Context-dependent gene regulatory network reveals regulation dynamics and cell trajectories using unspliced transcripts
The study of multiple “omes,” such as the genome, transcriptome, proteome, and metabolome has become widespread in biomedical research. High-throughput techniques enable the rapid generation of high-dimensional multiomics data. This multiomics approach provides a more complete perspective to study biological systems compared with traditional methods. However, the quantitative analysis and...
Xylem, the most abundant tissue on Earth, is responsible for lateral growth in plants. Typical xylem has a radial system composed of ray parenchyma cells and an axial system of fusiform cells. In most angiosperms, fusiform cells comprise vessel elements for water transportation and libriform fibers for mechanical support, while both functions are performed by tracheids in other vascular plants...
Microbial communities are massively resident in the human body, yet dysbiosis has been reported to correlate with many diseases, including various cancers. Most studies focus on the gut microbiome, while the bacteria that participate in tumor microenvironments on site remain unclear. Previous studies have acquired the bacteria expression profiles from RNA-seq, whole genome sequencing, and whole...
Single-cell RNA sequencing (scRNA-seq) technology allows massively parallel characterization of thousands of cells at the transcriptome level. scRNA-seq is emerging as an important tool to investigate the cellular components and their interactions in the tumor microenvironment. scRNA-seq is also used to reveal the association between tumor microenvironmental patterns and clinical outcomes and to...
SIN3-HDAC complex-associated factor, a chromatin remodelling gene located in the 12p amplicon, is a potential germ cell tumour-specific oncogene
A genetic hallmark of malignant germ cell tumours (GCTs) is isochromosome 12p, but oncogenes located in 12p that are specifically expressed in GCT have not yet been identified. SIN3-HDAC complex-associated factor (SINHCAF) is a subunit of the Sin3/histone deacetylase (HDAC) complex, and it defines a Sin3a-Hdac complex variant that is required for the self-renewal of mouse embryonic stem cells...
A Single-Arm Phase Ib/II Study of Lenvatinib plus Eribulin in Advanced Liposarcoma and Leiomyosarcoma
Satisfactory treatment options for advanced leiomyosarcoma and liposarcoma are limited. The LEADER study (NCT03526679) investigated the safety and efficacy of lenvatinib plus eribulin. LEADER is a multicenter phase Ib/II study for advanced leiomyosarcoma or liposarcoma. The phase Ib part enrolled 6 patients to determine the dose-limiting toxicity (DLT) and recommended phase II dose (RP2D) with...
The genome consists of non-B-DNA structures such as G-quadruplexes (G4) that are involved in the regulation of genome stability and transcription. Telomeric-repeat containing RNA (TERRA) is capable of folding into G-quadruplex and interacting with chromatin remodeler ATRX. Here we show that TERRA modulates ATRX occupancy on repetitive sequences and over genes, and maintains DNA G-quadruplex...
Nitrogen (N) and Water (W) - two resources critical for crop productivity - are becoming increasingly limited in soils globally. To address this issue, we aim to uncover the gene regulatory networks (GRNs) that regulate nitrogen use efficiency (NUE) - as a function of water availability - in Oryza sativa, a staple for 3.5 billion people. In this study, we infer and validate GRNs that correlate...
Comparison of clinical and neuroimaging features between NOTCH3 mutations and nongenetic spontaneous intracerebral haemorrhage
The NOTCH3 mutation is a common cause of hereditary cerebral small vessel disease (CSVD) and may be a cause of spontaneous intracerebral haemorrhage (ICH). The aim was to investigate the clinical/imaging features for identifying the NOTCH3-mutation-related ICH. The study was based on a cohort of 749 CSVD patients in Taiwan who received next-generation sequencing of CSVD genes including NOTCH3...
Genetic analysis of a family presenting with coexisting cerebral cavernous malformations and polycystic kidney disease
Hereditary cerebral cavernous malformations (CCMs) are characterized by clustered dilated capillary-like vessels in the brain. Autosomal dominant polycystic kidney disease (PKD) is characterized by renal cysts and extra-renal abnormalities. We report a Taiwanese family in which the index case exhibited coexisting phenotypes of both CCMs and PKD. The index case was a 55-year-old woman with known...
本中心阮雪芬主任接待到訪的新加坡國立大學 (National University of Singapore) Prof. Dean HO 與研究團隊， 雙方分享研究成果、洽談國際合作計畫。(合影由左至右：Dr. Agata Blasiak、Dr. Xavier TADEO Campillo、Prof. Dean HO、阮雪芬主任)
中心副主任 陳倩瑜教授接受 Nature 旗下知名期刊 Communication Biology 訪談，分享她由一名半導體工程師出身，轉換跑道並成為一名傑出的計算生物學家的心路歷程。陳教授專長為機器學習與人工智慧，並聚焦於多體學相關研究。在訪談中，陳教授除了對計算生物學的發展趨勢，提出她的看法，並針對有志於跨入計算生物學研究的年輕學者給予寶貴的建議。歡迎點擊以下連結觀閱訪談全文：
2023-02-16 新加坡國立大學－Prof. Dean HO 到訪
2022-12-29 臺大醫院內科部邀請專家講座－美國聖地牙哥大學 Prof. Rob Knight
2022-10-26 CLC Genomics Workbench 教學工作坊
相關研究更經由 Discovery 頻道拍攝為影片，於2013年12月全球首播，《台灣無比精彩：尖端農業》於12月30日首播，楊恩誠老師受邀於2014TEDxTaipei演說成果。