DASES: a database of alternative splicing for esophageal squamous cell carcinoma

Esophageal carcinoma ranks as the sixth leading cause of cancer-related mortality globally, with esophageal squamous cell carcinoma (ESCC) being particularly prevalent among Asian populations. Alternative splicing (AS) plays a pivotal role in ESCC development and progression by generating diverse transcript isoforms. However, the current landscape lacks a specialized database focusing on alternative splicing events (ASEs) derived from a large number of ESCC cases. Additionally, most existing AS databases overlook the contribution of long non-coding RNAs (lncRNAs) in ESCC molecular mechanisms, predominantly focusing on mRNA-based ASE identification. To address these limitations, we deployed DASES (http://www.hxdsjzx.cn/DASES). Employing a combination of publicly available and in-house ESCC RNA-seq datasets, our extensive analysis of 346 samples, with 93% being paired tumor and adjacent non-tumor tissues, led to the identification of 257 novel lncRNAs in esophageal squamous cell carcinoma. Leveraging a paired comparison of tumor and adjacent normal tissues, DASES identified 59,094 ASEs that may be associated with ESCC. DASES fills a critical gap by providing comprehensive insights into ASEs in ESCC, encompassing lncRNAs and mRNA, thus facilitating a deeper understanding of ESCC molecular mechanisms and serving as a valuable resource for ESCC research communities

Finishing the euchromatic sequence of the human genome

The sequence of the human genome encodes the genetic instructions for human physiology, as well as rich information about human evolution. In 2001, the International Human Genome Sequencing Consortium reported a draft sequence of the euchromatic portion of the human genome. Since then, the international collaboration has worked to convert this draft into a genome sequence with high accuracy and nearly complete coverage. Here, we report the result of this finishing process. The current genome sequence (Build 35) contains 2.85 billion nucleotides interrupted by only 341 gaps. It covers ∼99% of the euchromatic genome and is accurate to an error rate of ∼1 event per 100,000 bases. Many of the remaining euchromatic gaps are associated with segmental duplications and will require focused work with new methods. The near-complete sequence, the first for a vertebrate, greatly improves the precision of biological analyses of the human genome including studies of gene number, birth and death. Notably, the human enome seems to encode only 20,000-25,000 protein-coding genes. The genome sequence reported here should serve as a firm foundation for biomedical research in the decades ahead

FIGURE 2. The 10001 in Description of Schistonchus altissimus n. sp. (Nematoda: Aphelenchoididae), an associate of Ficus altissima in China

FIGURE 2. The 10001st Bayesian tree inferred from D3 under GTR+I+G model (-lnL=2302.1172; freqA=0.2692; freqC=0.1707; freqG=0.2793; freqT=0.2809; R(a)=1.2318; R(b)=4.7041; R(c)=2.0052; R(d)=0.951; R(e)=7.4182; R(f)=1; Pinva=0.3515; Shape=0.568). Posterior probability values exceeding 50% are given on appropriate clades.Published as part of <i>Zeng, Yongsan, Ye, Weimin, Huang, Jianghua, Li, Changhui & Giblin-Davis, Robin M., 2013, Description of Schistonchus altissimus n. sp. (Nematoda: Aphelenchoididae), an associate of Ficus altissima in China, pp. 561-572 in Zootaxa 3700 (4)</i> on page 564, DOI: 10.11646/zootaxa.3700.4.4, <a href="http://zenodo.org/record/10099052">http://zenodo.org/record/10099052</a&gt

FIGURE 3 in Description of Schistonchus altissimus n. sp. (Nematoda: Aphelenchoididae), an associate of Ficus altissima in China

FIGURE 3. Adult male and reproductive female of Schistonchus altissimus n. sp. in lateral view. A: Anterior body of reproductive female; B: Vulva, post-uterine sac of reproductive female reproductive system; C–E: Male spicules; F: Anterior body of male; G: Male tail; H: Reproductive female tail; I: Entire reproductive female; J: Entire male (Scale bars: A–H = 20 µm; I, J = 50 µm).Published as part of <i>Zeng, Yongsan, Ye, Weimin, Huang, Jianghua, Li, Changhui & Giblin-Davis, Robin M., 2013, Description of Schistonchus altissimus n. sp. (Nematoda: Aphelenchoididae), an associate of Ficus altissima in China, pp. 561-572 in Zootaxa 3700 (4)</i> on page 568, DOI: 10.11646/zootaxa.3700.4.4, <a href="http://zenodo.org/record/10099052">http://zenodo.org/record/10099052</a&gt

FIGURE 4 in Description of Schistonchus altissimus n. sp. (Nematoda: Aphelenchoididae), an associate of Ficus altissima in China

FIGURE 4. Photomicrographs of adult entomophilic, reproductive female and male of Schistonchus altissimus n. sp. in lateral view. A, B: Anterior body of reproductive female (arrow=excretory pore); C: Vulva, post-uterine sac of reproductive female reproductive system; D: Reproductive female tail; E: Lateral incisures of reproductive female; F:.Entomophilic reproductive female tail: G: Anterior body of male (arrow=excretory pore); H: Male tail (first arrow= cucullus; other three arrows=papillae) (All scale bars = 10 µm).Published as part of <i>Zeng, Yongsan, Ye, Weimin, Huang, Jianghua, Li, Changhui & Giblin-Davis, Robin M., 2013, Description of Schistonchus altissimus n. sp. (Nematoda: Aphelenchoididae), an associate of Ficus altissima in China, pp. 561-572 in Zootaxa 3700 (4)</i> on page 569, DOI: 10.11646/zootaxa.3700.4.4, <a href="http://zenodo.org/record/10099052">http://zenodo.org/record/10099052</a&gt

FIGURE 1. The 10001 in Description of Schistonchus altissimus n. sp. (Nematoda: Aphelenchoididae), an associate of Ficus altissima in China

FIGURE 1. The 10001st Bayesian tree inferred from 18S under GTR+I+G model (-lnL=11975.4033; freqA=0.2441; freqC=0.2019; freqG=0.2693; freqT=0.2847; R(a)=1.2631; R(b)=2.7232; R(c)=1.4524; R(d)=0.8901; R(e)=4.1822; R(f)=1; Pinva=0.2115; Shape=0.6746). Posterior probability values exceeding 50% are given on appropriate clades.Published as part of <i>Zeng, Yongsan, Ye, Weimin, Huang, Jianghua, Li, Changhui & Giblin-Davis, Robin M., 2013, Description of Schistonchus altissimus n. sp. (Nematoda: Aphelenchoididae), an associate of Ficus altissima in China, pp. 561-572 in Zootaxa 3700 (4)</i> on page 563, DOI: 10.11646/zootaxa.3700.4.4, <a href="http://zenodo.org/record/10099052">http://zenodo.org/record/10099052</a&gt

YONGSAN ZENG, WEIMIN YE, JIANGHUA HUANG, CHANGHUI LI & ROBIN M. GIBLIN- DAVIS (2013) Description of Schistonchus altissimus n. sp. (Nematoda: Aphelenchoididae), an associate

Zeng, Yongsan, Ye, Weimin, Huang, Jianghua, Li, Changhui, Giblin- Davis, Robin M. (2013): YONGSAN ZENG, WEIMIN YE, JIANGHUA HUANG, CHANGHUI LI & ROBIN M. GIBLIN- DAVIS (2013) Description of Schistonchus altissimus n. sp. (Nematoda: Aphelenchoididae), an associate. Zootaxa 3717 (4): 598-600, DOI: 10.11646/zootaxa.3717.4.

Description of Schistonchus altissimus n. sp. (Nematoda: Aphelenchoididae), an associate of Ficus altissima in China

Zeng, Yongsan, Ye, Weimin, Huang, Jianghua, Li, Changhui, Giblin-Davis, Robin M. (2013): Description of Schistonchus altissimus n. sp. (Nematoda: Aphelenchoididae), an associate of Ficus altissima in China. Zootaxa 3700 (4): 561-572, DOI: 10.11646/zootaxa.3700.4.

Durable liquid-crystalline vitrimer actuators.

Vitrimer-based liquid-crystalline elastomers (LCEs) exhibit great advantages over the traditional LCEs due to their inherent processability to realize monodomain alignment and construction of LCE actuators with complex 3D structures in a robust way. Though exciting progress has been made, how to achieve a proper balance between processability and actuation durability/stability remains a big challenge. Here, we report a strategy to mitigate the conflict between processability and actuation stability by reducing the catalyst content in an epoxy/acid LCE vitrimer system. With a relatively low catalyst content (0.25 mol% to carboxyl group), monodomain LCEs with large actuation strain (∼95%) and excellent actuation stability (the actuation strain is completely maintained after 100 heating-cooling cycles and more than 90% of the initial strain is retained even after 500 cycles) could be easily prepared. Moreover, the monodomain LCEs can still be readily realigned or directly reconfigured into complex reversible 3D actuators