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At least 109 records · Page 6

SpectraCodec: A Hilbert curve-based method for encoding metadata in mass spectra for machine learning applications (SpectraCodec) v1

Machine learning approaches to mass spectrometry (MS) data analysis require structured metadata for optimal performance. However, current MS file formats necessitate external metadata sources, creating integration challenges that impede analytical workflows. Here, we present a novel approach for encoding metadata directly within mzML files using one-hot encoding of ASCII characters mapped via Hilbert space-filling curves. This strategy embeds metadata in the first spectrum's m/z-intensity space, ensuring persistence with the primary data, eliminating the need for external metadata files, and maintaining compatibility with existing MS software. We demonstrate that the Hilbert curve mapping efficiently utilizes the two-dimensional spectral space while maintaining robust data recovery. This method offers a practical solution for machine learning applications in mass spectrometry by ensuring metadata and spectral data remain unified through all stages of analysis.

Bowen, Benjamin [Lawrence Berkeley National Labora

Data for "Anti-Pdc1p Nanobody as a Genetically Encoded Inhibitor of Ethanol Production Enables Dual Transcriptional and Post-translational Controls of Yeast Fermentations"

Microbial fermentation provides a sustainable method of producing valuable chemicals. Adding dynamic control to fermentations can significantly improve titers, but most systems rely on transcriptional controls of metabolic enzymes, leaving existing intracellular enzymes unregulated. This limits the ability of transcriptional controls to switch off metabolic pathways, especially when metabolic enzymes have long half-lives. We developed a two-layer transcriptional/post-translational control system for yeast fermentations. Specifically, the system uses blue light to transcriptionally activate the major pyruvate decarboxylase PDC1 , required for cell growth and concomitant ethanol production. Switching to darkness transcriptionally inactivates PDC1 and instead activates the anti-Pdc1p nanobody, NbJRI, to act as a genetically encoded inhibitor of Pdc1p accumulated during the growth phase. This dual transcriptional/post-translational control improves the production of 2,3-BDO and citramalate by up to 100 and 92% compared to using transcriptional controls alone in dynamic two-phase fermentations. This study establishes the NbJRI nanobody as an effective genetically encoded inhibitor of Pdc1p that can enhance the production of pyruvate-derived chemicals.

metabolic engineering

Quantum Information Encoding and Decoding for Quantum Sensi

This two-year theory project focused on theoretical investigations of novel paradigms for quantum sensing, building on information encoding and techniques from quantum error correction, quantum computing and other quantum information domains. The outcomes facilitate quantum information technology development, especially at the interface of quantum computing and quantum sensing. The results of the project show new use cases and new paradigms for quantum sensing beyond what has so far been considered. One outcome shows how quantum sensing opens new opportunities for fundamental physics such as the capability of single graviton detection. Another outcome reveals a new application of NISQ quantum computers with error correction for metrology, building on recent advances in practical quantum error correction implementation. The third outcome of the project creates new paradigms of back-action-evading sensing inspired by collective quantum information encoding, which achieves quantum sensing beyond the quantum limit without the use of entanglement.

71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC

Block encoding bosons by signal processing

Block Encoding (BE) is a crucial subroutine in many modern quantum algorithms, including those with near-optimal scaling for simulating quantum many-body systems, which often rely on Quantum Signal Processing (QSP). Currently, the primary methods for constructing BEs are the Linear Combination of Unitaries (LCU) and the sparse oracle approach. In this work, we demonstrate that QSP-based techniques, such as Quantum Singular Value Transformation (QSVT) and Quantum Eigenvalue Transformation for Unitary Matrices (QETU), can themselves be efficiently utilized for BE implementation. Specifically, we present several examples of using QSVT and QETU algorithms, along with their combinations, to block encode Hamiltonians for lattice bosons, an essential ingredient in simulations of high-energy physics. We also introduce a straightforward approach to BE based on the exact implementation of Linear Operators Via Exponentiation and LCU (LOVE-LCU). We find that, while using QSVT for BE results in the best asymptotic gate count scaling with the number of qubits per site, LOVE-LCU outperforms all other methods for operators acting on up to qubits, highlighting the importance of concrete circuit constructions over mere comparisons of asymptotic scalings. Using LOVE-LCU to implement the BE, we simulate the time evolution of single-site and two-site systems in the lattice theory using the Generalized QSP algorithm and compare the gate counts to those required for Trotter simulation.

Kane, Christopher F

ReLU, Sparseness, and the Encoding of Optic Flow in Neural Networks

Accurate self-motion estimation is critical for various navigational tasks in mobile robotics. Optic flow provides a means to estimate self-motion using a camera sensor and is particularly valuable in GPS- and radio-denied environments. The present study investigates the influence of different activation functions—ReLU, leaky ReLU, GELU, and Mish—on the accuracy, robustness, and encoding properties of convolutional neural networks (CNNs) and multi-layer perceptrons (MLPs) trained to estimate self-motion from optic flow. Our results demonstrate that networks with ReLU and leaky ReLU activation functions not only achieved superior accuracy in self-motion estimation from novel optic flow patterns but also exhibited greater robustness under challenging conditions. The advantages offered by ReLU and leaky ReLU may stem from their ability to induce sparser representations than GELU and Mish do. Our work characterizes the encoding of optic flow in neural networks and highlights how the sparseness induced by ReLU may enhance robust and accurate self-motion estimation from optic flow.

97 MATHEMATICS AND COMPUTING

Hall effect encoding of brushless dc motors

Encoding mechanism integral to the motor and using the permanent magnets embedded in the rotor eliminates the need for external devices to encode information relating the position and velocity of the rotating member.

Berard, C. A.

A roll-pitch interaction simulator and a control position command encoder for remote piloting of spin-entry research models

The Langley Research Center uses radio-controlled, scaled aircraft models to study the spin-entry characteristics of aircraft. Recent spin-entry studies required the use of an electronic proportional-control system for manipulating model control surfaces. In order to meet control system requirements, a special-purpose analog computer was designed to simulate the coupling between roll and pitch controls. A digital encoder was designed to encode the voltage analogs of control-surface position into a special pulse format for transmission to the model. This paper describes the two special developments and their relationship to the functions of the overall control system.

Meissner, C. W., Jr.

The correlation of the output of a binary convolutional encoder

In this paper we discuss the correlation properties of the output of a binary convolutional encoder. We consider both random statistically independent inputs and first-order Markov inputs. It is shown that for random inputs, the ensemble average of the product of the outputs of a convolutional encoder taken two at a time is always either 0 or 1, and that for almost all good codes the ensemble average is always 0.

Braff, M.

The VLSI design of a Reed-Solomon encoder using Berlekamps bit-serial multiplier algorithm

Realization of a bit-serial multiplication algorithm for the encoding of Reed-Solomon (RS) codes on a single VLSI chip using NMOS technology is demonstrated to be feasible. A dual basis (255, 223) over a Galois field is used. The conventional RS encoder for long codes ofter requires look-up tables to perform the multiplication of two field elements. Berlekamp's algorithm requires only shifting and exclusive-OR operations.

Truong, T. K.

NRZ Data Asymmetry Corrector and Convolutional Encoder

Circuit compensates for timing, amplitude and symmetry perturbations. Data asymmetry corrector and convolutional encoder regenerate data and clock signals in spite of signal variations such as data or clock asymmetry, phase errors, and amplitude variations, then encode data for transmission.

Pfiffner, H. J.

The Reed-Solomon encoders: Conventional versus Berlekamp's architecture

Concatenated coding was adopted for interplanetary space missions. Concatenated coding was employed with a convolutional inner code and a Reed-Solomon (RS) outer code for spacecraft telemetry. Conventional RS encoders are compared with those that incorporate two architectural features which approximately halve the number of multiplications of a set of fixed arguments by any RS codeword symbol. The fixed arguments and the RS symbols are taken from a nonbinary finite field. Each set of multiplications is bit-serially performed and completed during one (bit-serial) symbol shift. All firmware employed by conventional RS encoders is eliminated.

Perlman, M.

A VLSI implementation of a multicode convolutional encoder

A VLSI architecture and layout for a convolutional encoder is described. This architecture allows a single chip implementation of an encoder that is capable of handling many different convolutional codes including all the convolutional codes that are presently used for deep space missions.

Deutsch, L. J.

Frequency encoded auditory display of the critical tracking task

The use of auditory displays for selected cockpit instruments was examined. In auditory, visual, and combined auditory-visual compensatory displays of a vertical axis, critical tracking task were studied. The visual display encoded vertical error as the position of a dot on a 17.78 cm, center marked CRT. The auditory display encoded vertical error as log frequency with a six octave range; the center point at 1 kHz was marked by a 20-dB amplitude notch, one-third octave wide. Asymptotic performance on the critical tracking task was significantly better when using combined displays rather than the visual only mode. At asymptote, the combined display was slightly, but significantly, better than the visual only mode. The maximum controllable bandwidth using the auditory mode was only 60% of the maximum controllable bandwidth using the visual mode. Redundant cueing increased the rate of improvement of tracking performance, and the asymptotic performance level. This enhancement increases with the amount of redundant cueing used. This effect appears most prominent when the bandwidth of the forcing function is substantially less than the upper limit of controllability frequency.

Stevenson, J.

The VLSI implementation of a Reed-Solomon encoder using Berlekamp's bit-serial multiplier algorithm

Realization of a bit-serial multiplication algorithm for the encoding of Reed-Solomon (RS) codes on a single VLSI chip using NMOS technology is demonstrated to be feasible. A dual basis (255, 223) over a Galois field is used. The conventional RS encoder for long codes often requires look-up tables to perform the multiplication of two field elements. Berlekamp's algorithm requires only shifting and exclusive-OR operations.

Hsu, I.-S.

Weight and power savings shaft encoder interfacing techniques for aerospace applications

Many aerospace applications for shaft angle digitizers such as optical shaft encoders require special features that are not usually required on commercial products. Among the most important user considerations are the lowest possible weight and power consumption. A variety of mechanical and electrical interface techniques that have large potential weight and power savings are described. The principles to be presented apply to a wide variety of encoders, ranging from 16 to 22 bit resolution and with diameters from 152 to 380 mm (6 to 15 in.).

Breslow, Donald H.

Optical correlation with phase encoding and phase filtering

The image-encoding optical activity of a deformable-mirror device (DMD) has been investigated by means of numerical simulations in the Fourier plane. Simulation results are presented which reveal the sensitivity of phase-encoded/phase-filtered systems to noise, in-plane rotation, and magnification. The present simulations are based on phase-only modulation in the input and filter planes, and do not illustrate the 'phase-mostly' nature of the devices. A procedure to achieve a filter for a real system is proposed based on a simplistic model of a DMD pixel and preliminary device data.

Juday, Richard D.

Vector Adaptive/Predictive Encoding Of Speech

Vector adaptive/predictive technique for digital encoding of speech signals yields decoded speech of very good quality after transmission at coding rate of 9.6 kb/s and of reasonably good quality at 4.8 kb/s. Requires 3 to 4 million multiplications and additions per second. Combines advantages of adaptive/predictive coding, and code-excited linear prediction, yielding speech of high quality but requires 600 million multiplications and additions per second at encoding rate of 4.8 kb/s. Vector adaptive/predictive coding technique bridges gaps in performance and complexity between adaptive/predictive coding and code-excited linear prediction.

Chen, Juin-Hwey