Team I2R-VI-FF Technical Report on EPIC-KITCHENS VISOR Hand Object Segmentation Challenge 2023

In this report, we present our approach to the EPIC-KITCHENS VISOR Hand Object Segmentation Challenge, which focuses on the estimation of the relation between the hands and the objects given a single frame as input. The EPIC-KITCHENS VISOR dataset provides pixel-wise annotations and serves as a benchmark for hand and active object segmentation in egocentric video. Our approach combines the baseline method, i.e., Point-based Rendering (PointRend) and the Segment Anything Model (SAM), aiming to enhance the accuracy of hand and object segmentation outcomes, while also minimizing instances of missed detection. We leverage accurate hand segmentation maps obtained from the baseline method to extract more precise hand and in-contact object segments. We utilize the class-agnostic segmentation provided by SAM and apply specific hand-crafted constraints to enhance the results. In cases where the baseline model misses the detection of hands or objects, we re-train an object detector on the training set to enhance the detection accuracy. The detected hand and in-contact object bounding boxes are then used as prompts to extract their respective segments from the output of SAM. By effectively combining the strengths of existing methods and applying our refinements, our submission achieved the 1st place in terms of evaluation criteria in the VISOR HOS Challenge

Recent progress in atomically precise Ag/Cu-based hydride clusters

Owing to advantages in synthesis, separation, structure determination, and low cost (compared to noble metal nanoclusters), Ag/Cu hydride clusters (and their alloys) have received increasing research interest in recent decades and have shown great potential in mediating reduction reactions and H2 storage applications. The atomic precision of the Ag/Cu hydride clusters with the combination of single-crystal X-ray diffraction, 1/2H nuclear magnetic resonance, electrospray ionization mass spectrometry, density functional theory, and particularly, single-crystal neutron diffraction, has provided pivotal information regarding its structural characteristics, facilitating a deep understanding of the inherent bonding principles therein. This review summarizes the research progress of atomically precise Ag/Cu hydride clusters (and their alloys) over the past three years (2021–2023), mainly focusing on the synthesis, structure analysis, and catalytic applications of the hydride clusters. We believe that this review can benefit the future design of different types of metal hydride clusters and aid in their application in various redox reactions

Genomic mosaicism due to homoeologous exchange generates extensive phenotypic diversity in nascent allopolyploids

Allopolyploidy is an important process in plant speciation, yet newly formed allopolyploid species typically suffer from extreme genetic bottlenecks. One escape from this impasse might be homoeologous meiotic pairing, during which homoeologous exchanges (HEs) generate phenotypically variable progeny. However, the immediate genome-wide patterns and resulting phenotypic diversity generated by HEs remain largely unknown. Here, we analyzed the genome composition of 202 phenotyped euploid segmental allopolyploid individuals from the 4th selfed generation following chromosomal doubling of reciprocal F1 hybrids of crosses between rice subspecies, using whole genome sequencing. We describe rampant occurrence of HEs that, by overcoming incompatibility or conferring superiority of hetero-cytonuclear interactions, generate extensive and individualized genomic mosaicism across the analyzed tetraploids. We show that the resulting homoeolog copy number alteration in tetraploids affects known-function genes and their complex genetic interactions, in the process creating extraordinary phenotypic diversity at the population level following a single initial hybridization. Our results illuminate the immediate genomic landscapes possible in a tetraploid genomic environment, and underscore HE as an important mechanism that fuels rapid phenotypic diversification accompanying the initial stages of allopolyploid evolution

Large expert-curated database for benchmarking document similarity detection in biomedical literature search

Document recommendation systems for locating relevant literature have mostly relied on methods developed a decade ago. This is largely due to the lack of a large offline gold-standard benchmark of relevant documents that cover a variety of research fields such that newly developed literature search techniques can be compared, improved and translated into practice. To overcome this bottleneck, we have established the RElevant LIterature SearcH consortium consisting of more than 1500 scientists from 84 countries, who have collectively annotated the relevance of over 180 000 PubMed-listed articles with regard to their respective seed (input) article/s. The majority of annotations were contributed by highly experienced, original authors of the seed articles. The collected data cover 76% of all unique PubMed Medical Subject Headings descriptors. No systematic biases were observed across different experience levels, research fields or time spent on annotations. More importantly, annotations of the same document pairs contributed by different scientists were highly concordant. We further show that the three representative baseline methods used to generate recommended articles for evaluation (Okapi Best Matching 25, Term Frequency-Inverse Document Frequency and PubMed Related Articles) had similar overall performances. Additionally, we found that these methods each tend to produce distinct collections of recommended articles, suggesting that a hybrid method may be required to completely capture all relevant articles. The established database server located at https://relishdb.ict.griffith.edu.au is freely available for the downloading of annotation data and the blind testing of new methods. We expect that this benchmark will be useful for stimulating the development of new powerful techniques for title and title/abstract-based search engines for relevant articles in biomedical research.Peer reviewe

Multiscale simulations for understanding the evolution and mechanism of hierarchical peptide self-assembly

Hierarchical self-assembly, abundant in biological systems, has been explored as an effective bottom-up method to fabricate highly ordered functional superstructures from elemental building units. Biomolecules, especially short peptides consisting of several amino acids, are a type of elegant building blocks due to their advantages of structural, mechanical, and functional diversity as well as high biocompatibility and biodegradability. The hierarchical self-assembly of peptides is a spontaneous process spanning multiple time and length scales under certain thermodynamics and kinetics conditions. Therefore, understanding the mechanisms of dynamic processes is crucial to directing the construction of complicated bio-mimetic systems with multiple functionalities. Multiscale molecular simulations that combine and systematically link several hierarchies can provide insights into the evolution and dynamics of hierarchical self-assembly from the molecular level to the mesoscale. Herein, we provided an overview of the simulation hierarchies in the general field of peptide self-assembly modeling. In particular, we highlighted multiscale simulations for unraveling the mechanisms underlying the dynamic self-assembly process with an emphasis on weak intermolecular interactions in the process stages and the energies of different molecular alignments as well as the role of thermodynamic and kinetic factors at the microscopic</p

Synergistic in vivo photodynamic and photothermal antitumor therapy based on collagen-gold hybrid hydrogels with inclusion of photosensitive drugs

Phototherapies, including photodynamic therapy (PDT) and photothermal therapy (PTT), have shown great potential in non-invasive tumor treatments. To achieve targeted and effective antitumor therapy, it is highly desirable to combine the advantages of PDT and PTT in a delivery platform. Herein, we report a strategy to achieve synergistic PDT and PTT based on collagen-gold hybrid hydrogels, in which gold nanoparticles are incorporated as photothermal agents for PTT and photosensitive drugs are entrapped as photodynamic agents for PDT. In vivo antitumor results reveal that synergistic PDT and PTT exhibit the best antitumor effect with a tumor elimination rate up to 80% while PDT and PTT alone show less effective tumor inhibition. This synergistic therapy by the designed hydrogels does not cause body weight loss as compared to the control group without any treatment. Taken together, such a therapeutic strategy based on collagen-gold hybrid hydrogels with inclusion of photosensitive drugs may provide new alternatives for developing a type of delivery nanosystems toward synergistic antitumor therapy. (C) 2016 Published by Elsevier B.V.</p

The Adsorptive Removal of Fluoride from Aqueous Solution by Modified Sludge: Optimization Using Response Surface Methodology

The sludge from the water supply plant was investigated to remove fluoride ions from the water. To improve the adsorption ability, the original sludge sample was treated with fuel oxidation, pyrolysis, hydrochloric acid, and sulphuric acid methods, and hydrochloric acid treatment improved the adsorption capacity of the sludge on the fluoride in water significantly, with a maximum adsorption capacity to 140 mg/kg. The adsorption experimental data was the well fitted pseudo-first-order model and the Langmuir isotherms model. SEM images and XRD patterns of the adsorbent were recorded to get a better insight into the adsorption process. The effect of three variables, hydrochloric acid treated sludge (HWS) dose, pH, and initial fluoride concentration were studied using a Box-Behnken statistical experimental design. The model of the adsorption and optimum conditions was investigated using the response surface methodology. The optimum removal efficiency of fluoride can reach 81.153% under the optimum condition: HWS dose of 14.10 g/L and pH value at 6.12. The effect of co-existing anions and the removal efficiency from the water were also studied. The results suggest that sludge from the water supply plant can be reused as a coagulant for the removal of fluoride from poor quality water

Fine Root Dynamics in Three Forest Types with Different Origins in a Subalpine Region of the Eastern Qinghai-Tibetan Plateau

Fine roots play a crucial role in plant survival potential and biogeochemical cycles of forest ecosystems. Subalpine areas of the Eastern Qinghai-Tibetan Plateau have experienced different forest re-establishment methods after clear-cutting primary forest. However, little is known about fine root dynamics of these forests originating from artificial, natural and their combined processes. Here, we determined fine root traits (biomass, production and turnover rate) of three subalpine forest types, i.e., Picea asperata Mast. plantation forest (artificial planting, PF), natural secondary forest (natural without assisted regeneration, NF) and P. asperata broadleaved mixed forest (natural regeneration after artificial planting, MF) composed of planted P. asperata and naturally regenerated native broadleaved species. At the soil depth of 0&ndash;30 cm, fine root biomass was the highest in PF and fine root production was the highest in NF, and both were the lowest in MF. Fine root dynamics of the three forest types tended to decrease with soil depth, with larger variations in PF. Fine root biomass and production were the highest in PF in 0&ndash;10 cm soil layer but were not significantly different among forest types in the lower soil layers. There were positive correlations between these parameters and aboveground biomass across forest types in soil layer of 0&ndash;10 cm, but not in the lower soil layers. Fine root turnover rate was generally higher in mixed forests than in monocultures at all soil depths. In conclusion, the natural regeneration procedure after clear-cutting in the subalpine region of western Sichuan seems to be superior from the perspective of fine root dynamics

Effective Two-Photon Excited Photodynamic Therapy of Xenograft Tumors Sensitized by Water-Soluble Bis(arylidene)cycloalkanone Photosensitizers

A series of bis(arylidene)cydoalkanone photo-sensitizers modified by polyethylene glycol (PEG) have been studied for two-photon excited photodynamic therapy (2PE-PDT). As compared with their prototype compounds, these PEGylated photosensitizers show enhanced water solubilities while their photophysical and photochemical properties, including linear absorption, two-photon absorption, fluorescence, and singlet oxygen quantum yield, remain unaltered. In vitro behaviors (cellular uptake, subcellular localization, photocytotomicity in both PDT and 2PE-PDT) of these photosensitizers reveal that an optimized lipid-water partition coefficient can be obtained by adjusting the length and position of the PEG chains. Among them, the photosensitizer modified asymmetrically by two tetraethylene glycol chains presents the best performance as a 2PE-PDT candidate. Selective blood-vessel closure and obvious therapeutic effect in inhibiting the growth of tumors are confirmed by in vivo 2PE-PDT after intravenous injection of this photosensitiezer. The survival periods of treated tumor-bearing mice are significantly prolonged. This study demonstrates the feasibility of using a simple molecule to construct a potential candidate for 2PE-PDT