New GEO Series

GSE328037 Assay for Transposase-Accessible Chromatin With High-Throughput Sequencing in Mouse BMDMs Following CD74 Deficiency

Sun, 19 Apr 2026 00:00:00 -0400

Contributors : Rui Peng ; Bo Yu ; Lutian Yao ; Lei Zhang ; Tao Gui
Series Type : Genome binding/occupancy profiling by high throughput sequencing
Organism : Mus musculus

We employed ACAT-Seq technology to perform a genome-wide assessment of chromatin accessibility changes following CD74 knockout in mouse bone marrow-derived macrophages (BMDMs), with a focus on alterations in regulatory elements associated with aerobic glycolysis-related genes. On this basis, we further explored the potential molecular mechanisms by which CD74 regulates the aerobic glycolytic metabolic pathway in macrophages, including its impact on the accessibility of key transcription factor binding sites and the activity of associated signaling pathways.

GSE328020 Effects of LXR intervention on transcriptome expression in the injury area of mice with spinal cord injury

Sun, 19 Apr 2026 00:00:00 -0400

Series Type : Expression profiling by high throughput sequencing
Organism : Mus musculus

Spinal cord injury (SCI) induces extensive myelin breakdown and releases large amounts of lipids into the lesion microenvironment, driving macrophage-to-foam cell transformation and sustaining chronic inflammation. Reverse cholesterol transport (RCT) is the major pathway responsible for lipid efflux, yet its functional dynamics and regulatory imbalance after SCI remain poorly understood. This study aims to characterize the temporal expression patterns and cellular localization of key RCT components (ABCA1, ABCG1, and APOE) after SCI, and to evaluate whether activation of the LXR/RXR pathway by the agonist AZ876 can modulate RCT function, reduce foam cell accumulation, and improve neurological recovery.

GSE327989 Comparative Study of Phycoerythrobilin Synthases for Fine-Tuning Photosynthetic Light-Harvesting Complexes, Phycobilisomes

Sun, 19 Apr 2026 00:00:00 -0400

Contributors : Satoru Watanabe ; Kaori Nimura-Matsune
Series Type : Expression profiling by high throughput sequencing
Organism : Synechococcus elongatus PCC 7942 = FACHB-805

Phycobilisomes serve as the major light-harvesting antenna complexes in cyanobacteria; they capture light and transfer excitation energy to the photosystems, and their spectral and functional properties are primarily determined by the types of bilin chromophores attached to phycobiliproteins. We previously revealed that the properties of phycobilisomes can be modulated by altering the biosynthesis of these bilin chromophores. In this study, we introduced two distinct phycoerythrobilin (PEB) biosynthetic enzymes, pcyX and pebS, into the cyanobacterium Synechococcus elongatus PCC 7942 and successfully enabled PEB incorporation into native phycobilisomes. PebS exhibited high PEB synthesis activity comparable to the canonical PebA-PebB pathway, whereas PcyX showed lower activity, enabling fine-tuning of PEB accumulation. Consistent with previous findings, moderate PEB supply enhanced growth under green light; notably, PcyX expression further promoted growth by providing a more balanced pigment supply. Transcriptome analysis confirmed comparable expression of pebA-pebB, pcyX, and pebS, and revealed that increased PEB accumulation triggered broad metabolic remodeling: genes for glucose metabolism, hydrogenase complexes, potassium transporters, and regulatory factors including sigma factors were upregulated, suggesting a shift toward dissipation of excess reducing power. Together, these findings demonstrate that engineering bilin biosynthesis modifies light-harvesting properties and influences cellular metabolic balance, illustrating the potential of pigment pathway manipulation for redesigning photosynthetic function.

GSE327941 Exploring the immune environment of glioblastoma in humanized mouse models

Sun, 19 Apr 2026 00:00:00 -0400

Contributors : Jun Takei ; Ken Furudate ; Satoru Osuka ; Masakazu Kamata
Series Type : Expression profiling by high throughput sequencing
Organism : Homo sapiens

Glioblastoma (GBM) is the deadliest primary brain tumor in adults, and progress in therapy development has been hindered by the lack of preclinical models that faithfully recapitulate interactions between human tumor cells and human immune cells, particularly in therapy-resistant disease. To address this limitation, we established a humanized mouse model of GBM using radiation-resistant patient-derived xenografts (PDXs) implanted into immunodeficient mice reconstituted with human hematopoietic stem progenitor cells derived from umbilical cord blood. For single-cell RNA sequencing, peripheral blood (PB), tumor-infiltrating immune cells (TILs), and tumor cells were collected from humanized NOG-EXL mice bearing EGFP-positive JX14P-RT tumors. Tumor cells from the same JX14P-RT model implanted into non-humanized naive NOG-EXL mice were also analyzed for comparison. Single-cell suspensions were prepared from tumor tissues, and CD45-positive immune cells and EGFP-positive tumor cells were isolated by cell sorting. Human CD45-positive cells in peripheral blood were purified separately. The dataset includes three TIL samples from humanized mice, three PB samples from humanized mice, three tumor-cell samples from humanized mice, and two tumor-cell samples from naive mice. Individual samples were labeled with hashtag oligonucleotide antibodies, pooled, and then analyzed separately by compartment as TIL, PB, and tumor groups. Libraries were generated using the 10x Genomics Chromium Single Cell 3' platform and sequenced on an Illumina NovaSeq 6000. The data show infiltration of diverse human immune populations, including T cells, natural killer cells, and myeloid lineage cells, and support the utility of this model for studying the immune microenvironment of recurrent and therapy-resistant GBM.