Assessing the Relationship Between Mass Window Width and Retention Time Scheduling on Protein Coverage for Data-Independent Acquisition

2019 ◽  
Vol 30 (8) ◽  
pp. 1396-1405 ◽  
Author(s):  
Wenxue Li ◽  
Hao Chi ◽  
Barbora Salovska ◽  
Chongde Wu ◽  
Liangliang Sun ◽  
...  
Keyword(s):  
Retention Time ◽  
Mass Window ◽  
Data Independent Acquisition ◽  
Window Width ◽  
Time Scheduling ◽  
The Relationship

The relationship between apparent retention time in the rumen, voluntary intake, and apparent digestibility of legume and grass diets in sheep

1973 ◽  
Vol 24 (6) ◽  
pp. 889 ◽  
Author(s):  
RF Thornton ◽  
DJ Minson
Keyword(s):  
Organic Matter ◽  
Retention Time ◽  
Daily Intake ◽  
Organic Matter Content ◽  
Matter Content ◽  
Apparent Digestibility ◽  
Jaw Movements ◽  
Digestible Organic Matter ◽  
Voluntary Intake ◽  
The Relationship

Eight grasses and six legumes were fed ad libitum at hourly intervals to wethers fitted with large rumen fistulas to determine voluntary intake, apparent digestibility, and the apparent retention time of organic matter in the rumen, as well as the quantity of rumen digesta and the organic matter content of the rumen digesta. The voluntary intake of legumes was 28% higher than that of equally digestible grasses. This difference was caused by a shorter retention time (17%) and a higher amount of organic matter (14%) in the rumen digesta from legume diets than from grass diets. The weight of wet digesta in the rumen of sheep fed on legumes was 7% lower than from those fed on grass. Neither the quantity of digesta nor the quantity of organic matter in the rumen was related to the voluntary intake, digestibility, or retention time of organic matter in the rumen. Number of jaw movements each day and rate of cotton thread digestion were not related to the retention time of the diets either. Daily intake of digestible organic matter (DOMI, g/day) was closely correlated with retention time (RTOM, hr) for the feeds in this study (r = –0.93) and the same relation applied to both temperate and tropical feeds, viz. DOMI = 1276–50.7 RTOM (r=0.96) Differences in voluntary intake between grasses and legumes were attributed to differences in retention time and the density to which the food was packed in the rumen.

Retention times in the rumen of roughages and a protein supplement

1981 ◽  
Vol 97 (1) ◽  
pp. 231-232 ◽  
Author(s):  
N. Sriskandarajah ◽  
R. C. Kellaway ◽  
Jane Leibholz
Keyword(s):  
Retention Time ◽  
Present Experiment ◽  
Poor Quality ◽  
Protein Supplement ◽  
Protein Supplements ◽  
The Relationship

The extent to which proteins fed to ruminants are degraded in the rumen is determined by their rate of degradation and retention time in the rumen. It is known that retention times in the rumen are much longer for poor quality than for good quality roughages. Thus, it is possible that protein supplements may be more extensively degraded when fed with poor than when fed with good quality roughages. The present experiment was designed to determine the relationship between retention times of roughages and a protein supplement fed with them.

scholarly journals Trapped Ion Mobility Spectrometry Reduces Spectral Complexity in Mass Spectrometry Based Workflow

2021 ◽  
Author(s):  
Joshua Charkow ◽  
Hannes Rost
Keyword(s):  
Mass Spectrometry ◽  
Ion Mobility Spectrometry ◽  
Ion Mobility ◽  
Peptide Identification ◽  
Peptide Ions ◽  
Trapped Ion ◽  
Data Independent Acquisition ◽  
Window Width ◽  
Trapped Ion Mobility Spectrometry ◽  
Collisional Cross Section

In bottom-up mass spectrometry based proteomics, deep proteome coverage is limited by high cofragmentation rates. This occurs when more than one analyte is isolated by the quadrupole and the subsequent fragmentation event produces fragment ions of heterogeneous origin. One strategy to reduce cofragmentation rates is through effective peptide separation techniques such as chromatographic separation and, the more recently popularized, ion mobility (IM) spectrometry which separates peptides by their collisional cross section. Here we investigate the capability of the Trapped Ion Mobility Spectrometry (TIMS) device to effectively separate peptide ions and quantify the separation power of the TIMS device in the context of a Parallel Accumulation-Serial Fragmentation (PASEF) workflow. We found that TIMS IM separation increases the number of interference-free MS1 features 9.2-fold, while decreasing the average peptide density in precursor spectra 6.5 fold. In a Data Dependent Acquisition (DDA) PASEF workflow, IM separation increased the number of spectra without cofragmentation by a factor of 4.1 and the number of high quality spectra 17-fold. This observed decrease in spectral complexity results in a substantial increase in peptide identification rates when using our data-driven model. In the context of a Data Independent Acquisition (DIA), the reduction in spectral complexity resulting from IM separation is estimated to be equivalent to a 4-fold decrease in isolation window width (from 25Da to 6.5Da). Our study shows that TIMS IM separation dramatically reduces cofragmentation rates leading to an increase in peptide identification rates.

Effect of Retention Time of Neutrophils in Alveolar Capillaries on Increase in Their Concentration in the Capillary Network

2007 ◽  
Author(s):  
A. Shirai ◽  
T. Hayase
Keyword(s):  
Retention Time ◽  
Concentration Ratio ◽  
Systemic Circulation ◽  
Capillary Network ◽  
Dominant Factor ◽  
Numerical Result ◽  
Cell Property ◽  
Capillary Bed ◽  
The Relationship ◽  
Alveolar Capillary

It is said that neutrophils, a kind of leukocytes, can be retained in pulmonary alveolar capillary bed, even in normal lungs, resulting in higher concentration than in systemic circulation due to their relatively low deformability, and the concentrated neutrophils help the lung to effectively eliminate the enemies invading from outer air. The authors have developed a model to simulate the flow of neutrophils through an alveolar capillary network, considering the cells’ low deformability as the dominant factor for the retention. Flow of a suspension of neutrophils in plasma through a simplified lattice alveolar capillary network model was numerically simulated to investigate the effect of the retention on the increase in the concentration ratio of the cells between in the network and in the suspension. The numerical result showed that the ratio was lower than the experimentally obtained value. Other possible factors to influence the cell’s retention time are friction and adhesion of the cell on the endothelium. In the last study, effect of the retention time of the cells in individual capillary segments on the increase in the concentration ratio was investigated to suggest the ratio may have an upper limit no matter how long the retention time is extended. In this paper, the authors investigated the contribution of various parameters which affect transit time of a neutrophil through a single capillary segment to the relationships between the retention time and the concentration ratio. Finally, it was shown that the number of cells in the network increased to approach a finite value as the increase in the coefficient, independent of the cell property, concentration of the cells in the suspension or the capillary shape. Transition of the relationship was changed with the parameters.

A Pilot Study Exploring the Relationship Between Digesta Retention Time in the Equine Gastrointestinal Tract and Compartment Models

2020 ◽  
Vol 88 ◽  
pp. 102941
Author(s):  
Tayler L. Hansen ◽  
Jill M. Bobel ◽  
Ellen M. Rankins ◽  
L. Chris Sanchez ◽  
Lori K. Warren
Keyword(s):  
Gastrointestinal Tract ◽  
Pilot Study ◽  
Retention Time ◽  
Compartment Models ◽  
The Relationship

Investigation of Retention Properties for YMnO3 Based Metal/Ferroelectric/Insulator/Semiconductor Capacitors

2003 ◽  
Vol 784 ◽  
Author(s):  
T. Yoshimura ◽  
D. Ito ◽  
H. Sakata ◽  
N. Shigemitsu ◽  
K. Haratake ◽  
...  
Keyword(s):  
Electric Field ◽  
Leakage Current ◽  
Electric Fields ◽  
Retention Time ◽  
Memory Retention ◽  
Frenkel Emission ◽  
Transient Spectroscopy ◽  
Leakage Current Mechanism ◽  
Capacitance Transient ◽  
The Relationship

ABSTRACTThe memory retention properties of Pt/YMnO3/Y2O3/Si capacitors were investigated for the application of ferroelectric gate transistors. The epitaxially grown Pt/YMnO3/Y2O3/Si capacitors showed ferroelectric type hysteresis loop on the capacitance-voltage properties. Although the retention time of the as-deposited capacitors was ∼103 s, it was prolonged up to 104 s when the leakage current density was reduced from 4×10-8 A/cm2 to 2×10-9 A/cm2 by the annealing under N2 ambience. To reveal the relationship between the retention time and leakage current, the leakage current mechanism was investigated comparing several conduction mechanisms. It was found that the dominant leakage mechanisms at high and low electric fields were Poole-Frenkel emission from the Y2O3 layer and ohmic conduction, respectively. This result indicates that the leakage current was limited by the Y2O3 layer at high electric field and was mainly dominated by the amount of defects in the YMnO3 layer at low electric field. From the pseudo isothermal capacitance transient spectroscopy (ICTS), it was determined that the trap density was in an order of 1015 cm-3. Since the variation of the leakage current by annealing was observed only in the low electric field region, it is suggested that the retention properties of the Pt/YMnO3/Y2O3/Si capacitors was influenced by the amount of defects in the YMnO3 layer.

Scout-MRM: Multiplexed Targeted Mass Spectrometry-Based Assay without Retention Time Scheduling Exemplified by Dickeya dadantii Proteomic Analysis during Plant Infection

2017 ◽  
Vol 89 (3) ◽  
pp. 1421-1426 ◽  
Author(s):  
Blandine Rougemont ◽  
Sébastien Bontemps Gallo ◽  
Sophie Ayciriex ◽  
Romain Carrière ◽  
Hubert Hondermarck ◽  
...  
Keyword(s):  
Mass Spectrometry ◽  
Retention Time ◽  
Proteomic Analysis ◽  
Dickeya Dadantii ◽  
Plant Infection ◽  
Time Scheduling

Optimal Hatch Filter with an Adaptive Smoothing Window Width

2008 ◽  
Vol 61 (3) ◽  
pp. 435-454 ◽  
Author(s):  
Byungwoon Park ◽  
Kyoungho Sohn ◽  
Changdon Kee
Keyword(s):  
Low Cost ◽  
Elevation Angle ◽  
Single Frequency ◽  
Adaptive Smoothing ◽  
Receiver Noise ◽  
Window Width ◽  
Data Process ◽  
Smoothing Window ◽  
Noise Statistics ◽  
The Relationship

The Hatch filter is a code-smoothing technique using integrated carrier phase observations. It is an easy technique that non-experts can use to reduce receiver noise on the pseudorange. This paper suggests a new algorithm for the optimal Hatch filter whose smoothing window width varies adaptively depending on the regional, diurnal and seasonal ionospheric variation and satellite elevation angle. We consider both quiet and storm conditions of the ionosphere. Using the well-known quiet ionospheric model, a conservative boundary value for ionospheric storm and the receiver noise statistics function of the satellite elevation angle, this algorithm can mathematically solve the optimal averaging constant for each satellite in every epoch. From a 24 hr data process result and real-time experiment, we found that the position accuracy of the optimal Hatch filter is better and more robust than that of the traditional Hatch filter. The optimal Hatch filter algorithm and its results are expected to provide a new solution for a single-frequency DGPS receiver and a thorough understanding of the relationship between the position error and the averaging constant. Furthermore, a DGPS user who applies this algorithm to a low-cost single-frequency receiver can obtain a more accurate and robust position result than via the classical Hatch filter.

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