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At least 19 records

Etched Silicon Planar CRL Optics for the High-Energy X-ray Diffraction Beamlines 11-ID-B and 11-ID-C at the APS

We report the focusing of high-energy X-rays is most commonly achieved by commercially available compound refractive lenses (CRL), which are added together in larger structures. There is a need for high-energy X-ray beamlines to enable focusing in only one dimension down to a few micrometers to study layered materials and thin films. High-energy X-rays above 50 keV require often 100 lenses or more, therefore it is more efficient to etch the complete arrays of lenses into a monolithic substrate like a silicon wafer. Custom lens arrays were fabricated for the high-energy x-ray beamlines 11-ID-B, and 11-ID-C at the Argonne National Laboratory. The fabrication required tuning parameters of the Bosch process to optimize the etching of deep vertical sidewalls at a reasonable speed without overheating. The beamline 11-ID-B is equipped with lens arrays of 85-110 lenses for 59 keV and 190-250 lenses for 87 keV photon energy, focusing the beam vertically below 5.0 µm at the sample positions between 1600 mm to 2100 mm. 11-ID-C has received arrays of 435 lenses that focus 106 keV X-rays to a vertical height of 2.0 µm at the sample position. In both cases, the flux density gain in the focal spot is larger than a factor of 20, relative to using slits to cut the beam size. The lens setup is permanently installed and can be moved in and out of the beam during the experiment without further alignment. The lenses have enabled operando diffraction studies on interfaces in batteries and the development of pair distribution function (PDF) analysis using grazing incidence geometry.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗

International DORIS Service (IDS): The IDS at 20 and the IVS at 25; Together on a Long Journey

This is an invited presentation to the the IVS General Meeting 2024 to celebrate the 25th anniversary of the International VLBI Service (IVS). The presentation shares aspects of the common journey of the International DORIS Service (IDS), and IVS over the last 20 years, as sibling services of the International Association of Geodesy, and as space geodetic techniques that contribute to the International Terrestrial Reference Frame (ITRF).

DORIS↗

Id expression in amphioxus and lamprey highlights the role of gene cooption during neural crest evolution

Neural crest cells are unique to vertebrates and generate many of the adult structures that differentiate them from their closest invertebrate relatives, the cephalochordates. Id genes are robust markers of neural crest cells at all stages of development. We compared Id gene expression in amphioxus and lamprey to ask if cephalochordates deploy Id genes at the neural plate border and dorsal neural tube in a manner similar to vertebrates. Furthermore, we examined whether Id expression in these cells is a basal vertebrate trait or a derived feature of gnathostomes. We found that while expression of Id genes in the mesoderm and endoderm is conserved between amphioxus and vertebrates, expression in the lateral neural plate border and dorsal neural tube is a vertebrate novelty. Furthermore, expression of lamprey Id implies that recruitment of Id genes to these cells occurred very early in the vertebrate lineage. Based on expression in amphioxus we postulate that Id cooption conferred sensory cell progenitor-like properties upon the lateral neurectoderm, and pharyngeal mesoderm-like properties upon cranial neural crest. Amphioxus Id expression is also consistent with homology between the anterior neurectoderm of amphioxus and the presumptive placodal ectoderm of vertebrates. These observations support the idea that neural crest evolution was driven in large part by cooption of multipurpose transcriptional regulators from other tissues and cell types.

NASA Program Fundamental Space Biology↗

CFM-ID 4.0 – a web server for accurate MS-based metabolite identification

The CFM-ID 4.0 web server (https://cfmid.wishartlab.com) is an online tool for predicting, annotating and interpreting tandem mass (MS/MS) spectra of small molecules. It is specifically designed to assist researchers pursuing studies in metabolomics, exposomics and analytical chemistry. More specifically, CFM-ID 4.0 supports the: 1) prediction of electrospray ionization quadrupole time-of-flight tandem mass spectra (ESI-QTOF-MS/MS) for small molecules over multiple collision energies (10 eV, 20 eV, and 40 eV); 2) annotation of ESI-QTOF-MS/MS spectra given the structure of the compound; and 3) identification of a small molecule that generated a given ESI-QTOF-MS/MS spectrum at one or more collision energies. The CFM-ID 4.0 web server makes use of a substantially improved MS fragmentation algorithm, a much larger database of experimental and in silico predicted MS/MS spectra and improved scoring methods to offer more accurate MS/MS spectral prediction and MS/MS-based compound identification. Compared to earlier versions of CFM-ID, this new version has an MS/MS spectral prediction performance that is ~22% better and a compound identification accuracy that is ~35% better on a standard (CASMI 2016) testing dataset. CFM-ID 4.0 also features a neutral loss function that allows users to identify similar or substituent compounds where no match can be found using CFM-ID’s regular MS/MS-to-compound identification utility. Finally, the CFM-ID 4.0 web server now offers a much more refined user interface that is easier to use, supports molecular formula identification (from MS/MS data), provides more interactively viewable data (including proposed fragment ion structures) and displays MS mirror plots for comparing predicted with observed MS/MS spectra. These improvements should make CFM-ID 4.0 much more useful to the community and should make small molecule identification much easier, faster, and more accurate.

59 BASIC BIOLOGICAL SCIENCES↗

A comprehensive guide to CAN IDS data and introduction of the ROAD dataset

Although ubiquitous in modern vehicles, Controller Area Networks (CANs) lack basic security properties and are easily exploitable. A rapidly growing field of CAN security research has emerged that seeks to detect intrusions or anomalies on CANs. Producing vehicular CAN data with a variety of intrusions is a difficult task for most researchers as it requires expensive assets and deep expertise. To illuminate this task, we introduce the first comprehensive guide to the existing open CAN intrusion detection system (IDS) datasets. We categorize attacks on CANs including fabrication (adding frames, e.g., flooding or targeting and ID), suspension (removing an ID’s frames), and masquerade attacks (spoofed frames sent in lieu of suspended ones). We provide a quality analysis of each dataset; an enumeration of each datasets’ attacks, benefits, and drawbacks; categorization as real vs. simulated CAN data and real vs. simulated attacks; whether the data is raw CAN data or signal-translated; number of vehicles/CANs; quantity in terms of time; and finally a suggested use case of each dataset. State-of-the-art public CAN IDS datasets are limited to real fabrication (simple message injection) attacks and simulated attacks often in synthetic data, lacking fidelity. In general, the physical effects of attacks on the vehicle are not verified in the available datasets. Only one dataset provides signal-translated data but is missing a corresponding “raw” binary version. This issue pigeon-holes CAN IDS research into testing on limited and often inappropriate data (usually with attacks that are too easily detectable to truly test the method). The scarcity of appropriate data has stymied comparability and reproducibility of results for researchers. As our primary contribution, we present the Real ORNL Automotive Dynamometer (ROAD) CAN IDS dataset, consisting of over 3.5 hours of one vehicle’s CAN data. ROAD contains ambient data recorded during a diverse set of activities, and attacks of increasing stealth with multiple variants and instances of real (i.e. non-simulated) fuzzing, fabrication, unique advanced attacks, and simulated masquerade attacks. To facilitate a benchmark for CAN IDS methods that require signal-translated inputs, we also provide the signal time series format for many of the CAN captures. Our contributions aim to facilitate appropriate benchmarking and needed comparability in the CAN IDS research field.

97 MATHEMATICS AND COMPUTING↗

CFM-ID 4.0: More Accurate ESI MS/MS Spectral Prediction and Compound Identification

In the field of metabolomics, mass spectrometry (MS) is the method most commonly used for identifying and annotating metabolites. As this typically involves matching a given MS spectrum against an experimentally acquired reference spectral library, this approach is limited by the coverage and size of such libraries (which typically number in the thousands). These experimental libraries can be greatly extended by predicting the MS spectra of known chemical structures (which number in the millions) to create computational reference spectral libraries. To facilitate the generation of predicted spectral reference libraries we developed CFM-ID, a computer program that can accurately predict ESI-MS/MS spectrum for a given compound structure. CFM-ID is one of the best-performing methods for compound-to-mass-spectrum prediction, and also one of the top tools for in silico mass-spectrum-to-compound identification. This work improves CFM-ID’s ability to predict ESI-MS/MS spectra from compounds by: (1) learning parameters from features based on the molecular topology, (2) adding a new approach to ring cleavage that models such cleavage as a sequence of simple chemical bond dissociations and (3) expanding its hand-written rule-based predictor to cover more chemical classes, including acylcarnitines, acylcholines, flavonols, flavones, flavanones, and flavonoid glycosides. We demonstrate that this new version of CFM-ID (version 4.0) is significantly more accurate than previous CFM-ID versions, in terms of both EI-MS/MS spectral prediction and compound identification. CFM-ID 4.0 is available at http://cfmid4.wishartlab.com/ as a webservice and docker images can be downloaded at https://hub.docker.com/r/wishartlab/cfmid

Wang, Fei↗

SpaceWire Protocol ID: What Does It Mean To You?

Spacewire is becoming a popular solution for satellite high-speed data buses because it is a simple standard that provides great flexibility for a wide range of system requirements. It is simple in packet format and protocol, allowing users to easily tailor their implementation for their specific application. Some of the attractive aspects of Spacewire that make it easy to implement also make it hard for future reuse. Protocol reuse is difficult because Spacewire does not have a defined mechanism to communicate with the higher layers of the protocol stack. This has forced users of Spacewire to define unique packet formats and define how these packets are to be processed. Each mission writes their own Interface Control Document (ICD) and tailors Spacewire for their specific requirements making reuse difficult. Part of the reason for this habit may be because engineers typically optimize designs for their own requirements in the absence of a standard. This is an inefficient use of project resources and costs more to develop missions. A new packet format for Spacewire has been defined as a solution for this problem. This new packet format is a compliment to the Spacewire standard that will support protocol development upon Spacewire. The new packet definition does not replace the current packet structure, i.e., does not make the standard obsolete, but merely extends the standard for those who want to develop protocols over Spacewire. The Spacewire packet is defined with the first part being the Destination Address, which may be one or more bytes. This is followed by the packet cargo, which is user defined. The cargo is truncated with an End-Of-Packet (EOP) marker. This packet structure offers low packet overhead and allows the user to define how the contents are to be formatted. It also provides for many different addressing schemes, which provide flexibility in the system. This packet flexibility is typically an attractive part of the Spacewire. The new extended packet format adds one new field to the packet that greatly enhances the capability of Spacewire. This new field called the Protocol Identifier (ID) is used to identify the packet contents and the associated processing for the packet. This feature along with the restriction in the packet format that uses the Protocol ID, allows a deterministic method of decoding packets that was not before possible. The first part of the packet is still the Destination Address, which still conforms to the original standard but with one restriction. The restriction is that the first byte seen at the destination by the user needs to be a logical address, independent of the addressing scheme used. The second field is defined as the Protocol ID, which is usually one byte in length. The packet cargo (user defined) follows the Protocol ID. After the packet cargo is the EOP, which defines the end of packet. The value of the Protocol ID is assigned by the Spacewire working group and the protocol description published for others to use. The development of Protocols for Spacewire is currently the area of greatest activity by the Spacewire working group. The first protocol definition by the working group has been completed and is now in the process of formal standardization. There are many other protocols in development for missions that have not yet received formal Protocol ID assignment, but even if the protocols are not formally assigned a value, this effort will provide synergism for future developments.

Rakow, Glenn↗

Evaluating lightweight unsupervised online IDS for masquerade attacks in CAN

Vehicular controller area networks (CANs) are susceptible to masquerade attacks by malicious adversaries. In masquerade attacks, adversaries silence a targeted ID and then send malicious frames with forged content at the expected timing of benign frames. As masquerade attacks could seriously harm vehicle functionality and are the stealthiest attacks to detect in CAN, recent work has devoted attention to compare frameworks for detecting masquerade attacks in CAN. However, most existing works report offline evaluations using CAN logs already collected using simulations that do not comply with the domain’s real-time constraints. Here we contribute to advance the state of the art by presenting a comparative evaluation of four different non-deep learning (DL)-based unsupervised online intrusion detection systems (IDS) for masquerade attacks in CAN. Our approach differs from existing comparative evaluations in that we analyze the effect of controlling streaming data conditions in a sliding window setting. In doing so, we use realistic masquerade attacks being replayed from the ROAD dataset. We show that although evaluated IDS are not effective at detecting every attack type, the method that relies on detecting changes in the hierarchical structure of clusters of time series produces the best results at the expense of higher computational overhead. We discuss limitations, open challenges, and how the evaluated methods can be used for practical unsupervised online CAN IDS for masquerade attacks.

Anomaly detection↗

FUSARIUM-ID v.3.0: An Updated, Downloadable Resource for Fusarium Species Identification

Species within Fusarium are of global agricultural, medical, and food/feed safety concern and have been extensively characterized. However, accurate identification of species is challenging and usually requires DNA sequence data. FUSARIUM-ID ( http://isolate.fusariumdb.org/blast.php ) is a publicly available database designed to support the identification of Fusarium species using sequences of multiple phylogenetically informative loci, especially the highly informative ~680-bp 5' portion of the translation elongation factor 1-alpha (TEF1) gene that has been adopted as the primary barcoding locus in the genus. However, FUSARIUM-ID v.1.0 and 2.0 had several limitations, including inconsistent metadata annotation for the archived sequences and poor representation of some species complexes and marker loci. Here, we present FUSARIUM-ID v.3.0, which provides the following improvements: (i) additional and updated annotation of metadata for isolates associated with each sequence, (ii) expanded taxon representation in the TEF1 sequence database, (iii) availability of the sequence database as a downloadable file to enable local BLAST queries, and (iv) a tutorial file for users to perform local BLAST searches using either freely available software, such as SequenceServer, BLAST+ executable in the command line, and Galaxy, or the proprietary Geneious software. FUSARIUM-ID will be updated on a regular basis by archiving sequences of TEF1 and other loci from newly identified species and greater in-depth sampling of currently recognized species.

Plant Sciences↗

Earth observing system. Output data products and input requirements, version 2.0. Volume 2: Analysis of IDS input requirements

On 18 Jan. 1991, NASA confirmed 29 Inter-Disciplinary Science (IDS) teams, each involving a group of investigators, to conduct interdisciplinary research using data products from Earth Observing System (EOS) instruments. These studies are multi-disciplinary and require output data products from multiple EOS instruments, including both FI and PI instruments. The purpose of this volume is to provide information on output products expected from IDS investigators, required input data, and retrieval algorithms. Also included in this volume is the revised analysis of the 'best' and 'alternative' match data products for IDS input requirements. The original analysis presented in the August 1991 release of the SPSO Report was revised to incorporate the restructuring of the EOS platform. As a result of the reduced EOS payload, some of EOS instruments were deselected and their data products would not be available for IDS research. Information on these data products is also presented.

Lu, Yun-Chi↗

Uncertainty evaluation in reference material characterization by double isotope dilution inductively coupled plasma mass spectrometry (ID-ICP-MS)

Double isotope dilution inductively coupled plasma mass spectrometry (ID-ICP-MS) is one of the most important measurement methods in the establishment of measurement standards for inorganic analysis. However, there is still no good consensus on approaches for uncertainty evaluation in double ID-ICP-MS. Particularly, approaches to treating the instrumental isotopic fractionation (IIF) phenomenon and correlation between uncertainty sources are diverse and often unclear in the literature. Here, an approach for uncertainty evaluation in double ID-ICP-MS measurements is described. Using three certified reference materials (CRMs), it is shown that the IIF effects cancel out and should not be included in the uncertainty budget. Further, a consistent way of considering correlated sources of uncertainty to prevent double counting of uncertainties is described in detail along with an example of measuring the mass fraction of magnesium in an oyster powder CRM.

46 INSTRUMENTATION RELATED TO NUCLEAR SCIENCE AND ↗

eBPF Community ID Calculation

The code titled “eBPF Community ID Calculation” allows easy correlation of monitoring logs with existing network forensics logs on high-performance computing (HPC) systems. This code implements the Community ID Flow Hashing standard to calculate community ID Flow identifiers. These identifiers will be used to correlate host forensics logs with network forensics logs. The correlation provides valuable insight and the ability to easily pivot between disparate data sources. The computer code removes the libpcap dependency from the code base.

Maerz, StefanA↗

The International DORIS Service (IDS) - Recent Developments in Preparation for ITRF2013

The International DORIS Service (IDS) was created in 2003 under the umbrella of the International Association of Geodesy (IAG) to foster scientific research related to the French DORIS tracking system and to deliver scientific products, mostly related to the International Earth rotation and Reference systems Service (IERS). We first present some general background related to the DORIS system (current and planned satellites, current tracking network and expected evolution) and to the general IDS organization (from Data Centers, Analysis Centers and Combination Center). Then, we discuss some of the steps recently taken to prepare the IDS submission to ITRF2013 (combined weekly time series based on individual solutions from several Analysis Centers). In particular, recent results obtained from the Analysis Centers and the Combination Center show that improvements can still be made when updating physical models of some DORIS satellites, such as Envisat, Cryosat-2 or Jason-2. The DORIS contribution to ITRF2013 should also benefit from the larger number of ground observations collected by the last generation of DGXX receivers (first instrument being onboard Jason-2 satellite). In particular for polar motion, sub-millarcsecond accuracy seems now to be achievable. Weekly station positioning internal consistency also seems to be improved with a larger DORIS constellation.

tracking↗

Horizontal and Vertical Velocities Derived from the IDS Contribution to ITRF2014, and Comparisons with Geophysical Models

In the context of the 2014 realization of the International Terrestrial Reference Frame (ITRF2014), the International DORIS Service (IDS) has delivered to the IERS a set of 1140 weekly SINEX files including station coordinates and Earth orientation parameters, covering the time period from 1993.0 to 2015.0. From this set of weekly SINEX files, the IDS Combination Center estimated a cumulative DORIS position and velocity solution to obtain mean horizontal and vertical motion of 160 stations at 71 DORIS sites. The main objective of this study is to validate the velocities of the DORIS sites by comparison with external models or time series. Horizontal velocities are compared with two recent global plate models (GEODVEL 2010 and NNR-MORVEL56). Prior to the comparisons, DORIS horizontal velocities were corrected for Global Isostatic Adjustment (GIA) from the ICE-6G (VM5a) model. For more than half of the sites, the DORIS horizontal velocities differ from the global plate models by less than 2-3 mm/yr. For five of the sites (Arequipa, Dionysos/Gavdos, Manila, Santiago) with horizontal velocity differences wrt these models larger than 10 mm/yr, comparisons with GNSS estimates show the veracity of the DORIS motions. Vertical motions from the DORIS cumulative solution are compared with the vertical velocities derived from the latest GPS cumulative solution over the time span 1995.0-2014.0 from the University of La Rochelle (ULR6) solution at 31 co-located DORIS-GPS sites. These two sets of vertical velocities show a correlation coefficient of 0.83. Vertical differences are larger than 2 mm/yr at 23 percent of the sites. At Thule the disagreement is explained by fine-tuned DORIS discontinuities in line with the mass variations of outlet glaciers. Furthermore, the time evolution of the vertical time series from the DORIS station in Thule show similar trends to the GRACE equivalent water height.

DORIS↗

Time-Based CAN IDS Paper Results Code

Modern vehicles are complex cyber-physical systems made of hundreds of electronic control units (ECUs) that communicate over controller area networks (CANs). This inherited complexity has expanded the CAN attack surface which is vulnerable to message injection attacks. These injections change the overall timing characteristics of messages on the bus, and thus, to detect these malicious messages, time-based intrusion detection systems (IDSs) have been proposed. However, time-based IDSs are usually trained and tested on low-fidelity datasets with unrealistic, labeled attacks. This makes difficult the task of evaluating, comparing, and validating IDSs. Here we detail and benchmark four time-based IDSs against the newly published ROAD dataset, the first open CAN IDS dataset with real (non-simulated) stealthy attacks with physically verified effects. We found that methods that perform hypothesis testing by explicitly estimating message timing distributions have lower performance than methods that seek anomalies in a distribution related statistic. In particular, these “distribution-agnostic” based methods outperform “distribution-based” methods by at least 55% in area under the precision-recall curve (AUC-PR). Our results expand the body of knowledge of CAN time-based IDSs by providing details of these methods and reporting their results when tested on datasets with real advanced attacks. Finally, we develop an after-market plug-in detector using lightweight hardware, which can be used to deploy the best performing IDS method on nearly any vehicle.

Moriano, Pablo [Oak Ridge National Lab. (ORNL), Oa↗

A New Experimental Station for Liquid Interface X-Ray Scattering At NSLS-II Beamline 12-ID

Open Platform and Liquids Scattering (OPLS) is a new experimental station recently built and currently being commissioned at the Soft Matter Interfaces (SMI) beamline 12-ID at NSLS-II. The new instrument expands SMI’s beamline scientific capabilities via the addition of X-ray scattering techniques from liquid surfaces and interfaces. The design of this new instrument, located inside the 12-ID beamline shielding enclosure (hutch B), is based on a single Ge (111) crystal deflector, which bounces the incident x-ray beam downward towards a liquid sample which must be maintained in a horizontal orientation (gravity-driven consideration). The OPLS instrument has a variable deflector-to-sample distance ranging from 0.6 m to 1.5 m. X-ray detectors are mounted on a 2-theta scattering arm located downstream of the sample location. The 2-theta arm is designed to hold up to three X-ray detectors, with fixed 2-theta angular offsets, each dedicated to a different X-ray technique such as X-ray reflectivity, grazing-incidence X-ray scattering, and small- and wide-angle X-ray scattering. Currently, the OPLS experimental station intercepts the SMI beam that otherwise propagates to the experimental endstation located in hutch C and can be retracted to a ’parking’ position laterally out of this beam to allow installation of a removable beam pipe that is needed to support operations in hutch C. The design of OPLS is flexible enough to quickly adapt to a planned future configuration of the SMI beamline in which a OPLS is illuminated separately from the main SMI branch via a second, canted undulator source and a separate photon delivery system. In this future configuration, both branches will be able to operate independently and simultaneously.

36 MATERIALS SCIENCE↗

The reactions of O(ID) and OH with CH3OH, oxidation of the HCO radial, and the photochemical oxidation of formaldehyde

An experimental, laboratory study of the various photochemical reactions that can occur in the mesosphere and stratosphere is presented. N2O was photolyzed at 2139 A in the presence of CH3OH and CO. The O(id) produced in the photolysis reacted with CH3OH to produce OH radicals, and thus the reactions of both O(id) and OH were able to be studied. Also considered was the oxidation of the HCO radical. Mixtures of Cl2, O2, H2CO, and sometimes N2 or He were irradiated at 3660 A at several temperatures to photodecompose the Cl2. The photochemical oxidation of formaldehyde was studied as follows: formaldehyde in the presence of N2 and/or O2 (usually dry air) was photolyzed with a medium pressure Hg lamp used in conjunction with various filters which transmit different relative amounts of Hg lines from 2894 A to 3660 A. Results are presented and discussed, along with a description of experimental procedures and apparatus, and chemical reaction kinetics.

Osif, T. L.↗

Allowable silicon wafer thickness versus diameter for ingot rotation ID wafering

Inner diameter (ID) wafering of ingot rotation reduce the ID saw blade diameter was investigated. The blade thickness can be reduced, resulting in minimal kerf loss. However, significant breakage of wafers occurs during the rotation wafering as the wafer thickness decreases. Fracture mechanics was used to develop an equation relating wafer thickness, diameter and fracture behavior at the point of fracture by using a model of a wafer, supported by a center column and subjected to a cantilever force. It is indicated that the minimum allowable wafer thickness does not increase appreciably with increasing wafer diameter and that fracture through the thickness rather than through the center supporting column limits the minimum allowable wafer thickness. It is suggested that the minimum allowable wafer thickness can be reduced by using a vacuum chuck on the wafer surface to enhance cleavage fracture of the center core and by using 111 ingots.

Chen, C. P.↗