bluuebunny/crossref_metadata_2025_split huggingface dataset:
Increased expression of adrenomedullin 2/intermedin in rat hearts with congestive heart failure
Authors: Hirose Takuo , Totsune Kazuhito , Mori Nobuyoshi , Morimoto Ryo , Hashimoto Masahiro , Nakashige Yukiko , Metoki Hirohito , Asayama Kei , Kikuya Masahiro , Ohkubo Takayoshi , Hashimoto Junichiro , Sasano Hironobu , Kohzuki Masahiro , Takahashi Kazuhiro , Imai Yutaka 
Published: August 2008

AbstractAdrenomedullin 2/intermedin (AM2/IMD) is a novel member of the calcitonin/calcitonin gene‐related peptide family. To investigate the pathophysiological role of AM2/IMD in heart failure, we examined the expression of AM2/IMD, adrenomedullin (AM) and receptor complex components (calcitonin receptor‐like receptor, three types of receptor activity‐modifying proteins) by quantitative RT‐PCR and immunohistochemistry in the hearts and kidneys of rats with congestive heart failure (CHF). Significantly increased levels of AM2/IMD mRNAwere found in the atrium, right ventricle, non‐infarcted part of the left ventricle and the infarcted part of the left ventricle of CHF rats, compared with sham operated rats (about 2.8‐fold, 1.7‐fold, 1.7‐fold and 2.5‐fold, respectively). Expression levels of mRNA encoding AM and the receptor complex components were also increased in the hearts of CHF rats. In a separate experiment, AM2/IMD mRNA levels in the heart did not differ between Wistar—Kyoto and spontaneously hypertensive rats. In both sham operated and CHF rats, the myocardium was diffusely immunostained with AM2/IMD. The fibrotic infarcted layer was not immunostained with AM2/IMD but was surrounded by positively immunostained myocardial layers. These findings suggest that the expression of AM2/IMD is enhanced in the failing heart, and AM2/IMD has a certain pathophysiological role in heart failure.
Nuclear localization of profilin III–ArpM1 complex in mouse spermiogenesis
Authors: Hara Yuki , Yamagata Kazuo , Oguchi Kei , Baba Tadashi 
Published: August 2008

MINT‐6741685, MINT‐6741696, MINT‐6741707:

Arpm1 (uniprotkb:Q8BXF8) physically interacts (MI:0218) with Profilin-3 (uniprotkb:Q9DAD6) by antibait coimmunoprecipitation (MI:0006)
MINT‐6741718:

Profilin-3 (uniprotkb:Q9DAD6) and Arpm1 (uniprotkb:Q8BXF8) colocalize (MI:0403) by fluorescence microscopy (MI:0416)
MINT‐6741756:

Profilin-1 (uniprotkb:P62962) binds (MI:0407) to beta actin (uniprotkb:P60710) by pull-down (MI:0096)
MINT‐6741650:

Arpm1 (uniprotkb:Q8BXF8) physically interacts (MI:0218) with C030004A17Rik (uniprotkb:Q8C569), Vcp p97/p47 (uniprotkb:Q8CDG3), Kif21a (uniprotkb:Q9QXL2), Zfp291 (uniprotkb:Q501L8), Vcp (uniprotkb:Q01853) and Profilin-3(uniprotkb:Q9DAD6) by antibait coimmunoprecipitation (MI:0006)
MINT‐6741746:

Profilin-3 (uniprotkb:Q9DAD6) binds (MI:0407) to beta actin (uniprotkb:P60710) by pull-down (MI:0096)
MINT‐6741735:
Patterns of cerebral white matter damage and cognitive impairment in adolescents born very preterm
Authors: Soria‐Pastor Sara , Gimenez Monica , Narberhaus Ana , Falcon Carles , Botet Francesc , Bargallo Nuria , Mercader Josep Maria , Junque Carme 
Published: August 2008

AbstractThere is increasing evidence about the presence of white matter damage in subjects with a history of premature birth, even in those classified as good outcome because of an apparently normal development. Although intellectual performance is within normal limits in premature children it is significantly decreased compared to paired controls. The purpose of this study was to investigate the relationship between a lower performance intelligence quotient and white matter damage in preterm adolescents. The sample comprised 44 adolescents (mean age ± S.D.: 14.4 ± 1.6 years) born before 32 weeks of gestational age and 43 term‐born adolescents (14.5 ± 2.1 years). Individual voxel‐based morphometry analyses demonstrated that 35/44 (80%) preterm subjects had white matter abnormalities. The centrum semiovale and the posterior periventricular regions were the most frequently affected areas. Correlation analysis showed that in preterms the performance intelligence quotient correlated with the whole‐brain white matter volume (r = 0.32; P = 0.036) but not with grey matter volume. Complementary analysis showed that low scores in the Digit Symbol subtest, a measure of processing speed, in the preterm group correlated with reductions in white matter concentration. These results suggest that white matter damage is highly common and that it persists until adolescence. Hence, diffuse white matter loss may be responsible for performance intelligence quotient and processing speed decrements in subjects with very preterm birth.
Long‐term functional restoration by neural progenitor cell transplantation in rat model of cognitive dysfunction: co‐transplantation with olfactory ensheathing cells for neurotrophic factor support
Authors: Srivastava N. , Seth K. , Khanna V.K. , Ansari R.W. , Agrawal A.K. 
Published: August 2008

AbstractNeural progenitor cell transplantation has emerged as a promising approach for cell replacement therapy in the brain of neurodegenerative diseases. These are multipotent stem cells with self‐renewal capabilities and can give rise to cells of all the three lineages of nervous system and can be maintained and differentiated to desirable neuronal subtypesin vitrowith known trophic factors. However, like fetal cells, neural progenitor cells after differentiating to specific neuronal type also require continuous neurotrophic factor support for their long‐term survival following transplantation. Recent reports suggest that olfactory ensheathing cells are capable of providing continuous neurotrophic factor to the transplanted neural progenitor cells for their long‐term survival. In the present investigation, an attempt has been made to validate functional restoration in kainic acid lesioned rat model of cognitive dysfunction following co‐transplantation of neural progenitor cells with olfactory ensheathing cells.Animals lesioned with kainic acid in CA3 subfield of hippocampal region were transplanted with neural progenitor cells, olfactory ensheathing cells or neural progenitor cells + olfactory ensheathing cells together. Twelve weeks post‐transplantation functional restoration was assessed using neurobehavioral, neurochemical, and immunohistochemical approaches. Significant recovery in learning and memory (89%) was observed in co‐transplanted group when compared to lesioned group. This was accompanied by significantly higher expression of choline acetyltransferase and restoration in cholinergic receptor binding in co‐transplanted group (61%) over the animals transplanted either olfactory ensheathing cells or neural progenitor cells alone. Role of olfactory ensheathing cells in supplementing neurotrophic factors was further substantiatedin vitroby pronounced differentiation of neural progenitor cells to choline acetyltransferase/acetylcholine esterase immunoreactive cells when co‐cultured with olfactory ensheathing cells as compared to neural progenitor cells alone. The results strengthened the hypothesis that co‐transplantation of olfactory ensheathing cells and neural progenitor cells may be a better approach for functional restoration in kainic acid induced rat model of cognitive dysfunction.
Holocene environmental and climatic changes inferred from Wulungu Lake in northern Xinjiang, China
Authors: Liu Xingqi , Herzschuh Ulrike , Shen Ji , Jiang Qingfen , Xiao Xiayun 
Published: August 2008

AbstractSedimentological, geochemical and palynological data from Wulungu Lake in northern Xinjiang, China, are used to reconstruct environmental and climate changes since 9550 cal yr BP. High abundance of Sparganium and Poaceae, low Md (median diameter) and δ13Corganic values indicate aridity between 9550 and 6730 cal yr BP. High Md and δ13Corganic values, and the prevalence of desert-steppe and steppe vegetation between 4200 and 560 cal yr BP, indicate that effective moisture increased after 6730 cal yr BP, peaking at 4200 and 560 cal yr BP. Low Md values, a negative excursion of δ13Corg, and the transition from steppe to desert vegetation since 560 cal yr BP reflect a decrease in effective moisture during the latest Holocene. Late Holocene human activities were indicated by sharp increase in the abundance of Pediastrum then. Variations in carbonate contents indicate that temperature was generally high between 9550 and 7740 cal yr BP, low between 7740 and 6730 cal yr BP, intermediate between 6730 and 560 cal yr BP, and low during the last 560 yr. Regional comparison indicates that the Asian monsoon did not extend to Wulungu Lake and westerlies were the main factor in determining the moisture availability during the Holocene.
Experimental results on the nonlinear∞control via quasi-LPV representation and game theory for wheeled mobile robots
Authors: Inoue Roberto S. , Siqueira Adriano A. G. , Terra Marco H. 
Published: August 2008

SUMMARYIn this paper, nonlinear dynamic equations of a wheeled mobile robot are described in the state-space form where the parameters are part of the state (angular velocities of the wheels). This representation, known as quasi-linear parameter varying, is useful for control designs based on nonlinear∞approaches. Two nonlinear∞controllers that guarantee induced2-norm, between input (disturbances) and output signals, bounded by an attenuation level γ, are used to control a wheeled mobile robot. These controllers are solved via linear matrix inequalities and algebraic Riccati equation. Experimental results are presented, with a comparative study among these robust control strategies and the standard computed torque, plus proportional-derivative, controller.
6-DOF parallel manipulators with better dexterity, rotatability, or singularity-free workspace
Authors: Tsai K. Y. , Lee T. K. 
Published: August 2008

SUMMARYIsotropic manipulators are generally considered as designs with optimum dexterity. Currently, many 6-DOF (degrees-of-freedom) isotropic parallel manipulators can be developed by numerical or analytical methods. At an isotropic configuration, a manipulator is equidistant from its neighboring singular points. The distance, however, can be very small, so an isotropic design might have relatively smaller singularity-free workspace. This paper presents methods to develop traditional 6-DOF parallel manipulators with better dexterity and larger singularity-free workspace. Some fully symmetric nontraditional designs are then proposed. The evaluation of kinematic properties shows that the fully symmetric designs have very good global dexterity, better rotatability, and relatively larger singularity-free workspace. The manipulators are suitable for some special tasks requiring higher precision, better rotatability, or larger workspace.
Richard Burton's Somali Expedition, 1854–55: Its Wider Historical Context and Planning
Authors: Godsall Jon R. 
Published: August 2008

AbstractThis article provides, for the first time, a detailed and authentic account of the genesis and planning of the Somali Expedition, derived from previously unresearched documents in the Oriental and India Office Collections of the British Library, and supplemented by material from the archives of the Royal Geographical Society. The author has sought to give the subject a wider historical perspective than that provided by Burton, by including details from the works of earlier travellers in the north-east region of Africa such as James Bruce, Lord Valentia, and Henry Salt, which, to a greater or lesser degree, have a bearing on Somalia. He has also touched on the ‘Eastern Question’, especially with regard to Muhammed Ali's territorial ambitions in Arabia, which was an important factor in the British decision to annex Aden in 1839, leading inevitably to the development of an important relationship, both commercial and strategic, with the Somali coast across the Gulf.
Buddhist Saints in Ancient Vedisa
Authors: Willis Michael 
Published: August 2008

AbstractThe Buddhist saints, that are the subject of this article, are known from a series of inscribed reliquaries collected by Alexander Cunningham and F. C. Maisey at Sanchi and neighbouring sites in central India. The inscriptions, dating to the circa early first century BC, have been known since readings of them were first published the mid-nineteenth century. The detailed re-examination of the records presented in this article shows that the reliquary inscriptions give special prominence to five Buddhist saints. The names given correspond to the five missionaries who, according to Pali sources, were sent to the Himalayan region at the time of the Third Council in the mid-third century BC. This indicates that (a) the Hemavata school was responsible for the re-vitalization of Sanchi in the post-Mauryan period and (b) that there was a well-established tradition about the nature of the Third Council in the first century BC.
Solamargine induces apoptosis and enhances susceptibility to trastuzumab and epirubicin in breast cancer cells with low or high expression levels of HER2/neu
Authors: Shiu Li Yen , Liang Chia Hua , Chang Li Ching , Sheu Hamm Ming , Tsai Eing Mei , Kuo Kou Wha 
Published: August 2008

Trastuzumab is used for breast cancer patients with high expression levels of HER2 (human epidermal growth factor receptor 2)/neu; however, it has no effect on cancers with low levels of HER2/neu. SM (solamargine), a major steroidal alkaloid glycoside purified from Solanum incanum, triggered apoptosis of breast cancer cells (MCF-7 and SK-BR-3 cells) and non-cancerous breast epithelial cells (HBL-100 cells) within 3 h. To extend the application of trastuzumab in breast cancer patients, the regulation of HER2/neu expression by SM was investigated. SM significantly up-regulates HER2/neu expression in breast cancer cells with low and high expression levels of HER2/neu, and synergistically enhanced the effect of trastuzumab in inhibiting cell proliferation. Additionally, HER2/neu and TOP2A [TopoII (topoisomerase II) α] genes share the same amplicon on an identical chromosome. Notably, SM co-regulates HER2/neu and TopoIIα expression markedly, and enhances TopoII inhibitor–EPI (epirubicin)-induced cytotoxicity to breast cancer cells.
Adhesion molecules (VCAM‐1 and ICAM‐1) and C‐reactive protein in women with history of preeclampsia
Authors: PORTELINHA ANA , BELO LUÍS , TEJERA EDUARDO , REBELO IRENE 
Published: August 2008

AbstractSeveral studies suggest that women with previous preeclampsia (PE) are at increased risk of cardiovascular disease (CVD). We examined circulating concentrations of adhesion molecules and C‐reactive protein (CRP), markers for endothelial and inflammatory reactions, in addition to blood pressure and anthropometric measurements in 58 women with a history of PE and 49 control women with no pathology associated to pregnancy. Soluble adhesion molecules were measured by standard commercial ELISA methods and plasma CRP levels by automated enzymatic assays. Systolic and diastolic blood pressures and waist‐to‐hip ratios were significantly higher in women with history of PE than in control group. There were no significant differences in circulating levels of sICAM‐1, sVCAM‐1 and CRP in the study population. Women with a history of PE do not have a persistent inflammatory state that could induce overexpression of these molecules, which was supported by normal levels of CRP. The study supports the existence of common risk factors for PE and CVD, namely obesity and hypertension.
Computational prediction of human proteins that can be secreted into the bloodstream
Authors: Cui Juan , Liu Qi , Puett David , Xu Ying 
Published: August 2008

Abstract
We present a novel computational method for predicting which proteins from highly and abnormally expressed genes in diseased human tissues, such as cancers, can be secreted into the bloodstream, suggesting possible marker proteins for follow-up serum proteomic studies. A main challenging issue in tackling this problem is that our understanding about the downstream localization after proteins are secreted outside the cells is very limited and not sufficient to provide useful hints about secretion to the bloodstream. To bypass this difficulty, we have taken a data mining approach by first collecting, through extensive literature searches, human proteins that are known to be secreted into the bloodstream due to various pathological conditions as detected by previous proteomic studies, and then asking the question: ‘what do these secreted proteins have in common in terms of their physical and chemical properties, amino acid sequence and structural features that can be used to predict them?’ We have identified a list of features, such as signal peptides, transmembrane domains, glycosylation sites, disordered regions, secondary structural content, hydrophobicity and polarity measures that show relevance to protein secretion. Using these features, we have trained a support vector machine-based classifier to predict protein secretion to the bloodstream. On a large test set containing 98 secretory proteins and 6601 non-secretory proteins of human, our classifier achieved ∼90% prediction sensitivity and ∼98% prediction specificity. Several additional datasets are used to further assess the performance of our classifier. On a set of 122 proteins that were found to be of abnormally high abundance in human blood due to various cancers, our program predicted 62 as blood-secreted proteins. By applying our program to abnormally highly expressed genes in gastric cancer and lung cancer tissues detected through microarray gene expression studies, we predicted 13 and 31 as blood secreted, respectively, suggesting that they could serve as potential biomarkers for these two cancers, respectively. Our study demonstrated that our method can provide highly useful information to link genomic and proteomic studies for disease biomarker discovery. Our software can be accessed at http://csbl1.bmb.uga.edu/cgi-bin/Secretion/secretion.cgi.
Contact: xyn@bmb.uga.edu
Supplementary information: Supplementary data are available at Bioinformatics online.
Detection of stoichiometric inconsistencies in biomolecular models
Authors: Gevorgyan Albert , Poolman Mark G. , Fell David A. 
Published: August 2008

Abstract
Motivation: Metabolic modelling provides a mathematically rigorous basis for system-level analysis of biochemical networks. However, the growing sizes of metabolic models can lead to serious problems in their construction and validation. In this work, we describe a relatively poorly investigated type of modelling error, called stoichiometric inconsistencies. These errors are caused by incorrect definitions of reaction stoichiometries and result in conflicts between two fundamental physical constraints to be satisfied by any valid metabolic model: positivity of molecular masses of all metabolites and mass conservation in all interconversions.
Results: We introduce formal definitions of stoichiometric inconsistencies, inconsistent net stoichiometries, elementary leakage modes and other important fundamental properties of incorrectly defined biomolecular networks. Algorithms are described for the verification of stoichiometric consistency of a model, detection of unconserved metabolites and inconsistent minimal net stoichiometries. The usefulness of these algorithms for effective resolving of inconsistencies and for detection of input errors is demonstrated on a published genome-scale metabolic model of Saccharomyces cerevisiae and one of Streptococcus agalactiae constructed using the KEGG database.
Availability: http://mudshark.brookes.ac.uk/index.php/Albert_Gevorgyan
Contact: dfell@brookes.ac.uk
SeqMap: mapping massive amount of oligonucleotides to the genome
Authors: Jiang Hui , Wong Wing Hung 
Published: August 2008

Abstract
Summary: SeqMap is a tool for mapping large amount of short sequences to the genome. It is designed for finding all the places in a reference genome where each sequence may come from. This task is essential to the analysis of data from ultra high-throughput sequencing machines. With a carefully designed index-filtering algorithm and an efficient implementation, SeqMap can map tens of millions of short sequences to a genome of several billions of nucleotides. Multiple substitutions and insertions/deletions of the nucleotide bases in the sequences can be tolerated and therefore detected. SeqMap supports FASTA input format and various output formats, and provides command line options for tuning almost every aspect of the mapping process. A typical mapping can be done in a few hours on a desktop PC. Parallel use of SeqMap on a cluster is also very straightforward.
Contact: whwong@stanford.edu
Effects of dog ownership in early childhood on immune development and atopic diseases
Authors: Bufford J. D. , Reardon C. L. , Li Z. , Roberg K. A. , DaSilva D. , Eggleston P. A. , Liu A. H. , Milton D. , Alwis U. , Gangnon R. , Lemanske R. F. , Gern J. E. 
Published: August 2008

SummaryBackground
Exposure to pets in childhood has been associated with a reduced risk of wheezing and atopy.Objective
Our objective was to determine whether the effects of pet exposure on immune development and atopy in early childhood can be explained by alterations in exposure to innate immune stimuli in settled dust.Methods
Two hundred and seventy‐five children at increased risk of developing allergic diseases were evaluated to age 3 years for pet ownership, blood cell cytokine responses, and atopy. Can f 1, Fel d 1, endotoxin, ergosterol, and muramic acid were measured in settled dust from 101 homes.Results
Dog exposure at birth was associated with decreased atopic dermatitis (AD) (12% vs. 27%; P=0.004) and wheezing (19% vs. 36%; P=0.005) in year 3. The rates of AD (23%) and wheezing (42%) in year 3 were relatively high in children who acquired dogs after birth. The prevalence of dog sensitization (10–12%) did not vary according to dog exposure. Can f 1 levels in bedroom dust were positively associated with IL‐10 (r=0.26; P=0.01), IL‐5 (r=0.34, P<0.001), and IL‐13 (r=0.28; P=0.004) responses at age 1, and IL‐5 (r=0.24; P=0.022) and IL‐13 (r=0.25; P=0.015) responses at age 3. In contrast, endotoxin was associated with IFN‐γ (r=0.31; P=0.002) and IL‐13 (r=0.27; P=0.01) responses at age 3 but not at age 1, and similar relationships were present for muramic acid. Adjustment for levels of innate immune stimuli in house dust did not significantly affect the relationships between Can f 1 and cytokine responses.Conclusions
Exposure to dogs in infancy, and especially around the time of birth, is associated with changes in immune development and reductions in wheezing and atopy. These findings are not explained by exposure to endotoxin, ergosterol, or muramic acid.