On the Effect of Imperfect Reference Signal Phase Recovery on Performance of PSK System Influenced by TWDP Fading.

We examine the effects of imperfect phase estimation of a reference signal on the bit error rate and mutual information over a communication channel influenced by fading and thermal noise. The Two-Wave Diffuse-Power (TWDP) model is utilized for statistical characterization of propagation environment where there are two dominant line-of-sight components together with diffuse ones. We derive novel analytical expression of the Fourier series for probability density function arising from the composite received signal phase. Further, the expression for the bit error rate is presented and numerically evaluated. We develop efficient analytical, numerical and simulation methods for estimating the value of the error floor and identifying the range of acceptable signal-to-noise ratio (SNR) values in cases when the floor is present during the detection of multilevel phase-shift keying (PSK) signals. In addition, we use Monte Carlo simulations in order to evaluate the mutual information for modulation orders two, four and eight, and identify its dependence on receiver hardware imperfections under the given channel conditions. Our results expose direct correspondence between bit error rate and mutual information value on one side, and the parameters of TWDP channel, SNR and phase noise standard deviation on the other side. The results illustrate that the error floor values are strongly influenced by the phase noise when signals propagate over a TWDP channel. In addition, the phase noise considerably affects the mutual information.

Suspicion Distillation Gradient Descent Bit-Flipping Algorithm.

We propose a novel variant of the gradient descent bit-flipping (GDBF) algorithm for decoding low-density parity-check (LDPC) codes over the binary symmetric channel. The new bit-flipping rule is based on the reliability information passed from neighboring nodes in the corresponding Tanner graph. The name SuspicionDistillation reflects the main feature of the algorithm-that in every iteration, we assign a level of suspicion to each variable node about its current bit value. The level of suspicion of a variable node is used to decide whether the corresponding bit will be flipped. In addition, in each iteration, we determine the number of satisfied and unsatisfied checks that connect a suspicious node with other suspicious variable nodes. In this way, in the course of iteration, we "distill" such suspicious bits and flip them. The deterministic nature of the proposed algorithm results in a low-complexity implementation, as the bit-flipping rule can be obtained by modifying the original GDBF rule by using basic logic gates, and the modification is not applied in all decoding iterations. Furthermore, we present a more general framework based on deterministic re-initialization of the decoder input. The performance of the resulting algorithm is analyzed for the codes with various code lengths, and significant performance improvements are observed compared to the state-of-the-art hard-decision-decoding algorithms.

Correction: Penetration of the Stigma and Style Elicits a Novel Transcriptome in Pollen Tubes, Pointing to Genes Critical for Growth in a Pistil.

[This corrects the article DOI: 10.1371/journal.pgen.1000621.].

Penetration of the stigma and style elicits a novel transcriptome in pollen tubes, pointing to genes critical for growth in a pistil.

Pollen tubes extend through pistil tissues and are guided to ovules where they release sperm for fertilization. Although pollen tubes can germinate and elongate in a synthetic medium, their trajectory is random and their growth rates are slower compared to growth in pistil tissues. Furthermore, interaction with the pistil renders pollen tubes competent to respond to guidance cues secreted by specialized cells within the ovule. The molecular basis for this potentiation of the pollen tube by the pistil remains uncharacterized. Using microarray analysis in Arabidopsis, we show that pollen tubes that have grown through stigma and style tissues of a pistil have a distinct gene expression profile and express a substantially larger fraction of the Arabidopsis genome than pollen grains or pollen tubes grown in vitro. Genes involved in signal transduction, transcription, and pollen tube growth are overrepresented in the subset of the Arabidopsis genome that is enriched in pistil-interacted pollen tubes, suggesting the possibility of a regulatory network that orchestrates gene expression as pollen tubes migrate through the pistil. Reverse genetic analysis of genes induced during pollen tube growth identified seven that had not previously been implicated in pollen tube growth. Two genes are required for pollen tube navigation through the pistil, and five genes are required for optimal pollen tube elongation in vitro. Our studies form the foundation for functional genomic analysis of the interactions between the pollen tube and the pistil, which is an excellent system for elucidation of novel modes of cell-cell interaction.

LDPC coded OFDM over the atmospheric turbulence channel.

Low-density parity-check (LDPC) coded optical orthogonal frequency division multiplexing (OFDM) is shown to significantly outperform LDPC coded on-off keying (OOK) over the atmospheric turbulence channel in terms of both coding gain and spectral efficiency. In the regime of strong turbulence at a bit-error rate of 10(-5), the coding gain improvement of the LDPC coded single-side band unclipped-OFDM system with 64 sub-carriers is larger than the coding gain of the LDPC coded OOK system by 20.2 dB for quadrature-phase-shift keying (QPSK) and by 23.4 dB for binary-phase-shift keying (BPSK).

Joint source-channel rate allocation in parallel channels.

A fast rate-optimal rate allocation algorithm is proposed for parallel transmission of scalable images in multichannel systems. Scalable images are transmitted via fixed-length packets. The proposed algorithm selects a subchannel, as well as a channel code rate for each packet, based on the signal-to-noise ratios (SNRs) of the subchannels. The resulting scheme provides unequal error protection of source bits and significant gains are obtained over equal error protection schemes. An application of the proposed algorithm to JPEG2000 transmission shows the advantages of exploiting differences in SNRs between subchannels. Multiplexing of multiple sources is also considered, and additional gains are achieved by exploiting information diversity among the sources.

LDPC-based iterative joint source-channel decoding for JPEG2000.

A framework is proposed for iterative joint source-channel decoding of JPEG2000 codestreams. At the encoder, JPEG2000 is used to perform source coding with certain error-resilience (ER) modes, and LDPC codes are used to perform channel coding. During decoding, the source decoder uses the ER modes to identify corrupt sections of the codestream and provides this information to the channel decoder. Decoding is carried out jointly in an iterative fashion. Experimental results indicate that the proposed method requires fewer iterations and improves overall system performance.

Orthogonal frequency division multiplexing for high-speed optical transmission.

Optical Orthogonal frequency division multiplexing (OOFDM) is shown to outperform RZ-OOK transmission in high-speed optical communications systems in terms of transmission distance and spectral efficiency. The OOFDM in combination with the subcarrier multiplexing offers a significant improvement in spectral efficiency of at least 2.9 bits/s/Hz.

Nonlinear BCJR equalizer for suppression of intrachannel nonlinearities in 40 Gb/s optical communications systems.

A maximum a posteriori probability (MAP) symbol decoding supplemented with iterative decoding is proposed as an effective mean for suppression of intrachannel nonlinearities. The MAP detector, based on Bahl-Cocke-Jelinek-Raviv algorithm, operates on the channel trellis, a dynamical model of intersymbol interference, and provides soft-decision outputs processed further in an iterative decoder. A dramatic performance improvement is demonstrated. The main reason is that the conventional maximum-likelihood sequence detector based on Viterbi algorithm provides hard-decision outputs only, hence preventing the soft iterative decoding. The proposed scheme operates very well in the presence of strong intrachannel intersymbol interference, when other advanced forward error correction schemes fail, and it is also suitable for 40 Gb/s upgrade over existing 10 Gb/s infrastructure.

An information theoretic approach to constructing robust Boolean gene regulatory networks.

We introduce a class of finite systems models of gene regulatory networks exhibiting behavior of the cell cycle. The model is an extension of a Boolean network model. The system spontaneously cycles through a finite set of internal states, tracking the increase of an external factor such as cell mass, and also exhibits checkpoints in which errors in gene expression levels due to cellular noise are automatically corrected. We present a 7-gene network based on Projective Geometry codes, which can correct, at every given time, one gene expression error. The topology of a network is highly symmetric and requires using only simple Boolean functions that can be synthesized using genes of various organisms. The attractor structure of the Boolean network contains a single cycle attractor. It is the smallest nontrivial network with such high robustness. The methodology allows construction of artificial cell cycle gene regulatory networks with the number of phases larger than in natural cell cycle.

Turbulence-induced channel crosstalk in an orbital angular momentum-multiplexed free-space optical link.

A multichannel free-space optical (FSO) communication system based on orbital angular momentum (OAM)-carrying beams is studied. We numerically analyze the effects of atmospheric turbulence on the system and find that turbulence induces attenuation and crosstalk among channels. Based on a model in which the constituent channels are binary symmetric and crosstalk is a Gaussian noise source, we find optimal sets of OAM states at each turbulence condition studied and determine the aggregate capacity of the multichannel system at those conditions. OAM-multiplexed FSO systems that operate in the weak turbulence regime are found to offer good performance. We verify that the aggregate capacity decreases as the turbulence increases. A per-channel bit-error rate evaluation is presented to show the uneven effects of crosstalk on the constituent channels.

Spatial correlation and irradiance statistics in a multiple-beam terrestrial free-space optical communication link.

By means of numerical simulations we analyze the statistical properties of the power fluctuations induced by the incoherent superposition of multiple transmitted laser beams in a terrestrial free-space optical communication link. The measured signals arising from different transmitted optical beams are found to be statistically correlated. This channel correlation increases with receiver aperture and propagation distance. We find a simple scaling rule for the spatial correlation coefficient in terms of the propagation distance and we are able to predict the scintillation reduction in previously reported experiments with good accuracy. We propose an approximation to the probability density function of the received power of a spatially correlated multiple-beam system in terms of the parameters of the single-channel gamma-gamma function. A bit-error-rate evaluation is also presented to demonstrate the improvement of a multibeam system over its single-beam counterpart.

Cascaded holographic polymer reflection grating filters for optical-code-division multiple-access applications.

We evaluate the use of edge-illuminated holographic Bragg filters formed in phenanthrenequinone-doped poly(methyl methacrylate) for optical-code-division multiple-access (OCDMA) coding and decoding applications. Experimental cascaded Bragg filters are formed to select two different wavelengths with a fixed distance between the gratings and are directly coupled to a fiber-measurement system. The configuration and tolerances of the cascaded gratings are shown to be practical for time-wavelength OCDMA applications.