Engineering Papers⌕ Search

SEARCH · Engineering Papers

Results for “data assembly”

Search indexed NASA NTRS and DOE OSTI research on propulsion, heat transfer, battery materials and energy systems. Follow report and document links to the original sources.

Quote a phrase for an exact phrase match. Source license links do not imply unrestricted reuse.

At least 19 records
All sourcesNASA NTRSDOE OSTI
DOE OSTI2021

Respiration data, microbial community assembly data, and FTICR-MS data associated with: “Disturbance Triggers Non-Linear Microbe-Environment Feedbacks. Sengupta et al., 2021, Biogeosciences”

This data package is associated with the manuscript “Disturbance Triggers Non-Linear Microbe-Environment Feedbacks, in revision in Biogeosciences (Sengupta et al. and 2021;https://bg.copernicus.org/preprints/bg-2021-51/). The study used hyporheic zone sediments as a model system to provide an integrated view of how disturbance modulates linkages among microbial ecology, biogeochemistry, and organic matter thermodynamics. Laboratory experiments exposed hyporheic sediment to varying wetting/drying dynamics. Data types include dissolved oxygen rates used to derive respiration rates, Fourier-transform ion cyclotron resonance mass spectrometry (FTICR-MS) data used to derive thermodynamic properties of organic matter, and microbial community assembly metrics derived from amplicon-sequence data of putatively active (cDNA) and whole community (gDNA). The outcomes of the study are condensed into a broadly applicable conceptual model linking external forcing, internal dynamics, and history. This data package is comprised of a file-level metadata (FLMD) csv, metadata csv, and seven folders that contain csv files, R scripts, xml files, and associated documentation: (1) Rates, (2) bNTI, and (3) FTICR, (4) Statistics_Analyses, (5) Raw OTU Beta dispersion Analysis, (6) bMNTD Randomizations, and (7) Data Dictionaries. The FLMD file has a description of each file included in the data package.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2020

PyMDA : microcrystal data assembly using Python

The recent developments at microdiffraction X-ray beamlines are making microcrystals of macromolecules appealing subjects for routine structural analysis. Microcrystal diffraction data collected at synchrotron microdiffraction beamlines may be radiation damaged with incomplete data per microcrystal and with unit-cell variations. A multi-stage data assembly method has previously been designed for microcrystal synchrotron crystallography. Here the strategy has been implemented as a Python program for microcrystal data assembly ( PyMDA ). PyMDA optimizes microcrystal data quality including weak anomalous signals through iterative crystal and frame rejections. Beyond microcrystals, PyMDA may be applicable for assembling data sets from larger crystals for improved data quality.

36 MATERIALS SCIENCE↗
DOE OSTI2022

Optimization of the deep neural network parameters for generating homogenized fuel assembly data for nodal codes

Homogenized fuel assembly (FA) data is a typical input data for nodal codes. Generating that data, however, could be time-consuming. One of promising ways to mitigate the computational burden of generating macroscopic cross-sections is to use trained artificial neural network (ANN) models for predicting nuclear data. However, there is a challenge to make the model support variable FA geometry. In this work, two most common types of FA were combined in one ANN model. Since there could be multiple ways of converting 2-dimensional FA data into 1-dimensional input vector for ANN, three different approaches of data flattening were evaluated. The input parameters included each fuel pin enrichment, fuel temperature, moderator temperature and boron concentration. The output parameters were 2-group macroscopic cross-sections (XS) and pin power distribution (HFF). A fully connected deep neural network (DNN) model was trained and tested using pre-generated data obtained with lattice physics code STREAM. The results of this study showed no statistically significant difference in the accuracy of XS and HFF generation for all 3 tested input vector orders. This means that fully connected DNN for XS generation demonstrated input sequence invariance. Results of comparing predicted XS data with reference solutions were found sufficiently close considering the reduction of computation time offered by ANN. Mean relative difference (MRD) for all output XS parameters was found below 0.7%, while HFF MRD was found higher compared to XS values, in some cases slightly exceeding 1%, mostly near guide tube locations. (authors)

22 GENERAL STUDIES OF NUCLEAR REACTORS↗
DOE OSTI2020

Prompt Time Decay for HEU Metal Assemblies

Data sets contain Rossi-alpha and pulsed neutron prompt neutron time decay measurements performed at the Oak Ridge Critical Experiments Facility (ORCEF) between 1960 and 1975. See also ORNL/TM-2019/1155 from April 2019 by John T. Mihalczo, included with these data sets.

Whittaker, David↗
DOE OSTI2025

Mapping and Synthesis of International Biomass Supply Assessments

This report, Mapping and Synthesis of International Biomass Supply Assessments (or Global Biomass Resource Assessment) is the first step in a long-term process to assemble data from around the globe into a virtual repository that can be updated and provide user-friendly access to the data. The Clean Energy Ministerial (CEM) Biofuture Platform Initiative recommended that research be completed to “address the need for internationally accepted benchmarks quantifying sustainable biomass feedstock supplies.” To act upon the CEM Biofuture recommendation, in 2024, the U.S. Department of Energy (DOE) commissioned Oak Ridge National Laboratory (ORNL) to prepare this report as the primary deliverable for a one-year assignment to assemble data into a citable form that could help resolve the persistent question presented related to bioenergy policy, “Is there enough sustainable biomass?” In response to that query, this report includes information received by August 2024 from national CEM representatives, collaborators, and public sources on current and future sustainable biomass supplies in 62 nations,and subsequently documents (a) the approach used by ORNL to analyze and categorize the information received in a manner that enables aggregation and comparability; and (b) recommendations for next steps and guidelines to help others update and harmonize future assessments of global sustainable biomass supplies.

09 BIOMASS FUELS↗
DOE OSTI2021

Data Release Report for the Source Physics Experiment Phase II: Dry Alluvium Geology Experiments (DAG-1 through DAG-4), Nevada National Security Site

The Dry Alluvium Geology (DAG) project was Phase II of the Source Physics Experiment and consisted of a series of four chemical explosive tests conducted in the same source hole on the Nevada National Security Site. This hole is located at 37.1146°N and -116.0693°W, with a surface elevation of 1,285.2 meters (m) (4,216.5 feet [ft]) above sea level. The first test (DAG-1) was conducted on July 20, 2018, at 16:51:52.67838 Coordinated Universal Time (UTC). The explosive source for DAG-1 was nitromethane initiated by a small plastic-bonded explosive (PBX) charge, detonated at the depth of 385.0 m (1,263.2 ft) below ground surface. DAG-1 had a trinitrotoluene (TNT) equivalent yield of 0.908 metric tons (2,002 pounds [lbs]). DAG-2 was conducted on December 19, 2018, at 18:45:56.92115 UTC. This test was the largest in the series, with a TNT equivalent yield of 50.997 metric tons (112,429 lbs). The explosive source for DAG-2 was nitromethane initiated by a small PBX charge, detonated at the depth of 299.8 m (983.6 ft) below ground surface. DAG-3 was conducted on April 27, 2019, at 15:49:01.84183 UTC. The explosive source for this test was nitromethane initiated by a small PBX charge, detonated at the depth of 149.9 m (492.0 ft) below ground surface. DAG-3 had a TNT equivalent yield of 0.908 metric tons (2,002 lbs). The final DAG test (DAG-4) was conducted on June 22, 2019, at 21:06:19.87632 UTC. The explosive source for DAG-4 was nitromethane initiated by a small PBX charge, detonated at the depth of 51.6 m (169.3 ft) below ground surface. DAG-4 had a TNT equivalent yield of 10.357 metric tons (22,833 lbs). The four tests were recorded by an extensive set of instrumentation that included sensors both at near-field (less than 200 m) and far-field (200 m or greater) distances. The near-field instruments consisted of three-component (3C) accelerometers installed at various depths ranging from 51.6 to 385 m (169.3 to 1,263.1 ft) below ground surface in boreholes positioned around the source hole, and arrays of single-component and 3C accelerometers on the surface. The far-field network comprised a variety of seismic and acoustic sensors, including short-period geophones, broadband seismometers, and 3C accelerometers at distances of 200 m to 400 kilometers. In addition, the DAG-2, DAG-3, and DAG-4 explosions were recorded by a temporary array of 496 geophones arranged in a densely spaced grid pattern known as “Large N.” This report coincides with the release of these data for analysts and organizations that are not participants in this program. This report describes the four DAG tests and the various types of near-field, far-field, and other data that are available. Assembled data sets are accessible through: Incorporated Research Institutions for Seismology, Data Management Center 1408 NE 45th Street, Suite 201, Seattle, Washington 98105 USA. www.iris.washington.edu

58 GEOSCIENCES↗
DOE OSTI2022

Plant metacaspase: A case study of microcrystal structure determination and analysis

Metacaspases are highly conserved in plants and play essential roles in mediating programmed cell death, biotic and abiotic stress responses, and damage-induced innate immunity. Ca 2+ signaling induced by plant damage leads to activation of metacaspase from Arabidopsis thaliana (AtMC4), which subsequently processes a plant elicitor peptide to trigger downstream immuno-response. To understand the structural basis of AtMC4 activation by Ca 2+ , we previously determined its crystal structure and performed in-crystal Ca 2+ treatment to probe activation-associated conformational changes. To enable structure determination and in-crystal Ca 2+ activation analysis, we used microcrystals and related methods which were essential for our successful approach. Here, in this paper, we describe in detail the methods that we used for determination of AtMC4 structure using single-wavelength isomorphous replacement with anomalous signals assembled from 22 microcrystals. We also describe the method for in-crystal Ca 2+ soaking, microcrystal data collection, data assembly and analysis to obtain the activated structure of AtMC4 from 91 micro-sized crystals. The described methods may be useful to study other plant metacaspases and more broadly other plant enzymes for their structure determination and in-crystal functional characterization.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2021

Free Energies of Proton-Coupled Electron Transfer Reagents and Their Applications

Here, we present an update and revision to our 2010 review on the topic of proton- coupled electron transfer (PCET) reagent thermochemistry. Over the past decade, the data and thermochemical formalisms presented in that review have been of value to multiple fields. Concurrently, there have been advances in the thermochemical cycles and experimental methods used to measure these values. This Review (i) summarizes those advancements, (ii) corrects systematic errors in our prior review that shifted many of the absolute values in the tabulated data, (iii) provides updated tables of thermochemical values, and (iv) discusses new conclusions and opportunities from the assembled data and associated techniques. We advocate for updated thermochemical cycles that provide greater clarity and reduce experimental barriers to the calculation and measurement of Gibbs free energies for the conversion of X to XHn in PCET reactions. In particular, we demonstrate the utility and generality of reporting potentials of hydrogenation, E°(V vs H 2 ), in almost any solvent and how these values are connected to more widely reported bond dissociation free energies (BDFEs). The tabulated data demonstrate that E°(V vs H 2 ) and BDFEs are generally insensitive to the nature of the solvent and, in some cases, even to the phase (gas versus solution). This Review also presents introductions to several emerging fields in PCET thermochemistry to give readers windows into the diversity of research being performed. Some of the next frontiers in this rapidly growing field are coordination-induced bond weakening, PCET in novel solvent environments, and reactions at material interfaces.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗
DOE OSTI2023

A data compression and optimal galaxy weights scheme for Dark Energy Spectroscopic Instrument and weak lensing data sets

Combining different observational probes, such as galaxy clustering and weak lensing, is a promising technique for unveiling the physics of the Universe with upcoming dark energy experiments. The galaxy redshift sample from the Dark Energy Spectroscopic Instrument (DESI) will have a significant overlap with major ongoing imaging surveys specifically designed for weak lensing measurements: the Kilo-Degree Survey (KiDS), the Dark Energy Survey (DES), and the Hyper Suprime-Cam (HSC) survey. In this work, we analyse simulated redshift and lensing catalogues to establish a new strategy for combining high-quality cosmological imaging and spectroscopic data, in view of the first-year data assembly analysis of DESI. In a test case fitting for a reduced parameter set, we employ an optimal data compression scheme able to identify those aspects of the data that are most sensitive to cosmological information and amplify them with respect to other aspects of the data. We find this optimal compression approach is able to preserve all the information related to the growth of structures.

79 ASTRONOMY AND ASTROPHYSICS↗
DOE OSTI2024

Emerging Technologies for Privacy Preservation in Energy Systems

This study explores the intersection of digitalization and privacy within the energy sector, focusing on the emerging challenges and opportunities presented by integrating Distributed Energy Resources (DERs) and advanced metering infrastructure. The need for robust digital privacy measures has become crucial as the energy industry evolves towards a more decentralized, digitalized, and decarbonized future. This study delves into four cutting-edge privacy-preserving technologies—Homomorphic Encryption (HE), Secure Multiparty Computation (SMPC), Differential Privacy (DP), and Federated Learning (FL)—each offering unique solutions to safeguard consumer data by increasing digital connectivity and data exchange. Through a detailed examination of these methods, the study explains how each technology operates, its applications within the energy sector, and the specific privacy challenges it addresses. Homomorphic Encryption allows for secure computations on encrypted data, enabling data analysis without compromising privacy. Secure Multiparty Computation enables collaborative data analysis across different entities while protecting the confidentiality of the inputs. Differential Privacy introduces randomness into the assembled data set, preventing the identification of individual records in statistical databases. Lastly, Federated Learning offers a paradigm shift in data analysis, where machine learning models are trained at the edge, minimizing the centralization of sensitive data. The research underscores the significance of implementing these privacy-enhancing technologies to comply with strict data protection regulations, foster consumer trust, and enhance the security of the energy infrastructure. By providing a comprehensive overview of these methodologies and their practical implications for the energy sector, this study aims to contribute to the ongoing discourse on digital privacy, offering insights into how the energy industry can navigate the complexities of data privacy in the digital age.

Cali, Umit↗
DOE OSTI2023

The Challenges and Solutions of Meeting the Assembly Specifications for the 4.5 m Long MQXFA Magnets for the Hi-Luminosity LHC

The U.S. High-Luminosity LHC Accelerator Upgrade Project (HL-LHC AUP) has, in the recent years, developed assembly specifications for the 4.5 m long MQXFA magnets, which are 150 mm aperture high-field Nb 3 Sn low-β quadrupole magnets that are being built for the CERN Hi-Luminosity LHC (HL-LHC) upgrade. While the specifications were based on lessons learned from the LHC Accelerator Research Program (LARP) effort and the MQXFS and MQXFA prototype magnets, the experience gained from having both MQXFA07 and MQXFA08 magnets not meeting performance specifications during cold testing actually catalyzed a better understanding of the impact of the target assembly specifications and a subsequent refinement of the same. This paper summarizes a body of assembly data from the Pre-Series (MQXFA03-MQXFA07) and Series magnets (MQXFA08-MQXFA11) that have been built to date, and discusses the processes employed to successfully face the challenge of ensuring that the assembly specifications are met for the duration of the project.

43 PARTICLE ACCELERATORS↗
DOE OSTI2020

Distribution Development for Residual Inventory at the New York West Valley Site - 20400

The New York State Energy Research and Development Authority (NYSERDA) is the owner of the Western New York Nuclear Service Center (WNYNSC), a 1,351 ha site located approximately 48 km south of Buffalo, New York. In 1962, Nuclear Fuel Services, Inc. (NFS) entered into Agreements with the Atomic Energy Commission and New York State to construct the first commercial reprocessing plant of nuclear fuel in the United States. NFS, a private company, built and operated the spent fuel reprocessing plant and waste disposal facilities, processing 640 Mg of spent nuclear fuel from 1966 to 1972 under an Atomic Energy Commission license. Nuclear fuel reprocessing operations ended in 1972 and never reopened, leaving behind radioactive and chemical wastes. Operations led to contamination in a number of facilities and locations. Some of that contamination has migrated from waste disposal zones to other layers, formations, and features on and off the WNYNSC. Phase I decommissioning activities are ongoing and involve the removal of a number of areas and structures that have been associated with contamination. The purpose of this work is to outline the approach for characterizing contamination not associated with disposed wastes, contaminated structures, or specific releases. In this work, the term, residual radiological activity, is used to describe environmental contamination that exists subsequent to the completion of Phase I decommissioning activities, that is not associated with disposed wastes, contaminated structures, or specific releases. Contamination from the Site was quantified relative to data that characterize the concentrations of radionuclides that exist in background. Background concentrations are those present in the area but having no influence from Site related activities. The existence of residual radiological activity that is elevated relative to background has the potential to contribute to future risks to human health and the environment. As a consequence, the residual inventory information is used to inform the West Valley Probabilistic Performance Assessment (PPA) model to characterize potential future risks to human health and the environment. The centralized West Valley Data Management System (DMS) was the source of information for the data assembled in this analysis. The DMS is a fairly large compilation consisting of thousands of records from investigation studies, with sample dates ranging from 1990 to present. Samples from monitoring wells, boreholes, geoprobe studies, surface water, surface soils, storm water outfalls, ventilation stack filters, plant and animal tissues, and more are included in the DMS. Results are typically reported in units of activity per unit volume. For the purpose of the analyses presented here, all results were converted into consistent units of pCi per unit volume. Since 1990, data have been collected from various locations across the WNYNSC at different times with varying frequency over the course of several decades. As a consequence, a number of potential issues can arise with respect to the assembly of a dataset that is deemed adequate for the characterization of residual radiological activity. These issues were assessed and resolved to the extent possible through careful consideration of the properties of the distributions. The intent was to use data which characterize the current state of the Site. Radionuclides can be designated to one of several groups depending on their origin. In this work the groups considered were 1) Naturally Occurring Radioactive Material (NORM), 2) fallout, and 3) Other (including power plant, medical research, etc). This grouping is a useful construct with respect to the interpretation of fixed laboratory results. For example, NORM radionuclides that exist within a decay chain should have approximately equivalent distributions of concentrations if they are representative of background conditions. Insights such as these can be used as a check to identify sample results that need to be further investigated or omitted due to issues associated with reported results from fixed laboratory analyses. This type of analysis provided a foundation for the assessment of the adequacy of sample results for use in subsequent components of an assessment. The general process for the assessment of residual radiological contamination at the Site consists of a sequence of several steps. First, for each analyte, several statistical tests were performed to assess the weight of evidence against the null hypothesis that the mean of the distribution of concentrations was equal to zero. If the mean of the distribution of concentrations for a given radionuclide was not found to be greater than zero, then it was removed from consideration as a component of the residual radiological contamination. If there was significant evidence to reject the hypothesis of the mean being equal to zero, the second step was to compare the distribution of the data from the Site to that of the corresponding background. A suite of tests was used to compare the distributions of the site and background data. The results of these tests were collectively used to determine if site data are elevated relative to background. The third step was to develop distributions using a Bayesian framework to characterize the distribution of mean of the increment present above background for each of the radionuclides. The Bayesian model implemented allowed for the comparison of site-specific records to background concentrations to better approximate contamination attributed to the Site. A final screening step was employed for radionuclides that exceed background. This screening step compared 95% upper confidence limits (UCLs) from the increment distribution developed in the previous step to the risk screening levels. This approach yields a list of analytes that were determined to be elevated relative to background.

12 MANAGEMENT OF RADIOACTIVE AND NON-RADIOACTIVE W↗
DOE OSTI2023

Development and formulation of physics based metallic fuel models and comparison to integral irradiation data

Metallic fuel has an important historical significance in the development of nuclear reactors and continues to be relevant to the progression of advanced test and power reactors. A number of models, ranging from empirical to mechanistic, have been developed and implemented in various fuel performance codes to describe U-Zr and U-Pu-Zr fuel and typical fast reactor cladding materials. One challenge of using these models to simulate fuel performance is the inevitable tangling of coupled phenomena that can cloud proper implementation, calibration, and eventual utilization of new models. Here in an effort to provide a baseline capability that will facilitate the use of advanced models, new capabilities have been implemented into the fuel performance code BISON specific to metallic fuel simulations, ranging from materials properties, fission gas release and swelling calculations, coolant channel models, and cladding correlations. These models have been applied to the X441/X441A EBR-II experimental assembly data, a set of irradiated metallic UPuZr fuel rods of varying pin designs. The models implemented in BISON are able to capture the general trend of the expected response of the fuel and cladding to irradiation in EBR-II, especially when considering the spread in experimental measurements and the uncertainties inherited from the historical material models. Ultimately, the models outlined here provide the baseline capabilities on which new models can build upon in order to improve the prediction of metallic fuel performance simulations in off-normal designs or operations.

11 NUCLEAR FUEL CYCLE AND FUEL MATERIALS↗
DOE OSTI2022

Multi-crystal native-SAD phasing at 5 keV with a helium environment

De novo structure determination from single-wavelength anomalous diffraction using native sulfur or phospho­rus in biomolecules (native-SAD) is an appealing method to mitigate the labor-intensive production of heavy-atom derivatives and seleno­methio­nyl substitutions. The native-SAD method is particularly attractive for membrane proteins, which are difficult to produce and often recalcitrant to grow into decent-sized crystals. Native-SAD uses lower-energy X-rays to enhance anomalous signals from sulfur or phospho­rus. However, at lower energies, the scattering and absorption of air contribute to the background noise, reduce the signals and are thus adverse to native-SAD phasing. We have previously demonstrated native-SAD phasing at an energy of 5 keV in air at the NSLS-II FMX beamline. Here, the use of a helium path developed to reduce both the noise from background scattering and the air absorption of the diffracted X-ray beam are described. The helium path was used for collection of anomalous diffraction data at 5 keV for two proteins: thaumatin and the membrane protein TehA. Although anomalous signals from each individual crystal are very weak, robust anomalous signals are obtained from data assembled from micrometre-sized crystals. The thaumatin structure was determined from 15 microcrystals and the TehA structure from 18 microcrystals. These results demonstrate the usefulness of a helium environment in support of native-SAD phasing at 5 keV.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2021

YAHFC: A Code Framework to Model Nuclear Reactions and Estimate Correlated Uncertainties

Reaction modeling is a key ingredient in designing experiments and interpreting their results, and is an essential component in the process of evaluating nuclear data and assembling nuclear data libraries used in nuclear technology applications. Typically, experimental data are available only for a handful of reaction channels and theory models are used to fill in the gaps. In addition, theory is often called upon as the arbitrator between discrepant data. Most importantly, theory and modeling are required for an accurate determination of uncertainties in the evaluated data and the correlations between the multiple channels. A fast, accurate, and flexible modeling capability has been developed at LLNL with the code system YAHFC (Yet Another Hauser-Feshbach Code). YAHFC is a Monte Carlo, Hauser-Feshbach code framework, making full use of dynamic memory allocation, derived types, and parallel computing. YAHFC can generate events to simulate experiments and is guiding experiments designed to measure inelastic neutron scattering from actinide targets. YAHFC is also being used to analyze decays from surrogate experiments, thereby enabling the inference of reaction cross sections inaccessible by direct measurement. Finally, by modeling nuclear reactions with constraints from experimental data, YAHFC can deliver complete nuclear data libraries, with evaluated uncertainties, using the modernized Generalized Nuclear Data Structure (GNDS).

73 NUCLEAR PHYSICS AND RADIATION PHYSICS↗
DOE OSTI2025

HRMT-67 Radiate II Material Studies

This poster covers the current status of the HRMT-67 experiment conducted in August of 2025. The poster contains information on the scientific motivation, experimental assembly, data acquisition methods including some data that was recorded as reference, and the next steps for the experiment concerning Post Irradiation Examination (PIE) work.

Peterson, Q. [Fermilab]↗
DOE OSTI2021

A consensus-based ensemble approach to improve transcriptome assembly

Systems-level analyses, such as differential gene expression analysis, co-expression analysis, and metabolic pathway reconstruction, depend on the accuracy of the transcriptome. Multiple tools exist to perform transcriptome assembly from RNAseq data. However, assembling high quality transcriptomes is still not a trivial problem. This is especially the case for non-model organisms where adequate reference genomes are often not available. Different methods produce different transcriptome models and there is no easy way to determine which are more accurate. Furthermore, having alternative-splicing events exacerbates such difficult assembly problems. While benchmarking transcriptome assemblies is critical, this is also not trivial due to the general lack of true reference transcriptomes. In this study, we first provide a pipeline to generate a set of the simulated benchmark transcriptome and corresponding RNAseq data. Using the simulated benchmarking datasets, we compared the performance of various transcriptome assembly approaches including both de novo and genome-guided methods. The results showed that the assembly performance deteriorates significantly when alternative transcripts (isoforms) exist or for genome-guided methods when the reference is not available from the same genome. To improve the transcriptome assembly performance, leveraging the overlapping predictions between different assemblies, we present a new consensus-based ensemble transcriptome assembly approach, ConSemble. Without using a reference genome, ConSemble using four de novo assemblers achieved an accuracy up to twice as high as any de novo assemblers we compared. When a reference genome is available, ConSemble using four genome-guided assemblies removed many incorrectly assembled contigs with minimal impact on correctly assembled contigs, achieving higher precision and accuracy than individual genome-guided methods. Furthermore, ConSemble using de novo assemblers matched or exceeded the best performing genome-guided assemblers even when the transcriptomes included isoforms. We thus demonstrated that the ConSemble consensus strategy both for de novo and genome-guided assemblers can improve transcriptome assembly. The RNAseq simulation pipeline, the benchmark transcriptome datasets, and the script to perform the ConSemble assembly are all freely available from: http://bioinfolab.unl.edu/emlab/consemble/.

59 BASIC BIOLOGICAL SCIENCES↗