of information dynamics has proven to be a successful approach towards interrogating the capacity for general purpose computation. It does this by revealing the atomic information processing operations of information storage, transfer and modification. Unfortunately, the study of information flows and other information processing operations from the spiking activity of neurons has been severely hindered by the lack of effective tools for estimating these quantities on this data modality. This thesis remedies this situation by presenting an estimator for information flows, as measured by Transfer Entropy (TE), that operates in continuous time on event-based data such as spike trains. Unlike the previous approach to the estimation of this quantity, which discretised the process into time bins, this estimator operates on the raw inter-spike intervals. It is demonstrated to be far superior to the previous discrete-time approach in terms of consistency, rate of convergence and bias. Most importantly, unlike the discrete-time approach, which requires a hard tradeoff between capturing fine temporal precision or history effects occurring over reasonable time intervals, this estimator can capture history effects occurring over relatively large intervals without any loss of temporal precision. This estimator is applied to developing dissociated cultures of cortical rat neurons, therefore providing the first high-fidelity study of information flows on spiking data. It is found that the spatial structure of the flows locks in to a significant extent. at the point of their emergence and that certain nodes occupy specialised computational roles as either transmitters, receivers or mediators of information flow. Moreover, these roles are also found to lock in early. In order to fully understand the structure of neural information flows, however, we are required to go beyond pairwise interactions, and indeed multivariate information flows have become an important tool in the inference of effective networks from neuroscience data. These are directed networks where each node is connected to a minimal set of sources which maximally reduce the uncertainty in its present state. However, the application of multivariate information flows to the inference of effective networks from spiking data has been hampered by the above-mentioned issues with preexisting estimation techniques. Here, a greedy algorithm which iteratively builds a set of parents for each target node using multivariate transfer entropies, and which has already been well validated in the context of traditional discretely sampled time series, is adapted to use in conjunction with the newly developed estimator for event-based data. The combination of the greedy algorithm and continuous-time estimator is then validated on simulated examples for which the ground truth is known. The new capabilities in the estimation of information flows and the inference of effective networks on event-based data presented in this work represent a very substantial step forward in our ability to perform these analyses on the ever growing set of high resolution, large scale recordings of interacting neurons. As such, this work promises to enable substantial quantitative insights in the future regarding how neurons interact, how they process information, and how this changes under different conditions such as disease

Jungle perch Kuhlia rupestris fingerling production manual

This manual consists of written descriptions of jungle perch Kuhlia rupestris production and video material to demonstrate each of the key production steps. Video links are at the end of each major written section in the document. To activate the link use ctrl click. The videos enhance the instructive ability of this manual. The keys to producing jungle perch are: - maintaining broodstock in freshwater or low salinity water less than 5 ppt - spawning fish in full seawater at 28C - incubating eggs in full seawater. Salinities must not be less than 32 ppt - ensuring that first feed jungle perch larvae have an adequate supply of copepod nauplii - rearing larvae in full seawater under bright light - use of gentle aeration in tanks - postponing spawns until adequate densities of copepod nauplii are present in ponds - sustaining copepod blooms in ponds for at least 20 days - avoiding use of paddlewheels in ponds - supplementary feeding with Artemia salina and weaning diets from 20 days after hatch - harvesting of fingerlings or fry after they are 25-30 mm in length (50 to 60 days post hatch) - covering tanks of fingerlings with 5 mm mesh and submerging freshwater inlets to prevent jumping

Developing Jungle Perch Fingerling Production to Improve Fishing Opportunities

This project has for the first time demonstrated the feasibility of hatchery production of jungle perch fingerlings. The research on jungle perch production has enabled a hatchery production manual with accompanying videos to be produced. This has given private commercial hatcheries the information needed to produce jungle perch fingerlings. Several hatcheries have already indicated an interest in producing jungle perch and will be assisted to do so in 2016. Currently jungle perch are not a permitted stocking species, so cannot be sold to fish stocking groups. However, hatcheries will be able to sell fingerlings to the aquarium trade or supply grow out facilities that could produce jungle perch for human consumption. Should jungle perch become a permitted species for stocking, this will provide hatcheries with a major new product option to sell to fish stocking groups. It would also benefit anglers by providing another iconic species for impoundment stocking programs. This could have flow-on benefits to regional economies through angler tourism. Should the pilot reintroductions of jungle perch into streams result in self-sustaining jungle perch populations, then there will be three restored jungle perch populations close to major population centres. This will create a new opportunity for anglers not normally able to target jungle perch. Since the majority of anglers who target jungle perch are catch and release fishers, angling is expected to have minimal impact on recovery of the populations. This project led to the development of a hatchery manual for jungle perch production and to a summary brochure. In late 2014 and in 2015 researchers were able to make the first ever releases of jungle perch fingerlings back into rivers and streams within their historical range

Recommendations for effective documentation in regional anesthesia: an expert panel Delphi consensus project

Background and objectives: Documentation is important for quality improvement, education, and research. There is currently a lack of recommendations regarding key aspects of documentation in regional anesthesia. The aim of this study was to establish recommendations for documentation in regional anesthesia. Methods: Following the formation of the executive committee and a directed literature review, a long list of potential documentation components was created. A modified Delphi process was then employed to achieve consensus amongst a group of international experts in regional anesthesia. This consisted of 2 rounds of anonymous electronic voting and a final virtual round table discussion with live polling on items not yet excluded or accepted from previous rounds. Progression or exclusion of potential components through the rounds was based on the achievement of strong consensus. Strong consensus was defined as ≥75% agreement and weak consensus as 50%-74% agreement. Results: Seventy-seven collaborators participated in both rounds 1 and 2, while 50 collaborators took part in round 3. In total, experts voted on 83 items and achieved a strong consensus on 51 items, weak consensus on 3 and rejected 29. Conclusion: By means of a modified Delphi process, we have established expert consensus on documentation in regional anesthesia

The role and uses of antibodies in COVID-19 infections: a living review

Coronavirus disease 2019 has generated a rapidly evolving field of research, with the global scientific community striving for solutions to the current pandemic. Characterizing humoral responses towards SARS-CoV-2, as well as closely related strains, will help determine whether antibodies are central to infection control, and aid the design of therapeutics and vaccine candidates. This review outlines the major aspects of SARS-CoV-2-specific antibody research to date, with a focus on the various prophylactic and therapeutic uses of antibodies to alleviate disease in addition to the potential of cross-reactive therapies and the implications of long-term immunity

T cell phenotypes in COVID-19 - a living review

COVID-19 is characterized by profound lymphopenia in the peripheral blood, and the remaining T cells display altered phenotypes, characterized by a spectrum of activation and exhaustion. However, antigen-specific T cell responses are emerging as a crucial mechanism for both clearance of the virus and as the most likely route to long-lasting immune memory that would protect against re-infection. Therefore, T cell responses are also of considerable interest in vaccine development. Furthermore, persistent alterations in T cell subset composition and function post-infection have important implications for patients’ long-term immune function. In this review, we examine T cell phenotypes, including those of innate T cells, in both peripheral blood and lungs, and consider how key markers of activation and exhaustion correlate with, and may be able to predict, disease severity. We focus on SARS-CoV-2-specific T cells to elucidate markers that may indicate formation of antigen-specific T cell memory. We also examine peripheral T cell phenotypes in recovery and the likelihood of long-lasting immune disruption. Finally, we discuss T cell phenotypes in the lung as important drivers of both virus clearance and tissue damage. As our knowledge of the adaptive immune response to COVID-19 rapidly evolves, it has become clear that while some areas of the T cell response have been investigated in some detail, others, such as the T cell response in children remain largely unexplored. Therefore, this review will also highlight areas where T cell phenotypes require urgent characterisation

Recommendations for effective documentation in regional anesthesia: an expert panel Delphi consensus project

Background and objectives: Documentation is important for quality improvement, education, and research. There is currently a lack of recommendations regarding key aspects of documentation in regional anesthesia. The aim of this study was to establish recommendations for documentation in regional anesthesia. Methods: Following the formation of the executive committee and a directed literature review, a long list of potential documentation components was created. A modified Delphi process was then employed to achieve consensus amongst a group of international experts in regional anesthesia. This consisted of 2 rounds of anonymous electronic voting and a final virtual round table discussion with live polling on items not yet excluded or accepted from previous rounds. Progression or exclusion of potential components through the rounds was based on the achievement of strong consensus. Strong consensus was defined as ≥75% agreement and weak consensus as 50%–74% agreement. Results: Seventy-seven collaborators participated in both rounds 1 and 2, while 50 collaborators took part in round 3. In total, experts voted on 83 items and achieved a strong consensus on 51 items, weak consensus on 3 and rejected 29. Conclusion: By means of a modified Delphi process, we have established expert consensus on documentation in regional anesthesia