SimPLe: Similarity-Aware Propagation Learning for Weakly-Supervised Breast Cancer Segmentation in DCE-MRI

Breast dynamic contrast-enhanced magnetic resonance imaging (DCE-MRI) plays an important role in the screening and prognosis assessment of high-risk breast cancer. The segmentation of cancerous regions is essential useful for the subsequent analysis of breast MRI. To alleviate the annotation effort to train the segmentation networks, we propose a weakly-supervised strategy using extreme points as annotations for breast cancer segmentation. Without using any bells and whistles, our strategy focuses on fully exploiting the learning capability of the routine training procedure, i.e., the train - fine-tune - retrain process. The network first utilizes the pseudo-masks generated using the extreme points to train itself, by minimizing a contrastive loss, which encourages the network to learn more representative features for cancerous voxels. Then the trained network fine-tunes itself by using a similarity-aware propagation learning (SimPLe) strategy, which leverages feature similarity between unlabeled and positive voxels to propagate labels. Finally the network retrains itself by employing the pseudo-masks generated using previous fine-tuned network. The proposed method is evaluated on our collected DCE-MRI dataset containing 206 patients with biopsy-proven breast cancers. Experimental results demonstrate our method effectively fine-tunes the network by using the SimPLe strategy, and achieves a mean Dice value of 81%

The nonequilibrium evolution near the phase boundary

We study the nonequilibrium evolution near the phase boundary of the 3D Ising model, and find that the average of relaxation time (RT) near the first-order phase transition line (1st-PTL) is significantly larger than that near the critical point (CP). As the system size increases, the average of RT near the 1st-PTL increases at a higher power compared to that near the CP. We further show that RT near the 1st-PTL is not only non-self-averaging, but actually self-diverging: relative variance of RT increases with system size. The presence of coexisting and metastable states results in a substantial increase in randomness near the 1st-PTL, making it difficult to achieve equilibrium.Comment: 6 pages, 3 figure

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We deal with the design problem of minimum entropy ℋ∞ filter in terms of linear matrix inequality (LMI) approach for linear continuous-time systems with a state-space model subject to parameter uncertainty that belongs to a given convex bounded polyhedral domain. Given a stable uncertain linear system, our attention is focused on the design of full-order and reduced-order robust minimum entropy ℋ∞ filters, which guarantee the filtering error system to be asymptotically stable and are required to minimize the filtering error system entropy (at s0=∞) and to satisfy a prescribed ℋ∞ disturbance attenuation performance. Sufficient conditions for the existence of desired full-order and reduced-order filters are established in terms of LMIs, respectively, and the corresponding filter synthesis is cast into a convex optimization problem which can be efficiently handled by using standard numerical software. Finally, an illustrative example is provided to show the usefulness and effectiveness of the proposed design method

Enhanced nitrogen removal via Yarrowia lipolytica-mediated nitrogen and related metabolism of Chlorella pyrenoidosa from wastewater

We investigated the optimum co-culture ratio with the highest biological nitrogen removal rate, revealing that chemical oxygen demand, total nitrogen (TN), and ammoniacal nitrogen (NH3-N) removal was increased in the Chlorella pyrenoidosa and Yarrowia lipolytica co-culture system at a 3:1 ratio. Compared with the control, TN and NH3-N content in the co-incubated system was decreased within 2–6 days. We investigated mRNA/microRNA (miRNA) expression in the C. pyrenoidosa and Y. lipolytica co-culture after 3 and 5 days, identifying 9885 and 3976 differentially expressed genes (DEGs), respectively. Sixty-five DEGs were associated with Y. lipolytica nitrogen, amino acid, photosynthetic, and carbon metabolism after 3 days. Eleven differentially expressed miRNAs were discovered after 3 days, of which two were differentially expressed and their target mRNA expressions negatively correlated with each other. One of these miRNAs regulates gene expression of cysteine dioxygenase, hypothetical protein, and histone-lysine N-methyltransferase SETD1, thereby reducing amino acid metabolic capacity; the other miRNA may promote upregulation of genes encoding the ATP-binding cassette, subfamily C (CFTR/MRP), member 10 (ABCC10), thereby promoting nitrogen and carbon transport in C. pyrenoidosa. These miRNAs may further contribute to the activation of target mRNAs. miRNA/mRNA expression profiles confirmed the synergistic effects of a co-culture system on pollutant disposal

Modelling the observed distortion of multiple (ghost) CME fronts in STEREO Heliospheric imagers

In this work, we have, for the first time, applied the interpretation of multiple ghost-fronts to two synthetic CMEs propagating within a structured solar wind using the HUXt solar wind model. The two coronal mass ejections (CMEs) occurred on 2012 June 13-14 showing multiple fronts in images from STEREO HIs. The HUXt model is used to simulate the evolution of these CMEs across the inner heliosphere as they interacted with structured ambient solar wind. The simulations reveal that the evolution of CME shape is consistent with observations across a wide range of solar latitudes and that the manifestation of multiple `ghost-fronts' within HIs field of view is consistent with the positions of the nose and flank of the same CME structure. This provides further conformation that the angular separation of these features provides information on the longitudinal extent of a CME. For one of the CMEs considered in this study, both simulations and observations show that a concave shape develops within the outer CME front. We conclude that this distortion results from latitudinal structure in the ambient solar wind speed. The work emphasizes that the shape of the CME cannot be assumed to remain a coherent geometrical shape during its propagation in the heliosphere. Our analysis demonstrates that the presence of `ghost' CME fronts can be used to infer the distortion of CMEs by ambient solar wind structure as a function of both latitude and longitude. Those information have potential to improve the forecasting of space weather events at Earth

A brain-targeting lipidated peptide for neutralizing RNA-mediated toxicity in Polyglutamine Diseases

Abstract Polyglutamine (PolyQ) diseases are progressive neurodegenerative disorders caused by both protein- and RNA-mediated toxicities. We previously showed that a peptidyl inhibitor, P3, which binds directly to expanded CAG RNA can inhibit RNA-induced nucleolar stress and suppress RNA-induced neurotoxicity. Here we report a N-acetylated and C-amidated derivative of P3, P3V8, that showed a more than 20-fold increase in its affinity for expanded CAG RNA. The P3V8 peptide also more potently alleviated expanded RNA-induced cytotoxicity in vitro, and suppressed polyQ neurodegeneration in Drosophila with no observed toxic effects. Further N-palmitoylation of P3V8 (L1P3V8) not only significantly improved its cellular uptake and stability, but also facilitated its systemic exposure and brain uptake in rats via intranasal administration. Our findings demonstrate that concomitant N-acetylation, C-amidation and palmitoylation of P3 significantly improve both its bioactivity and pharmacological profile. L1P3V8 possesses drug/lead-like properties that can be further developed into a lead inhibitor for the treatment of polyQ diseases

Targeted insertion of regulatory elements enables translational enhancement in rice

In-locus editing of agronomically-important genes to optimize their spatiotemporal expression is becoming an important breeding approach. Compared to intensive studies on mRNA transcription, manipulating protein translation by genome editing has not been well exploited. Here, we found that precise knock-in of a regulating element into the 5’UTR of a target gene could efficiently increase its protein abundance in rice. We firstly screened a translational enhancer (AMVE) from alfalfa mosaic virus using protoplast-based luciferase assays with an 8.5-folds enhancement. Then the chemically modified donor of AMVE was synthesized and targeted inserted into the 5’UTRs of two genes (WRKY71 and SKC1) using CRISPR/Cas9. Following the in-locus AMVE knock-in, we observed up to a 2.8-fold increase in the amount of WRKY71 protein. Notably, editing of SKC1, a sodium transporter, significantly increased salt tolerance in T2 seedlings, indicating the expected regulation of AMVE knock-in. These data demonstrated the feasibility of such in-locus editing to enhance protein expression, providing a new approach to manipulating protein translation for crop breeding