A5022092773- Genetics, Bioinformatics, and Biomedical Research
- Cancer Genomics and Diagnostics
- Chromosomal and Genetic Variations
- CRISPR and Genetic Engineering
- Plant tissue culture and regeneration
- Epigenetics and DNA Methylation
- Ferroptosis and cancer prognosis
- RNA modifications and cancer
- Cancer Immunotherapy and Biomarkers
Nanjing Agricultural University
2025
Dana-Farber Cancer Institute
2014-2022
Summary Genotype restriction poses a significant bottleneck to stable transformation in the vast majority of plant species, thereby severely impeding advancement bioengineering, particularly for crops. Nanoparticles (NPs) can serve as effective carriers transient delivery nucleic acids, facilitating gene overexpression or silencing plants genotype‐independent manner. However, applications NP‐mediated systems comprehensive genomic studies remained underexplored plants, especially crops that...
We propose a statistical algorithm MethylPurify that uses regions with bisulfite reads showing discordant methylation levels to infer tumor purity from samples alone. can identify differentially methylated (DMRs) individual methylome samples, without genomic variation information or prior knowledge other datasets. In simulations mixed cancer and normal cell lines, correctly inferred identified over 96% of the DMRs. From patient data, gave satisfactory DMR calls alone, revealed potential...
<p>Supplementary Data include: 1, Supplementary Methods: a detailed description of data processing, computational analysis, and web interface functions; 2, References; 3, Figures 1-6: Fig. S1: Cancer sample reclustering; S2: type reannotation; S3: TF target prediction in cancer; S4: Snapshot the Cistrome webpage; S5: FOXM1, pan-cancer active TF; S6: Distinct patterns immune cell infiltration kidney colorectal cancers; 4, Table 1: Type Abbreviations.</p>
<p>Cistrome Cancer overview.</p>
<p>Cistrome Cancer overview.</p>
<p>Supplementary Data include: 1, Supplementary Methods: a detailed description of data processing, computational analysis, and web interface functions; 2, References; 3, Figures 1-6: Fig. S1: Cancer sample reclustering; S2: type reannotation; S3: TF target prediction in cancer; S4: Snapshot the Cistrome webpage; S5: FOXM1, pan-cancer active TF; S6: Distinct patterns immune cell infiltration kidney colorectal cancers; 4, Table 1: Type Abbreviations.</p>
Abstract Immune checkpoint blockade (ICB) therapy revolutionized cancer treatment, but patients with impaired MHC-I and/or MHC-II expression show inferior response. We observed differential patterns for and in cells applied multiple approaches to examine their regulatory mechanisms. To identify the modulators of MHC-I, we combined FACS-based genome-wide CRISPR screens data-mining from public data. identified TRAF3, a suppressor NFkB pathway, as negative regulator MHC-I. The Traf3-knockout...