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Counting mitoses by image processing in Feulgen stained breast cancer sections: the influence of resolution.

Counting of mitotic cells has been shown to be of prognostic value in breast cancer in different retrospective studies. Up to now the number of mitoses is assessed mainly manually according to a standardized but strict protocol. Although such a manual procedure is reasonably reproducible, automatic counting of mitotic cells offers the potential for greater objectivity and reproducibility. This paper describes the influence of resolution on automatic recognition by image processing of mitotic cells in Feulgen stained breast cancer sections. Using the image recording, correction and segmentation procedure described in a previous study, five specimens were analyzed: one was used to serve as a training set and four were put aside for later use as independent test set. For each slide, objects from a pre-selected area were recorded at increasing resolution. For each object, contour features and optical density measurements were computed and stored in a data file for statistical analysis. The results showed that increased resolution using a 40x objective lowered the number of misclassified mitoses compared with a 20x objective (overall mean percentage of misclassified mitoses over training and all test specimens: 20x, 24.57; 40x, 7.96). The number of misclassifications of non-mitoses was almost stable per specimen but varied between specimens (19-42%) due to differences among tissues. Given the improvement in classifying mitoses and the possibility to evaluate interactively the measurement result, the described semi-automated mitoses pre-screener of histological sections may be suitable for further testing in a clinical setting.

Breast Neoplasms↗

A prospective, seroepidemiological study of the role of human papillomavirus in esophageal cancer in Norway.

Infection with the human papillomavirus (HPV), notably HPV type 16, has been associated with esophageal cancer in seroepidemiological studies. To evaluate the consistency of the association, we performed a nested case-control study of HPV seropositivity and risk of esophageal cancer within a prospectively followed cohort of 300,000 Norwegian men and women who had donated blood samples to a serum bank. The data file of the serum bank was linked with the nationwide Cancer Registry of Norway to identify esophageal cancers diagnosed after donation of the serum sample. Fifty-seven cases and 171 matched controls were analyzed for antibodies to specific microorganisms, and odds ratios for developing esophageal cancer were calculated. There was an increased risk of developing esophageal cancer among HPV 16-seropositive subjects (odds ratio = 6.6; 95% confidence interval, 1.1-71) but not among Chlamydia trachomatis-seropositive subjects. Adjustment for the presence of serum cotinine, a marker of smoking habits, did not affect the estimates substantially. The seroepidemiological association between HPV 16 and esophageal cancer seems to be consistent in different countries.

Adult↗

Incidence of hospitalized injuries among pregnant women in Maryland, 1979-1990.

INTRODUCTION: Injuries are a leading cause of morbidity among pregnant women. We compared injuries among pregnant women and all women of reproductive age in a large defined population. METHODS: Maryland hospital discharge data files from 1979-1990 were used to identify injuries in pregnant women and in all women 15-44 years of age. Injured pregnant women were defined as those hospitalized with concurrent ICD-9-CM discharge codes for injury and pregnancy. RESULTS: The 80,311 hospitalizations with injury of women 15-44 years old included 2,185 hospitalizations of pregnant women. The incidence of hospitalized injury per 100,000 person-years was 460 for pregnant women and 608 for all women 15-44 years old. Median length of stay and cost per hospitalization were 3.0 days and $1,478 for pregnant women and 4.0 days and $1,666 for all women 15-44 years old. Leading causes of hospitalized injury in pregnant women were poisonings (16.9%), fractures (14.7%), sprains (10.9%), and contusions (8.0%). Compared to all women 15-44 years of age, pregnant women had significantly fewer hospitalizations for dislocations, fractures, poisoning, sprains, and intracranial injuries, and more hospitalizations for contusions and internal injuries. Based on limited information about external causes of injury, pregnant women had significantly fewer hospitalizations for poisoning, drowning/suffocation, and suicide attempts than all women 15-44 years of age. CONCLUSIONS: Many hospitalizations of pregnant women are for relatively minor injuries requiring a short duration of stay, possibly to gauge the impact of the injury on the mother and the fetus. Since most pregnant women receive at least some medical care during pregnancy, prenatal visits represent an ideal time to implement strategies to prevent injuries.

Accidents↗

The value of maintaining outcomes in an individual practice for 25 years.

Decision making in orthopaedic surgery is facilitated by outcome data, not only from the literature, but also from one's own practice. Between 1971 and 1996, 2602 primary and 587 revision total hip replacements were performed. All had prospective collection of data, which altered surgical practice. A posterior approach in 147 primary total hip replacements resulted in 10 dislocations (6.8%) leading to the use of the anterolateral approach in 1788 subsequent hips with only eight dislocations (0.45%). The initial 298 hips were done in a standard operating room with restricted access and were covered with perioperative antibiotics. No infections occurred permitting ongoing use of inexpensive infection prevention. From 1971 to 1975, 168 classic polished Charnley stems were implanted with only seven stems requiring revision to date. In contrast, use of the matte finished Müller prosthesis in the early 1970s in 58 hips has resulted in nine revised stems. From 1980 to 1990, 789 second generation design matte finished Iowa stems were implanted. Prospective data collected disclosed that a small number (1.5%) of early loosenings occurred and all were associated with extensive bone lysis which made revision difficult. Only polished stems are now cemented by the author. The author firmly believes that his practice patterns have been promptly and appropriately altered by the availability of a prospectively collected hip data file.

Arthroplasty, Replacement, Hip↗

[A retrospective analysis of aborted pregnancy in women engaged in agricultural production in controlled areas of Ukraine].

A retrospective analysis was carried out of failure for a woman to be delivered of a child at the natural time in those female workers engaged in agricultural production in controlled territories of Ukraine (Narodichi and Ovruch districts of Zhytomir Province). Data files were studied of 5371 histories of labor (2440 those before and 2931 after the Chernobyl accident) and 525 records of spontaneous abortion (255 those before and 27 after the ChNPP breakdown). There has been found relationship between the frequency of incomplete pregnancies and density of contamination of soil with cesium-137 in certain settlements.

Abortion, Spontaneous↗

[Admission pattern at a department of internal medicine. Factors of significance for readmission within three months after discharge].

The aim of the study was to investigate factors of significance for readmission of patients in a department of internal medicine. The study was based on hospital computerized data files. All admissions from the 1st of January to the 31st of December 1995 were included. During that period the department had 6061 admissions of 4152 patients. The readmission rate was 1.46. All patients were followed three months after discharge. Within that period 1119 (27%) of the patients were readmitted. A high frequency of readmission was especially found within the first ten days after discharge. Length of stay in hospital did not influence readmission rate. Women, patients in the age group 71-90 years and patients with chronic diseases were more likely to be readmitted. The demonstrated factors relating to a high readmission rate are difficult to influence. A prospective study including the primary health care system and a clinical evaluation of the patients is needed to examine causes of the high number of readmission within the first ten days after discharge.

Adult↗

Sex, contraception and childbearing among high-risk youth: do different factors influence males and females?

CONTEXT: The likelihood that adolescents will engage in sexual activity, use contraceptives or become parents is influenced by a range of attitudes and behaviors. These factors may differ for males and females. METHODS: Data on female respondents to the 1979-1992 waves of the National Longitudinal Survey of Youth and the linked 1994 young adult data file on their children provided background information on 959 adolescents who had been born to young mothers. Partial correlation analysis was used to examine the factors related to sexual behavior, contraceptive use and childbirth, controlling for maternal and familial characteristics, in this relatively disadvantaged sample. RESULTS: Youth who are inclined toward risk-taking and those who have run away from home are more likely than others to be sexually active. For young women, having intercourse at an early age, not using contraceptives and having a child are linked with depression, low self-esteem and little sense of control over their lives. The results for young men are less consistent and often in the opposite direction. Young people who have become parents evidence greater maturity than their childless peers; women are less likely to consume alcohol or to spend time with friends who drink, and men are more likely to participate in socially productive work. CONCLUSIONS: Although sexual behavior is tied to risk-taking in both adolescent males and females, some noticeable psychological differences are evidenced early. Behaviorally, there is room for optimism, in that young parents appear to adopt more mature traits.

Adolescent↗

Lung lesions at slaughter: associations to factors in the pig herd.

A survey was made of available data files to gain a preliminary insight into the association between environmental factors and the prevalence at slaughter of lung lesions. Herd size was the factor that showed the most predominant association with the prevalence of lung lesions. This was largely independent of the recruitment system for weanlings. There was a moderate trend toward positive association between the prevalence of lung lesions and the prevalence of other lesions. Lung lesions were weakly but significantly associated with the occurrence of infectious diarrhoea in the herd. The investigation demonstrated the feasibility of and the need for continuous epidemiological studies to identify disease determinants. Studies of the nature reported here makes it possible to define essential health factors with an accuracy that could never be achieved through clinical observations in a few herds.

Abattoirs↗

Mammography screening for breast cancer in Copenhagen April 1991-March 1997. Mammography Screening Evaluation Group.

A biennial mammography screening programme started for all women aged 50-69 in the municipality of Copenhagen, Denmark, on 1 April 1991. We report here on the outcome of the first three invitation rounds. Copenhagen has approximately 40,000 female residents aged 50-69. The Copenhagen Municipality IT Service runs the data files and issues the invitations based on the daily updated population register. Screening takes place at a special clinic at Bispebjerg Hospital, and since 1 September 1996 all assessment and surgery take place at Rigs-hospitalet. The first invitation round covered the period April 1991 to April 1993, the second invitation round the period May 1993 to May 1995, and the third invitation round the period June 1995 to March 1997. By now in total 120,772 invitations have been issued, 84,036 screening tests have been performed, 4110 women have been assessed with additional tests, 1057 women have undergone surgery, and 697 cases of invasive breast cancer cases or carcinoma in situ have been detected. The number of women screened during each of the three invitation rounds as a percentage of the target population aged 50-69 was 71%, 65% and 63%, respectively. It is possible for a woman to notify the programme if she does not want to be invited, and this caused the coverage to decline. The participation rate among the invited women was 71%, 69% and 70%, respectively. Ninety percent of those screened the first and second times and invited the third time participated. The number of screen detected invasive breast cancers of carcinoma in situ cases per 1000 participants during each invitation round was 11.9; 6.3; and 6.1, respectively. When compared with the incidence of invasive breast cancer in Copenhagen before screening, the ratios were 4-7 for all first time screened and 2 for all second or third time screened. Among the 697 screen detected cases, 84% were invasive breast cancers and 11% carcinoma in situ in women not previously known with breast cancer, and 5% were second primary breast cancers. Fifty two invasive interval cancers were found when women who tested negative during the first invitation round were followed up for two years in the Danish Cancer Register and the files of invasive breast cancers of the Danish Breast Cancer Cooperative Group. Compared with the incidence of invasive breast cancer in Copenhagen before screening this gave a proportionate interval cancer rate of 0.34 (95% confidence interval 0.26-0.45). Eight percent of the women who ever participated in the programme had experienced at least one false positive screening test, and 10% of the women who participated all three times in the programme had experienced at least one false positive test. The assessment was an efficient procedure for the sorting out of the false positive screening tests. During the third invitation round, three quarters of those who underwent surgery had either invasive breast cancer or carcinoma in situ. The participation rate in the present programme is relatively low as are the participation rates in other large cities. However, the programme is well accepted among those who participate, as a high proportion of these women come back. The detection rates compared with the previous incidence of invasive breast cancer indicate a good performance of the programme, and so does the proportionate interval cancer rate following the first invitation round. The programme is thus functioning well. The relatively low coverage and the flow in the target population limit the reduction in breast cancer mortality to be expected from the screening programme in the Copenhagen municipality.

Aged↗

Computerized analysis of antimicrobial drugs interactions in biological systems using an IBM-PC microcomputer.

We have developed a computer program to analyse the individual and combined effects of two treatments applied concurrently to a biological system. Analysis is done in regard to: level of significance selected for the statistical test (two-sided Student's t test); number of data available; expected combined effect resulting from addition (computed by the program); experimental hypothesis tested (synergism or antagonism). The main program gives access to eight options: input of new data; input of data from file; addition or modification to data in memory; display on monitor the results from analysis or the contents of a data file; analysis with another level of significance; printout; kinetics of interaction; end of program. The program is designed to work with an IBM-PC, Epson MX/FX 80/100 printer and Roland DXY 800 plotter. Sample runs are given.

Anti-Bacterial Agents↗

Matching waveform audio files with toxicall data: Record linkage in a poison control center.

Analysis of coded communications and electronic patient record data present a unique opportunity for nursing knowledge discovery, the integration of communication content with clinical data. However, joint analysis of coded communications and clinical data depends on the ability to link waveform audio files with patient records. A procedure has been developed to link waveform audio files with Toxicall patient records, using date/time stamps and station identification numbers.

Communication↗

PKCALC: a BASIC interactive computer program for statistical and pharmacokinetic analysis of data.

PKCALC, an interactive computer program written in BASIC, facilitates: initial statistical analysis of multisubject data sets, pharmacokinetic analysis of experimental data, transfer of data between commercially available electronic spread-sheets (e.g., LOTUS 123) and the pharmacokinetic programs ESTRIP and PCNONLIN, and rapid preparation of graphs of data. Concentration versus time data can be entered into the program manually, from a data interchange format (DIF) file, or from a data file previously generated by PKCALC. The program has a main menu listing nine options. These include, but are not limited to, setting up a data file which can subsequently be read by PCNONLIN, chaining to a copy of ESTRIP augmented to read PKCALC data files, stripping curves manually, and utilizing the CRT and a line printer to graph polyexponential equations and/or subject data on linear or semilogarithmic axes. PKCALC runs on the IBM PC, IBM XT, IBM AT, and COMPAQ personal computers.

Computers↗

Applications of microcomputer technology to cytophotometry.

Lack of appropriate software support for microprocessor program development has previously limited the applications of such technology in the field of microspectrophotometry. This paper describes our use of a Vickers M86 integrating microdensitometer coupled through a custom-designed interface circuit to a Processor Technology SOL III microcomputer. W e have developed a series of interactive, user-oriented programs for DNA-Feulgen cytophotometry with this instrument to allow automatic storage of data in files on floppy disks and instant retrieval of sets of measurements for statistical processing. The same data files can also be used to generate graphic displays in the form of bar histograms or plots of linear regressions on a video monitor and to produce hardcopy output of data files and graphic displays through the use of a high speed DIABLO printer.

Animals↗

A standard file format for data from DNA sequencing instruments.

There are now a number of machines for determining DNA sequences. These devices are currently of two types: those such as the Applied Biosystems 373A and the Pharmacia A.L.F. which interpret the sequences of samples as they run on gels within the machine, and those, such as the Bio-Rad and Amersham readers that scan and analyse conventional autoradiographs. Both types of machine can produce their data in the form of traces which represent the band intensity of each of the four base types at each position in the sequence. At present all the machines write files in different formats. We describe a machine independent format for storing data derived from automatic sequencing machines. Files in this format can store the derived sequence, the traces and a set of confidence measures for each base. We have adopted the format as the standard for our sequence handling software.

Databases, Factual↗

Ethical issues in pharmacoepidemiologic research using Saskatchewan administrative health care utilization data.

PURPOSE: To describe the process of obtaining access to the administrative health care utilization data of the Canadian province of Saskatchewan and the ethical issues involved. METHODS: The report focuses on the process of obtaining data for two recent studies. In the first, associations between aplastic anemia and agranulocytosis and prior drug use were evaluated, while the second is an examination of anti-arrhythmia drug utilization. In these studies, data from files containing computerized information on prescription drug use, hospitalizations, physician services and cancer registrations were linked together and also with information from hospital charts, physician records and death registrations. RESULTS: Data on individual patients are available from the Saskatchewan data-files after the removal of identifying variables, and access to external information from hospitals, physicians, death registrations and the patients themselves is possible. However, researchers must accept that data considered to be only indirectly relevant to the objectives of the study or which, due to small numbers, may potentially identify either patients or physicians will only be released in aggregate form. CONCLUSIONS: Access to the Saskatchewan data-files and to external information from hospitals, physicians and death registrations is normally straightforward. Restrictions that are applied are discussed.

Access to Information↗

Food Animal Residue Avoidance Databank (FARAD): a pharmacokinetic-based information resource.

The Food Animal Residue Avoidance Databank (FARAD) is a pilot project funded through the USDA Extension Service. It represents a major effort to compile into a single source large amounts of information on veterinary pharmaceutics, pharmacokinetics and physiochemical properties of drugs and other chemicals used in livestock production. FARAD is a computer-based system consisting of five data and numerous command files that access the data files to facilitate rapid input and retrieval of the desired information. The data files include proprietary information on all pharmaceutical products approved for use in food animals in the United States; physicochemical information on more than 100 chemicals contained in the databank; regulatory information pertaining to tolerance and action levels of chemical residues in animal products and allowable concentrations of drugs in feed; pharmacokinetic rate and volume constants pertinent to residue depletion modeling in a variety of species; bibliographic citations to which all of the information contained in the databank is referenced. All of the information in FARAD is currently available through three regional access centers in the United States, and direct computer access to the data may become available in the future.

Anti-Bacterial Agents↗

GeneRecords: a relational database for GenBank flat file parsing and data manipulation in personal computers.

UNLABELLED: Extracting the desired data from a database entry for later analysis is a constant need in the biological sequence analysis community; GeneRecords 1.0 is a solution for GenBank biological flat file parsing, as it implements a structured representation of each feature and feature qualifier in GenBank following import in a common database managing system usable in a personal computer (Macintosh and Windows environments). This collection of related databases enables the local management of GenBank records, allowing indexing, retrieval and analysis of both information and sequences on a personal computer. AVAILABILITY: The current release, including the FileMaker Pro runtime application (built for Windows and Macintosh environments), is freely available at http://apollo11.isto.unibo.it/software/

Database Management Systems↗