A novel small molecule derived from Lentinula edodes targets PRDX1 to inhibit RANKL-induced osteoclast differentiation and rescues the osteoporotic phenotype
RNA-seq (gene expression) · mouse · 14 samples
- What it is
- RNA-seq (gene expression)Gene activity measured by sequencing. The summary does not mention single-cell work, so this is most likely bulk: one average per sample, the usual starting point for comparing groups.
- Organism
- Mus musculus (mouse)
- Samples
- 14 samples: 7 conditions, mostly in duplicateGroups are read from the sample names, not from the paper. Check the list below.
- Data you can get
- A processed table (series matrix) and supplementary files from NCBI; the raw sequencing reads from ENA. Which of these hold counts depends on the study, so check the file list.
Direct links to NCBI and ENA, no account and no request form. Pick by what you want to do: take the small processed table to look, the supplementary files to re-analyse, or the original raw data to start over.
Processed table
The series matrix: one table of values per sample as the submitters processed it. The smallest download, and it opens in Excel or R. Start here to see what the data look like.
Supplementary files
The count tables and other files the authors uploaded. Take only the samples you need, or the whole study as GSE248994_RAW.tar (it can run to tens of gigabytes).
Raw sequencing reads
The original FASTQ files, straight from the sequencer, held at ENA. Large, and you align them yourself, so only choose this if you need to re-process the study from scratch.
What the files usually look like: For RNA-seq the counts are usually a table among the supplementary files (look for 'counts', 'expression', 'FPKM' or 'TPM' in the file name). The series matrix of a sequencing study is sometimes nearly empty.
Also filed as BioProject PRJNA1046547 and SRA study SRP474994. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 14 samples.
How we read this: 7 replicated groups read from 14 sample titles; they account for 14 of them. These groups are guessed from the sample names, not taken from the paper, so check them against the sample list below before relying on them.
- GSM7924374 MCSF_rep1 MCSF
- GSM7924375 MCSF_rep2 MCSF
- GSM7924376 RANKL_rep1 RANKL
- GSM7924377 RANKL_rep2 RANKL
- GSM7924378 Denatonium_rep1 Denatonium
- GSM7924379 Denatonium_rep2 Denatonium
- GSM7924380 Prdx1_WT_MCSF_rep1 Prdx1_WT_MCSF
- GSM7924381 Prdx1_WT_MCSF_rep2 Prdx1_WT_MCSF
- GSM7924382 Prdx1_WT_RANKL_rep1 Prdx1_WT_RANKL
- GSM7924383 Prdx1_WT_RANKL_rep2 Prdx1_WT_RANKL
- GSM7924384 Prdx1_KO_MCSF_rep1 Prdx1_KO_MCSF
- GSM7924385 Prdx1_KO_MCSF_rep2 Prdx1_KO_MCSF
- GSM7924386 Prdx1_KO_RANKL_rep1 Prdx1_KO_RANKL
- GSM7924387 Prdx1_KO_RANKL_rep2 Prdx1_KO_RANKL
- GSE248993 A novel small molecule derived from Lentinula edodes targets PRDX1 to inhibit RANKL-induced osteoclast differentiation and rescues the osteoporotic phenotype [PRDX KO] 8 samples shares prdx1, rankl-induced, osteoporotic, osteoclast, lentinula, phenotype, molecule, derived
- GSE248992 A novel small molecule derived from Lentinula edodes targets PRDX1 to inhibit RANKL-induced osteoclast differentiation and rescues the osteoporotic phenotype [Denatonium] 6 samples shares prdx1, rankl-induced, osteoporotic, osteoclast, lentinula, phenotype, molecule, derived
- GSE267039 PRDX1-TLR4-p65 axis inhibits RANKL-mediated osteoclast differentiation 8 samples shares prdx1, osteoclast
- GSE252129 Age-related Increase of CD38 Directs Osteoclastogenic Potential of Monocytic Myeloid-Derived Suppressor Cells through Mitochondrial Dysfunction 12 samples shares osteoclast, derived
- GSE299905 Mandibular and Femur-Derived Ligated preosteoclasts from LSD1WT and cKO mice 12 samples shares osteoclast, derived
- GSE311708 Uridine Modulates Gene Expression Programs During RANKL-Induced Osteoclastogenesis in RAW264.7 Cells 9 samples shares rankl-induced, osteoclast
- GSE272401 Effect of vitamin D and K on osteoclast differentiation of bone marrow derived macrophages induced by RANKL 9 samples shares osteoclast, derived
- GSE220262 Transcriptomic effects of culturing leukaemia cells in osteoclast-derived conditioned media 8 samples shares osteoclast, derived
Metadata from NCBI GEO, cached and refreshed periodically — the NCBI page above is authoritative. Downloads link straight to NCBI/ENA; nothing is proxied through BioTransfer.