PubMed Health⌕ Search

SEARCH · PubMed Health

Results for “Batch effects”

Explore indexed PubMed citations for clinical trials, systematic reviews and public health research. Read source abstracts and follow each citation to its original PubMed record.

Quote a phrase for an exact phrase match. Source license links do not imply unrestricted reuse.

At least 181 records · Page 10Linked to original sources
PubMed2002

The value of radiographic film for the characterization of intensity-modulated beams.

In this paper the performance of radiographic film (KODAK X-Omat V) for analysing intensity-modulated (IM) beams in a plane at reference depth (5 cm for 6 MV, 10 cm for 18 MV) was investigated. The field size dependence of the film response was studied for small and medium field sizes. The dose rate dependence of the response and possible effects of fractionating the dose were assessed. In the end, profiles were measured for two clinically delivered IM beams, and the results were compared with diamond detector data. We found that the response of the radiographic film increases with field size, but for field sizes up to 15 x 15 cm the deviations remain within 3% for measurements with the films in a plane at reference depth. We found that the response of the films decreases with decreasing dose rate, and that the extent of this effect differs from film batch to film batch. For clinical IM beams the effect can amount to about 9% at the location of shielded organs at risk. Also, fractionating the dose reduces the net optical density, but this effect is normally small when assessing IM beams. In low-dose regions low-energy photons have an important contribution, resulting in a higher response at these positions. This may counteract the dose rate dependence of the response. In the high-dose regions of the two IM beams that were studied, the relative dose measurements with film are within 1% of those obtained with a diamond detector, when the results of three films are averaged. In shielded organs at risk the deviations can mount to about 3%, depending on the film batch. In conclusion, radiographic film is a suitable detector for characterizing IM beams in a plane at reference depth.

Dose-Response Relationship, Radiation↗
PubMed2005

Effect of biogenic substrate concentration on the performance of sequencing batch reactor treating 4-CP and 2,4-DCP mixtures.

Effect of a biogenic substrate (peptone) concentration on the performance of sequencing batch reactor (SBR) treating 220 mg/l 4-chlorophenol (4-CP) and 110 mg/l 2,4-dichlorophenol (2,4-DCP) mixtures was investigated. In this context, peptone concentration was gradually decreased from 300 mg/l to null in which chlorophenols were fed to the reactor as sole carbon and energy sources. By this way, the effect of peptone concentration on observed yield coefficient (Y), biomass concentration, chlorophenols and COD removal performances were investigated. Decreasing peptone concentration accompanied with lower biomass concentration led to increase in peak chlorophenol and COD concentrations within the reactor during each SBR cycle. This, in turn, caused noteworthy declines in the removal rates as chlorophenol degradations followed Haldane substrate inhibition model. Also, increased peak chlorophenol concentrations led to the accumulation of 5-chloro-2-hydroxymuconic semialdehyde (CHMS), which is -meta cleavage product of 4-CP. Despite the decreased removal rates, complete chlorophenols and CHMS degradation, in addition to high COD removal efficiencies (>90%), were observed for all studied conditions, even chlorophenols were added as sole carbon and energy sources. Another significant point is that 2,4-DCP at slightly elevated concentrations (>20 mg/l) within the reactor caused a strong competitive inhibition on 4-CP degradation. In SBR, feeding the influent to the reactor within a certain period (i.e. filling period) provided dilution of coming wastewater, which decreased the chlorophenols concentrations to which microorganisms were exposed. Therefore, use of SBR may help to avoid both self and competitive inhibitions in the treatment of 4-CP and 2,4-DCP mixture especially in the presence high biogenic substrate concentrations. In addition, isolation and identification studies have indicated that Pseudomonas sp. and Pseudomonas stutzeri were dominant species in the acclimated mixed culture.

Biodegradation, Environmental↗
PubMed1991

Toxic effects of selected industrial solvents in batch and continuous anaerobic reactors.

Acetone and ethyl acetate were readily degraded in batch reactors containing anaerobic solids from an industrial reactor at concentrations to 1000 mg/L; isoamyl acetate was degraded at concentrations below 200 mg/L. Xylene was noninhibitory in batch cultures at concentrations of 50 mg/L or less. Batch reactors receiving 45 mg/L methylene chloride (MC) experienced a 60% reduction in gas production, and an increase in volatile fatty acids. Semicontinuously-fed reactors dosed with 20 mg/L MC at the start suffered some loss of anaerobic efficiency, but acclimated well with increased gas production after 20 d. A continuously fed sludge blanket reactor with no previous exposure to MC has acclimated to 20 mg/L MC after initial inhibition at 10 mg/L.

Acetates↗
PubMed1996

Effects of nutrient media and culture duration on growth, macromolecular composition and toxicity in batch cultures of Microcystis aeruginosa.

The effects of media and culture duration on growth, macromolecular composition and toxicity of the freshwater cyanobacterium Microcystis aeruginosa were evaluated. Four media (MA, CB, A3M7 and BG-11) influenced growth in terms of cell numbers, chlorophyll a content and specific growth rate. MA medium supported the best growth. The macromolecular composition of cultured cells, viz total protein, carbohydrates, lipids, DNA and RNA content, varied reaching a maximum at various growth periods. The differences were significant due to the interaction of the culture medium and duration. Toxicity was compared in terms of mouse units. The toxicity of cultured cells increased with the duration until week 4 and toxicity was highest in cells grown in MA medium.

Animals↗
PubMed1992

The enhancement of specific antibody production rate in glucose- and glutamine-controlled fed-batch culture.

The concentration effects of certain amino acids (Asp, Ile, Leu, Lys, Met, Val, Phe and Gln which were highly consumed during cultivation), and glucose on cell growth and antibody productivity were investigated using dish culture. From these experiments, it was found that only glutamine enrichment enhanced the specific antibody production rate. The other amino acids described above did not affect either the specific growth rate or specific antibody production rate. Thus we investigated the quantitative effects of glutamine concentration in the range of 0.4-33.3 mmol.l-1 on kinetic parameters in fed-batch culture which kept both glucose and glutamine concentration constant. As a result the specific growth rate decreased with increase in glutamine concentration in the range larger than 20 mmol.l-1. The specific antibody production rate had a maximum value at about 25 mmol.l-1 glutamine concentration.

Animals↗
PubMed2001

Mathematical model for evaluation of mass transfer limitations in phenol biodegradation by immobilized Pseudomonas putida.

A mathematical model is proposed to analyze the mass transfer limitations in phenol biodegradation using Pseudomonas putida immobilized in calcium alginate. The model takes into account internal and external mass transfer limitations, substrate inhibition kinetics and the dependence of the effective diffusivity of phenol in alginate gel on cell concentration. The model is validated with the experimental data from batch fermentation. The effect of various operating conditions such as initial phenol concentration, initial cell loading, alginate gel loading on the biodegradation of phenol is experimentally demonstrated. Phenol degradation time is found to decrease initially and reach stationary value with increase in cell loading as well as gel loading. The model predicts these trends reasonably well and shows the presence of external mass transfer limitations. A new concept of effectiveness factor is introduced to analyze the overall performance of batch fermentation.

Biodegradation, Environmental↗
PubMed2005

Aerobic batch degradation of 17-beta estradiol (E2) by activated sludge: effects of spiking E2 concentrations, MLVSS and temperatures.

Aerobic batch degradation of 17beta estradiol (E2) spiked into the activated sludge liquor from a sewage treatment plant was studied; and the likely impacts of E2's initial concentrations (C0), microbial population densities (MLVSS) and temperatures (TEMPT) were examined for a variety of combinations of these three factors: C0 = 10, 30 and 50 microgl(-1); MLVSS = 1750, 875 and 435 mgl(-1); and TEMPT = 5, 20 and 35 degrees C. The results, together with those obtained through two control runs performed using a killed sludge sample, demonstrated clearly that E2 was eliminated from the aqueous phase readily under appropriate MLVSS and temperature levels, with the role of sorption by biomass being less significant. By fitting observed concentration data with a first-order rate expression, the degradation rate constants (k) under all experimental conditions were estimated. The magnitude of k changed markedly in the range of 0.23-4.79 h(-1), following a general order that the higher the MLVSS was, the higher the rate constant, and that the higher the temperature, the higher the rate constant. An obvious increasing trend of the biomass-modified average rate constant (k') with increases in the temperature was also presented: the k' values at 5, 20 and 35 degrees C were 0.79, 1.77 and 3.29l MLVSS g(-1)h(-1), respectively. Furthermore, based upon the estimated k values, the temperature coefficients (theta) over the ranges of 5-20 and 20-35 degrees C were determined. In similarity with the magnitude of theta reported for ordinary BOD-based organic matrices in domestic wastewater, the theta values of E2 varied in the range of 1.026-1.09, suggesting that the temperature impacts on the degradation rates of E2 and BOD constituents are probably similar.

Anaerobiosis↗
PubMed1991

Age resistance in calves to Ostertagia ostertagi and Cooperia oncophora.

Calves were infected repeatedly during a period of 6 weeks with Ostertagia ostertagi and Cooperia oncophora, at an age of 3, 6 or 9 months. The inoculations were performed during three periods, February-March, May-June and August-September, to account for possible seasonal effects or effects of larval batches. Observations were done on faecal egg output, antibody titres and weight gains. Calves were slaughtered for post mortem examinations 9 weeks after the start of infections. The influence of age on worm populations and egg output was significant for C. oncophora but not for O. ostertagi. The effect of season or larval batch on worm populations was significant for O. ostertagi but not for C. oncophora. The correlations between worm numbers and several other parameters found for Cooperia were strongly indicative of a process of worm expulsion taking place at the stage of infection (9 weeks after the start of infections) when post mortem examinations were done. Such correlations were absent for Ostertagia. It is concluded that within the range of ages examined here (the range to which first season grazing calves belong), there is no influence of age on Ostertagia populations but a clear effect of age on Cooperia. This difference strongly influences the total faecal egg output of grazing calves and its interpretation.

Aging↗
PubMed2003

Effects of atmospheric ozone on microarray data quality.

A data anomaly was observed that affected the uniformity and reproducibility of fluorescent signal across DNA microarrays. Results from experimental sets designed to identify potential causes (from microarray production to array scanning) indicated that the anomaly was linked to a batch process; further work allowed us to localize the effect to the posthybridization array stringency washes. Ozone levels were monitored and highly correlated with the batch effect. Controlled exposures of microarrays to ozone confirmed this factor as the root cause, and we present data that show susceptibility of a class of cyanine dyes (e.g., Cy5, Alexa 647) to ozone levels as low as 5-10 ppb for periods as short as 10-30 s. Other cyanine dyes (e.g., Cy3, Alexa 555) were not significantly affected until higher ozone levels (> 100 ppb). To address this environmental effect, laboratory ozone levels should be kept below 2 ppb (e.g., with filters in HVAC) to achieve high quality microarray data.

Artifacts↗
PubMed2005

Optimization of omega-3 fatty acid production by microalgae: crossover effects of CO2 and light intensity under batch and continuous cultivation modes.

The microalga Pavlova lutheri is a potential source of economically valuable docosahexaenoic and eicosapentaenoic acids. Specific chemical and physical culture conditions may enhance their biochemical synthesis. There are studies relating the effect of CO2 on growth; however, this parameter should not be assessed independently, as its effect strongly depends on the light intensity available. In this research, the combined effects of light intensity and CO2 content on growth and fatty acid profile in P. lutheri were ascertained, in order to optimize polyunsaturated fatty acid production. The influence of the operation mode was also tested via growing the cultures by batch and by continuous cultivation. Higher light intensities associated with lower dilution rates promoted increases in both cell population and weight per cell. Increased levels of CO2 favored the total lipid content, but decreased the amounts of polyunsaturated fatty acids. Mass productivities of eicosapentaenoic acid (3.61 +/- 0.04 mg . L(-1) . d(-1)) and docosahexaenoic acid (1.29 +/- 0.01 mg . L(-1) . d(-1)) were obtained in cultures supplied with 0.5% (v/v) CO2, at a dilution rate of 0.297 d(-1) and a light intensity of 120 muE . m(-2) . s(-1).

Analysis of Variance↗
PubMed2004

[Hepatitis E virus capsid protein production by high cell density culture of recombinant Escherichia coli].

Production of Hepatitis E Virus capsid protein by high cell density culture in recombinant E. coli has been studied in 10L and 30L fermentors. The effects of different factors on growth and producing recombinant protein of E. coli have been studied by batch culture, such as different media, the ratio of phosphate and Magnesium sulfate. Comparison of fermentation performance for recombinant E. coli in different fed-methods culture has been investigated by fed-batch culture. The effects of inducing at different stages of growth and time of inducing on growth and producing recombinant protein, also obtained by fed-batch culture. At last, the solubility of inclusion body in different urea concentrations also has been obtained by fed-batch culture. The results show that the concentration of phosphate and Magnesium sulfate in the optimal media is 80mmol/L and 20mmol/L in batch culture respectively, that induction with 1.0mmol/L IPTG at mid log phase (about 45 OD at 600nm) is suitable for growth and recombinant protein expression, the cells were approaching stationary growth phase and the maximum cell OD at 600nm of 80 was achieved in 5h of fed-batch culture, and the expression level is 29.74%. The results also indicate that the solubility of inclusion body in 4mol/L urea solution induced at 37 degrees C reaches 14mg/mL, over 80% inclusion body was resolved. The culture process achieved in 10L fermentor could be successfully scaled up to 30L fenmentor with good reproducibility.

Bioreactors↗
PubMed2003

Inhibitory effect of carbon dioxide on the fed-batch culture of Ralstonia eutropha: evaluation by CO2 pulse injection and autogenous CO2 methods.

In order to see the effect of CO(2) inhibition resulting from the use of pure oxygen, we carried out a comparative fed-batch culture study of polyhydroxybutyric acid (PHB) production by Ralstonia eutropha using air and pure oxygen in 5-L, 30-L, and 300-L fermentors. The final PHB concentrations obtained with pure O(2) were 138.7 g/L in the 5-L fermentor and 131.3 g/L in the 30-L fermentor, which increased 2.9 and 6.2 times, respectively, as compared to those obtained with air. In the 300-L fermentor, the fed-batch culture with air yielded only 8.4 g/L PHB. However, the maximal CO(2) concentrations in the 5-L fermentor increased significantly from 4.1% (air) to 15.0% (pure O(2)), while it was only 1.6% in the 30-L fermentor with air, but reached 14.2% in the case of pure O(2). We used two different experimental methods for evaluating CO(2) inhibition: CO(2) pulse injection and autogenous CO(2) methods. A 10 or 22% (v/v) CO(2) pulse with a duration of 3 or 6 h was introduced in a pure-oxygen culture of R. eutropha to investigate how CO(2) affects the synthesis of biomass and PHB. CO(2) inhibited the cell growth and PHB synthesis significantly. The inhibitory effect became stronger with the increase of the CO(2) concentration and pulse duration. The new proposed autogenous CO(2) method makes it possible to place microbial cells under different CO(2) level environments by varying the gas flow rate. Introduction of O(2) gas at a low flow rate of 0.42 vvm resulted in an increase of CO(2) concentration to 30.2% in the exit gas. The final PHB of 97.2 g/L was obtained, which corresponded to 70% of the PHB production at 1.0 vvm O(2) flow rate. This new method measures the inhibitory effect of CO(2) produced autogenously by cells through the entire fermentation process and can avoid the overestimation of CO(2) inhibition without introducing artificial CO(2) into the fermentor.

Bioreactors↗
PubMed2002

Kinetics of phenol oxidation by Candida tropicalis: effects of oxygen supply rate and nutrients on phenol inhibition.

The kinetics of phenol degradation was estimated in a fed-batch reactor system. Effects of oxygen and nutrient excess or limitation as well as the presence of several essential ions on the phenol- and oxygen-specific uptake rates achieved simultaneously in a bioreactor were shown. Candida tropicalis was grown on phenol as the only carbon and energy source. Applying the best fit of polynomial function, the maximum specific uptake rates of phenol and oxygen, the critical concentrations of phenol, the half-saturation constants and inhibition constants were determined. Linear relationship between specific phenol uptake rate and the exogenous respiration rate was found regardless of the kind and presence of essential nutrients. At oxygen limitation both the phenol uptake rate and the cell affinity to phenol decreased more strongly compared with those under nutrient limitation. Oxygen in excess resulted in a significant increase of cell tolerance toward phenol. The presence of essential nutrients increased the specific phenol degradation rate and led to complete phenol oxidation.

Biodegradation, Environmental↗
PubMed2005

Effect of humic acids on heavy metal removal by zero-valent iron in batch and continuous flow column systems.

The effects of Aldrich humic acids (HA) on the removal of Zero-valent iron (ZVI) was investigated in laboratory systems. In batch, the removal rate of Zn and Ni (5 mg l(-1)) was, respectively, 2.8 and 2.4 times lower in the presence of HA (20 mg l(-1)) than in the absence of HA, presumably due to the formation of HA-heavy metal complexes which prevented the removal reactions at the ZVI surface. Chromate removal was not affected. In a column test, two parallel systems were supplemented with a continuous input of simulated groundwater containing a mixture of the heavy metals Zn, Ni and Cr(VI) (5 mg l(-1) each), with or without HA (at 20 mg l(-1)). Initially, the two column systems efficiently (>90%) removed the heavy metals from the simulated groundwater. When the input heavy metal concentration was increased to 8-10 mg l(-1), a significant breakthrough of Ni and Zn, up to 80%, occurred in the column system fed with HA. Chromate and HA did not significantly break through. After 60 weeks, the effect of HA on leaching of the accumulated metals (approx. 2 mg g(-1)) was investigated. No significant leaching was observed. The results of this study suggest that the impact of dissolved organic matter on the efficiency and lifetime of a ZVI barrier for in situ removal of heavy metals should be considered in the design of the barrier.

Adsorption↗
PubMed1991

In vitro cultivation of adult Litomosoides carinii: evaluation of basic culture media, gas phases and supplements.

Adult Litomosoides carinii, recovered from cotton rats (Sigmodon hispidus) 4-5 months post-infection (p.i.), were cultivated in vitro with emphasis on investigations into the development of intra-uterine embryonic stages. Baseline values for the embryonic status of female worms were established immediately after recovery from the hosts. In such females, on average, 16% of the intra-uterine stages were fully formed microfilariae while the remainder belonged to the early embryonic classes that were characterized. For the evaluation of culture success, apart from survival of worms in vitro, the rate of microfilariae development (mf rate) served as a major parameter. Of the five basic culture media RPMI 1640, F12, L15, NCTC 135, and IMDM, tested without supplementation, RPMI 1640 yielded by far the best results (survival = 14 days; mf rate = 41%), and was therefore chosen as the routine medium. In comparison with 5% CO2 in nitrogen, a gas phase of 5% CO2 in air was superior, although the resulting oxygen tension of 138 mmHg in the medium was not physiological. Addition of 10% newborn or foetal bovine serum to the medium in some cases distinctly influenced results. Effects of different batches of sera varied from 'filaricidal' to 'very promoting'. Co-cultivation of worms and Sigmodon cells, or rhesus monkey LLCMK2 cells, only marginally improved results. Of the serum substitutes Ultroser G, BMS, and Clex, the latter had a moderately promoting effect. The protein supplements bovine serum albumin, transferrin and haemoglobin significantly improved results, and could replace certain batches of serum. Supplementation with the haemin moiety alone was less effective than with haemoglobin. The anti-oxidants glutathione plus ascorbic acid proved beneficial in combination with a serum supplement only. Results from other experiments with multiple supplementation also suggest that various supplements may act only in a synergistic manner. The longest average time that adult L. carinii survived in vitro was 3-4 weeks. The highest mf rate was 78%, which indicated that all normal embryonic stages present in the uteri of a female at the start of culture completed their development to microfilariae, however, oogenesis ceased in vitro. The parameters for embryonic development employed proved to be highly sensitive for the judgment of various culture conditions.

Animals↗
PubMed2005

Th(IV) adsorption on alumina: effects of contact time, pH, ionic strength and phosphate.

Adsorption of Th(IV) (total concentration, 10(-5)-10(-4) mol/L) was studied by a batch technique. The effects of pH, ionic strength, contact time, and phosphate on the adsorption of Th(IV) onto alumina were investigated. Adsorption isotherms of Th(IV) on alumina at approximately constant pH and three ionic strengths (0.05, 0.1, 0.5 mol/L KNO3) were determined. It was found that the pH values of aqueous solutions of both the Th(IV)-alumina and phosphate-alumina adsorption systems increase with increasing contact time, respectively. Adsorption of Th(IV) on alumina steeply increases with increasing pH from 1 to 4.5 and the adsorption edge consists of three regions. The phosphate added clearly enhances Th(IV) adsorption in the pH range 1-4. From the adsorption isotherms at approximately constant pH and three different ionic strengths, a reduced ionic strength effect was observed and is contradictory to the insensitive effect obtained from the adsorption edges on three oxides of Fe, Al, and Si at different ionic strengths. Compared with the adsorption edges at different ionic strengths, the adsorption isotherms at approximately constant pH and different ionic strengths are more advantageous in the investigation of ionic strength effect. The significantly positive effect of phosphate on Th(IV) adsorption onto alumina was attributed to strong surface binding of phosphate on alumina and the subsequent formation of ternary surface complexes involving Th(IV) and phosphate.

Journal Article↗