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At least 19 records

Diagnostic Testing for COVID-19 Bridging Study for CDC EUA assays vs CDC Multiplex N1 FAM, N2 SUN, RNAse P ATTO 647 Assays

This report describes testing performed by LANL’s Biological Agent Testing Laboratory (BATL) to validate modifications to the CDC EUA 2019-Novel Coronavirus (2019-nCoV) Real-Time RT-PCR Diagnostic Panel (EUA-CDC-nCoV-IFU). BATL intends to implement the modification to increase thoughput for daily testing. BATL validated the original component, CDC designed primers and probes purchased from IDT (Cat # 10006770) and the new component, CDC assays designed with new Reporter dyes allowing the assays to be multiplexed, IDT (Cat # 10006830, 10006831, 10006823, 10006833, 10006834, 10007050, 10006836, 10006837, 10007062)

59 BASIC BIOLOGICAL SCIENCES↗

Publication and Impact of Preprints Included in the First 100 Editions of the CDC COVID-19 Science Update: Content Analysis

Preprints are publicly available manuscripts posted to various servers that have not been peer reviewed. Although preprints have existed since 1961, they have gained increased popularity during the COVID-19 pandemic due to the need for immediate, relevant information. The aim of this study is to evaluate the publication rate and impact of preprints included in the Centers for Disease Control and Prevention (CDC) COVID-19 Science Update and assess the performance of the COVID-19 Science Update team in selecting impactful preprints. All preprints in the first 100 editions (April 1, 2020, to July 30, 2021) of the Science Update were included in the study. Preprints that were not published were categorized as “unpublished preprints.” Preprints that were subsequently published exist in 2 versions (in a peer-reviewed journal and on the original preprint server), which were analyzed separately and referred to as “peer-reviewed preprint” and “original preprint,” respectively. Time to publish was the time interval between the date on which a preprint was first posted and the date on which it was first available as a peer-reviewed article. Impact was quantified by Altmetric Attention Score and citation count for all available manuscripts on August 6, 2021. Preprints were analyzed by publication status, publication rate, preprint server, and time to publication. Of the 275 preprints included in the CDC COVID-19 Science Update during the study period, most came from three servers: medRxiv (n=201, 73.1%), bioRxiv (n=41, 14.9%), and SSRN (n=25, 9.1%), with 8 (2.9%) coming from other sources. Additionally, 152 (55.3%) were eventually published. The median time to publish was 2.3 (IQR 1.4-3.7). When preprints posted in the last 2.3 months were excluded (to account for the time to publish), the publication rate was 67.8%. Moreover, 76 journals published at least one preprint from the CDC COVID-19 Science Update, and 18 journals published at least three. The median Altmetric Attention Score for unpublished preprints (n=123, 44.7%) was 146 (IQR 22-552) with a median citation count of 2 (IQR 0-8); for original preprints (n=152, 55.2%), these values were 212 (IQR 22-1164) and 14 (IQR 2-40), respectively; for peer-review preprints, these values were 265 (IQR 29-1896) and 19 (IQR 3-101), respectively. Prior studies of COVID-19 preprints found publication rates between 5.4% and 21.1%. Preprints included in the CDC COVID-19 Science Update were published at a higher rate than overall COVID-19 preprints, and those that were ultimately published were published within months and received higher attention scores than unpublished preprints. These findings indicate that the Science Update process for selecting preprints had a high fidelity in terms of their likelihood to be published and their impact. The incorporation of high-quality preprints into the CDC COVID-19 Science Update improves this activity’s capacity to inform meaningful public health decision-making.

59 BASIC BIOLOGICAL SCIENCES↗

Analysis of CDC Bioreactor Internal Thermal Measurements and Sample Coupon Temperatures

The CDC Biofilm Reactor is an integral laboratory tool for the Environmental Control and Life Support Systems (ECLSS) biofilm formation and growth research program. Critical to this research is the need to adjust and maintain various surface temperatures of the coupons housed within the CDC Biofilm Reactor. The purpose of this study was to provide quantitative temperature gradient information when the CDC Biofilm Reactor was operating according to several process scenarios. Two primary process parameters were evaluated. For the first set of test parameters, the liquid level was maintained at 350 mL, with an inlet flowrate of 0.1 mL/min, 1 mL/min, 10 mL/min. The liquid was allowed to gravity drain out of the outlet spout. For the second set of test parameters, the liquid level within the reactor was maintained at 550 mL, with an inlet flow of 0.1 mL/min, 1 mL/min, 10 mL/min and draining intermittently controlled to 0.8 mL/min to maintain the 550 mL level. Due to the placement of the thermocouple in the reactor, a difference in temperature occurred between the coupon surfaces and target biofilm reactor temperature when operated according to the first set of test parameters. When the reactor was operated according to the second set of parameters, which resulted in the thermocouple being submerged, the temperature gradient was eliminated. The results demonstrated minimal temperature gradient between the top and bottom coupon surfaces for coupons placed in a single rod within the CDC Biofilm Reactor for both sets of test parameters evaluated. The collection of this information helped to explain previous ECLSS biofilm formation test runs, along with providing guidance on best operating practices for future ECLSS experiments. The placement of the thermocouple also helps to explain the challenge of achieving and maintaining bulk liquid temperatures when biofilm is grown according to the standardized test methods.

CDC Bioreactor↗

Analysis of CDC Bioreactor Internal Thermal Measurements and Sample Coupon Temperatures

The Center for Disease Control and Prevention (CDC) bioreactor is an integral laboratory tool for the Environmental Control and Life Support Systems (ECLSS) biofilm formation and growth research program. Critical to this research is the need to adjust and maintain various surface temperatures of the coupons housed within the CDC Bioreactor. The purpose of this study was to provide quantitative temperature gradient information when the CDC Bioreactor was operating according to several process scenarios. Two primary process parameters were evaluated. For the first set of test parameters, the liquid level was maintained at 350 mL, with an inlet flowrate of 0.1 mL/min, 1 mL/min, 10 mL/min. The liquid was allowed to gravity drain out of the outlet spout. For the second set of test parameters, the liquid level within the reactor was maintained at 550 mL, with an inlet flow of 0.1 mL/min, 1 mL/min, 10 mL/min and draining intermittently controlled to 0.8 mL/min to maintain the 550 mL level. Due to the placement of the thermocouple in the reactor, a difference in temperature occurred between the coupon surfaces and target Bioreactor temperature when operated according to the first set of test parameters. When the reactor was operated according to the second set of parameters, which resulted in the thermocouple being submerged, the temperature gradient was eliminated. The results demonstrated minimal temperature gradient between the top and bottom coupon surfaces for coupons placed in a single rod within the CDC Bioreactor for both sets of test parameters evaluated. The collection of this information helped to explain previous ECLSS biofilm formation test runs, along with providing guidance on best operating practices for future ECLSS experiments. The placement of the thermocouple also helps to explain the challenge of achieving and maintaining bulk liquid temperatures when biofilm is grown according to the standardized test methods.

CDC Bioreactor↗

Implementation experiences of NASTRAN on CDC CYBER 74 SCOPE 3.4 operating system

The implementation of the NASTRAN system on the CDC CYBER 74 SCOPE 3.4 Operating System is described. The flexibility of the NASTRAN system made it possible to accomplish the change with no major problems. Various sizes of benchmark and test problems, ranging from two hours to less than one minute CP time were run on the CDC CYBER SCOPE 3.3, Univac EXEC-8, and CDC CYBER SCOPE 3.4. The NASTRAN installation deck is provided.

Go, J. C.↗

Health and Environment Linked for Information Exchange (HELIX)-Atlanta: A CDC-NASA Joint Environmental Public Health Tracking Collaborative Project

HELIX-Atlanta was developed to support current and future state and local EPHT programs to implement data linking demonstration projects which could be part of the CDC EPHT Network. HELIX-Atlanta is a pilot linking project in Atlanta for CDC to learn about the challenges the states will encounter. NASA/MSFC and the CDC are partners in linking environmental and health data to enhance public health surveillance. ~ The use of NASA technology creates value added geospatial products from existing environmental data sources to facilitate public health linkages. Proving the feasibility of the approach is the main objective

Al-Hamdan, Mohammad↗

Linking NASA Environmental Data with a National Public Health Cohort Study and a CDC On-Line System to Enhance Public Health Decision Making

The overall goal of this study is to address issues of environmental health and enhance public health decision making by utilizing NASA remotely-sensed data and products. This study is a collaboration between NASA Marshall Space Flight Center, Universities Space Research Association (USRA), the University of Alabama at Birmingham (UAB) School of Public Health and the Centers for Disease Control and Prevention (CDC) National Center for Public Health Informatics. The objectives of this study are to develop high-quality spatial data sets of environmental variables, link these with public health data from a national cohort study, and deliver the linked data sets and associated analyses to local, state and federal end-user groups. Three daily environmental data sets were developed for the conterminous U.S. on different spatial resolutions for the period 2003-2008: (1) spatial surfaces of estimated fine particulate matter (PM2.5) exposures on a 10-km grid utilizing the US Environmental Protection Agency (EPA) ground observations and NASA s MODerate-resolution Imaging Spectroradiometer (MODIS) data; (2) a 1-km grid of Land Surface Temperature (LST) using MODIS data; and (3) a 12-km grid of daily Solar Insolation (SI) and maximum and minimum air temperature using the North American Land Data Assimilation System (NLDAS) forcing data. These environmental datasets were linked with public health data from the UAB REasons for Geographic and Racial Differences in Stroke (REGARDS) national cohort study to determine whether exposures to these environmental risk factors are related to cognitive decline and other health outcomes. These environmental national datasets will also be made available to public health professionals, researchers and the general public via the CDC Wide-ranging Online Data for Epidemiologic Research (WONDER) system, where they can be aggregated to the county, state or regional level as per users need and downloaded in tabular, graphical, and map formats. The linkage of these data provides a useful addition to CDC WONDER, allowing public health researchers and policy makers to better include environmental exposure data in the context of other health data available in this online system. It also substantially expands public access to NASA data, making their use by a wide range of decision makers feasible.

Al-Hamdan, Mohammad↗

Centers for Disease Control and Prevention (CDC) Radiation Hazard Scale (Expanded Data Product Feedback Report)

During radiation emergencies, it is important to communicate clearly as radiation risks are often unfamiliar to many members of the general public and emergency responders, including public health workers. To partially address this issue, the Centers for Disease Control and Prevention (CDC) developed the Radiation Hazard Scale to communicate radiation risk to the general public, community leaders, and decision makers. The simple numeric scale does not require a background in radiation physics or health effects and can be used to assist people in understanding their risk and motivate protective action compliance. Lawrence Livermore National Laboratory has assisted the US Department of Energy National Nuclear Security Administration and the CDC in the development of Radiation Hazard Scale data products. This report documents the feedback received from Federal response officials on an expanded data product set. This expanded set accounts for the effects of building protection on radiation exposure and allows for the comparison between different response actions, including sheltering in place, based on the LLNL developed Regional Shelter Analysis methodology.

54 ENVIRONMENTAL SCIENCES↗

Hypermatrix scheme for finite element systems on CDC STAR-100 computer

A study is made of the adaptation of the hypermatrix (block matrix) scheme for solving large systems of finite element equations to the CDC STAR-100 computer. Discussion is focused on the organization of the hypermatrix computation using Cholesky decomposition and the mode of storage of the different submatrices to take advantage of the STAR pipeline (streaming) capability. Consideration is also given to the associated data handling problems and the means of balancing the I/Q and cpu times in the solution process. Numerical examples are presented showing anticipated gain in cpu speed over the CDC 6600 to be obtained by using the proposed algorithms on the STAR computer.

Noor, A. K.↗

Environmental Public Health Tracking: Health and Environment Linked for Information Exchange-Atlanta (HEXIX-Atlanta: A cooperative Program Between CDC and NASA for Development of an Environmental Public Health Tracking Network in the Atlanta Metropolitan Area

The Centers for Disease Control and Prevention (CDC) is coordinating HELIX- Atlanta to provide information regarding the five-county Metropolitan Atlanta Area (Clayton, Cobb, DeKalb, Fulton, and Gwinett) via a network of integrated environmental monitoring and public health data systems so that all sectors can take action to prevent and control environmentally related health effects. The HELIX-Atlanta Network is a tool to access interoperable information systems with optional information technology linkage functionality driven by scientific rationale. HELIX-Atlanta is a collaborative effort with local, state, federal, and academic partners, including the NASA Marshall Space Flight Center. The HELIX-Atlanta Partners identified the following HELIX-Atlanta initial focus areas: childhood lead poisoning, short-latency cancers, developmental disabilities, birth defects, vital records, respiratory health, age of housing, remote sensing data, and environmental monitoring, HELIX-Atlanta Partners identified and evaluated information systems containing information on the above focus areas. The information system evaluations resulted in recommendations for what resources would be needed to interoperate selected information systems in compliance with the CDC Public Health Information Network (PHIN). This presentation will discuss the collaborative process of building a network that links health and environment data for information exchange, including NASA remote sensing data, for use in HELIX-Atlanta.

Quattrochi, Dale A.↗

Materials Data on CdC by Materials Project

CdC is Zincblende, Sphalerite structured and crystallizes in the cubic F-43m space group. The structure is three-dimensional. Cd2+ is bonded to four equivalent C2- atoms to form corner-sharing CdC4 tetrahedra. All Cd–C bond lengths are 2.25 Å. C2- is bonded to four equivalent Cd2+ atoms to form corner-sharing CCd4 tetrahedra.

36 MATERIALS SCIENCE↗

Materials Data on CdC by Materials Project

CdC is Halite, Rock Salt structured and crystallizes in the cubic Fm-3m space group. The structure is three-dimensional. Cd2+ is bonded to six equivalent C2- atoms to form a mixture of edge and corner-sharing CdC6 octahedra. The corner-sharing octahedral tilt angles are 0°. All Cd–C bond lengths are 2.43 Å. C2- is bonded to six equivalent Cd2+ atoms to form a mixture of edge and corner-sharing CCd6 octahedra. The corner-sharing octahedral tilt angles are 0°.

36 MATERIALS SCIENCE↗

Materials Data on CdC by Materials Project

CdC crystallizes in the hexagonal P6_3/mmc space group. The structure is three-dimensional. Cd2+ is bonded to five equivalent C2- atoms to form a mixture of corner and edge-sharing CdC5 trigonal bipyramids. There are three shorter (2.34 Å) and two longer (2.36 Å) Cd–C bond lengths. C2- is bonded to five equivalent Cd2+ atoms to form a mixture of corner and edge-sharing CCd5 trigonal bipyramids.

36 MATERIALS SCIENCE↗

CDC Bioreactor Configuration Method for Volume Level Control with Controlled Inlet and Outlet Flow

Environmental Control Life Support Systems and other microbiological biofilm studies often utilize small scale bioreactors. Among these options are the popular BioSurface CDC bioreactors, currently being utilized by Marshall Space Flight Center groups researching the impact of biofilms on life support systems. After a recent experimental regime, it was determined additional equipment could be added to augment the capabilities of the bioreactors. Previous research configurations such as ASTM E3161 – 18 relied on an outlet stream gravity draining from a side drain port located above sampling coupons. This limited applications to experimental conditions with a controlled inlet and uncontrolled outlet flow. With the introduction of a small single pole single throw (SPST) reed float switch, a peristaltic pump connected to the outlet drain and a chassis controller, the bioreactor is able to maintain a set level. The modification allows additional variables to be tested, including highly adjustable fill and flush cycles, bioreactor volume, draining and filling control. Once the configuration modifications were implemented through the installation of the new equipment, data was collected to ensure the stability of the level measurements. As the level control switch is a float switch, consideration was taken into account for effects of internal stirring speed, along with effects of inlet and outlet flow rate. Data presented in this study will illustrate the stability and effectiveness of the configuration changes in equipment made to the bioreactor. These configuration changes are proving an effective control method to conduct biofilm mitigation techniques for ECLSS hardware research. The controlled level capabilities allow for a constant drip feed flow rate into the bioreactors, a key aspect of the biofilm mitigation testing.

CDC Bioreactor↗

CDC Bioreactor Configuration Method for Volume Level Control with Controlled Inlet and Outlet Flow

Environmental Control Life Support Systems and other microbiological biofilm studies often utilize small scale bioreactors. Among these options are the popular BioSurface CDC bioreactors, currently being utilized by Marshall Space Flight Center groups researching the impact of biofilms on life support systems. After a recent experimental regime, it was determined additional equipment could be added to augment the capabilities of the bioreactors. Previous research configurations such as ASTM E3161-21 relied on an outlet stream gravity draining from a side drain port located above sampling coupons. This limited applications to experimental conditions with a controlled inlet and uncontrolled outlet flow. With the introduction of a small single pole single throw (SPST) reed float switch and a peristaltic pump connected to the outlet drain and a chassis controller, the bioreactor is able to maintain a set level. The modification allows additional variables to be tested, including highly adjustable fill and flush cycles, bioreactor volume, draining and filling control. Once the configuration modifications were implemented through the installation of the new equipment, data was collected to ensure the stability of the level measurements. As the level control switch is a float switch, consideration was taken into account for effects of internal stirring speed, along with effects of inlet and outlet flow rate. Data presented in this study will illustrate the stability and effectiveness of the configuration changes in equipment made to the bioreactor. These configuration changes have demonstrated control method to conduct biofilm mitigation techniques for ECLSS hardware research. The controlled level capabilities allow for a constant drip feed flow rate into the bioreactors, a key aspect of the biofilm mitigation testing.

CDC Bioreactor↗

CDC Bioreactor Configuration Method for Volume Level Control with Controlled Inlet and Outlet Flow

Environmental Control Life Support Systems and other microbiological biofilm studies often utilize small scale bioreactors. Among these options are the popular BioSurface CDC bioreactors, currently being utilized by Marshall Space Flight Center groups researching the impact of biofilms on life support systems. After a recent experimental regime, it was determined additional equipment could be added to augment the capabilities of the bioreactors. Previous research configurations such as ASTM E3161-21 relied on an outlet stream gravity draining from a side drain port located above sampling coupons. This limited applications to experimental conditions with a controlled inlet and uncontrolled outlet flow. With the introduction of a small single pole single throw (SPST) reed float switch and a peristaltic pump connected to the outlet drain and a chassis controller, the bioreactor is able to maintain a set level. The modification allows additional variables to be tested, including highly adjustable fill and flush cycles, bioreactor volume, draining and filling control. Once the configuration modifications were implemented through the installation of the new equipment, data was collected to ensure the stability of the level measurements. As the level control switch is a float switch, consideration was taken into account for effects of internal stirring speed, along with effects of inlet and outlet flow rate. Data presented in this study will illustrate the stability and effectiveness of the configuration changes in equipment made to the bioreactor. These configuration changes have demonstrated control method to conduct biofilm mitigation techniques for ECLSS hardware research. The controlled level capabilities allow for a constant drip feed flow rate into the bioreactors, a key aspect of the biofilm mitigation testing.

CDC Bioreactor↗

CDC Bioreactor Configuration Method for Volume Level Control with Controlled Inlet and Outlet Flow

Environmental Control Life Support Systems and other microbiological biofilm studies often utilize small scale bioreactors. Among these options are the popular BioSurface CDC bioreactors, currently being utilized by Marshall Space Flight Center groups researching the impact of biofilms on life support systems. After a recent experimental regime, it was determined additional equipment could be added to augment the capabilities of the bioreactors. Previous research configurations such as ASTM E3161-21 relied on an outlet stream gravity draining from a side drain port located above sampling coupons. This limited applications to experimental conditions with a controlled inlet and uncontrolled outlet flow. With the introduction of a small single pole single throw (SPST) reed float switch and a peristaltic pump connected to the outlet drain and a chassis controller, the bioreactor is able to maintain a set level. The modification allows additional variables to be tested, including highly adjustable fill and flush cycles, bioreactor volume, draining and filling control. Once the configuration modifications were implemented through the installation of the new equipment, data was collected to ensure the stability of the level measurements. As the level control switch is a float switch, consideration was taken into account for effects of internal stirring speed, along with effects of inlet and outlet flow rate. Data presented in this study will illustrate the stability and effectiveness of the configuration changes in equipment made to the bioreactor. These configuration changes have demonstrated control method to conduct biofilm mitigation techniques for ECLSS hardware research. The controlled level capabilities allow for a constant drip feed flow rate into the bioreactors, a key aspect of the biofilm mitigation testing.

CDC Bioreactor↗