3D-PL: Domain Adaptive Depth Estimation with 3D-aware Pseudo-Labeling

For monocular depth estimation, acquiring ground truths for real data is not easy, and thus domain adaptation methods are commonly adopted using the supervised synthetic data. However, this may still incur a large domain gap due to the lack of supervision from the real data. In this paper, we develop a domain adaptation framework via generating reliable pseudo ground truths of depth from real data to provide direct supervisions. Specifically, we propose two mechanisms for pseudo-labeling: 1) 2D-based pseudo-labels via measuring the consistency of depth predictions when images are with the same content but different styles; 2) 3D-aware pseudo-labels via a point cloud completion network that learns to complete the depth values in the 3D space, thus providing more structural information in a scene to refine and generate more reliable pseudo-labels. In experiments, we show that our pseudo-labeling methods improve depth estimation in various settings, including the usage of stereo pairs during training. Furthermore, the proposed method performs favorably against several state-of-the-art unsupervised domain adaptation approaches in real-world datasets.Comment: Accepted in ECCV 2022. Project page: https://ccc870206.github.io/3D-PL

BioRED: A Comprehensive Biomedical Relation Extraction Dataset

Automated relation extraction (RE) from biomedical literature is critical for many downstream text mining applications in both research and real-world settings. However, most existing benchmarking datasets for bio-medical RE only focus on relations of a single type (e.g., protein-protein interactions) at the sentence level, greatly limiting the development of RE systems in biomedicine. In this work, we first review commonly used named entity recognition (NER) and RE datasets. Then we present BioRED, a first-of-its-kind biomedical RE corpus with multiple entity types (e.g., gene/protein, disease, chemical) and relation pairs (e.g., gene-disease; chemical-chemical), on a set of 600 PubMed articles. Further, we label each relation as describing either a novel finding or previously known background knowledge, enabling automated algorithms to differentiate between novel and background information. We assess the utility of BioRED by benchmarking several existing state-of-the-art methods, including BERT-based models, on the NER and RE tasks. Our results show that while existing approaches can reach high performance on the NER task (F-score of 89.3%), there is much room for improvement for the RE task, especially when extracting novel relations (F-score of 47.7%). Our experiments also demonstrate that such a comprehensive dataset can successfully facilitate the development of more accurate, efficient, and robust RE systems for biomedicine

The in Vivo Deleterious Effects of Ethanol

Oxidative stress, which is defined as an imbalance between pro-oxidants and antioxidants, has been demonstrated to mediate the pathogenesis of ethanol-induced injury. Senescence-accelerated mice prone P8 (SAMP8) is considered an excellent model for rode

ATP-Binding Cassette Transporter VcaM from Vibrio cholerae is Dependent on the Outer Membrane Factor Family for Its Function.

Vibrio cholerae ATP-binding cassette transporter VcaM (V. cholerae ABC multidrug resistance pump) has previously been shown to confer resistance to a variety of medically important drugs. In this study, we set to analyse its properties both in vitro in detergent-solubilised state and in vivo to differentiate its dependency on auxiliary proteins for its function. We report the first detailed kinetic parameters of purified VcaM and the rate of phosphate (Pi) production. To determine the possible functional dependencies of VcaM on the tripartite efflux pumps we then utilized different E. coli strains lacking the principal secondary transporter AcrB (Acriflavine resistance protein), as well as cells lacking the outer membrane factor (OMF) TolC (Tolerance to colicins). Consistent with the ATPase function of VcaM we found it to be susceptible to sodium orthovanadate (NaOV), however, we also found a clear dependency of VcaM function on TolC. Inhibitors targeting secondary active transporters had no effects on either VcaM-conferred resistance or Hoechst 33342 accumulation, suggesting that VcaM might be capable of engaging with the TolC-channel without periplasmic mediation by additional transporters. Our findings are indicative of VcaM being capable of a one-step substrate translocation from cytosol to extracellular space utilising the TolC-channel, making it the only multidrug ABC-transporter outside of the MacB-family with demonstrable TolC-dependency

Realization of Polarization Control in High-Order Harmonic Generation

The nature of high-order harmonic generation process limits the harmonics emission to linear polarization. In this paper, we review the recent progress to generate elliptically or circularly polarized high-harmonic EUV pulses. We further demonstrate how complete control of polarization state of isolated high-harmonic pulse can be realized today by noncollinear focusing of two driving pulses with identical ellipticity but counter-rotating helicity. This paper opens a path towards the study of the fastest dynamics--down to attosecond time scales--in circular dichroism of magnetic materials, chiral molecules, and electronic spin motion.Taiwan Ministry of Science and Technology; Academia Sinica; Junta de Castilla y León; Ministerio de Economía y Competitividad; Leonardo Grant for Researchers and Cultural Creators, BBVA Foundation; Ministerio de Ciencia, Innovación y Universidades for a Ramón y Cajal; European Social Fund; Ministerio de Educación, Cultura y Deporte

Simple and Specific Dual-Wavelength Excitable Dye Staining for Glycoprotein Detection in Polyacrylamide Gels and Its Application in Glycoproteomics

In this study, a commercially available fluorescent dye, Lissamine rhodamine B sulfonyl hydrazine (LRSH), was designed to specifically stain the glycoproteins in polyacrylamide gels. Through the periodate/Schiff base mechanism, the fluorescent dye readily attaches to glycoproteins and the fluorescence can be simultaneously observed under either 305 nm or 532 nm excitation therefore, the dye-stained glycoproteins can be detected under a regular UV transilluminator or a more elegant laser-based gel scanner. The specificity and detection limit were examined using a standard protein mixture in polyacrylamide gels in this study. The application of this glycoprotein stain dye was further demonstrated using pregnancy urine samples. The fluorescent spots were further digested in gel and their identities confirmed through LC-MS/MS analysis and database searching. In addition, the N-glycosylation sites of LRSH-labeled uromodulin were readily mapped via in-gel PNGaseF deglycosylation and LC-MS/MS analysis, which indicated that this fluorescent dye labeling does not interfere with enzymatic deglycosylation. Hence, the application of this simple and specific dual-wavelength excitable dye staining in current glycoproteome research is promising

VideoGLUE: Video General Understanding Evaluation of Foundation Models

We evaluate existing foundation models video understanding capabilities using a carefully designed experiment protocol consisting of three hallmark tasks (action recognition, temporal localization, and spatiotemporal localization), eight datasets well received by the community, and four adaptation methods tailoring a foundation model (FM) for a downstream task. Moreover, we propose a scalar VideoGLUE score (VGS) to measure an FMs efficacy and efficiency when adapting to general video understanding tasks. Our main findings are as follows. First, task-specialized models significantly outperform the six FMs studied in this work, in sharp contrast to what FMs have achieved in natural language and image understanding. Second,video-native FMs, whose pretraining data contains the video modality, are generally better than image-native FMs in classifying motion-rich videos, localizing actions in time, and understanding a video of more than one action. Third, the video-native FMs can perform well on video tasks under light adaptations to downstream tasks(e.g., freezing the FM backbones), while image-native FMs win in full end-to-end finetuning. The first two observations reveal the need and tremendous opportunities to conduct research on video-focused FMs, and the last confirms that both tasks and adaptation methods matter when it comes to the evaluation of FMs

Excavatoids O and P, New 12-Hydroxybriaranes from the Octocoral Briareum excavatum

Two new 12-hydroxybriarane diterpenoids, designated as excavatoids O (1) and P (2), were isolated from the octocoral Briareum excavatum. The structures of briaranes 1 and 2 were established on the basis of extensive spectral data analysis. Excavatoid P (2) is the first metabolite which possesses a 6β -chlorine atom in briarane analogues