bluuebunny/crossref_metadata_2025_split huggingface dataset:
Anaerobic Decomposition of Switchgrass by Tropical Soil-Derived Feedstock-Adapted Consortia
Authors: DeAngelis Kristen M. , Fortney Julian L. , Borglin Sharon , Silver Whendee L. , Simmons Blake A. , Hazen Terry C. 
Published: February 2012

ABSTRACTTropical forest soils decompose litter rapidly with frequent episodes of anoxic conditions, making it likely that bacteria using alternate terminal electron acceptors (TEAs) play a large role in decomposition. This makes these soils useful templates for improving biofuel production. To investigate how TEAs affect decomposition, we cultivated feedstock-adapted consortia (FACs) derived from two tropical forest soils collected from the ends of a rainfall gradient: organic matter-rich tropical cloud forest (CF) soils, which experience sustained low redox, and iron-rich tropical rain forest (RF) soils, which experience rapidly fluctuating redox. Communities were anaerobically passed through three transfers of 10 weeks each with switchgrass as a sole carbon (C) source; FACs were then amended with nitrate, sulfate, or iron oxide. C mineralization and cellulase activities were higher in CF-FACs than in RF-FACs. Pyrosequencing of the small-subunit rRNA revealed members of theFirmicutes,Bacteroidetes, andAlphaproteobacteriaas dominant. RF- and CF-FAC communities were not different in microbial diversity or biomass. The RF-FACs, derived from fluctuating redox soils, were the most responsive to the addition of TEAs, while the CF-FACs were overall more efficient and productive, both on a per-gram switchgrass and a per-cell biomass basis. These results suggest that decomposing microbial communities in fluctuating redox environments are adapted to the presence of a diversity of TEAs and ready to take advantage of them. More importantly, these data highlight the role of local environmental conditions in shaping microbial community function that may be separate from phylogenetic structure.IMPORTANCEAfter multiple transfers, we established microbial consortia derived from two tropical forest soils with different native redox conditions. Communities derived from the rapidly fluctuating redox environment maintained a capacity to use added terminal electron acceptors (TEAs) after multiple transfers, though they were not present during the enrichment. Communities derived from lower-redox soils were not responsive to TEA addition but were much more efficient at switchgrass decomposition. Though the communities were different, diversity was not, and both were dominated by many of the same species of clostridia. This reflects the inadequacy of rRNA for determining the function of microbial communities, in this case the retained ability to utilize TEAs that were not part of the selective growth conditions. More importantly, this suggests that microbial community function is shaped by life history, where environmental factors produce heritable traits through natural selection over time, creating variation in the community, a phenomenon not well documented for microbes.
Dicer1 deletion in myeloid-committed progenitors causes neutrophil dysplasia and blocks macrophage/dendritic cell development in mice
Authors: Alemdehy Mir Farshid , van Boxtel Nicole G. J. A. , de Looper Hans W. J. , van den Berge Iris J. , Sanders Mathijs A. , Cupedo Tom , Touw Ivo P. , Erkeland Stefan J. 
Published: February 2012

Abstract
MicroRNAs (miRNAs) have the potential to regulate cellular differentiation programs; however, miRNA deficiency in primary hematopoietic stem cells (HSCs) results in HSC depletion in mice, leaving the question of whether miRNAs play a role in early-lineage decisions un-answered. To address this issue, we deleted Dicer1, which encodes an essential RNase III enzyme for miRNA biogenesis, in murine CCAAT/enhancer-binding protein α (C/EBPA)–positive myeloid-committed progenitors in vivo. In contrast to the results in HSCs, we found that miRNA depletion affected neither the number of myeloid progenitors nor the percentage of C/EBPA–positive progenitor cells. Analysis of gene-expression profiles from wild-type and Dicer1-deficient granulocyte-macrophage progenitors (GMPs) revealed that 20 miRNA families were active in GMPs. Of the derepressed miRNA targets in Dicer1-null GMPs, 27% are normally exclusively expressed in HSCs or are specific for multipotent progenitors and erythropoiesis, indicating an altered gene-expression landscape. Dicer1-deficient GMPs were defective in myeloid development in vitro and exhibited an increased replating capacity, indicating the regained self-renewal potential of these cells. In mice, Dicer1 deletion blocked monocytic differentiation, depleted macrophages, and caused myeloid dysplasia with morphologic features of Pelger-Huët anomaly. These results provide evidence for a miRNA-controlled switch for a cellular program of self-renewal and expansion toward myeloid differentiation in GMPs.
miRTrail - a comprehensive webserver for analyzing gene and miRNA patterns to enhance the understanding of regulatory mechanisms in diseases
Authors: Laczny Cedric , Leidinger Petra , Haas Jan , Ludwig Nicole , Backes Christina , Gerasch Andreas , Kaufmann Michael , Vogel Britta , Katus Hugo A , Meder Benjamin , Stähler Cord , Meese Eckart , Lenhof Hans-Peter , Keller Andreas 
Published: February 2012

Abstract

Background
Expression profiling provides new insights into regulatory and metabolic processes and in particular into pathogenic mechanisms associated with diseases. Besides genes, non-coding transcripts as microRNAs (miRNAs) gained increasing relevance in the last decade. To understand the regulatory processes of miRNAs on genes, integrative computer-aided approaches are essential, especially in the light of complex human diseases as cancer.

Results
Here, we present miRTrail, an integrative tool that allows for performing comprehensive analyses of interactions of genes and miRNAs based on expression profiles. The integrated analysis of mRNA and miRNA data should generate more robust and reliable results on deregulated pathogenic processes and may also offer novel insights into the regulatory interactions between miRNAs and genes. Our web-server excels in carrying out gene sets analysis, analysis of miRNA sets as well as the combination of both in a systems biology approach. To this end, miRTrail integrates information on 20.000 genes, almost 1.000 miRNAs, and roughly 280.000 putative interactions, for Homo sapiens and accordingly for Mus musculus and Danio rerio. The well-established, classical Chi-squared test is one of the central techniques of our tool for the joint consideration of miRNAs and their targets. For interactively visualizing obtained results, it relies on the network analyzers and viewers BiNA or Cytoscape-web, also enabling direct access to relevant literature. We demonstrated the potential of miRTrail by applying our tool to mRNA and miRNA data of malignant melanoma. MiRTrail identified several deregulated miRNAs that target deregulated mRNAs including miRNAs hsa-miR-23b and hsa-miR-223, which target the highest numbers of deregulated mRNAs and regulate the pathway "basal cell carcinoma". In addition, both miRNAs target genes like PTCH1 and RASA1 that are involved in many oncogenic processes.

Conclusions
The application on melanoma samples demonstrates that the miRTrail platform may open avenues for investigating the regulatory interactions between genes and miRNAs for a wide range of human diseases. Moreover, miRTrail cannot only be applied to microarray based expression profiles, but also to NGS-based transcriptomic data. The program is freely available as web-server at mirtrail.bioinf.uni-sb.de.
Transmission capacity for dual-hop relaying in wireless ad hoc networks
Authors: Lee Jaeyoung , Shin Hyundong , Tae Kim Joon , Heo Jun 
Published: February 2012

Abstract
To account for randomly distributed nodes in a wireless ad hoc network, the transmission capacity is defined as the number of successful transmissions taking place in the network per unit area under an outage constraint. In this paper, we analyze the transmission capacity for dual-hop relaying in a wireless ad hoc network in the presence of both cochannel interference and thermal noise, where interferers are spatially distributed following a Poisson distribution. Specifically, we first present the exact outage probability for amplify-and-forward and decode-and-forward protocols in a Poisson field of interferers without neglecting noise at all nodes. We then derive the transmission capacity of such networks, which determines the maximum allowable density of transmitting nodes for each relay strategy at a specified outage probability and data rate. Numerical results demonstrate that the dual-hop relaying is still beneficial in terms of the transmission capacity in wireless ad hoc Poisson networks.
An efficient joint estimation of wideband polynomial-phase signal parameters and direction-of-arrival in sensor array
Authors: Djurović Igor , Djukanović Slobodan , Simeunović Marko , Raković Predrag , Barkat Braham 
Published: February 2012

Abstract
We consider the joint estimation of the direction-of-arrival (DOA) and parameters of wideband polynomial-phase signals (PPSs) in sensor array. Unlike concurrent methods that require multidimensional searches, the proposed method requires 1D searches for all the parameters of interest. In this way, we can efficiently estimate the considered parameters in applications where large antenna arrays, containing tens or hundreds of sensors, are used. As special cases, we consider in detail the estimation of the second- and third-order PPSs. The former are estimated using the high-order ambiguity function (HAF), while the latter are estimated using the cubic phase function (CPF), known to outperform the HAF in terms of both accuracy and signal-to-noise ratio (SNR) threshold. In both cases, the estimation of the highest order parameter reaches the Cramér-Rao lower bound (CRLB), while the DOA estimation is above the CRLB for around 1 dB (second-order PPS) and around 6 dB (third-order PPS).
Post-radiation increase in VEGF enhances glioma cell motility in vitro
Authors: Kil Whoon Jong , Tofilon Philip J , Camphausen Kevin 
Published: February 2012

Abstract

Background
Glioblastoma multiforme (GBM) is among the most lethal of all human tumors, with frequent local recurrences after radiation therapy (RT). The mechanism accounting for such a recurrence pattern is unclear. It has classically been attributed to local recurrence of treatment-resistant cells. However, accumulating evidence suggests that additional mechanisms exist that involve the migration of tumor or tumor stem cells from other brain regions to tumor bed. VEGFs are well-known mitogens and can be up-regulated after RT. Here, we examine the effect of irradiation-induced VEGF on glioma cell motility.

Materials and methods
U251 and LN18 cell lines were used to generate irradiated-conditioned medium (IR-CM). At 72 h after irradiation, the supernatants were harvested. VEGF level in IR-CM was quantified by ELISA, and expression levels for VEGF mRNA were detected by RT-PCR. In vitro cancer cell motility was measured in chambers coated with/without Matrigel and IR-CM as a cell motility enhancer and a VEGF antibody as a neutralizer of VEGF bioactivity. Immunoblots were performed to evaluate the activity of cell motility-related kinases. Proliferation of GBM cells after treatment was measured by flow cytometry.

Results
Irradiation increased the level of VEGF mRNA that was mitigated by pre-RT exposure to Actinomycin D. U251 glioma cell motility (migration and invasion) was enhanced by adding IR-CM to un-irradiated cells (174.9 ± 11.4% and 334.2 ± 46% of control, respectively). When we added VEGF antibody to IR-CM, this enhanced cell motility was negated (110.3 ± 12.0% and 105.7 ± 14.0% of control, respectively). Immunoblot analysis revealed that IR-CM increased phosphorylation of VEGF receptor-2 (VEGFR2) secondary to an increase in VEGF, with a concomitant increase of phosphorylation of the downstream targets (Src and FAK). Increased phosphorylation was mitigated by adding VEGF antibody to IR-CM. There was no difference in the mitotic index of GBM cells treated with and without IR-CM and VEGF.

Conclusions
These results indicate that cell motility can be enhanced by conditioned medium from irradiated cells in vitro through stimulation of VEGFR2 signaling pathways and suggest that this effect involves the secretion of radiation-induced VEGF, leading to an increase in glioma cell motility.
New World Disorder:Black Hawk Downand the Eclipse of U.S. Military Humanitarianism in Africa
Authors: Dawson Ashley 
Published: February 2012

Abstract:This article argues that Ridley Scott's filmBlack Hawk Down(2001) may be seen with the benefit of historical hindsight as a portrait of the fear of imperial overreach and failure as written through the psyche of elite U.S. soldiers. InBlack Hawk Down, Mogadishu and its denizens are made to stand in for the worst fears of the American military and the civilian policymaking establishment: the city, and, by extension, urban Africa, is represented as a feral zone in which the U.S. military's unmatched firepower and technology are overwhelmed in densely populated slums. The Mog, as the film's Special Forces troops call the city, is a ramshackle megacity whose residents are armed to the teeth with the military detritus of the Cold War. Mogadishu thus embodies the new Heart of Darkness, a stateless urban world of vicious Hobbesian war of all against all. This view of Africa as the vanguard of anarchy is shared by a significant segment of the elite in the global North, who see the criminalization of the state in Africa as a direct threat to U.S. interests. If, as these analysts hold, it is from such feral zones that future threats to American society are likely to originate, then potent new weapons systems must be developed to deal with this racialized new world disorder. This article unpacks the ahistorical character of such selfserving representations of urban Africa, underlining the extent to which policies pursued during the Cold War and neoliberal era by powers such as the U.S. have helped to create the conditions thatBlack Hawk Downrepresents in such spectacular excess.
On the Theoretical Motivation for Positing Etiological Functions
Authors: Brunnander Björn 
Published: February 2012

It is a plain fact that biology makes use of terms and expressions commonly spoken of as teleological. Biologists frequently speak of the function of biological items. They may also say that traits are ‘supposed to’ perform some of their effects, claim that traits are ‘for’ specific effects, or that organisms have particular traits ‘in order to’ engage in specific interactions. There is general agreement that there must be something useful about this linguistic practice but it is controversial whether it is entirely appropriate, and if so why it is.Many theorists have defended the use of seemingly teleological terms by appeal to an etiological notion of function (Wright, 1973; Millikan, 1984, 2002; Neander, 1991; Griffiths, 1993; Godfrey-Smith, 1994; and Buller, 1999). According to the etiological notion, attributing a function to a trait is a matter of pointing to effects that account for why the trait has been selected for.
Multifunctional Nanoprepregs Based on Aligned Carbon Nanotube Sheets
Authors: Wang Xin , Liu Wei , Jiang Qian , Harb Mohammad S. , Li Qingwen , Zhu Yuntian 
Published: February 2012

ABSTRACTThe unique properties of carbon nanotubes (CNTs), such as high strength and stiffness, extremely large specific surface area, low density and high electrical and thermal conductivities, open up opportunities for a wide range of applications. This has led to widespread research on the synthesis of multiscale CNT-based polymeric composites transferring the properties from nanoscale to macroscale. Currently known conventional methods for producing CNT composites rely on dispersing short nanotubes in polymer matrices or infiltrating CNT “buckypaper” with resins. Unlike conventional methods, in this work, super-aligned long CNTs were directly drawn from the vertically aligned CNT arrays and assembled into high volume fraction (~60 vol%) composites. These critical structural features allowed the CNT composites to reach tensile strengths over 1.8 GPa and electrical conductivity ~700-800 S/cm. Thermoplastic and thermosetting polymers were utilized for the fabrication and the results were compared. Our observation suggests that the strengthening and conducting mechanism is derived from the synergistic effect of high degree of CNT alignment, long CNT length, high volume fraction and uniform distribution of CNTs in the polymer matrix produced by spray-winding.
A High-Modulus Electroactive Polymer Acting as a Robust Ionomer for Ionic Micro-Actuators
Authors: Hatipoglu Gokhan , Liu Yang , Zhao Ran , Yoonessi Mitra , Tigelaar Dean M. , Tadigadapa Srinivas , Zhang Q. M. 
Published: February 2012

ABSTRACTA high modulus, sulfonated polymer synthesized from one-to-one ratio 4,6-bis(4-hydroxyphenyl)-N, N-diphenyl-1,3,5-triazin-2-amine and 4,4′-biphenol with bis(4-fluorophenyl) sulfone (DPA-PS:BP) is exploited as an ionomer for micro-ionic actuators. A unique and attractive feature of the ionomer is that it can contain high amounts of ionic liquid (IL) as an electrolyte while maintaining a high elastic modulus (i.e 600 MPa for 150 wt% uptake), which is more than one order of magnitude higher than the state-of-the-art of ionomers with working electrolytes. Such a high modulus makes it possible for the ionomer to be fabricated into micro-actuators with high uptake of ILs and low operation voltage (< 4 V), in various free standing forms with ion milling techniques, which are attractive for MEMS applications. As an initial demonstration of a DPA-PS:BP based ionic micro-actuator, a cantilever (200 μm x 33 μm x 5 μm) is manufactured by Focused Ion Beam (FIB) and characterized. Under the voltage of 1.6 V, the bending actuator exhibits an intrinsic strain from the active ionomer of 1.1% and a corresponding blocking force of 27 μN.
A Prospective Study of the Factors Shaping Antibody Responses to the AS03-Adjuvanted Influenza A/H1N1 Vaccine in Cancer Outpatients
Authors: Hottinger Andreas F. , George Anne-Claude C. , Bel Michael , Favet Laurence , Combescure Christophe , Meier Sara , Grillet Stéphane , Posfay-Barbe Klara , Kaiser Laurent , Siegrist Claire-Anne , Dietrich Pierre-Yves ,   on behalf of the H1N1 Study Group
Published: February 2012

Abstract

Purpose.
To identify the determinants of antibody responses to adjuvanted influenza A/H1N1/09 vaccines in a cohort of cancer outpatients.

Patients and Methods.
Patients with cancer and controls were enrolled in a prospective single-center field study. Two doses of AS03-adjuvanted pandemic influenza vaccine were administered to patients and one dose was administered to controls. Antibody responses were measured using hemagglutination inhibition and confirmed by microneutralization. Geometric mean titers (GMTs) and seroprotection rates (defined as GMTs ≥40) were compared.

Results.
Immunizations were safe and well tolerated in 197 cancer patients (lymphoma, 57; glioma, 26; lung or head and neck, 37; gastrointestinal, 41; breast, 36) and 138 controls. Similar seroprotection rates (82.3% versus 87%) and GMTs (336.9 versus 329.9) were achieved after two doses of adjuvanted vaccine in cancer patients and one dose in controls. Univariate analyses identified older age, prior immunization against seasonal influenza, lymphoma, CD4 count, active chemotherapy, and rituximab and steroid treatments as being associated with weaker antibody responses. However, only age and chemotherapy plus rituximab remained independent determinants of vaccine responses in multivariate analyses.

Conclusions.
Two doses of AS03-adjuvanted influenza vaccine elicited potent antibody responses in most cancer patients despite ongoing chemotherapy, with the exception of rituximab-induced B-cell depletion. Oncology patients treated in an outpatient setting benefit from preventive vaccination against influenza with adjuvanted vaccines.
A Composite Athletic Tape With Hyperelastic Material Properties Improves and Maintains Ankle Support During Exercise
Authors: Siegler Sorin , Marchetto Paul , Murphy Daniel J. , Gadikota Hemanth R. 
Published: February 2012

Study Design Controlled laboratory testing using a single-group, prospective, repeated-measures design. Objectives To compare the material properties of a hyperelastic athletic tape to a conventional tape and to compare the passive ankle support of these tapes before and after exercise. Background The near-linear material properties of conventional athletic tape may interfere with ankle motion, resulting in reduced athletic performance. Conventional athletic tape is also known to lose much of its initial support during exercise. It was assumed that a tape constructed of Kevlar fibers embedded in a silicon matrix would possess hyperelastic material properties that would improve ankle support. Methods A tensile testing machine was used to determine the tensile material properties of 11 samples of conventional and hyperelastic tape. The ankles of 11 young, healthy athletes were taped, one ankle with conventional tape and the other ankle with hyperelastic tape. The passive ankle support of each tape was measured with an instrumented linkage (the ankle flexibility tester) before and after 30 minutes of exercise. Results The composite tape had a significantly higher load to failure than the conventional tape. It had significantly lower initial stiffness and higher late stiffness than conventional tape, thus demonstrating highly hyperelastic behavior. The hyperelastic tape maintained a significantly higher portion of its support during the 30 minutes of exercise than the conventional tape. Conclusions Composite athletic tape with highly hyperelastic properties can be constructed and maintains a larger portion of its support during short-duration exercises (less than 30 minutes) than conventional athletic tape. J Orthop Sports Phys Ther 2011;41(12):961–968. doi:10.2519/jospt.2011.3476
Effects of Local Microwave Diathermy on Shoulder Pain and Function in Patients With Rotator Cuff Tendinopathy in Comparison to Subacromial Corticosteroid Injections: A Single-Blind Randomized Trial
Authors: Rabini Alessia , Piazzini Diana B. , Bertolini Carlo , Deriu Laura , Saccomanno Maristella F. , Santagada Domenico A. , Sgadari Antonio , Bernabei Roberto , Fabbriciani Carlo , Marzetti Emanuele , Milano Giuseppe 
Published: February 2012

Study Design Single-blind randomized clinical trial, with a follow-up of 24 weeks. Objective To determine the effects of hyperthermia via localized microwave diathermy on pain and disability in comparison to subacromial corticosteroid injections in patients with rotator cuff tendinopathy. Background Hyperthermia improves symptoms and function in several painful musculoskeletal disorders. However, the effects of microwave diathermy in rotator cuff tendinopathy have not yet been established. Methods Ninety-two patients with rotator cuff tendinopathy and pain lasting for at least 3 months were recruited from the outpatient clinic of the Department of Orthopaedics and Traumatology, University Hospital, Rome, Italy. Participants were randomly allocated to either local microwave diathermy or subacromial corticosteroids. The primary outcome measure was the short form of the Disabilities of the Arm, Shoulder and Hand Questionnaire (QuickDASH). Secondary outcome measures were the Constant-Murley shoulder outcome score and a visual analog scale for pain assessment. Results At the end of treatment and at follow-up, both treatment groups experienced improvements in all outcome measures relative to baseline values. Changes over time in QuickDASH, Constant-Murley, and visual analog scale scores were not different between treatment arms. Conclusion In patients with rotator cuff tendinopathy, the effects of localized microwave diathermy on disability, shoulder function, and pain are equivalent to those elicited by subacromial corticosteroid injections. Level of Evidence Therapy, level 1b-.