Dataset Information

Signal to noise ratio comparisons for ultrasound attenuation slope estimation algorithms.

ABSTRACT: Attenuation imaging has a promising role in the detection of tissue abnormalities. The authors have previously compared three different frequency domain ultrasound attenuation estimation methods, for accuracy and bias. The mean estimated attenuation value in a region of interest has been the determining factor of how well a method performs; however, the noise level has not been quantified for attenuation estimated using different methods.The authors compare three different frequency domain ultrasound attenuation estimation methods [the reference phantom method (RPM), the centroid downshift method (CEN), and the hybrid method (HYB)] using the signal to noise ratio (SNR) metric. Both simulated and experimental tissue-mimicking phantoms are used in the performance comparison study, evaluating the impact of the variation in acoustical properties.For attenuation estimation in a tissue-mimicking phantom with a known attenuation coefficient of 0.5 dB/cm/MHz, all the three methods estimated the attenuation coefficient to be ≈ 0.49 dB/cm/MHz for a transmit center frequency of 6 MHz, however, the signal to noise ratio obtained was found to be 8.5, 5.7, and 2.2 for the HYB, RPM, and CEN methods, respectively. These results demonstrate the need for the SNR metric in the comparison of different algorithms and to evaluate the impact of varying different ultrasound system and tissue parameters.In this paper, the authors demonstrate that although the estimated mean attenuation value with a region of interest may be closely estimated using different methods, the signal to noise ratio obtained of the estimates can vary significantly. The centroid downshift method presented with the lowest signal-to-noise ratio of the methods compared. The hybrid method was the least susceptible to changes in the acoustical properties and provided unbiased attenuation coefficient estimates with the highest signal-to-noise ratios.

SUBMITTER: Omari EA

PROVIDER: S-EPMC3978318 | biostudies-other | 2014 Mar

REPOSITORIES: biostudies-other

ACCESS DATA

Similar Datasets

Project description:MotivationTarget-specific hybridization depends on oligo-probe characteristics that improve hybridization specificity and minimize genome-wide cross-hybridization. Interplay between specific hybridization and genome-wide cross-hybridization has been insufficiently studied, despite its crucial role in efficient probe design and in data analysis.ResultsIn this study, we defined hybridization specificity as a ratio between oligo target-specific hybridization and oligo genome-wide cross-hybridization. A microarray database, derived from the Genomic Comparison Hybridization (GCH) experiment and performed using the Affymetrix platform, contains two different types of probes. The first type of oligo-probes does not have a specific target on the genome and their hybridization signals are derived from genome-wide cross-hybridization alone. The second type includes oligonucleotides that have a specific target on the genomic DNA and their signals are derived from specific and cross-hybridization components combined together in a total signal. A comparative analysis of hybridization specificity of oligo-probes, as well as their nucleotide sequences and thermodynamic features was performed on the database. The comparison has revealed that hybridization specificity was negatively affected by low stability of the fully-paired oligo-target duplex, stable probe self-folding, G-rich content, including GGG motifs, low sequence complexity and nucleotide composition symmetry.ConclusionFiltering out the probes with defined 'negative' characteristics significantly increases specific hybridization and dramatically decreasing genome-wide cross-hybridization. Selected oligo-probes have two times higher hybridization specificity on average, compared to the probes that were filtered from the analysis by applying suggested cutoff thresholds to the described parameters. A new approach for efficient oligo-probe design is described in our study.Contactshabalin@ncbi.nlm.nih.gov or olga.matveeva@gmail.comSupplementary informationSupplementary data are available at Bioinformatics online.

Dataset Information

Signal to noise ratio comparisons for ultrasound attenuation slope estimation algorithms.

Similar Datasets

OmicsDI is part of the ELIXIR infrastructure

Tweets