The Cogstate Schizophrenia Battery (CSB) has been developed as a computerized cognitive test battery, meeting consensus and regulatory requirements for clinical trials.
Histogram-weighted cortical thickness networks for the detection of Alzheimer...Pradeep Redddy Raamana
Presentation delivered by Pradeep Reddy Raamana at 2016 international workshop on Pattern Recognition in Neuroimaging on the topic of histogram-weighted cortical thickness networks for the detection of Alzheimer's disease.
Concussion guidelines article. Carney et al. Neurosurgery 2014brwjam004
This document summarizes the methodology and initial findings of a project to develop an evidence-based definition of concussion. The project used a systematic review and quality assessment of published literature from 1980 to 2012 to identify the most prevalent signs, symptoms, and cognitive deficits within 3 months of a potential concussive event. Sixty-two studies of medium or high quality were identified. The findings suggest consistent deficits in reaction time, memory, attention, processing speed and working memory within days of injury. Disorientation or confusion immediately after injury and slower reaction times or impaired verbal learning within 2 days were the most prevalent indicators. The studies mainly examined athletic populations and could not distinguish between evidence of concussion versus just a potential concussive event.
A Brief Cognitive Assessment For Use With Schizophrenia Patients In Community...Sarah Marie
This document describes the development and testing of a Brief Cognitive Assessment (BCA) for use with schizophrenia patients in outpatient clinical settings. The BCA was designed to be brief (15 minutes or less), easy to administer and score, and assess key cognitive domains like executive function, memory, attention and processing speed. It consists of three standard neuropsychological tests - Verbal Fluency, Trails A and B, and the Hopkins Verbal Learning Test. The study examined the reliability and validity of the BCA by administering it to 340 outpatients with schizophrenia on two occasions 3 months apart. A subsample also received a full cognitive battery. Results found the BCA had very good test-retest reliability and correlated strongly with
The Cogstate Brief Battery (CBB) is a computerized/digital cognitive test battery assessing psychomotor function, visual attention, visual learning, and working memory. The CBB takes approximately 15 minutes to complete, has been optimized for self-completion, and is offered to cognitively normal (CN) and mild cognitive impairment (MCI) participants in ADNI-3 and those rolling over from ADNI-2. In-clinic visits are scheduled annually for MCI and every other year for CN participants, with both groups completing unsupervised visits at-home soon after for comparison and then approximately every 3 months. In this analysis only the initial baseline in-clinic visit was assessed.
Jason Hassenstab discusses selecting cognitive tests for a clinical trial involving participants with autosomal dominant Alzheimer's disease (AD). He recommends using measures from the Dominantly Inherited Alzheimer Network (DIAN) that assess six cognitive domains. The Clinical Dementia Rating (CDR) Sum of Boxes score provided the best sensitivity to change. Additional outcome variables could include neuropsychological tests of episodic memory and composite cognitive measures. Other metrics like reaction time distributional analysis may also provide useful data. The goals are to develop tests capturing the pathological course of AD and that are sensitive to detecting treatment effects versus impairment. Tests should demonstrate construct validity and links to neural circuits, cognitive mechanisms, and functional outcomes in AD.
JH Alzheimer's and Parkinson's disease meeting presentation Florence March 2013John Harrison
This presentation was made at the AD/PD meeting in Florence on 8th March 2013. In the presentation I discuss early patterns of cognitive dysfunction in patients with Parkinson's disease and Alzheimer's disease. I describe the tests traditionally used to measure cognitive impairment and propose the use of an assessment with the potential to be used successfully in both indications. I propose also that the same collection of measures can profitably be used in other CNS indications. I stress that selection is best made on the basis not of specific tests, but instead on the use of good tests that meet current best practice guidance for measuring cognitive change.
This study evaluated the feasibility of using a commercially available wearable device (Microsoft Band 2) to frequently monitor cognition, mood, and physiology over two weeks among 10 participants. Cognitive testing via a 2-back memory task and mood ratings were conducted hourly during waking hours, while heart rate, skin conductance and other sensors continuously collected physiological data. Compliance was good, with over 60 cognitive tests completed daily on weekdays. Performance on the 2-back task showed learning effects over time and correlated with separate neuropsychological measures, supporting its validity. Qualitative feedback revealed factors like context, routines, and perceived purpose influenced participant experience and data quality. The study demonstrated the potential of wearables for frequent ambulatory assessment of cognition, mood
Histogram-weighted cortical thickness networks for the detection of Alzheimer...Pradeep Redddy Raamana
Presentation delivered by Pradeep Reddy Raamana at 2016 international workshop on Pattern Recognition in Neuroimaging on the topic of histogram-weighted cortical thickness networks for the detection of Alzheimer's disease.
Concussion guidelines article. Carney et al. Neurosurgery 2014brwjam004
This document summarizes the methodology and initial findings of a project to develop an evidence-based definition of concussion. The project used a systematic review and quality assessment of published literature from 1980 to 2012 to identify the most prevalent signs, symptoms, and cognitive deficits within 3 months of a potential concussive event. Sixty-two studies of medium or high quality were identified. The findings suggest consistent deficits in reaction time, memory, attention, processing speed and working memory within days of injury. Disorientation or confusion immediately after injury and slower reaction times or impaired verbal learning within 2 days were the most prevalent indicators. The studies mainly examined athletic populations and could not distinguish between evidence of concussion versus just a potential concussive event.
A Brief Cognitive Assessment For Use With Schizophrenia Patients In Community...Sarah Marie
This document describes the development and testing of a Brief Cognitive Assessment (BCA) for use with schizophrenia patients in outpatient clinical settings. The BCA was designed to be brief (15 minutes or less), easy to administer and score, and assess key cognitive domains like executive function, memory, attention and processing speed. It consists of three standard neuropsychological tests - Verbal Fluency, Trails A and B, and the Hopkins Verbal Learning Test. The study examined the reliability and validity of the BCA by administering it to 340 outpatients with schizophrenia on two occasions 3 months apart. A subsample also received a full cognitive battery. Results found the BCA had very good test-retest reliability and correlated strongly with
The Cogstate Brief Battery (CBB) is a computerized/digital cognitive test battery assessing psychomotor function, visual attention, visual learning, and working memory. The CBB takes approximately 15 minutes to complete, has been optimized for self-completion, and is offered to cognitively normal (CN) and mild cognitive impairment (MCI) participants in ADNI-3 and those rolling over from ADNI-2. In-clinic visits are scheduled annually for MCI and every other year for CN participants, with both groups completing unsupervised visits at-home soon after for comparison and then approximately every 3 months. In this analysis only the initial baseline in-clinic visit was assessed.
Jason Hassenstab discusses selecting cognitive tests for a clinical trial involving participants with autosomal dominant Alzheimer's disease (AD). He recommends using measures from the Dominantly Inherited Alzheimer Network (DIAN) that assess six cognitive domains. The Clinical Dementia Rating (CDR) Sum of Boxes score provided the best sensitivity to change. Additional outcome variables could include neuropsychological tests of episodic memory and composite cognitive measures. Other metrics like reaction time distributional analysis may also provide useful data. The goals are to develop tests capturing the pathological course of AD and that are sensitive to detecting treatment effects versus impairment. Tests should demonstrate construct validity and links to neural circuits, cognitive mechanisms, and functional outcomes in AD.
JH Alzheimer's and Parkinson's disease meeting presentation Florence March 2013John Harrison
This presentation was made at the AD/PD meeting in Florence on 8th March 2013. In the presentation I discuss early patterns of cognitive dysfunction in patients with Parkinson's disease and Alzheimer's disease. I describe the tests traditionally used to measure cognitive impairment and propose the use of an assessment with the potential to be used successfully in both indications. I propose also that the same collection of measures can profitably be used in other CNS indications. I stress that selection is best made on the basis not of specific tests, but instead on the use of good tests that meet current best practice guidance for measuring cognitive change.
This study evaluated the feasibility of using a commercially available wearable device (Microsoft Band 2) to frequently monitor cognition, mood, and physiology over two weeks among 10 participants. Cognitive testing via a 2-back memory task and mood ratings were conducted hourly during waking hours, while heart rate, skin conductance and other sensors continuously collected physiological data. Compliance was good, with over 60 cognitive tests completed daily on weekdays. Performance on the 2-back task showed learning effects over time and correlated with separate neuropsychological measures, supporting its validity. Qualitative feedback revealed factors like context, routines, and perceived purpose influenced participant experience and data quality. The study demonstrated the potential of wearables for frequent ambulatory assessment of cognition, mood
Therapeutic Development Paths for Cognitive Impairment in Parkinson's Disease...Lona Vincent
Cognitive impairment is a common occurrence in Parkinson’s disease (PD), although the severity and specific pre- sentation varies across patients. Initial deficits, including mild cognitive impairment (PD-MCI), may remain stable or in many cases, may progress over variable lengths of time to Parkinson’s disease dementia (PDD). As there are currently no marketed treatments for milder forms of cognitive impairment, an opportunity exists to define the path for therapeutic development in this area. In the absence of a well-defined path for the approval of therapies that target PD-MCI, pharmaceutical companies are unlikely to pursue this indication. In order to move forward and improve the quality of life for PD patients, it is imperative for the field to have consensus on the definition of PD-MCI, the best instruments to measure cognitive decline, and a strategy for future clinical trials.
The document describes a study that tested whether performance on the Memory for Intentions Screening Test (MIST) could accurately predict conversion from mild cognitive impairment (MCI) to Alzheimer's disease (AD) within one year. Thirty participants without dementia were given neuropsychological tests including the MIST and re-tested one year later. Logistic regression found that only MIST performance significantly predicted conversion to AD, with 83% prediction success. A MIST cutoff score of 18 had 86% accuracy in distinguishing those who did and did not develop dementia within a year.
This study developed a machine learning classifier to analyze early frame amyloid PET scans and measure neurodegeneration related to Alzheimer's disease. The classifier produced scores that strongly correlated with scores from an FDG PET classifier, indicating it can detect disease progression. Early frame amyloid scans had lower cortical but higher subcortical signals compared to FDG PET. Nonetheless, the amyloid PET classifier achieved similar performance to FDG PET at differentiating disease stages. This suggests early frame amyloid PET can provide a measure of neurodegeneration without an additional scan, useful for clinical trials and diagnosis.
How to measure and improve brain-based outcomes that matter in health careSharpBrains
Pioneers advancing health research, prevention and treatment will help us understand emerging best practices where targeted assessments, monitoring and interventions can transfer into significant healthcare and quality of life outcomes.
-- Chair: Alvaro Fernandez, CEO & Co-Founder of SharpBrains
-- Dr. Madeleine S Goodkind, staff psychologist at New Mexico VA Health Care System
-- Dr. Randy McIntosh, Vice-president of Research and Director of Baycrest’s Rotman Research Institute
-- Chris Berka, CEO and Co-Founder of Advanced Brain Monitoring (ABM)
Presentation @ The 2015 SharpBrains Virtual Summit http://sharpbrains.com/summit-2015/agenda
The document outlines proposed criteria for mild cognitive impairment due to Alzheimer's disease (MCI due to AD). It describes the clinical and cognitive criteria, including cognitive concern, impairment in one or more domains like memory, preserved functional ability, and no dementia. It discusses using biomarkers like amyloid and tau levels to increase diagnostic certainty. Biomarkers would classify MCI due to AD into intermediate or high likelihood. Future directions are outlined, like standardizing biomarkers for use in clinical trials and communities.
This document discusses an adaptive design for a pivotal clinical trial of a compound called SBx for neuropathic pain. The design uses three stages and allows dropping arms based on interim analyses to determine efficacy, futility or safety. It aims to more efficiently establish the compound's efficacy, safety profile and optimal dose while maintaining statistical validity comparable to a traditional design. Key aspects like decision rules, interim analyses and multiplicity adjustments are addressed.
The document discusses limitations in neuroimaging compilation and analysis for studying neural correlates of consciousness. It proposes compiling activation likelihood estimations from numerous neuroimaging experiments involving senses of ownership and agency to analyze combined neural activation patterns on 3D brain renderings. This may help reconcile limitations like indirect blood flow detection in fMRI and poor spatial/temporal resolution in PET scans. The hypothesis is that analyzing aggregated data this way could provide a more comprehensive understanding of neural correlates related to senses of ownership and agency.
Learning Effect and Test-Retest Variability in Healthy Subjects and Patients ...inventionjournals
Aim: To study learning effect (LE) and test retest variability (TRV) in healthy subjects and patients with primary open angle glaucoma (POAG) using Rarebit perimetry (RBP). To determine normative ranges of RBP. Methods: 61 eyes of 35 subjects underwent visual field testing with standard automated perimetry (SAP) and RBP. TRV and LE were assessed in repeated examinations conducted in 3 different days. First two examinations were conducted within 3 days and the last one within one month. LE was assessed by comparing results from the three sessions. TRV was evaluated by calculating differences between retest for each combination of single tests. To determine normative ranges of RBP were included 34 eyes of 21 healthy subjects and 62 eyes of 47 subjects with preperimetric and early POAG. Cut off value was determined between the two groups using ROC analysis. Results: No significant LE was observed in POAG group. There was a significant LE in the control group but only in the visual field zones with eccentric location. TRV was higher in POAG group and in central visual field zone. The mean MHR in control group was 94.88 (SD 2.21) and 83.56 (SD 6.95) in POAG group. Cut off value for discriminating between healthy subjects and patient with POAG was 91.50% with AUROC 0.985 (p<0.001, ROC analysis). Conclusion: RBP is fast and easy to perform test. RBP testing did not show a significant LE in glaucoma group, however, TRV was consistent. MHR can be successfully used for differentiation of healthy eye from those with early glaucoma changes.
This document discusses the validity of a new intelligence test developed based on the Cattell Horn Carrol (CHC) theory of intelligence. The test aims to measure the broad ability of processing speed, which according to the CHC theory consists of three narrow abilities - perceptual speed, number facility, and rate of test taking. The test was administered to 135 subjects and analyzed using confirmatory factor analysis, which found that the three factors were consistent with processing speed ability and the proposed model could describe the narrow abilities measured.
The document discusses key aspects of ADMET (absorption, distribution, metabolism, excretion, and toxicity) as they relate to understanding how compounds behave in vivo. It notes that absorption depends on solubility and stability during exposure, while distribution depends on permeation across barriers and reaching/staying at the target site. Metabolism involves metabolic enzymes and transporters as well as inactive and active metabolites. Excretion is important to avoid compound accumulation. Together, ADMET describes a compound's disposition in the body, and the animal is not simply a test tube.
Rationale: Biostatistics continues to play an essential role in cardiovascular investigations, but successful implementation can be complex.
Objective: To present the rationale behind statistical applications and review useful tools for cardiology research.
Methods and Results: Prospective declaration of the research question, clear methodology, and adherence to protocol serve as the critical foundation. Parametric and distribution-free measures are presented along with t-testing, ANOVA, regression analyses, survival analysis, logistic regression, and interim monitoring. Finally, common weaknesses are considered.
Conclusions: Biostatistics can be productively applied to cardiovascular research if investigators (1) develop and rely on a well-written protocol and analysis plan, (2) consult bi
In rare tauopathies, the development and selection of clinical outcome assessments (COAs) measuring how patients feel and function is complicated by factors related to classification by clinical presentation and/or neuropathology, overlap in these features, and changes in these constructs over time. In selecting COAs for rare tauopathies, sponsors should consider target concepts; pilot/psychometric studies for tool evaluation; simple tools (e.g., disease specific clinical global impression (CGI), ‘most bothersome symptom’); and use of performance-based outcome (PerfO) assessments to complement patient reported outcome (PRO) and observer reported outcome (ObsRO) assessments.
Drug discovery and evaluation safety and pharmacokinetic assaysSpringer
MRI can be used to noninvasively measure liver volume in rats over multiple time points, reducing animal usage compared to terminal procedures. A high-resolution 3D MRI scan is used to segment the liver in images, and liver volume strongly correlates with wet liver weight. Respiratory triggering during acquisition improves accuracy. MRI allows longitudinal studies where the same animals act as their own controls, increasing statistical power and reducing group sizes compared to sacrificing animals at each time point.
Arousal when making decisions predicts Big Five: A machine learning approachBeatriz Esteves
Skin-conductance (SC) reactivity is considered a bodily marker of better and poorer choice options, helping to guide decision-making in complex and uncertain situations. SC has been investigated extensively in the Iowa Gambling Task (IGT). The IGT was designed to examine decision-making performance under conditions of uncertainty and risk. Individual variability in behavioral IGT performance has been linked to various personality traits, including those of the Big Five. Skin-conductance responses (SCRs) also vary across individuals during decision-making. No studies have used machine learning techniques to predict personality from SC fluctuation during decision-making.
Aim: To develop an automatic method to recognize personality traits, based - in this study - on individual fluctuation in SC during decision-making in the IGT.
Open science resources for `Big Data' Analyses of the human connectomeCameron Craddock
Neuroimaging has become a `Big Data' pursuit that requires very large datasets and high throughput computational tools. In this talk I will highlight many open science resources for acquiring the necessary data. This is from a lecture that I gave in 2015 at the USC Neuroimaging and Informatics Institute.
This document describes a degree project that explores using a morphable brain model to detect Alzheimer's disease based on deformation fields from brain scans. The project tested the method on low-quality MRI scans and achieved 94% accuracy, 97% sensitivity, and 92% specificity in classifying diseased and healthy brains, which is comparable to other methods using higher quality images. The morphable model approach has the advantage of being robust to intensity errors, making it applicable to lower quality clinical scans where data is more readily available.
This document discusses quantitative analysis of radiologic images using techniques like image segmentation, registration, and statistical atlases. It notes that computers can help address human limitations in measurement, detection of subtle abnormalities, and evaluation of complex patterns. Key techniques include using statistical atlases to capture normal anatomical variation, registering images to integrate data from multiple individuals, and performing pattern classification using machine learning to aid diagnosis. The goal is for computers to complement humans by providing increased reproducibility, quantification, and analysis of non-focal or complex spatio-temporal changes.
Travis Hills' Endeavors in Minnesota: Fostering Environmental and Economic Pr...Travis Hills MN
Travis Hills of Minnesota developed a method to convert waste into high-value dry fertilizer, significantly enriching soil quality. By providing farmers with a valuable resource derived from waste, Travis Hills helps enhance farm profitability while promoting environmental stewardship. Travis Hills' sustainable practices lead to cost savings and increased revenue for farmers by improving resource efficiency and reducing waste.
Or: Beyond linear.
Abstract: Equivariant neural networks are neural networks that incorporate symmetries. The nonlinear activation functions in these networks result in interesting nonlinear equivariant maps between simple representations, and motivate the key player of this talk: piecewise linear representation theory.
Disclaimer: No one is perfect, so please mind that there might be mistakes and typos.
dtubbenhauer@gmail.com
Corrected slides: dtubbenhauer.com/talks.html
Therapeutic Development Paths for Cognitive Impairment in Parkinson's Disease...Lona Vincent
Cognitive impairment is a common occurrence in Parkinson’s disease (PD), although the severity and specific pre- sentation varies across patients. Initial deficits, including mild cognitive impairment (PD-MCI), may remain stable or in many cases, may progress over variable lengths of time to Parkinson’s disease dementia (PDD). As there are currently no marketed treatments for milder forms of cognitive impairment, an opportunity exists to define the path for therapeutic development in this area. In the absence of a well-defined path for the approval of therapies that target PD-MCI, pharmaceutical companies are unlikely to pursue this indication. In order to move forward and improve the quality of life for PD patients, it is imperative for the field to have consensus on the definition of PD-MCI, the best instruments to measure cognitive decline, and a strategy for future clinical trials.
The document describes a study that tested whether performance on the Memory for Intentions Screening Test (MIST) could accurately predict conversion from mild cognitive impairment (MCI) to Alzheimer's disease (AD) within one year. Thirty participants without dementia were given neuropsychological tests including the MIST and re-tested one year later. Logistic regression found that only MIST performance significantly predicted conversion to AD, with 83% prediction success. A MIST cutoff score of 18 had 86% accuracy in distinguishing those who did and did not develop dementia within a year.
This study developed a machine learning classifier to analyze early frame amyloid PET scans and measure neurodegeneration related to Alzheimer's disease. The classifier produced scores that strongly correlated with scores from an FDG PET classifier, indicating it can detect disease progression. Early frame amyloid scans had lower cortical but higher subcortical signals compared to FDG PET. Nonetheless, the amyloid PET classifier achieved similar performance to FDG PET at differentiating disease stages. This suggests early frame amyloid PET can provide a measure of neurodegeneration without an additional scan, useful for clinical trials and diagnosis.
How to measure and improve brain-based outcomes that matter in health careSharpBrains
Pioneers advancing health research, prevention and treatment will help us understand emerging best practices where targeted assessments, monitoring and interventions can transfer into significant healthcare and quality of life outcomes.
-- Chair: Alvaro Fernandez, CEO & Co-Founder of SharpBrains
-- Dr. Madeleine S Goodkind, staff psychologist at New Mexico VA Health Care System
-- Dr. Randy McIntosh, Vice-president of Research and Director of Baycrest’s Rotman Research Institute
-- Chris Berka, CEO and Co-Founder of Advanced Brain Monitoring (ABM)
Presentation @ The 2015 SharpBrains Virtual Summit http://sharpbrains.com/summit-2015/agenda
The document outlines proposed criteria for mild cognitive impairment due to Alzheimer's disease (MCI due to AD). It describes the clinical and cognitive criteria, including cognitive concern, impairment in one or more domains like memory, preserved functional ability, and no dementia. It discusses using biomarkers like amyloid and tau levels to increase diagnostic certainty. Biomarkers would classify MCI due to AD into intermediate or high likelihood. Future directions are outlined, like standardizing biomarkers for use in clinical trials and communities.
This document discusses an adaptive design for a pivotal clinical trial of a compound called SBx for neuropathic pain. The design uses three stages and allows dropping arms based on interim analyses to determine efficacy, futility or safety. It aims to more efficiently establish the compound's efficacy, safety profile and optimal dose while maintaining statistical validity comparable to a traditional design. Key aspects like decision rules, interim analyses and multiplicity adjustments are addressed.
The document discusses limitations in neuroimaging compilation and analysis for studying neural correlates of consciousness. It proposes compiling activation likelihood estimations from numerous neuroimaging experiments involving senses of ownership and agency to analyze combined neural activation patterns on 3D brain renderings. This may help reconcile limitations like indirect blood flow detection in fMRI and poor spatial/temporal resolution in PET scans. The hypothesis is that analyzing aggregated data this way could provide a more comprehensive understanding of neural correlates related to senses of ownership and agency.
Learning Effect and Test-Retest Variability in Healthy Subjects and Patients ...inventionjournals
Aim: To study learning effect (LE) and test retest variability (TRV) in healthy subjects and patients with primary open angle glaucoma (POAG) using Rarebit perimetry (RBP). To determine normative ranges of RBP. Methods: 61 eyes of 35 subjects underwent visual field testing with standard automated perimetry (SAP) and RBP. TRV and LE were assessed in repeated examinations conducted in 3 different days. First two examinations were conducted within 3 days and the last one within one month. LE was assessed by comparing results from the three sessions. TRV was evaluated by calculating differences between retest for each combination of single tests. To determine normative ranges of RBP were included 34 eyes of 21 healthy subjects and 62 eyes of 47 subjects with preperimetric and early POAG. Cut off value was determined between the two groups using ROC analysis. Results: No significant LE was observed in POAG group. There was a significant LE in the control group but only in the visual field zones with eccentric location. TRV was higher in POAG group and in central visual field zone. The mean MHR in control group was 94.88 (SD 2.21) and 83.56 (SD 6.95) in POAG group. Cut off value for discriminating between healthy subjects and patient with POAG was 91.50% with AUROC 0.985 (p<0.001, ROC analysis). Conclusion: RBP is fast and easy to perform test. RBP testing did not show a significant LE in glaucoma group, however, TRV was consistent. MHR can be successfully used for differentiation of healthy eye from those with early glaucoma changes.
This document discusses the validity of a new intelligence test developed based on the Cattell Horn Carrol (CHC) theory of intelligence. The test aims to measure the broad ability of processing speed, which according to the CHC theory consists of three narrow abilities - perceptual speed, number facility, and rate of test taking. The test was administered to 135 subjects and analyzed using confirmatory factor analysis, which found that the three factors were consistent with processing speed ability and the proposed model could describe the narrow abilities measured.
The document discusses key aspects of ADMET (absorption, distribution, metabolism, excretion, and toxicity) as they relate to understanding how compounds behave in vivo. It notes that absorption depends on solubility and stability during exposure, while distribution depends on permeation across barriers and reaching/staying at the target site. Metabolism involves metabolic enzymes and transporters as well as inactive and active metabolites. Excretion is important to avoid compound accumulation. Together, ADMET describes a compound's disposition in the body, and the animal is not simply a test tube.
Rationale: Biostatistics continues to play an essential role in cardiovascular investigations, but successful implementation can be complex.
Objective: To present the rationale behind statistical applications and review useful tools for cardiology research.
Methods and Results: Prospective declaration of the research question, clear methodology, and adherence to protocol serve as the critical foundation. Parametric and distribution-free measures are presented along with t-testing, ANOVA, regression analyses, survival analysis, logistic regression, and interim monitoring. Finally, common weaknesses are considered.
Conclusions: Biostatistics can be productively applied to cardiovascular research if investigators (1) develop and rely on a well-written protocol and analysis plan, (2) consult bi
In rare tauopathies, the development and selection of clinical outcome assessments (COAs) measuring how patients feel and function is complicated by factors related to classification by clinical presentation and/or neuropathology, overlap in these features, and changes in these constructs over time. In selecting COAs for rare tauopathies, sponsors should consider target concepts; pilot/psychometric studies for tool evaluation; simple tools (e.g., disease specific clinical global impression (CGI), ‘most bothersome symptom’); and use of performance-based outcome (PerfO) assessments to complement patient reported outcome (PRO) and observer reported outcome (ObsRO) assessments.
Drug discovery and evaluation safety and pharmacokinetic assaysSpringer
MRI can be used to noninvasively measure liver volume in rats over multiple time points, reducing animal usage compared to terminal procedures. A high-resolution 3D MRI scan is used to segment the liver in images, and liver volume strongly correlates with wet liver weight. Respiratory triggering during acquisition improves accuracy. MRI allows longitudinal studies where the same animals act as their own controls, increasing statistical power and reducing group sizes compared to sacrificing animals at each time point.
Arousal when making decisions predicts Big Five: A machine learning approachBeatriz Esteves
Skin-conductance (SC) reactivity is considered a bodily marker of better and poorer choice options, helping to guide decision-making in complex and uncertain situations. SC has been investigated extensively in the Iowa Gambling Task (IGT). The IGT was designed to examine decision-making performance under conditions of uncertainty and risk. Individual variability in behavioral IGT performance has been linked to various personality traits, including those of the Big Five. Skin-conductance responses (SCRs) also vary across individuals during decision-making. No studies have used machine learning techniques to predict personality from SC fluctuation during decision-making.
Aim: To develop an automatic method to recognize personality traits, based - in this study - on individual fluctuation in SC during decision-making in the IGT.
Open science resources for `Big Data' Analyses of the human connectomeCameron Craddock
Neuroimaging has become a `Big Data' pursuit that requires very large datasets and high throughput computational tools. In this talk I will highlight many open science resources for acquiring the necessary data. This is from a lecture that I gave in 2015 at the USC Neuroimaging and Informatics Institute.
This document describes a degree project that explores using a morphable brain model to detect Alzheimer's disease based on deformation fields from brain scans. The project tested the method on low-quality MRI scans and achieved 94% accuracy, 97% sensitivity, and 92% specificity in classifying diseased and healthy brains, which is comparable to other methods using higher quality images. The morphable model approach has the advantage of being robust to intensity errors, making it applicable to lower quality clinical scans where data is more readily available.
This document discusses quantitative analysis of radiologic images using techniques like image segmentation, registration, and statistical atlases. It notes that computers can help address human limitations in measurement, detection of subtle abnormalities, and evaluation of complex patterns. Key techniques include using statistical atlases to capture normal anatomical variation, registering images to integrate data from multiple individuals, and performing pattern classification using machine learning to aid diagnosis. The goal is for computers to complement humans by providing increased reproducibility, quantification, and analysis of non-focal or complex spatio-temporal changes.
Travis Hills' Endeavors in Minnesota: Fostering Environmental and Economic Pr...Travis Hills MN
Travis Hills of Minnesota developed a method to convert waste into high-value dry fertilizer, significantly enriching soil quality. By providing farmers with a valuable resource derived from waste, Travis Hills helps enhance farm profitability while promoting environmental stewardship. Travis Hills' sustainable practices lead to cost savings and increased revenue for farmers by improving resource efficiency and reducing waste.
Or: Beyond linear.
Abstract: Equivariant neural networks are neural networks that incorporate symmetries. The nonlinear activation functions in these networks result in interesting nonlinear equivariant maps between simple representations, and motivate the key player of this talk: piecewise linear representation theory.
Disclaimer: No one is perfect, so please mind that there might be mistakes and typos.
dtubbenhauer@gmail.com
Corrected slides: dtubbenhauer.com/talks.html
Phenomics assisted breeding in crop improvementIshaGoswami9
As the population is increasing and will reach about 9 billion upto 2050. Also due to climate change, it is difficult to meet the food requirement of such a large population. Facing the challenges presented by resource shortages, climate
change, and increasing global population, crop yield and quality need to be improved in a sustainable way over the coming decades. Genetic improvement by breeding is the best way to increase crop productivity. With the rapid progression of functional
genomics, an increasing number of crop genomes have been sequenced and dozens of genes influencing key agronomic traits have been identified. However, current genome sequence information has not been adequately exploited for understanding
the complex characteristics of multiple gene, owing to a lack of crop phenotypic data. Efficient, automatic, and accurate technologies and platforms that can capture phenotypic data that can
be linked to genomics information for crop improvement at all growth stages have become as important as genotyping. Thus,
high-throughput phenotyping has become the major bottleneck restricting crop breeding. Plant phenomics has been defined as the high-throughput, accurate acquisition and analysis of multi-dimensional phenotypes
during crop growing stages at the organism level, including the cell, tissue, organ, individual plant, plot, and field levels. With the rapid development of novel sensors, imaging technology,
and analysis methods, numerous infrastructure platforms have been developed for phenotyping.
Nucleophilic Addition of carbonyl compounds.pptxSSR02
Nucleophilic addition is the most important reaction of carbonyls. Not just aldehydes and ketones, but also carboxylic acid derivatives in general.
Carbonyls undergo addition reactions with a large range of nucleophiles.
Comparing the relative basicity of the nucleophile and the product is extremely helpful in determining how reversible the addition reaction is. Reactions with Grignards and hydrides are irreversible. Reactions with weak bases like halides and carboxylates generally don’t happen.
Electronic effects (inductive effects, electron donation) have a large impact on reactivity.
Large groups adjacent to the carbonyl will slow the rate of reaction.
Neutral nucleophiles can also add to carbonyls, although their additions are generally slower and more reversible. Acid catalysis is sometimes employed to increase the rate of addition.
What is greenhouse gasses and how many gasses are there to affect the Earth.moosaasad1975
What are greenhouse gasses how they affect the earth and its environment what is the future of the environment and earth how the weather and the climate effects.
When I was asked to give a companion lecture in support of ‘The Philosophy of Science’ (https://shorturl.at/4pUXz) I decided not to walk through the detail of the many methodologies in order of use. Instead, I chose to employ a long standing, and ongoing, scientific development as an exemplar. And so, I chose the ever evolving story of Thermodynamics as a scientific investigation at its best.
Conducted over a period of >200 years, Thermodynamics R&D, and application, benefitted from the highest levels of professionalism, collaboration, and technical thoroughness. New layers of application, methodology, and practice were made possible by the progressive advance of technology. In turn, this has seen measurement and modelling accuracy continually improved at a micro and macro level.
Perhaps most importantly, Thermodynamics rapidly became a primary tool in the advance of applied science/engineering/technology, spanning micro-tech, to aerospace and cosmology. I can think of no better a story to illustrate the breadth of scientific methodologies and applications at their best.
Current Ms word generated power point presentation covers major details about the micronuclei test. It's significance and assays to conduct it. It is used to detect the micronuclei formation inside the cells of nearly every multicellular organism. It's formation takes place during chromosomal sepration at metaphase.
ESPP presentation to EU Waste Water Network, 4th June 2024 “EU policies driving nutrient removal and recycling
and the revised UWWTD (Urban Waste Water Treatment Directive)”
ESR spectroscopy in liquid food and beverages.pptxPRIYANKA PATEL
With increasing population, people need to rely on packaged food stuffs. Packaging of food materials requires the preservation of food. There are various methods for the treatment of food to preserve them and irradiation treatment of food is one of them. It is the most common and the most harmless method for the food preservation as it does not alter the necessary micronutrients of food materials. Although irradiated food doesn’t cause any harm to the human health but still the quality assessment of food is required to provide consumers with necessary information about the food. ESR spectroscopy is the most sophisticated way to investigate the quality of the food and the free radicals induced during the processing of the food. ESR spin trapping technique is useful for the detection of highly unstable radicals in the food. The antioxidant capability of liquid food and beverages in mainly performed by spin trapping technique.
The binding of cosmological structures by massless topological defectsSérgio Sacani
Assuming spherical symmetry and weak field, it is shown that if one solves the Poisson equation or the Einstein field
equations sourced by a topological defect, i.e. a singularity of a very specific form, the result is a localized gravitational
field capable of driving flat rotation (i.e. Keplerian circular orbits at a constant speed for all radii) of test masses on a thin
spherical shell without any underlying mass. Moreover, a large-scale structure which exploits this solution by assembling
concentrically a number of such topological defects can establish a flat stellar or galactic rotation curve, and can also deflect
light in the same manner as an equipotential (isothermal) sphere. Thus, the need for dark matter or modified gravity theory is
mitigated, at least in part.
The use of Nauplii and metanauplii artemia in aquaculture (brine shrimp).pptxMAGOTI ERNEST
Although Artemia has been known to man for centuries, its use as a food for the culture of larval organisms apparently began only in the 1930s, when several investigators found that it made an excellent food for newly hatched fish larvae (Litvinenko et al., 2023). As aquaculture developed in the 1960s and ‘70s, the use of Artemia also became more widespread, due both to its convenience and to its nutritional value for larval organisms (Arenas-Pardo et al., 2024). The fact that Artemia dormant cysts can be stored for long periods in cans, and then used as an off-the-shelf food requiring only 24 h of incubation makes them the most convenient, least labor-intensive, live food available for aquaculture (Sorgeloos & Roubach, 2021). The nutritional value of Artemia, especially for marine organisms, is not constant, but varies both geographically and temporally. During the last decade, however, both the causes of Artemia nutritional variability and methods to improve poorquality Artemia have been identified (Loufi et al., 2024).
Brine shrimp (Artemia spp.) are used in marine aquaculture worldwide. Annually, more than 2,000 metric tons of dry cysts are used for cultivation of fish, crustacean, and shellfish larva. Brine shrimp are important to aquaculture because newly hatched brine shrimp nauplii (larvae) provide a food source for many fish fry (Mozanzadeh et al., 2021). Culture and harvesting of brine shrimp eggs represents another aspect of the aquaculture industry. Nauplii and metanauplii of Artemia, commonly known as brine shrimp, play a crucial role in aquaculture due to their nutritional value and suitability as live feed for many aquatic species, particularly in larval stages (Sorgeloos & Roubach, 2021).
The ability to recreate computational results with minimal effort and actionable metrics provides a solid foundation for scientific research and software development. When people can replicate an analysis at the touch of a button using open-source software, open data, and methods to assess and compare proposals, it significantly eases verification of results, engagement with a diverse range of contributors, and progress. However, we have yet to fully achieve this; there are still many sociotechnical frictions.
Inspired by David Donoho's vision, this talk aims to revisit the three crucial pillars of frictionless reproducibility (data sharing, code sharing, and competitive challenges) with the perspective of deep software variability.
Our observation is that multiple layers — hardware, operating systems, third-party libraries, software versions, input data, compile-time options, and parameters — are subject to variability that exacerbates frictions but is also essential for achieving robust, generalizable results and fostering innovation. I will first review the literature, providing evidence of how the complex variability interactions across these layers affect qualitative and quantitative software properties, thereby complicating the reproduction and replication of scientific studies in various fields.
I will then present some software engineering and AI techniques that can support the strategic exploration of variability spaces. These include the use of abstractions and models (e.g., feature models), sampling strategies (e.g., uniform, random), cost-effective measurements (e.g., incremental build of software configurations), and dimensionality reduction methods (e.g., transfer learning, feature selection, software debloating).
I will finally argue that deep variability is both the problem and solution of frictionless reproducibility, calling the software science community to develop new methods and tools to manage variability and foster reproducibility in software systems.
Exposé invité Journées Nationales du GDR GPL 2024
Deep Software Variability and Frictionless Reproducibility
Cogstate SIRS CSB
1. Reliability
The Cogstate Schizophrenia Battery (CSB) as a Co-Primary Outcome for
Trials in Cognitive Impairment Associated with Schizophrenia
C. J. Edgar1, A. Schembri2, P. Maruff2
1Cogstate Ltd, Clinical Science, New Haven, USA; 2Cogstate Ltd, Clinical Science, Melbourne, Australia
cedgar@cogstate.com; www.cogstate.com
Background
Extensive evidence shows cognitive impairment to be a core symptom of schizophrenia that has a negative impact on function. The MATRICS/FDA/NIMH
workshop developed guidelines for the design of clinical trials of drugs that could ameliorate cognitive impairment associated with schizophrenia (CIAS). One
important consequence was the development of a battery of performance-based (PerfO) outcome assessments. The use of the MATRICS Consensus Cognitive
Battery (MCCB) as a co-primary outcome is recommended by FDA, whilst EMA describe the battery as “acceptable but other, comparable, test batteries may
also be used provided their validity is demonstrated”. Following the development and application of the MCCB, substantial concerns have been raised regarding
patient and trial burden, and cross-cultural adaptability. In this context, the Cogstate Schizophrenia Battery (CSB) has been developed as a computerized
cognitive test battery, meeting consensus requirements, but with significantly reduced burden on patients and clinical trial sites. In addition, the use of culture
neutral stimuli on each of the component tests add to the utility of the CSB for international trials.
Methods
Information was summarized to describe the intended
concepts of interest, context of use, and details of the
application of the CSB. In addition, a review of the literature
was performed to collate data related to content validity,
reliability, construct validity, and ability to detect change.
Data were collated according to the FDA clinical outcome
assessment qualification package framework.
Construct Validity
Table 2: Convergent validity between CSB and MCCB
MCCB CSB Convergent Validity (r)
Domain Test/item Paradigm Test/item Paradigm
Speed of processing Trail Making Part A Sequencing Detection Simple reaction time 0.56
BACS Symbol Coding Symbol coding Detection Simple reaction time 0.76
Category fluency Verbal fluency Detection Simple reaction time 0.79
Verbal learning HVLT Verbal list learning ISLT Verbal list learning 0.78
Working memory WMS-III Spatial Span Spatial span Two-back N-back 0.69
Letter-number span Digit span One-back N-back 0.75
Reasoning and problem solving NAB-Mazes Maze tracing Groton maze Hidden-pathway maze learning 0.56
Visual learning BVMT-R Figure drawing One-card learning Pattern separation 0.76
Social cognition MSCEIT Social emotional vignette understanding SECT Emotion recognition / Odd man out 0.59
Attention vigilance CPT-IP Continuous performance Identification Choice reaction time 0.57
Global Summary score Global score 0.83
Conclusions and Future Directions
The CSB is a valid and reliable assessment of cognition, able to detect relevant changes;
and is a suitable co-primary outcome measure for clinical trials in cognitive impairment
associated with schizophrenia.
Content validity of the CSB is based on the 7-domain structure identified by the MATRICS
initiative (Table 1)
Construct validity at the item and domain level has been established for the (Table 2)
Strong evidence for adequate test-retest reliability has been demonstrated across multiple
studies (Table 3)
Internal consistency reliability is also good, supporting the content validity of the battery, but
also its length in respect of number of component items, and robustness to missing data
Ability to detect change in respect of association to changes in function has also been
repeatedly demonstrated (Figure 1)
Ability to Detect Change
Content Validity
Measurement and Treatment Research to Improve Cognition in
Schizophrenia: NIMH MATRICS initiative
The MATRICS initiative identified seven “separable cognitive domains” based on a literature review
of normative data and factor analytic studies, but also incorporating expert opinion and potential
pharmacologic sensitivity (Green et al, 2004).
5. Reasoning and problem solving
6. Speed of processing
7. Social cognition*
1. Working memory
2. Attention/vigilance
3. Verbal learning and memory
4. Visual learning and memory
*Social cognition was added later due to concern regarding its omission and potential importance as a domain
MCCB (duration approx. 90 mins) CSB (duration approx. 40 mins) Total Score
Speed of processing Detection
Cognition
Verbal learning International shopping list
Working memory One-back
Reasoning and problem solving Groton maze
Visual learning One-card learning
Social cognition Social emotional cognition
Attention vigilance Identification
Test/item
DSM-IV schizophrenia
or schizoaffective
disorder
Healthy adult Healthy adult Healthy adult
Adult, male
athletes
Chronic
schizophrenia
One day
Three-four
weeks
Three-four weeks
(no intervention)
Ten-minutes One-week Three-months
Up to seven
days
One to four-hours
and one-month
Detection 0.72 0.64 0.80 0.94 0.73 0.93 0.85 0.79
ISLT 0.56 0.62 0.62 . . 0.86 . .
One-back 0.49 0.55 0.51 0.74 0.70 0.75 0.83 .
Two-back . . . . . . . .
Groton maze 0.68 0.63 0.77 . . . . 0.78
One-card learning 0.73 0.75 0.76 . . 0.77 0.93 0.79
SECT 0.75 0.70 0.63 . . . . .
Identification 0.72 0.66 0.72 0.81 0.71 0.92 0.86 0.81
Global score 0.85 0.81 0.80 . . . . .
Pearson correlation (r) r r
Intra-class correlation
coefficient (ICC)
ICC ICC ICC ICC
Table 1: CSB Conceptual Framework
Table 3: Test retest reliability for the CSB and component test items
Cronbach’s Alpha
Global score .79
Test/item
Reliability if item is
dropped
Item-total corr.
DET .74 .79
IDN .74 .79
GML .77 .53
ISL .79 .45
OCL .77 .55
ONB .76 .63
SECT .78 .49
Table 4: Internal consistency reliability for the CSB and
component test items
Figure 1: Cross-
sectional and
longitudinal
association of CSB
and UPSA-B