Rep-PCR mediated genomic fingerprinting of rhizobia and computer-assisted phylogenetic pattern analysis

1996 ◽  
Vol 12 (2) ◽  
pp. 163-174 ◽  
Author(s):  
M. Schneider ◽  
F. J. de Bruijn
Keyword(s):  
Pattern Analysis ◽  
Computer Assisted ◽  
Genomic Fingerprinting ◽  
Phylogenetic Pattern

scholarly journals Computer-assisted beat-pattern analysis and the flagellar waveforms of bovine spermatozoa

2020 ◽  
Vol 7 (6) ◽  
pp. 200769
Author(s):  
Benjamin J. Walker ◽  
Shiva Phuyal ◽  
Kenta Ishimoto ◽  
Chih-Kuan Tung ◽  
Eamonn A. Gaffney
Keyword(s):  
Pattern Analysis ◽  
Imaging Techniques ◽  
Computer Assisted ◽  
Waveform Data ◽  
Sperm Analysis ◽  
Reduction Techniques ◽  
Beat Pattern ◽  
Recent Developments ◽  
Bovine Spermatozoa ◽  
Synthetic Waveform

Obstructed by hurdles in information extraction, handling and processing, computer-assisted sperm analysis systems have typically not considered in detail the complex flagellar waveforms of spermatozoa, despite their defining role in cell motility. Recent developments in imaging techniques and data processing have produced significantly improved methods of waveform digitization. Here, we use these improvements to demonstrate that near-complete flagellar capture is realizable on the scale of hundreds of cells, and, further, that meaningful statistical comparisons of flagellar waveforms may be readily performed with widely available tools. Representing the advent of high-fidelity computer-assisted beat-pattern analysis, we show how such a statistical approach can distinguish between samples using complex flagellar beating patterns rather than crude summary statistics. Dimensionality-reduction techniques applied to entire samples also reveal qualitatively distinct components of the beat, and a novel data-driven methodology for the generation of representative synthetic waveform data is proposed.

scholarly journals PhyloPat: phylogenetic pattern analysis of eukaryotic genes

2006 ◽  
Vol 7 (1) ◽  
Author(s):  
Tim Hulsen ◽  
Jacob de Vlieg ◽  
Peter MA Groenen
Keyword(s):  
Pattern Analysis ◽  
Phylogenetic Pattern ◽  
Eukaryotic Genes

scholarly journals Computer-assisted beat-pattern analysis and the flagellar waveforms of bovine spermatozoa

2020 ◽  
Author(s):  
Benjamin J. Walker ◽  
Shiva Phuyal ◽  
Kenta Ishimoto ◽  
Chih-Kuan Tung ◽  
Eamonn A. Gaffney
Keyword(s):  
Pattern Analysis ◽  
Imaging Techniques ◽  
Computer Assisted ◽  
Waveform Data ◽  
Sperm Analysis ◽  
Reduction Techniques ◽  
Beat Pattern ◽  
Recent Developments ◽  
Bovine Spermatozoa ◽  
Synthetic Waveform

AbstractPlagued by hurdles in information extraction, handling, and processing, computer-assisted sperm analysis (CASA) systems have typically neglected the complex flagellar waveforms of spermatozoa, despite their defining role in cell motility. Recent developments in imaging techniques and data processing have produced significantly-improved methods of waveform digitisation. Here, we utilise these improvements to demonstrate that near-complete flagellar capture is realisable on the scale of hundreds of cells, and, further, that meaningful statistical comparisons of flagellar waveforms may be readily performed with widely-available tools. Representing the advent of high-fidelity computer-assisted beat-pattern analysis (CABA), we show how such a statistical approach can distinguish between samples using complex flagellar beating patterns rather than crude summary statistics. Dimensionality-reduction techniques applied to entire samples also reveal qualitatively-distinct components of the beat, and a novel data-driven methodology for the generation of representative synthetic waveform data is proposed.

Computer-Assisted Pit Pattern Analysis of Colonic Lesions

2006 ◽  
Vol 63 (5) ◽  
pp. AB247 ◽  
Author(s):  
Michael Haefner ◽  
Michael Liedlgruber ◽  
Andreas Puespoek ◽  
Schickmair Thomas ◽  
Rainer Schoefl ◽  
...  
Keyword(s):  
Pattern Analysis ◽  
Computer Assisted ◽  
Pit Pattern

Spot Measurement Tool for Diffraction Pattern Analysis

1998 ◽  
Vol 4 (S2) ◽  
pp. 60-61
Author(s):  
David S. Bright ◽  
Alline F. Myers ◽  
Shirley Turner ◽  
Eric B. Steel
Keyword(s):  
Diffraction Pattern ◽  
Pattern Analysis ◽  
Measurement Tool ◽  
Computer Assisted ◽  
Spot Pattern ◽  
Manual Methods ◽  
Diffraction Patterns ◽  
Automated Methods

Accurate characterization of electron diffraction patterns can be tedious, which encourages development of computer assisted tools and methods. We developed a spot measurement tool to characterize rapidly arrays of diffraction spots that are characteristic of a single crystal, and to measure precisely the d-spacing values for individual spots. The spot tool determines these vectors for averaged measurements from many spots in a digital image of the diffraction pattern. Previously we developed automated methods for spot pattern analysis. Why make an operator-assisted tool? This tool is faster than either our automated or entirely manual methods, and it allows assessment of the quality of the data at the beginning of the analysis.It is easy to see regular patterns of spots in a zone axis diffraction pattern (Fig. 1.1). An operator guides the initial calculations by adjusting an array of circles to approximately cover the spots in the pattern to be analyzed.

scholarly journals Molecular Characterization, Intra-Species Diversity and Abundance of Freshwater Plesiomonas shigelloides Isolates

2020 ◽  
Vol 8 (7) ◽  
pp. 1081
Author(s):  
Temitope Ekundayo ◽  
Anthony Okoh
Keyword(s):  
Species Diversity ◽  
Pattern Analysis ◽  
Similarity Index ◽  
Computer Assisted ◽  
Neighbor Joining ◽  
Eastern Cape ◽  
Plesiomonas Shigelloides ◽  
Specific Pcr ◽  
Species Specific ◽  
Pcr Techniques

Molecular signatures of Plesiomonas shigelloides strain specific to pathogenic and nonpathogenic variants are not well established till present. There is a need for intra-species barcoding of P. shigelloides to aid infection control. This study aims at characterizing and assessing intra-species diversity and abundance of P. shigelloides isolated from three freshwaters in the Eastern Cape Province. The study used a Plesiomonas-specific PCR to characterize the isolates. Intra-species (dis)similarities were assessed using ERIC-PCR and (GTG)5-PCR techniques. The DNA fingerprints produced were electrophoresed, digitized, and documented via computer-assisted pattern analysis. The fingerprints were analyzed using neighbor-joining clustering (NJC) based on Euclidean similarity index. Results revealed 80%, 83.64%, and 80% of the water samples from Tyhume, Kat, and Kubusie rivers, respectively, positive for P. shigelloides isolation. The prevalence of P. shigelloides from sites ranged from 13.5% to 88.9%. NJC delineated 48 isolates to 8 clades (ERIC-fingerprints) and 34 isolates into 7 clades ((GTG)5-fingerprints). The relative abundance of unique strains ranged from 6.3% to 22.9% via the two methods. Both fingerprinting approaches have strain-differentiating potential for P. shigelloides, however ERIC-PCR possessed higher resolution (D = 37.46) advantage over (GTG)5-PCR (D = 29.64). In conclusion, the study achieved intra-species diversity and abundance of P. shigelloides from aquatic milieu and provide further opportunity for intra-species-specific barcoding.

scholarly journals Use of computer-assisted sperm motility assessment and multivariate pattern analysis to characterize ejaculate quality in Mohor gazelles (Gazella dama mhorr): effects of body weight, electroejaculation technique and short-term semen storage

Reproduction ◽  
2001 ◽  
pp. 265-273 ◽  
Author(s):  
T Abaigar ◽  
M Cano ◽  
AR Pickard ◽  
WV Holt
Keyword(s):  
Body Weight ◽  
Plasma Membrane ◽  
Sperm Motility ◽  
Pattern Analysis ◽  
Semen Quality ◽  
Computer Assisted ◽  
Short Term ◽  
Non Linear ◽  
Maximum Voltage ◽  
Acrosomal Integrity

Subjective and objective semen assessments were performed on 18 male Mohor gazelles (Gazella dama mhorr). Sperm motility assessments combined with sperm plasma membrane and acrosomal integrity evaluations were undertaken as part of a captive breeding programme. The primary objective was to test methodology for short-term preservation of gazelle semen for artificial insemination (storage in N-[Tris(hydroxymethyl)methyl]-2-aminoethanesulphonic acid-Tris diluent (TEST) for up to 96 h at 17 degrees C). However, the secondary objective was to investigate phenotypic and genotypic influences on semen quality within this small population, which was established in 1971 with only 12 genetic founders. Sperm motility was measured by computer-assisted semen assessment and the data were analysed using a pattern analysis technique to detect and quantify naturally occurring sperm subpopulations within the semen samples. Four sperm subpopulations distinguishable by their motion characteristics were detected. The relative frequencies of two subpopulations (population 2: highly motile, non-linear; and population 4: poorly motile, non-linear) in fresh semen were correlated with the maximum voltage used during electroejaculation. The frequency of subpopulation 2 was negatively correlated with maximum voltage (r = -0.875, P < 0.0001) and the frequency of subpopulation 4 was positively correlated (r = 0.727, P < 0.005). The frequencies of all subpopulations varied significantly among the animals sampled (chi-squared = 2577.6, degrees of freedom = 54, P < 0.0001) and subpopulation 4 was also correlated with body weight (r = -0.59, P < 0.005). Semen stored at 17 degrees C retained motility, plasma membrane and acrosomal integrity for 48 h, but these measures decreased thereafter. The frequency of a sperm subpopulation showing uncoordinated but active motility increased significantly over the first 48 h and then decreased.

Automated Image Analysis Of Nuclear And Cytoplasmic Changes In Exfoliated Cells From Tracheas Treated With Carcinogen

1977 ◽  
Vol 35 ◽  
pp. 220-221
Author(s):  
S.F. Stinson ◽  
J.C. Lilga ◽  
M.B. Sporn
Keyword(s):  
Image Analysis ◽  
Pattern Analysis ◽  
Relative Proportion ◽  
Automated Image Analysis ◽  
Image Analyzer ◽  
Cross Sectional ◽  
Exfoliated Cells ◽  
Neoplastic Lesions ◽  
Analysis System ◽  
Morphologic Criterion

Increased nuclear size, resulting in an increase in the relative proportion of nuclear to cytoplasmic sizes, is an important morphologic criterion for the evaluation of neoplastic and pre-neoplastic cells. This paper describes investigations into the suitability of automated image analysis for quantitating changes in nuclear and cytoplasmic cross-sectional areas in exfoliated cells from tracheas treated with carcinogen.Neoplastic and pre-neoplastic lesions were induced in the tracheas of Syrian hamsters with the carcinogen N-methyl-N-nitrosourea. Cytology samples were collected intra-tracheally with a specially designed catheter (1) and stained by a modified Papanicolaou technique. Three cytology specimens were selected from animals with normal tracheas, 3 from animals with dysplastic changes, and 3 from animals with epidermoid carcinoma. One hundred randomly selected cells on each slide were analyzed with a Bausch and Lomb Pattern Analysis System automated image analyzer.

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