Miracle-dz/UniFAR-FTUs huggingface dataset:
Biofuel Plantations on Forested Lands: Double Jeopardy for Biodiversity and Climate

Abstract: The growing demand for biofuels is promoting the expansion of a number of agricultural commodities, including oil palm (Elaeis guineensis). Oil‐palm plantations cover over 13 million ha, primarily in Southeast Asia, where they have directly or indirectly replaced tropical rainforest. We explored the impact of the spread of oil‐palm plantations on greenhouse gas emission and biodiversity. We assessed changes in carbon stocks with changing land use and compared this with the amount of fossil‐fuel carbon emission avoided through its replacement by biofuel carbon. We estimated it would take between 75 and 93 years for the carbon emissions saved through use of biofuel to compensate for the carbon lost through forest conversion, depending on how the forest was cleared. If the original habitat was peatland, carbon balance would take more than 600 years. Conversely, planting oil palms on degraded grassland would lead to a net removal of carbon within 10 years. These estimates have associated uncertainty, but their magnitude and relative proportions seem credible. We carried out a meta‐analysis of published faunal studies that compared forest with oil palm. We found that plantations supported species‐poor communities containing few forest species. Because no published data on flora were available, we present results from our sampling of plants in oil palm and forest plots in Indonesia. Although the species richness of pteridophytes was higher in plantations, they held few forest species. Trees, lianas, epiphytic orchids, and indigenous palms were wholly absent from oil‐palm plantations. The majority of individual plants and animals in oil‐palm plantations belonged to a small number of generalist species of low conservation concern. As countries strive to meet obligations to reduce carbon emissions under one international agreement (Kyoto Protocol), they may not only fail to meet their obligations under another (Convention on Biological Diversity) but may actually hasten global climate change. Reducing deforestation is likely to represent a more effective climate‐change mitigation strategy than converting forest for biofuel production, and it may help nations meet their international commitments to reduce biodiversity loss.
Predictive Density Estimators for Daily Volatility Based on the Use of Realized Measures

The main objective of this paper is to propose a feasible, model free estimator of the predictive density of integrated volatility. In this sense, we extend recent papers by Andersen, Bollerslev, Diebold and Labys (2003), and by Andersen, Bollerslev and Meddahi (2004, 2005), who address the issue of pointwise prediction of volatility via ARMA models, based on the use of realized volatility. Our approach is to use a realized volatility measure to construct a non parametric (kernel) estimator of the predictive density of daily volatility. We show that, by choosing an appropriate realized measure, one can achieve consistent estimation, even in the presence of jumps and microstructure noise in prices. More precisely, we establish that four well known realized measures, i.e. realized volatility, bipower variation, and two measures robust to microstructure noise, satisfy the conditions required for the uniform consistency of our estimator. Furthermore, we outline an alternative simulation based approach to predictive density construction. Finally, we carry out a simulation experiment in order to assess the accuracy of our estimators, and provide an empirical illustration that underscores the importance of using microstructure robust measures when using high frequency data.
In Vivo Transcription Dynamics of the Galactose Operon: A Study on the Promoter Transition from P1 to P2 at Onset of Stationary Phase

Quantitative analyses of the 5′ end of gal transcripts indicate that transcription from the galactose operon P1 promoter is higher during cell division. When cells are no longer dividing, however, transcription is initiated more often from the P2 promoter. Escherichia coli cells divide six times before the onset of the stationary phase when grown in LB containing 0.5% galactose at 37°C. Transcription from the two promoters increases, although at different rates, during early exponential phase (until the third cell division, OD600 0.4), and then reaches a plateau. The steady-state transcription from P1 continues in late exponential phase (the next three cell divisions, OD600 3.0), after which transcription from this promoter decreases. However, steady-state transcription from P2 continues 1 h longer into the stationary phase, before decreasing. This longer steady-state P2 transcription constitutes the promoter transition from P1 to P2 at the onset of the stationary phase. The intracellular cAMP concentration dictates P1 transcription dynamics; therefore, promoter transition may result from a lack of cAMP-CRP complex binding to the gal operon. The decay rate of gal-specific transcripts is constant through the six consecutive cell divisions that comprise the exponential growth phase, increases at the onset of the stationary phase, and is too low to be measured during the stationary phase. These data suggest that a regulatory mechanism coordinates the synthesis and decay of gal mRNAs to maintain the observed gal transcription. Our analysis indicates that the increase in P1 transcription is the result of cAMP-CRP binding to increasing numbers of galactose operons in the cell population.
Experimental study of pyroxene-liquid interaction in quartz-normative basalt 15597.

Equilibrium and controlled cooling rate experiments on a synthetic analog of Apollo 15 quartz normative basalt 15597 are reported. While the partitioning of the major elements Ca, Mg, and Fe between pyroxene and liquid is rate independent, the K sub D parameter for Fe/Mg, which is calculated for low-Ca pyroxene, is temperature dependent. It is suggested that chemical trends observed in lunar pyroxenes are a consequence of three rate processes. The processes are (1) rate-dependent suppression of crystallization of other phases until lower temperature alters liquid composition and, therefore, the composition of the pyroxene that crystallizes; (2) the efficiency of fractional crystallization and the extent of crystal zoning are rate dependent; and (3) the partitioning of Al2O3, TiO2, and Cr2O3 between pyroxene and liquid depends on cooling rate.
Depression or asthenia related to metabolic disturbances in obese patients after intestinal bypass surgery

This study was an attempt to compare psychological and biological variables in 43 obese patients after intestinal bypass surgery. The difficulties in expressing the psychological variables quantitatively are discussed on the basis of the concept of transferability. By use of an expanded version of the Beck Depression Inventory and the Marke‐Nyman Temperament Scale we could demonstrate that items concerning asthenia (self‐dislike, irritability, work retardation, insomnia, fatigability, somatic preoccupation about aches and pains, loss of libido, headache, vertigo, palpitations, dryness of the mouth, thirst or increased liquid intake) had, when summed up, a score distribution indicating bimodality. The asthenic group of patients (n= 19) when compared with the non‐asthenic patients (n= 24) showed metabolic deficiencies related to the vitamin D complex with no response to oral vitamin D3 administration measured by plasma levels of 25‐hydroxyvitamin D3. The lack of response was associated with low calcium excretion in the urine, higher plasma alkaline phosphatase, and a tendency to higher blood levels of parathyroid hormone.
Raloxifene Improves Coronary Perfusion, Cardiac Contractility, and Myocardial Metabolism in the Ischemic Heart: Role of Phosphatidylinositol 3-Kinase/Akt Pathway

The purpose of this study is to examine whether raloxifene, one of the selective estrogen receptor modulators, could improve myocardial ischemia and to assess the mechanisms involved. In open-chest beagle dogs anesthetized by intravenous infusion of sodium pentobarbital, the left anterior descending coronary artery (LAD) was perfused from the left carotid artery through an extracorporeal bypass tube. Raloxifene was infused into the LAD through the bypass tube under either ischemic or non-ischemic conditions. In the non-ischemic heart, raloxifene had no effect on coronary blood flow, fractional shortening, and myocardial metabolism. However, raloxifene caused an acute increase in both coronary blood flow and fractional shortening, and also improved myocardial anaerobic metabolism in the ischemic heart. These effects were partially attenuated by pretreatment with either L-NAME or wortmannin and were completely abolished by ICI182780 (an estrogen receptor antagonist) or L-NAME plus charybdotoxin (a blocker of Ca2+-activated K+ channels). Raloxifene also increased both Akt activity and the NO level, with these changes being completely abrogated by pretreatment with wortmannin. These results demonstrated that raloxifene improves coronary perfusion, cardiac contractility, and myocardial metabolism by release of NO and opening of Ca2+-activated K+ channels in the ischemic heart, and that NO production is mediated by the phosphatidylinositol 3-kinase/Akt pathway.
Different Mutations Endowing Resistance to Acetyl-CoA Carboxylase Inhibitors Results in Changes in Ecological Fitness of Lolium rigidum Populations

Various mutations altering the herbicide target site (TS), can lead to structural modifications that decrease binding efficiency and results in herbicide resistant weed. In most cases, such a mutation will be associated with ecological fitness penalty under herbicide free environmental conditions. Here we describe the effect of various mutations, endowing resistance to acetyl-CoA carboxylase (ACCase) inhibitors, on the ecological fitness penalty of Lolium rigidum populations. The TS resistant populations, MH (substitution of isoleucine 1781 to leucine) and NO (cysteine 2088 to arginine), were examined and compared to a sensitive population (AL). Grain weight (GW) characterization of individual plants from both MH and NO populations, showed that resistant individuals had significantly lower GW compared with sensitive ones. Under high temperatures, both TS resistant populations exhibited lower germination rate as compared with the sensitive (AL) population. Likewise, early vigor of plants from both TS resistant populations was significantly lower than the one measured in plants of the sensitive population. Under crop-weed intra-species competition, we found an opposite trend in the response of plants from different populations. Relatively to inter-population competition conditions, plants of MH population were less affected and presented higher reproduction abilities compared to plants from both AL and NO populations. On the basis of our results, a non-chemical approach can be taken to favor the sensitive individuals, eventually leading to a decline in resistant individuals in the population.
Operations Research and Capacity Expansion Problems: A Survey

Planning for the expansion of production capacity is of vital importance in many applications within the private and public sectors. Examples can be found in heavy process industries, communication networks, electrical power services, and water resource systems. In all of these applications, the expansion of production capacity requires the commitment of substantial capital resources over long periods of time. Capacity expansion planning consists primarily of determining future expansion times, sizes, and locations, as well as the types of production facilities. Since the late 1950s, operations research methodology has been used to develop various models and solution approaches suitable for different applications. In this paper, we attempt to unify the existing literature on capacity expansion problems, emphasizing modeling approaches, algorithmic solutions, and relevant applications. The paper includes an extensive list of references covering a broad spectrum of capacity expansion problems.
Simulated runoff responses to land use in the middle and upstream reaches of Taoerhe River basin, Northeast China, in wet, average and dry years

Study on runoff variations and responses can lay a foundation for flood control, water allocation and integrated river basin management. This study applied the Soil and Water Assessment Tool model to simulate the effects of land use on annual and monthly runoff in the Middle and Upstream Reaches of Taoerhe River basin, Northeast China, under the wet, average and dry climate conditions through scenario analysis. The results showed that from the early 1970s to 2000, land use change with an increase in farmland (17.0%) and decreases in forest (10.6%), grassland (4.6%) and water body (3.1%) caused increases in annual and monthly runoff. This effect was more distinct in the wet season or in the wet year, suggesting that land use change from the early 1970s to 2000 may increase the flood potential in the wet season. Increases in precipitation and air temperature from the average to wet year led to annual and monthly (March and from June to December) runoff increases, while a decrease in precipitation and an increase in air temperature from the average to dry year induced decreases in annual and monthly (all months except March) runoff, and moreover, these effects were more remarkable in the wet season than those in the dry season. Due to the integrated effects of changing land use and climate conditions, the annual runoff increased (decreased) by 70.1 mm (25.2 mm) or 197.4% (71.0%) from the average to wet (dry) year. In conclusion, climate conditions, especially precipitation, played an important role in runoff variations while land use change was secondary over the study area, and furthermore, the effects of changes in land use and/or climate conditions on monthly runoff were larger in the wet season. Copyright © 2012 John Wiley & Sons, Ltd.
Review of 17 cases of neurobrucellosis: clinical manifestations, diagnosis, and management.

BACKGROUND Neurobrucellosis (NB) is a rare, but important complication of brucellosis. The clinical features vary greatly and, in general, tend to be chronic. Many laboratory procedures are usually employed in the diagnosis of NB. Even though the culture method is the gold standard, growth rate is low and time consuming. Thus the rate of sequelae and mortality increase in case of a delay in treatment. Therefore it is necessary to perform serological tests in both serum and cerebrospinal fluid (CSF) in suspected patients. In this study we aim to evaluate clinical features, diagnosis, and treatment of patients with NB. METHODS We enrolled 17 patients diagnosed with NB. Clinical features, cultures, serological tests, additional laboratory findings, and CSF analyses were recorded for all patients. RESULTS There were 14 female and 3 male patients. Ten patients presented with neuropsychiatric symptoms and signs (aphasia, diplopia, hemiparesis, facial paralysis, tremor, ataxia, depression, personality disorder, and hallucinations). Serum standard agglutination test (SAT) was negative in 4 (23.5%) patients and serum Coombs' test was negative in 2 (11.7%). CSF SAT was negative in 4 (23.5%) patients and CSF Coombs was negative in 3 (17.6%) patients. B. melitensis grew in the blood of 6 (35.2%) patients and in the CSF of 3 (17.6%). Treatment protocol for 11 patients consisted of ceftriaxone, rifampicin, and doxycyline for a period of four weeks, followed by rifampicin and doxycyline for an additional four weeks. The remaining patients were given different treatment combinations. One patient died, mild sequelae was present in another patient and the remaining patients recovered without any sequelae. CONCLUSION NB should be considered in the differential diagnosis of neurological and psychiatric cases that are encountered in endemic areas for brucellosis. In order to prevent overlooking this diagnosis, Coombs' test should be performed in both CSF and serum.
PAK4 is required for regulation of the cell‐cycle regulatory protein p21, and for control of cell‐cycle progression

The serine/threonine kinase PAK4 regulates cytoskeletal architecture, and controls cell proliferation and survival. In most adult tissues PAK4 is expressed at low levels, but overexpression of PAK4 is associated with uncontrolled proliferation, inappropriate cell survival, and oncogenic transformation. Here we have studied for the first time, the role for PAK4 in the cell cycle. We found that PAK4 levels peak dramatically but transiently in the early part of G1 phase. Deletion of Pak4 was also associated with an increase in p21 levels, and PAK4 was required for normal p21 degradation. In serum‐starved cells, the absence of PAK4 led to a reduction in the amount of cells in G1, and an increase in the amount of cells in G2/M phase. We propose that the transient increase in PAK4 levels at early G1 reduces p21 levels, thereby abrogating the activity of CDK4/CDK6 kinases, and allowing cells to proceed with the cell cycle in a precisely coordinated way. J. Cell. Biochem. 112: 1795–1806, 2011. © 2011 Wiley‐Liss, Inc.
Cloud‐to‐ground lightning associated with the evolution of a multicell storm

[1] The relationship of cloud-to-ground (CG) lightning strikes to the stages of updraft/downdraft evolution is investigated in a multicell thunderstorm that occurred on 11 July 1989 during the North Dakota Thunderstorm Project. With only single-Doppler radar data available for this storm, reflectivity and single-Doppler velocity signatures are used to identify individual cells within the storm and to deduce the stage of evolution within each cell. Cell evolution appeared to follow the Thunderstorm Project model of the late 1940s: updraft growth and vertical development during the growing (cumulus) stage, updraft peaking in the upper portion of the cell and rainy downdraft descending from the middle portion during the mature stage, and lighter precipitation settling out during the dissipating stage. On 11 July, cells tended to occur in clusters, each cluster consisting of growing/mature and dissipating cells close together in both time and space. No CG strikes were detected when the convective region of the storm contained only one cluster of cells; all strikes occurred when there were two or more clusters of cells. With only two exceptions, strikes occurred in the convective region of the storm, typically closer to growing/mature cells than to dissipating cells. These observations support the hypothesis that descending precipitation creates electrical conditions conducive to flashes reaching ground. However, these observations also suggest that the greater complexity of electrical structure due to the juxtaposition of several cells is especially conducive to CG flashes and can cause CG flashes to occur earlier in a new cell's life cycle than would otherwise be the case.
Seasonal patterns of wind stress and wind stress curl over the Gulf of Mexico

Meteorological observations from an array of stations deployed along the periphery of the Gulf of Mexico, between 1990 and 1993, are used to describe the seasonal fluctuations in patterns of atmospheric variables from a contemporary set of measurements. Seasonal maps of wind stress based on these measurements resemble wind stress maps based on ship observations, as published by Elliott [1979], rather than maps based on analyses of numerical weather forecasts, as published by Rhodes et al. [1989], particularly near the western boundary of the gulf. Seasonal maps of wind stress curl are characterized by positive curls over the western and southwestern gulf. The central result of this study is to document the important role of the mountain chain which extends along the southwestern section of the gulf in channeling the wind toward the Isthmus of Tehuantepec.
Millimeter wave spectroscopic measurements over the South Pole: 2. An 11‐month cycle of stratospheric ozone observations during 1993–1994

A quasi-continuous record of ozone profiles throughout the stratosphere over the South Pole has been obtained over an 11-month cycle, from February 1993 to January 1994. This record includes the first winter measurements of ozone profiles in the altitude region above ∼30 km. Observations were made approximately every 3 days, using a high-sensitivity millimeter wave spectrometer to quantitatively measure the pressure-broadened ozone rotational emission line at 276.923 GHz. Vertical mixing ratio profiles have been derived from pressure-broadened lineshapes by a deconvolution technique. A number of interesting features are present. We find a persistent double-peaked structure in the mixing ratio profiles, lasting through most of the winter period until the remains of the lower peak are destroyed by spring “ozone hole” chemistry. A new low-altitude peak is reformed in December as the vortex breaks up. With the aid of circumpolar UARS/MLS ozone maps, we interpret the lower peak as due to transport from ozone-rich regions near the edge of the continent, while the profile from ∼30 km upward, composing the “trough” region and upper peak, appears to be the result of normal polar summer photochemistry. This double-peaked structure then becomes “fossilized” within the strong, isolated, fall-winter vortex. The mixing ratio of the upper peak increases after polar sunset, which we interpret as due to poleward mixing causing an erasure of the negative poleward gradient maintained by photochemistry before sunset. Mixing ratio isopleths show a relatively steady downward trend for a 3-month period after the winter vortex pattern is established, preceded by rapid variations in ozone mixing ratios over the 20- to 40-km range. Downward transport rates derived from isopleth slopes in the upper stratosphere are significantly smaller than vertical transport derived from theoretical studies, and we propose an explanation for this discrepancy based on ozone flow from the mesosphere. Descent rates determined from ozone isopleths in the midstratosphere (25 to 35 km) are shown to be in good agreement with recent model estimates of downward transport in the winter vortex, and with the mid to lower stratospheric descent rate inferred from our own South Pole measurements of N2O. Total column measurements are in generally good agreement with those derived from a Dobson photospectrometer at the pole and from local ozonesonde measurements. All three indicate there was no significant increase in total ozone over the pole during the winter of 1993. The onset of the spring ozone hole over the pole was evident by mid- to late-August, well before local stratospheric sunrise on September 11, indicating relatively rapid poleward transport of ozone-depleted air from sunlit regions of the vortex during this period.
Crowdsourcing for Multiple-Choice Question Answering

We leverage crowd wisdom for multiple-choice question answering, and employ lightweight machine learning techniques to improve the aggregation accuracy of crowdsourced answers to these questions. In order to develop more effective aggregation methods and evaluate them empirically, we developed and deployed a crowdsourced system for playing the “Who wants to be a millionaire? ” quiz show. Analyzing our data (which consist of more than 200,000 answers), we find that by just going with the most selected answer in the aggregation, we can answer over 90% of the questions correctly, but the success rate of this technique plunges to 60% for the later/harder questions in the quiz show. To improve the success rates of these later/harder questions, we investigate novel weighted aggregation schemes for aggregating the answers obtained from the crowd. By using weights optimized for reliability of participants (derived from the participants’ confidence), we show that we can pull up the accuracy rate for the harder questions by 15%, and to overall 95% average accuracy. Our results provide a good case for the benefits of applying machine learning techniques for building more accurate crowdsourced question answering systems.