Bias-corrected maximum likelihood estimator of the negative binomial dispersion parameter

We derive a first-order bias-corrected maximum likelihood estimator for the negative binomial dispersion parameter. This estimator is compared, in terms of bias and efficiency, with the maximum likelihood estimator investigated by Piegorsch (1990, Biometrics46, 863-867), the moment and the maximum extended quasi-likelihood estimators investigated by Clark and Perry (1989, Biometrics45, 309-316), and a double-extended quasi-likelihood estimator. The bias-corrected maximum likelihood estimator has superior bias and efficiency properties in most instances. For ease of comparison we give results for the two-parameter negative binomial model. However, an example involving negative binomial regression is given.     

Modeling late entry bias in survival analysis

In a failure time analysis, we sometimes observe additional study subjects who enter during the study period. These late entries are treated as left-truncated data in the statistical literature. However, with real data, there is a substantial possibility that the delayed entries may have extremely different hazards compared to the other standard subjects. We focus on a situation in which such entry bias might arise in the analysis of survival data. The purpose of the present article is to develop an appropriate methodology for making inference about data including late entries. We construct a model that includes parameters for the effect of delayed entry bias having no specification for the distribution of entry time. We also discuss likelihood inference based on this model and derive the asymptotic behavior of estimates. A simulation study is conducted for a finite sample size in order to compare the analysis results using our method with those using the standard method, where independence between entry time and failure time is assumed. We apply this method to mortality analysis among atomic bomb survivors defined in a geographical study region.     

Synergistic activity of Sef and Sprouty proteins in regulating the expression of Gbx2 in the mid-hindbrain region

Sef and Sprouty proteins function as feedback antagonists of fibroblast growth factor (Fgf) signaling in zebrafish embryos. To study the role of Sef in mice, we generated Sef homozygous mutant animals. These animals are viable and show normal expression of mid-hindbrain genes at embryonic days 8.5 and 9.5. To investigate the possibility of functional synergism between Sef and Sprouty proteins, we electroporated Sprouty2(Y55A), which functions in a dominant-negative manner in tissue culture cells into the mid-hindbrain region of wildtype and Sef mutant embryos. The expression pattern of Gbx2, a downstream target of Fgf signaling, was expanded or shifted in electroporated embryos, and this effect was significantly enhanced in the Sef mutant background. Altogether, our results demonstrate that Sef and Sproutys function synergistically to regulate Gbx2 expression in the anterior hindbrain.     

Transient response of aerobic and anoxic activated sludge activities to sudden substrate concentration changes

The state-of-the-art understanding of activated sludge processes as summarized in activated sludge models (ASMs) predicts an instantaneous increase in the biomass activity (which is measured, e.g., by the corresponding respiration rate OUR, NUR, etc.) under sudden substrate concentration changes. Experimental data (e.g., short-term batch respiration experiments under aerobic or anoxic conditions) collected for the calibration of the dynamic models (ASMs) often exhibit a transient phenomenon while attaining maximum activity, which cannot be explained by the current understanding of the activated sludge process. That transient phenomenon exhibits itself immediately upon addition of a substrate source to an endogenously respiring activated sludge sample and it usually takes a few minutes until the activated sludge reaches its maximum possible rate under given environmental conditions. This discrepancy between the state-of-the-art model and the experimental data is addressed in detail in this investigation. It is shown that the discrepancy is not caused by an error in the experimental set-up/data but it is rather due to model inadequacy. Among the hypotheses proposed, it appears that this transient response of the activated sludge most likely results from the sequence of intracellular reactions involved in substrate degradation by the activated sludge. Results from studies performed elsewhere with pure cultures (S. cerevisae and E. coli) support the hypothesis. The transient phenomenon can be described by a dynamic metabolic network model or by a simple first-order model, as adopted in this study. The transient phenomenon occurring in short-term batch respiration experiments is shown to interfere severely with parameter estimation if not modeled properly (2.8%, 11.5%, and 16.8% relative errors [average of three experiments] on Y(H), micro(maxH), and K(S), respectively). Proper modeling of this transient phenomenon whose time constant is on the order of minutes (1 to 3 min) is expected to contribute fundamentally to a better understanding and modeling of Orbal, carousel, and SBR-type treatment plants with fast-alternating process conditions, although such studies are beyond the scope of this report.     

Structural elements involved in electron-coupled proton transfer in cytochrome c oxidase

Haem-copper oxidases are the last components of the respiratory chains in aerobic organisms. These membrane-bound enzymes energetically couple the electron transfer (eT) reactions associated with reduction of dioxygen to water, to proton pumping across the membrane. Even though the mechanism of proton pumping at the molecular level still remains to be uncovered, recent progress has presented us with the structural features of the pumping machinery and detailed information about the eT and proton-transfer reactions associated with the pumping process.     

Rab27b localizes to zymogen granules and regulates pancreatic acinar exocytosis

To understand the function of pancreatic zymogen granules, we performed a proteomics analysis to identify ZG membrane components. Here we report the identification of Rab27b through this proteomics study and validate its role in granule function. MALDI-MS peptide mass fingerprint was matched to rat Rab27b with 43% sequence coverage, and the identification was also confirmed by tandem mass spectrometry. The localization of Rab27b on ZGs was confirmed by Western blotting and immunocytochemistry. To examine the function of Rab27b in acinar secretion, we overexpressed wild type and mutant Rab27b protein in pancreatic acini using recombinant adenoviruses. Wild type Rab27b had no effect on amylase secretion, while Rab27b Q78L enhanced, and Rab27b N133I inhibited, CCK-induced amylase release by 92+/-13% and 53+/-8%, respectively. This enhancement and inhibition occurred at all points on the CCK dose-response curve and over a 30min time course. These results demonstrate that Rab27b is present on ZGs and plays an important role in regulating acinar exocytosis.     

低温弱光胁迫及恢复对切花菊光合作用和叶绿素荧光参数的影响

以切花菊品种‘神马’为试材,在偏低温弱光(16℃/12℃,PFD100μmol.m-2.s-1)和临界低温弱光(12℃/8℃,PFD60μmol.m-2.s-1)下分别胁迫11d,然后转入正常条件(22℃/18℃,PFD450μmol.m-2.s-1)恢复11d,研究不同低温弱光强度及恢复对菊花光合作用和叶绿素荧光参数的影响.结果表明:低温弱光导致菊花叶片的净光合速率(Pn)和气孔限制值(Ls)下降,而胞间CO2浓度(Ci)上升.偏低温弱光胁迫下菊花叶片暗适应下最大光化学效率(Fv/Fm)和初始荧光(Fo)无明显变化,但光适应下最大光化学效率(Fv′/Fm′)在处理前期略有下降,后期则有所回升;而临界低温弱光处理的Fo明显升高,Fv/Fm和Fv′/Fm′显著降低.PSⅡ光合电子传递量子效率(ΦPSⅡ)、光化学猝灭系数(qP)和表观光合电子传递速率(ETR)均随着低温弱光胁迫程度的增加和时间的延长而降低;偏低温弱光处理植株在解除胁迫后能迅速恢复到对照水平,而临界低温弱光处理植株回升速度较慢;同时,低温弱光胁迫下吸收光强用于分配光化学反应部分(Prate)的比例减少,而天线热耗散(Drate)和反应中心的能量耗散(Ex)比例上升,但天线热耗散为过剩光能的主要分配途径.     

基于图论模型的蛋白质结构类型的研究

提出了基于图论模型的H系数分类蛋白质结构为H结型和NH结型的方法.论述了蛋白质结构中序列不相邻的C_α原子之间的空间距离与序列相邻的C_α原子之间空间距离的关系.用此方法对PDB的66个单链蛋白质结构进行分类,结果显示H结型占18.2%.H结在全α型中出现比例较高,在全β型中出现比例较小,所以H结倾向出现在含有α螺旋的蛋白质结构中.     

Synthesis, crystal structures and, antibacterial and antiproliferative activities in vitro of palladium(II) complexes of triphenylphosphine and thioamides

Palladium(II) complexes with triphenylphosphine (PPh₃) and thioamides of the general formulae, [Pd(L)₂(PPh₃)₂]Cl₂ and [Pd(L)₂(PPh₃)₂] have been prepared and characterized by elemental analysis, IR and NMR (¹H, ¹³C and ³¹P) methods, and two of them (trans-[Pd(PPh₃)₂(Dmtu)₂]Cl₂·(H₂O)(CH₃OH)_0.5 (1) and trans-[Pd(PPh₃)₂(Mpy)₂] (2)) by X-ray crystallography; where L = thiourea (Tu), methylthiourea (Metu), N,N′-dimethylthiourea (Dmtu), tetramethylthiourea (Tmtu), 2-mercaptopyridine (Mpy), 2-mercaptopyrimidine (Mpm) and thionicotinamide (Tna). The spectral data of the complexes are consistent with the sulfur coordination of thioamides to palladium(II). The crystal structures of the complexes show that (1) has ionic character consisting of [Pd(PPh₃)₂(Dmtu)₂]⁺² cations and uncoordinated Cl⁻ ions, while (2) is a neutral complex with Mpy behaving as anionic thiolate ligand. The coordination environment around palladium in (2) is nearly regular square-planar, while in (1) the trans angles show significant distortions from 180°. The complexes were screened for antibacterial effects, brine shrimps lethality bioassay and antitumor activity. These complexes showed significant activities in most of the cases against the tested bacteria as compared to that of a standard drug. Their antitumor activity against prostate cancer cells (PC3) is comparable with doxorubicin, together with no cytotoxic effects in brine shrimps lethality bioassay study.