Transcriptomic profile of Lin negative, LEPR positive cells of murine peri-implant fibrous tissue and peri-implant bone
RNA-seq (gene expression) · mouse · 13 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
- 13 samples: 13 samples, each with a distinct title — no replicated groupsGroups 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.
- Paper
- Prevention and treatment of peri-implant fibrosis by functionally inhibiting skeletal cells expressing the leptin receptorNature biomedical engineering · 2024
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 GSE227869_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 PRJNA947205 and SRA study SRP428476. Searching any of these in the dataset finder brings you back here.
Any grouping that defines a comparison lives in the sample characteristics, which GEO records separately from the titles.
How we read this: Read from 13 sample titles: 13 distinct titles with little repetition. 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.
- GSM7109961 LepR+ Pressfit Bone [Sample_2.plus_L002]
- GSM7109962 LepR+ PMMA Fibrotic [Sample_D._L002]
- GSM7109963 LepR+ Pressfit Bone [Sample_LepR.plus.4_L002]
- GSM7109964 LepR+ PMMA Fibrotic [Sample_LepR.plus.A_L002]
- GSM7109965 LepR+ PMMA Fibrotic [Sample_LepR.plus.B_L002]
- GSM7109966 LepR+ PMMA Fibrotic [Sample_LepR.plus.C_L002]
- GSM7109967 LepR+ Pressfit Bone [Sample_Lin.3_L002]
- GSM7109968 LepR+ Pressfit Bone [Sample_Lin.4_L002]
- GSM7109969 LepR+ PMMA Fibrotic [Sample_Lin.A_L002]
- GSM7109970 LepR+ PMMA Fibrotic [Sample_XY.9274_PMMA.Lepr.Pos.4]
- GSM7109971 LepR+ PMMA Fibrotic [Sample_XY.9274_PMMA.Lepr.Pos.5]
- GSM7109972 LepR+ Pressfit Bone [Sample_XY.9274_Press.Fit.Lepr.Pos.1]
- GSM7109973 LepR+ Pressfit Bone [Sample_XY.9274_Press.Fit.Lepr.Pos.2]
- GSE313854 Transcriptomic profile of Lin negative LEPR positive cells of murine peri-implant fibrous tissue in Grem1 conditional knockout 9 samples shares lepr, peri-implant, negative, positive, fibrous
- GSE261501 Next Generation Sequencing Facilitates Quantitative Analysis of db/m and db/db bone marrow derived LSK (Lineage negative Sca1-ckit positive cells) Transcriptomes I 8 samples shares negative, positive, bone
- GSE264105 Plate-based scRNA-seq of plasma-positive microglia and plasma-negative microglia in young mice 1111 samples shares negative, positive
- GSE215369 Gene expression profiles of cKit positive bone marrow cells from six genotype mice - WT, Idh1R132, Npm1c, Flt3ITD, Idh1R132+Npm1c, and Idh1R132+Flt3ITD 54 samples shares positive, bone
- GSE66345 A Circult Mechanism for Differentiating Positive and Negative Associations 17 samples shares negative, positive
- GSE255409 Single-cell RNA sequencing of CD45 positive cells in spleen, bone marrow, colon and periphral blood from WT and Wnt5 DKO mice under DSS treatment 10 samples shares positive, bone
- GSE271340 Single-cell sequencing of CD45-positive and CD45 negative cells from the lungs of WT, Trex1 KO, Trex1;Ifngr1 DKO, and cGas-KI/+;Vav-icre mice 4 samples shares negative, positive
- GSE215368 DNA methylation profiles of cKit positive bone marrow cells from six genotype mice - WT, Idh1R132, Npm1c, Flt3ITD, Idh1R132+Npm1c, and Idh1R132+Flt3ITD 52 samples shares positive, bone
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.