bluuebunny/crossref_metadata_2025_split huggingface dataset:
Wireless near-infrared spectroscopy of skeletal muscle oxygenation and hemodynamics during exercise and ischemia
Authors: Shadgan Babak , Reid W. Darlene , Gharakhanlou Reza , Stpublisher-ids Lynn , Macnab Andrew John 
Published: April 2012

The majority ofin vivoapplications of near-infrared spectroscopic (NIRS) monitoring use continuous wave instruments that require a fiberoptic cable connection between the subject and the instrument during monitoring. In studies of muscle physiology where subjects are exercising, and particularly in those who are engaged in sports activity, a wireless instrument with telemetric capacity provides obvious advantages. Having access to reliable telemetric NIRS technology will also increase the practicality and scope of this biomedical monitoring technique in clinical settings.We report the feasibility of using a wireless continuous wave NIRS instrument with light emitting diodes, spatially resolved configuration, and Bluetooth®capability to study skeletal muscle oxygenation and hemodynamics during isometric contraction and ischemia induction.In ten healthy subjects comparable patterns of change in chromophore concentration (oxygenated and deoxygenated hemoglobin), total hemoglobin and muscle oxygen saturation were observed during 3 sets of isometric voluntary forearm muscle contraction at 10, 30 and 50% of maximum voluntary capacity (MVC), and a period of ischemia generated subsequently.This small series indicates that data with good intra- and inter-subject reproducibility that is free of movement artifact can be obtained with the wireless NIRS instrument described. The validity of these muscle studies demonstrate a basis for applying wireless NIRS monitoring to publisher-id biomedical applications.
FT-Raman study of the (sub)picosecond dynamics in genomic DNA from plant tissues
Authors: Muntean Cristina M. , Bratu Ioan 
Published: April 2012

In this paper the Raman total half bandwidths of eight genomic DNAs from leaf tissues [potato (Solanum tuberosumL.), sword fern (Nephrolepis exaltataL.), scopolia (Scopolia carniolicaJacq.), redwood (Sequoia sempervirensD. Don. Endl.), orchids (Cymbidium × hybrida), chrysanthemum (Dendranthema grandifloraRamat.) and common sundew (Drosera rotundifoliaL.)] have been measured. The dependencies of the total half bandwidths and of the global relaxation times, on DNA molecular subgroup structure and on the type of genomic plant DNA, are reported. It is shown that changes in the (sub)picosecond dynamics of molecular subgroups in genomic DNAs from leaf tissues can be monitored with Raman spectroscopy.Particularly, the Raman band parameters for the vibrations at 879 cm−1(deoxyribose, dA), 1047 cm−1(CO stretching C‒O‒P‒O‒C, dG), 1089 cm−1(PO symmetric stretching of PO2‒), 1124 cm−1(dA), 1272 cm−1(dC, dG, dT), 1276 cm−1(dC), 1455 cm−1(deoxyribose, dA, dC, dT) and 1482 cm−1(dG, dA) of genomic leaf tissues DNAs are presented. In our study, the full widths at half-maximum (FWHM) of the bands in genomic DNAs from leaf tissues are typically in the wavenumber range from 7.8 to 23.1 cm−1. It can be observed that the molecular relaxation processes studied in this work, have a global relaxation time smaller than 1.36 ps and larger than 0.46 ps.The fastest and the slowest relaxation processes of different DNA structural subgroups, for several types of genomic DNA extracted from leaf tissue, have been analyzed. Particularly, the slowest dynamics corresponding to the vibration near 1272 cm−1takes place in the case of DNA extracted from common sundew (global relaxation time 1.36 ps).A comparison between different time scales of the vibrational energy transfer processes, characterizing several DNA complexes, has been given.We have found that the bands at 879 cm−1(deoxyribose, phosphodiester, dA) and 1455 cm−1(deoxyribose, dA, dC, dT) are suitable for the study of dynamical behavior of molecular subgroups in genomic DNA extracted from leaf tissues.Specific molecular relaxation processes, depending on the type of genomic DNA extracted from leaf tissues has been observed.
Subpicosecond dynamics in calf-thymus DNA, in the presence of Zn2+ions: A Raman spectroscopic study
Authors: Muntean Cristina M. , Bratu Ioan , Nalpantidis Konstantinos , Purcaru Monica A. P. 
Published: April 2012

In this paper the Raman total half bandwidths of calf-thymus DNA vibrations have been measured as a function of Zn2+ions concentration, in the presence of a constant concentration of Na+ions, respectively. The dependencies of the total half bandwidths and of the global relaxation times, on DNA molecular subgroup structure and on Zn2+ions concentration, are reported. It is shown that changes in the subpicosecond dynamics of molecular subgroups in ZnDNA complexes can be monitored with Raman spectroscopy.Particularly, the Raman band parameters for the vibrations at 729 cm−1(dA), 792 cm−1(dC, dT and 5'-C–O–P–O–C-3' network), 1094 cm−1(DNA backbone PO2−symmetric stretching), 1377 cm−1(dA, dT, dC), 1489 cm−1(the guanine N-7 and adenine rings) and 1581 cm−1(dG, dA) of ZnDNA complexes, in the presence of Zn2+ions concentrations that varied between 0 and 250 mM, are presented. In our study, the full widths at half-maximum (FWHM) of the bands in calf-thymus DNA complexes are typically in the wavenumber range from 10 to 50 cm−1. It can be observed that the molecular relaxation processes studied in this work, have a global relaxation time smaller than 0.94 ps and larger than 0.21 ps. The limit values are characterizing the dA and dG residues, respectively (vibrations at 729 cm−1and 1489 cm−1).Binding of Zn2+ions to double helical calf-thymus DNA results for some vibrations in smaller global relaxation times and larger bandwidths, respectively, possible as a consequence of the increased interaction of the base moieties with the solvent molecules in unstacked structures.The fastest and the slowest dynamics for different DNA structural subgroups and different Zn2+ions concentrations, respectively, have been analyzed.A comparison between different time scales of the vibrational energy transfer processes, characterizing the ZnDNA structural subgroups has been given.We have found that metal ion's type and concentration are modulators for the (sub)picosecond dynamics of calf thymus DNA molecular subgroups.
Rapid-scan FTIR difference spectroscopy applied to ubiquinone reduction in photosynthetic reaction centers: Role of redox mediators
Authors: Mezzetti Alberto 
Published: April 2012

Rapid-scan FTIR difference spectroscopy was used to investigate light-induced reduction of the ubiquinone QB, and the oxidation kinetics of QB–and QH2by external mediators in isolated reaction centers (RCs) fromR. sphaeroides. As redox mediators, a Ferrocyanide/N,N,Nʹ,Nʹ-tetramethyl-p-phenylenediamine (TMPD) mixture and an Ascorbate/2,3,5,6-tetramethyl-p-phenylenediamine (DAD) mixture are compared.Results show that TMPDredrapidly reduces the photoproduced P870+primary donor. The process is fast enough to record rapid-scan FTIR spectra devoid of P870+bands down to 260 K. Results show also that TMPDoxoxidises both QB–and QH2faster than DADox. In particular, QB–is oxidised faster than QH2at all temperatures studied.Results are discussed in the framework of time-resolved infrared studies onR. sphaeroidesRCs, showing advantages/drawbacks of the proposed experimental approach.
Different solid sample preparation methods affecting the spectral similarity of salmon calcitonin
Authors: Lin Shan-Yang , Lin Chih-Cheng , Lee Ting-Huei 
Published: April 2012

Salmon calcitonin (sCT) was selected as a model protein drug for investigating its structural similarity in the solid state by four sample preparation methods, such as tape, smeared, CaF2and film methods. The conformational changes of sCT in the solid state were estimated by using a second-derivative Fourier transform infrared (FT-IR) microspectroscopy. The tape method was acted as a standard reference.The value of correlation coefficient (r) for smeared method was higher than that of other method, indicating that a novel technique by smearing sCT powder on the surface of KBr pellet was the best optimal sample preparation method.
FTIR spectroscopy for detection and identification of fungal phytopathogenes
Authors: Salman A. , Tsror L. , Pomerantz A. , Moreh R. , Mordechai S. , Huleihel M. 
Published: April 2012

Soil-borne fungi are considered as major pathogens to many plants and can cause a severe economic damage. Early detection and identification of these pathogens is very important and might be critical for their control. The available methods for identification of fungi like molecular biology, serological tests and PCRs tests (polymerase chain reaction) are time consuming and not always very specific. Fourier-transform infrared (FTIR) attenuated total reflection (ATR) spectroscopy, is considered to be a comprehensive and sensitive method for detection of molecular changes in intact cells.In the present study we used FTIR–ATR as a sensitive and effective assay for the detection and discrimination between different fungal genera. Our results showed significant spectral differences between the various examined fungi genera. These results proved the possibility of discrimination between these fungi on the genus level.
Analysis of spectroscopic diffuse reflectance plots for different skin conditions
Authors: Prince Shanthi , Malarvizhi S. 
Published: April 2012

Optical means of characterizing tissues have gained importance due to its noninvasive nature. Spectral characteristics of the components provide useful information to identify the components, because different chromophores have different spectroscopic responses to electromagnetic waves of a certain energy band. The purpose of this study is to determine whether visible/near-infrared diffuse reflectance spectroscopy can be used to non-invasively characterize skin diseasesin vivo.An optical fiber spectrometer is set up for obtaining diffuse reflectance spectra. The method involves exposure of skin surface to white light produced by an incandescent source. The back scattered photons emerging from various layers of tissue are detected by spectrometer resulting in diffuse reflectance spectra.For the present study different skin conditions like – warts, vitiligo, thrombus (due to injury) and angioma are chosen. The spectral data obtained from the scan are plotted and compared. More or less, the shapes of the spectral curves for various skin conditions resemble. In order to characterize and differentiate different diseased state spectral analysis based on Ratio analysis, Student'st-tests and difference plot are carried out.Based on the analysis the relative spectral intensity changes are quantified and the spectral shape changes are enhanced and more easily visualized on the spectral curves, thus assisting in differentiating the normal tissue from the one affected by disease.
Laser Raman micro-spectroscopy of Proterozoic and Palaeozoic organic-walled microfossils (acritarchs and prasinophytes) from the Ghadamis Basin, Libya and Volta Basin, Ghana
Authors: Dhamelincourt Marie-Claire , Vecoli Marco , Mezzetti Alberto , Cesari Christian , Versteegh Gerard , Riboulleau Armelle 
Published: April 2012

Laser Raman microspectroscopy was used as a microchemical analysis technique to characterize the wall chemistry of organic-walled microfossils (acritarchs and prasinophytes) extracted from Proterozoic (Tonian: ca. 900 Myr) and early Palaeozoic (Silurian: ca. 420 Myr) marine sediments in the Volta Basin of Ghana, and the Ghadamis Basin of Libya, respectively. Raman spectra of Proterozoic acritarchs show spectral features characteristic of kerogenous compounds at ~1350 and ~1600 cm−1, consistently with previously published reports. In addition, spectra from prasinophyte algae from the Silurian sample also show an interesting spectral feature at ~1707 cm−1indicative of carbonyl moieties.Broadly speaking, shape and position of Raman bands appear to depend on the nature of the specimen considered, suggesting that laser micro-Raman analysis can potentially be used to establish phylogenetic relationships (high-rank taxonomy) among the main groups of pre-Cambrian to Palaeozoic palynomorphs.
Development of a quantitative and conformation-sensitive ATR-FTIR biosensor for Alzheimer's disease: The effect of deuteration on the detection of the Aβ peptide
Authors: Kleiren Emilie , Ruysschaert Jean-Marie , Goormaghtigh Erik , Raussens Vincent 
Published: April 2012

Alzheimer's disease (AD) is the most common form of dementia worldwide and represents a growing socio-economical issue. To date, no reliable diagnosis can be obtained at an early-stage of the disease, though it is now recognized that the aggregation of the amyloid β (Aβ) peptide is responsible for the onset of the disease. Recent studies have shown that soluble amyloid oligomers present in the physiological fluids were the most neurotoxic species and correlated best with the first signs of cognitive decline, which makes them good biomarkers in the development of a diagnostic tool.We describe here a new type of biosensor, based on attenuated total reflection Fourier transform infrared (ATR-FTIR) spectroscopy, that would be able to specifically detect and quantify the presence of the different forms of the Aβ peptide in solution. The principle of the detection relies on the recognition of the peptides by specific antibodies that were previously grafted on the surface of an ATR element, consisting of a functionalized germanium crystal. We show that the BIA-ATR technology is able to detect the presence of Aβ if incubated in deuterated water and that this step is crucial in the development of our conformation-sensitive biosensor for AD.
ATR–FTIR, a new tool to analyze the oligomeric content of Aβ samples in the presence of apolipoprotein E isoforms
Authors: Cerf Emilie , Ruysschaert Jean-Marie , Goormaghtigh Erik , Raussens Vincent 
Published: April 2012

Alzheimer̕s disease (AD) is a neurodegenerative disorder caused by the aggregation of the amyloid-beta peptide (Aβ), leading to amyloid plaques deposition in the brain. Although Aβaggregation pathway still remains unclear, recent studies point out the enhanced toxicity of oligomers compared to fibrils. The E4 isoform of apolipoprotein E (ApoE) is the major risk factor in AD as people carrying one ɛ4 allele have significantly higher chances to develop the disease. Nevertheless, this phenomenon is still poorly understood.Our group has shown that attenuated total reflection Fourier-transform infrared spectroscopy (ATR–FTIR) could discriminate between Aβ42 oligomers and fibrils. Indeed, oligomers display anti-parallel β-sheet spectral components while fibrils are characterized by a parallelβ-sheet organization. Using those spectral features to analyze the oligomeric content of our samples, we studied the influence of ApoE on Aβ42 aggregation. Our experiments demonstrated that ApoE3 increased the amount of Aβ42 oligomers in the sample.We can thus determine the proportion of Aβoligomers in the presence of another compound in the sample. We plan to use ATR–FTIR to assess the effects of the other isoforms of ApoE on Aβaggregation. Moreover, this could be extended to study the influence of other molecules or proteins on Aβaggregation.
Abstract A105: Genetic variations in sonic pathway genes as predictors of bladder cancer risk
Authors: Clague Jessica , Lin Jie , Chang Joshua , Hildebrandt Michelle , Izzo Julie , Yang Hushan , Kamat Ashish , Wu Xifeng 
Published: May 2012

Abstract
A105

BACKGROUND
The hedgehog (Hh) signaling pathway plays a crucial role in normal embryonic development. However, abnormal activation of the pathway later in life has been demonstrated in a variety of human diseases, including bladder cancer.

METHODS
We genotyped 171 potentially functional single nucleotide polymorphisms (SNPs) and tagging SNPs among seven Sonic Hedgehog pathway-related genes in a case-control study including 803 Caucasian bladder cancer patients and 803 matched controls.

RESULTS
The homozygous variant genotype of a SNP located in the Intron of Gli2 (rs4848123) was associated with a significantly increased bladder cancer risk [odds ratios (OR), 4.21; 95% confidence interval (95% CI), 1.15-15.44]. Likewise, the homozygous variant genotype of a 3’ UTR SNP (rs3823720) and a SNP in the Intron (rs10951671) of GLI3 was associated with a significantly increased bladder cancer risk (OR, 1.58, 95% CI, 1.10-2.26; and OR, 1.87, 95% CI, 1.14-3.06; respectively). To assess the cumulative effects, we performed a combined unfavorable genotype analysis that included all SNPs showing at least a borderline statistical significance. We found that, compared with the low-risk reference group with less than two unfavorable genotypes, the medium-risk group with two unfavorable genotypes exhibited a 1.29-fold (0.92-1.81) increased risk and the high-risk group with more than two unfavorable genotypes exhibited a 1.92-fold (1.36-2.71) increased risk (P(trend) &lt; 0.0001).

CONCLUSION
To our knowledge, this is the first epidemiologic study showing that sonic pathway-related genetic variants may affect bladder cancer risk individually and jointly.
Citation Information: Cancer Prev Res 2008;1(7 Suppl):A105.
Abstract A108: Predictors of hormone receptor status in ovarian cancer: results from the Nurses’ Health Study
Authors: Kotsopoulos Joanne , Hecht Jonathan , Hankinson Susan , Tworoger Shelley 
Published: May 2012

Abstract
A108
Predictors of hormone receptor status in ovarian cancer: results from the Nurses’ Health Study

Background
Hormone receptor expression in tumors may offer etiologic information for ovarian cancer, particularly in light of known associations with hormonal and reproductive risk factors.

Methods
TMAs were constructed using triplicate core samples extracted from 157 paraffin-embedded blocks of confirmed epithelial ovarian tumors collected from participants in the Nurses’ Health Study and stained for estrogen receptor-alpha (ERα) and progesterone receptor (PR). We examined receptor expression by stage, grade and histologic subtype. Multivariate unconditional logistic regression was used to evaluate whether various hormonal, reproductive and anthropometric risk factors differed by ERα and PR expression among cases, and whether these exposures are differentially associated with the risk of developing receptor-positive or receptor-negative ovarian cancer compared to controls.

Results
PR expressing tumors were less likely to be invasive (P = 0.05) and more likely to be of a lower grade (P &lt; 0.001) compared with PR- tumors. ERα status was not associated with any pathological features of the tumor (P ≥ 0.76). In the case-control analysis, increasing age, being postmenopausal, and PMH use were associated with an increased risk of developing ERα+, but not ERα-, (P for heterogeneity = 0.001, 0.06, and 0.06, respectively) and PR-, but not PR+, tumors (P for heterogeneity = 0.08, 0.003, and 0.40, respectively), while height was only associated with the risk of developing PR- disease (P for heterogeneity = 0.08). There were no clear differential associations of OC use, parity, adolescent or adult BMI, or physical activity with expression of either receptor. Results were similar in the case-case analysis.

Conclusion
Despite limited statistical power, our findings suggest that various risk factors are only associated with certain tumor subtypes based on hormone receptor expression, thus providing mechanistic evidence regarding these relationships in the etiology of ovarian cancer. Given our small sample size, confirmatory studies are required to further delineate these relationships.
Citation Information: Cancer Prev Res 2008;1(7 Suppl):A108.
Abstract A116: Nonsteroidal anti-inflammatory drug use and risk of gastric and esophageal adenocarcinoma in a large cohort study
Authors: Abnet Christian , Freedman Neal , Leitzmann Michael , Hollenbeck Albert , Schatzkin Arthur 
Published: May 2012

Abstract
A116

Background
Previous studies suggest that the use of aspirin or non-aspirin nonsteroidal anti-inflammatory drugs (NSAIDs) may reduce the risk of gastric and esophageal adenocarcinomas, but few studies have been prospective, have used data collected directly from subjects, and have controlled for the many potential confounders. Methods: We examined the association between aspirin or non-aspirin NSAID use and incident gastric noncardia (N=182), gastric cardia (N=178), and esophageal adenocarcinomas (N=228) in the NIH-AARP Diet and Health prospective cohort study with subjects followed for up to 7 years. We estimated the hazard ratios (HR) and 95% confidence intervals (CI) in Cox models for any use of aspirin or non-aspirin NSAIDs in the previous twelve months or for the typical frequency of use (at least monthly, weekly, or daily) with adjustment for age, sex, smoking, alcohol, BMI, education, physical activity, and fruit and vegetable intake.

Results
For gastric noncardia cancer, we found that any aspirin use had an HR (95%CI) of 0.64 (0.47-0.86) and for daily use 0.57 (0.39-0.85). The age-standardized incidence rates (95% CI) per 100,000 person years dropped from 11.0 (8.4-13.6) in non-aspirin users to 7.0 (5.7-8.3) in users. For any non-aspirin NSAID use we found an HR (95%CI) of 0.68 (0.51-0.92) and for daily use 0.82 (0.50-1.34). We found no significant association between NSAID use and gastric cardia cancer or esophageal adenocarcinoma. For the latter, any or daily aspirin use had HR (95% CI) of 1.00 (0.73-1.37) and 1.11 (0.78-1.57), respectively.

Conclusions
We found a strong association between NSAID use, especially aspirin, and reduced risk of noncardia gastric adenocarcinoma, but not adenocarcinoma of the gastric cardia or esophagus.
Citation Information: Cancer Prev Res 2008;1(7 Suppl):A116.
Abstract A122: Trichomonosis and subsequent risk of prostate cancer in the Prostate Cancer Prevention Trial
Authors: Sutcliffe Siobhan , Alderete John , Till Cathee , Goodman Phyllis , Hsing Ann , Zenilman Jonathan , De Marzo Angelo , Platz Elizabeth 
Published: May 2012

Abstract
A122
We previously observed a positive association between a history of trichomonosis, a sexually transmitted infection caused by the protozoan, Trichomonas vaginalis, and prostate cancer risk in the Health Professionals Follow-up Study. To determine the reproducibility of this finding, we conducted a second, prospective investigation of trichomonosis and prostate cancer in the Prostate Cancer Prevention Trial. Participants were men ≥55 years of age with no evidence of prostate cancer at enrollment (n=18,882). Men were screened annually for prostate cancer, and if not diagnosed during the trial, were offered an end-of-study prostate biopsy. Cases were a sample of men diagnosed with prostate cancer on any biopsy after visit 2 or on their end-of-study biopsy (n=616). Controls were men not diagnosed with prostate cancer during the trial or on their end-of-study biopsy (n=616). Controls were frequency-matched to cases by age, treatment arm, and family history of prostate cancer. Serum from visit 2 was tested for anti-T. vaginalis IgG antibodies. No association was observed between anti-T. vaginalis antibody serostatus and prostate cancer. 21.5% of cases and 24.8% of controls had low antibody seropositivity, and 15.2% and 15.0% had high seropositivity. Compared to seronegative men, the odds ratio of prostate cancer for men with low seropositivity was 0.83 (95% confidence interval (CI): 0.63-1.09), and that for men with high seropositivity was 0.97 (95% CI: 0.70-1.34). Given the original strong biologic rationale and potential for prevention, additional studies are warranted to help resolve discrepancies between study findings, and further investigate this hypothesis from a variety of different approaches.
Funding: NCI/NIH P01 CA108964 (Biology of the PCPT). The content of this work is solely the responsibility of the authors and does not necessarily represent the official views of the National Institutes of Health.
Citation Information: Cancer Prev Res 2008;1(7 Suppl):A122.