Chunyu Ma

Biolink Model: A universal schema for knowledge graphs in clinical, biomedical, and translational science

Deepak Unni, Sierra A.T. Moxon, Michael Bada, Matthew Brush et autres

What's Changed chemical entity to anatomical entity association by @RichardBruskiewich in https://github.com/biolink/biolink-model/pull/1794 Bump curies from 0.14.4 to 0.14.6 in the patch-updates group across 1 directory by @dependabot[bot] in https://github.com/biolink/biolink-model/pull/1792 fix: correct range of animal model available from slot to uriorcurie by @sierra-moxon …

Identification of key genes associated with T cell exhaustion in HIV infection based on transcriptomic data

Yan Zhang, Yutao Yong, Wenqing Liu, Die Hu et autres

BACKGROUND: Human immunodeficiency virus (HIV) is a lentivirus belonging to the retrovirus subclass. HIV specifically targets and infects human CD4 + T lymphocytes, and T cell exhaustion (TEX) plays an important role in disease progression. However, the specific molecular mechanisms have not …

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MetagenomicKG : a knowledge graph for metagenomic applications

Chunyu Ma, Shaopeng Liu, Stephanie Won, David Koslicki

Abstract Motivation The sheer volume and variety of genomic content within microbial communities makes metagenomics a field rich in biomedical knowledge. To traverse these complex communities and their vast unknowns, metagenomic studies often depend on distinct reference databases, such as the Genome …

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YACHT: Software for an ANI-based statistical test to detect microbial presence/absence in a metagenomic sample

Maksym Lupei, Shaopeng Liu, Chunyu Ma, Adam Park et autres

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YACHT: Software for an ANI-based statistical test to detect microbial presence/absence in a metagenomic sample

Maksym Lupei, Shaopeng Liu, Chunyu Ma, Adam Park et autres

yacht-1.3.2.tar.gz, upload for JOSS publication includes source code

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YACHT: Software for an ANI-based statistical test to detect microbial presence/absence in a metagenomic sample

Maksym Lupei, Shaopeng Liu, Chunyu Ma, Adam Park et autres

yacht-1.3.2.tar.gz, upload for JOSS publication includes source code

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Formation and evolution of mammalian endothelial organotypicity

Qian Xin, Zongcheng Li, Siyuan Hou, Xiaochen Ding et autres

Dataset OverviewThis dataset comprises single-cell transcriptomic profiles of endothelial cells isolated from developing organ primordia across three species: human, monkey, and mouse. The data captures critical developmental windows corresponding to early organogenesis stages.Data InformationSingle‑cell expression data and metadata for human, macaque, and …

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Reconstruction of endocrine subtype-complete human pluripotent stem cell-derived islets with capacity for hypoglycemia protection in vivo

Gaofan Meng, Jiabin Gu, Soon Yi Liew, Zhihui Wang et autres

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Identifying and Targeting TNF Signaling in Idiopathic Multicentric Castleman’s Disease

Melanie Mumau, Michael V. Gonzalez, Chunyu Ma, Abiola Irvine et autres

A patient with longstanding multicentric Castleman’s disease that had progressed after multiple therapies was entering hospice care. Inhibition of tumor necrosis factor will have led to remission for 24 months as of the publication of this letter.

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Real-world effectiveness of influenza vaccine against medical-attended influenza infection during 2023/24 season in Ili Kazakh Autonomous Prefecture, China: A test-negative, case-control study

Jia Mi, Juping Wang, Luping Chen, Zihao Guo et autres

In the post-COVID-19 pandemic era, influenza virus infections continuously lead to a global disease burden. Evaluating vaccine effectiveness against influenza infection is crucial to inform vaccine design and vaccination strategy. In this study, we recruited 1120 patients with influenza-like illness (ILI) who …

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Metagenomic functional profiling: to sketch or not to sketch?

Mahmudur Rahman Hera, Shaopeng Liu, Wei Wei, Judith Rodríguez et autres

MOTIVATION: Functional profiling of metagenomic samples is essential to decipher the functional capabilities of microbial communities. Traditional and more widely used functional profilers in the context of metagenomics rely on aligning reads against a known reference database. However, aligning sequencing reads against …

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MetagenomicKG: a knowledge graph for metagenomic applications

Chunyu Ma, Shaopeng Liu, David Koslicki

MOTIVATION: The sheer volume and variety of genomic content within microbial communities makes metagenomics a field rich in biomedical knowledge. To traverse these complex communities and their vast unknowns, metagenomic studies often depend on distinct reference databases, such as the Genome Taxonomy …

us (code pays fourni par la source)