Interannual and (multi-)decadal variability in the sedimentary BIT index of Lake Challa, East Africa, over the past 2200 years: assessment of the precipitation proxy

The branched vs. isoprenoid tetraether (BIT) index is based on the relative abundance of branched tetraether lipids (brGDGTs) and the isoprenoidal GDGT crenarchaeol. In Lake Challa sediments the BIT index has been applied as a proxy for local monsoon precipitation on the assumption that the primary source of brGDGTs is soil washed in from the lake's catchment. Since then, microbial production within the water column has been identified as the primary source of brGDGTs in Lake Challa sediments, meaning that either an alternative mechanism links BIT index variation with rainfall or that the proxy's application must be reconsidered. We investigated GDGT concentrations and BIT index variation in Lake Challa sediments at a decadal resolution over the past 2200 years, in combination with GDGT time-series data from 45 monthly sediment-trap samples and a chronosequence of profundal surface sediments.

Our 2200-year geochemical record reveals high-frequency variability in GDGT concentrations, and therefore in the BIT index, superimposed on distinct lower-frequency fluctuations at multi-decadal to century timescales. These changes in BIT index are correlated with changes in the concentration of crenarchaeol but not with those of the brGDGTs. A clue for understanding the indirect link between rainfall and crenarchaeol concentration (and thus thaumarchaeotal abundance) was provided by the observation that surface sediments collected in January 2010 show a distinct shift in GDGT composition relative to sediments collected in August 2007. This shift is associated with increased bulk flux of settling mineral particles with high Ti / Al ratios during March–April 2008, reflecting an event of unusually high detrital input to Lake Challa concurrent with intense precipitation at the onset of the principal rain season that year. Although brGDGT distributions in the settling material are initially unaffected, this soil-erosion event is succeeded by a massive dry-season diatom bloom in July–September 2008 and a concurrent increase in the flux of GDGT-0. Complete absence of crenarchaeol in settling particles during the austral summer following this bloom indicates that no Thaumarchaeota bloom developed at that time. We suggest that increased nutrient availability, derived from the eroded soil washed into the lake, caused the massive bloom of diatoms and that the higher concentrations of ammonium (formed from breakdown of this algal matter) resulted in a replacement of nitrifying Thaumarchaeota, which in typical years prosper during the austral summer, by nitrifying bacteria. The decomposing dead diatoms passing through the suboxic zone of the water column probably also formed a substrate for GDGT-0-producing archaea. Hence, through a cascade of events, intensive rainfall affects thaumarchaeotal abundance, resulting in high BIT index values.

Decade-scale BIT index fluctuations in Lake Challa sediments exactly match the timing of three known episodes of prolonged regional drought within the past 250 years. Additionally, the principal trends of inferred rainfall variability over the past two millennia are consistent with the hydroclimatic history of equatorial East Africa, as has been documented from other (but less well dated) regional lake records. We therefore propose that variation in GDGT production originating from the episodic recurrence of strong soil-erosion events, when integrated over (multi-)decadal and longer timescales, generates a stable positive relationship between the sedimentary BIT index and monsoon rainfall at Lake Challa. Application of this paleoprecipitation proxy at other sites requires ascertaining the local processes which affect the productivity of crenarchaeol by Thaumarchaeota and brGDGTs.

Machine learning classification of surgical pathology reports and chunk recognition for information extraction noise reduction

Background and aims: Machine learning techniques for the text mining of cancer-related clinical documents have not been sufficiently explored. Here some techniques are presented for the pre-processing of free-text breast cancer pathology reports, with the aim of facilitating the extraction of information relevant to cancer staging.

Materials and methods: The first technique was implemented using the freely available software RapidMiner to classify the reports according to their general layout: ‘semi-structured’ and ‘unstructured’. The second technique was developed using the open source language engineering framework GATE and aimed at the prediction of chunks of the report text containing information pertaining to the cancer morphology, the tumour size, its hormone receptor status and the number of positive nodes. The classifiers were trained and tested respectively on sets of 635 and 163 manually classified or annotated reports, from the Northern Ireland Cancer Registry.

Results: The best result of 99.4% accuracy – which included only one semi-structured report predicted as unstructured – was produced by the layout classifier with the k nearest algorithm, using the binary term occurrence word vector type with stopword filter and pruning. For chunk recognition, the best results were found using the PAUM algorithm with the same parameters for all cases, except for the prediction of chunks containing cancer morphology. For semi-structured reports the performance ranged from 0.97 to 0.94 and from 0.92 to 0.83 in precision and recall, while for unstructured reports performance ranged from 0.91 to 0.64 and from 0.68 to 0.41 in precision and recall. Poor results were found when the classifier was trained on semi-structured reports but tested on unstructured.

Conclusions: These results show that it is possible and beneficial to predict the layout of reports and that the accuracy of prediction of which segments of a report may contain certain information is sensitive to the report layout and the type of information sought.

Secure Transmission in Cooperative Relaying Networks with Multiple Antennas

We investigate the secrecy performance of dualhop amplify-and-forward (AF) multi-antenna relaying systems over Rayleigh fading channels, by taking into account the direct link between the source and destination. In order to exploit the available direct link and the multiple antennas for secrecy improvement, different linear processing schemes at the relay and different diversity combining techniques at the destination are proposed, namely, 1) Zero-forcing/Maximal ratio combining (ZF/MRC), 2) ZF/Selection combining (ZF/SC), 3) Maximal ratio transmission/MRC (MRT/MRC) and 4) MRT/Selection combining (MRT/SC). For all these schemes, we present new closed-form approximations for the secrecy outage probability. Moreover, we investigate a benchmark scheme, i.e., cooperative jamming/ZF (CJ/ZF), where the secrecy outage probability is obtained in exact closed-form. In addition, we present asymptotic secrecy outage expressions for all the proposed schemes in the high signal-to-noise ratio (SNR) regime, in order to characterize key design parameters, such as secrecy diversity order and secrecy array gain. The outcomes of this paper can be summarized as follows: a) MRT/MRC and MRT/SC achieve a full diversity order of M + 1, ZF/MRC and ZF/SC achieve a diversity order of M, while CJ/ZF only achieves unit diversity order, where M is the number of antennas at the relay. b) ZF/MRC (ZF/SC) outperforms the corresponding MRT/MRC (MRT/SC) in the low SNR regime, while becomes inferior to the corresponding MRT/MRC (MRT/SC) in the high SNR. c) All of the proposed schemes tend to outperform the CJ/ZF with moderate number of antennas, and linear processing schemes with MRC attain better performance than those with SC.

Secrecy Performance of Wirelessly Powered Wiretap Channels

This paper considers a wirelessly powered wiretap channel, where an energy constrained multi-antenna information source, powered by a dedicated power beacon, communicates with a legitimate user in the presence of a passive eavesdropper. Based on a simple time-switching protocol where power transfer and information transmission are separated in time, we investigate two popular multi-antenna transmission schemes at the information source, namely maximum ratio transmission (MRT) and transmit antenna selection (TAS). Closed-form expressions are derived for the achievable secrecy outage probability and average secrecy rate for both schemes. In addition, simple approximations are obtained at the high signal-to-noise ratio (SNR) regime. Our results demonstrate that by exploiting the full knowledge of channel state information (CSI), we can achieve a better secrecy performance, e.g., with full CSI of the main channel, the system can achieve substantial secrecy diversity gain. On the other hand, without the CSI of the main channel, no diversity gain can be attained. Moreover, we show that the additional level of randomness induced by wireless power transfer does not affect the secrecy performance in the high SNR regime. Finally, our theoretical claims are validated by the numerical results.

Combustion Noise

Combustion noise is becoming increasingly important as a major noise source in aeroengines and ground based gas turbines. This is partially because advances in design have reduced the other noise sources, and partially because next generation combustion modes burn more unsteadily, resulting in increased external noise from the combustion. This review reports recent progress made in understanding combustion noise by theoretical, numerical and experimental investigations. We first discuss the fundamentals of the sound emission from a combustion region. Then the noise of open turbulent flames is summarized. We subsequently address the effects of confinement on combustion noise. In this case not only is the sound generated by the combustion influenced by its transmission through the boundaries of the combustion chamber, there is also the possibility of a significant additional source, the so-called ‘indirect’ combustion noise. This involves hot spots (entropy fluctuations) or vorticity perturbations produced by temporal variations in combustion, which generate pressure waves (sound) as they accelerate through any restriction at the exit of the combustor. We describe the general characteristics of direct and indirect noise. To gain further insight into the physical phenomena of direct and indirect sound, we investigate a simple configuration consisting of a cylindrical or annular combustor with a low Mach number flow in which a flame zone burns unsteadily. Using a low Mach number approximation, algebraic exact solutions are developed so that the parameters controlling the generation of acoustic, entropic and vortical waves can be investigated. The validity of the low Mach number approximation is then verified by solving the linearized Euler equations numerically for a wide range of inlet Mach numbers, stagnation temperature ratios, frequency and mode number of heat release fluctuations. The effects of these parameters on the magnitude of the waves produced by the unsteady combustion are investigated. In particular the magnitude of the indirect and direct noise generated in a model combustor with a choked outlet is analyzed for a wide range of frequencies, inlet Mach numbers and stagnation temperature ratios. Finally, we summarize some of the unsolved questions that need to be the focus of future research