Interactomes, manufacturomes and relational biology: analogies between systems biology and manufacturing systems

<p>Abstract</p> <p>Background</p> <p>We review and extend the work of Rosen and Casti who discuss category theory with regards to systems biology and manufacturing systems, respectively.</p> <p>Results</p> <p>We describe anticipatory systems, or long-range feed-forward chemical reaction chains, and compare them to open-loop manufacturing processes. We then close the loop by discussing metabolism-repair systems and describe the rationality of the self-referential equation <it>f </it>= <it>f </it>(<it>f</it>). This relationship is derived from some boundary conditions that, in molecular systems biology, can be stated as the cardinality of the following molecular sets must be about equal: metabolome, genome, proteome. We show that this conjecture is not likely correct so the problem of self-referential mappings for describing the boundary between living and nonliving systems remains an open question. We calculate a lower and upper bound for the number of edges in the molecular interaction network (the interactome) for two cellular organisms and for two manufacturomes for CMOS integrated circuit manufacturing.</p> <p>Conclusions</p> <p>We show that the relevant mapping relations may not be Abelian, and that these problems cannot yet be resolved because the interactomes and manufacturomes are incomplete.</p

Clinical Characteristics and Prognosis of Incidentally Detected Lung Cancers

Objective. To evaluate clinical characteristics and outcomes in incidentally detected lung cancer and in symptomatic lung cancer. Material and Methods. We designed a retrospective study including all patients undergoing pulmonary resection with a curative intention for NSCLC. They were classified into two groups according to the presence or absence of cancer-related symptoms at diagnosis in asymptomatic (ASX)—incidental diagnosis—or symptomatic. Results. Of the 593 patients, 320 (53.9%) were ASX. In 71.8% of these, diagnosis was made by chest X-ray. Patients in the ASX group were older (P=0.007), had a higher prevalence of previous malignancy (P=0.002), presented as a solitary nodule more frequently (P<0.001), and were more likely to have earlier-stage disease and smaller cancers (P=0.0001). A higher prevalence of incidental detection was observed in the last ten years (P=0.008). Overall 5-year survival was higher for ASX (P=0.001). Median survival times in pathological stages IIIB-IV were not significantly different. Conclusion. Incidental finding of NSCLC is not uncommon even among nonsmokers. It occurred frequently in smokers and in those with history of previous malignancy. Mortality of incidental diagnosis group was lower, but the better survival was related to the greater number of patients with earlier-stage disease

Fleet Avenue Revitalization Strategy

Slavic Village Development, Inc., the nonprofit community development corporation in the Slavic Village neighborhood of Cleveland, engaged the Center for Community Planning and Development at Cleveland State University to assist with a revitalization strategy for Fleet Avenue. The study team was charged to work with SVD leaders and the neighborhood’s City Councilman, Tony Brancatelli, to evaluate market opportunities for food production businesses and local retail, and to develop an overall parcel-by-parcel strategy for commercial rehabilitation, and new commercial and housing infill on the street

Fleet Avenue Revitalization Strategy

Slavic Village Development, Inc., the nonprofit community development corporation in the Slavic Village neighborhood of Cleveland, engaged the Center for Community Planning and Development at Cleveland State University to assist with a revitalization strategy for Fleet Avenue. The study team was charged to work with SVD leaders and the neighborhood’s City Councilman, Tony Brancatelli, to evaluate market opportunities for food production businesses and local retail, and to develop an overall parcel-by-parcel strategy for commercial rehabilitation, and new commercial and housing infill on the street

Variety Village District Economic Analysis: Retail Market Expansion, Economic Impact, and Fiscal Impact

This study outlines the economic and fiscal impacts of the redevelopment of the Variety Village District, comprised of the Variety Theatre Complex, a new public parking lot, and 40,000 square feet of new retail along Lorain Avenue. In addition, as shown in the full report, a portion of the location decision for at least three local industries which are moving to, or expanding their enterprise in, the immediate Westown neighborhood, can be attributed to the catalytic effect of the Variety Village District redevelopment

'Sarsen stones in Wessex': a society of antiquaries project contextualised and renewed

This paper reviews the Society of Antiquaries’ Evolution of the Landscape project, which started in 1974, and the project’s Sarsen Stones in Wessex survey. The survey was an ambitious public archaeology project, involving c 100 volunteers led by Fellows of the Society during the 1970s. Its aims, objectives and outcomes are described. The survey’s unique dataset, produced for the counties of Wiltshire, Hampshire and Dorset, has now been digitised. Drawing on the dataset, the paper situates the Evolution of the Landscape project in the context of later-twentieth century British archaeology. It demonstrates the importance not only of individual Fellows, but also contemporary movements in academic and development-led archaeology, to the direction of the Society’s activities in this formative period for the discipline today, and shows how the Society’s research was engaged with some of archaeology’s most pressing cultural resource management issue

Household vacuum cleaners vs. the high-volume surface sampler for collection of carpet dust samples in epidemiologic studies of children

<p>Abstract</p> <p>Background</p> <p>Levels of pesticides and other compounds in carpet dust can be useful indicators of exposure in epidemiologic studies, particularly for young children who are in frequent contact with carpets. The high-volume surface sampler (HVS3) is often used to collect dust samples in the room in which the child had spent the most time. This method can be expensive and cumbersome, and it has been suggested that an easier method would be to remove dust that had already been collected with the household vacuum cleaner. However, the household vacuum integrates exposures over multiple rooms, some of which are not relevant to the child's exposure, and differences in vacuuming equipment and practices could affect the chemical concentration data. Here, we compare levels of pesticides and other compounds in dust from household vacuums to that collected using the HVS3.</p> <p>Methods</p> <p>Both methods were used in 45 homes in California. HVS3 samples were collected in one room, while the household vacuum had typically been used throughout the home. The samples were analyzed for 64 organic compounds, including pesticides, polycyclic aromatic hydrocarbons, and polychlorinated biphenyls (PCBs), using GC/MS in multiple ion monitoring mode; and for nine metals using conventional microwave-assisted acid digestion combined with ICP/MS.</p> <p>Results</p> <p>The methods agreed in detecting the presence of the compounds 77% to 100% of the time (median 95%). For compounds with less than 100% agreement, neither method was consistently more sensitive than the other. Median concentrations were similar for most analytes, and Spearman correlation coefficients were 0.60 or higher except for allethrin (0.15) and malathion (0.24), which were detected infrequently, and benzo(k)fluoranthene (0.55), benzo(a)pyrene (0.55), PCB 105 (0.54), PCB 118 (0.54), and PCB 138 (0.58). Assuming that the HVS3 method is the "gold standard," the extent to which the household vacuum cleaner method yields relative risk estimates closer to unity by increasing random measurement error varies by compound and depends on the method used to calculate relative risk.</p> <p>Conclusion</p> <p>The household vacuum cleaner method appears to be a reasonable alternative to the HVS3 for detecting, ranking, and quantifying the concentrations of pesticides and other compounds in carpet dust.</p

Characterization of Residential Pesticide Use and Chemical Formulations through Self-Report and Household Inventory: The Northern California Childhood Leukemia Study

Background: Home and garden pesticide use has been linked to cancer and other health outcomes in numerous epidemiological studies. Exposure has generally been self-reported, so the assessment is potentially limited by recall bias and lack of information on specific chemicals. Objectives: As part of an integrated assessment of residential pesticide exposure, we identified active ingredients and described patterns of storage and use. Methods: During a home interview of 500 residentially stable households enrolled in the Northern California Childhood Leukemia Study during 2001–2006, trained interviewers inventoried residential pesticide products and queried participants about their storage and use. U.S. Environmental Protection Agency registration numbers, recorded from pesticide product labels, and pesticide chemical codes were matched to public databases to obtain information on active ingredients and chemical class. Poisson regression was used to identify independent predictors of pesticide storage. Analyses were restricted to 259 participating control households. Results: Ninety-five percent (246 of 259) of the control households stored at least one pesticide product (median, 4). Indicators of higher sociodemographic status predicted more products in storage. We identified the most common characteristics: storage areas (garage, 40%; kitchen, 20%), pests treated (ants, 33%; weeds, 20%), pesticide types (insecticides, 46%; herbicides, 24%), chemical classes (pyrethroids, 77%; botanicals, 50%), active ingredients (pyrethrins, 43%) and synergists (piperonyl butoxide, 42%). Products could contain multiple active ingredients. Conclusions: Our data on specific active ingredients and patterns of storage and use will inform future etiologic analyses of residential pesticide exposures from self-reported data, particularly among households with young children

Design management: changing roles of the professions

This paper sets out to explore how recent changes in procurement in construction have affected the roles that professions play in the design process. It discusses how professions that traditionally took the role of design manager now find themselves participating within previously unforeseen contexts, working in multidisciplinary teams led by contractors and with changed responsibilities at the design stage. Supply chain members who were not previously involved during the early project phases are being engaged at the earliest phases of the project life cycle and even taking leadership roles while designers sometimes work as supply chain partners. A study of design in construction and other sectors shows that in dealing with design management issues it is critical to deepen appreciation for the unique characteristics of design and the design process. The paper argues that contractors and designers taking on design management roles in a dynamic industry seeking to explore best practice and innovative approaches to procurement and in the delivery of projects need to acquire new skills, management education and develop the necessary qualities