Splicing
Datasets
All datasets matching “Splicing”image-splicing-deepfake-mix-newalternative-splicing-glm-tang
GLM-Tang Task 4: Tissue-specific Alternative Splicing
This dataset contains the cassette-exon prediction task used in Task 4 of
Tang et al. Given sequence around the splice acceptor and donor, predict
tissue-specific exon inclusion across 56 tissues.
Loading
from datasets import load_dataset
dataset = load_dataset("Taykhoom/alternative-splicing-glm-tang")
train = dataset["train"]
validation = dataset["validation"]
test = dataset["test"]
Dataset size… See the full description on the dataset page: https://huggingface.co/datasets/Taykhoom/alternative-splicing-glm-tang.lsec-fcn2-splicing-viz-valerie-plot-v1
lsec-fcn2-splicing-viz-valerie-plot-v1
VALERIE v2.1.2 PlotPSI output for the FCN2 SE event across all 17 samples / 4 groups (1666 split LSEC cells). method=kw (Kruskal-Wallis; wilcox/t.test crash on >2 factor levels in v2.1.2). Per-group split cells with >=2 region reads (coverage proxy): F0=257,F2-3=470,F4=62,Healthy=726.
Dataset Info
Rows: 2
Columns: 6
Columns
Column
Type
Description
image
Image(mode=None, decode=True)
PNG plot from… See the full description on the dataset page: https://huggingface.co/datasets/depinwang/lsec-fcn2-splicing-viz-valerie-plot-v1.lsec-fcn2-splicing-viz-percell-counts-v1
lsec-fcn2-splicing-viz-percell-counts-v1
Per-cell read-level junction counts for the FCN2 SE event, from lsec_bams_dedup (UMI-dedup) split by CB in cell_barcode.tsv.gz. E/I = read counts of the exclusion / inclusion junctions; I = max(inclA, inclB); PSI = I/(I+E). Read-level, NOT UMI-collapsed. Complete 17-sample set from the scale-up re-split (3 canary + 14 added samples), the same rows the full 4-group bampheno consumed.
Dataset Info
Rows: 989
Columns: 8… See the full description on the dataset page: https://huggingface.co/datasets/depinwang/lsec-fcn2-splicing-viz-percell-counts-v1.jinyang-gse138866-splicing-subtypes-results-v1
jinyang-gse138866-splicing-subtypes-results-v1
Canary run (N=110 real GSE138866 samples) for AS-based consensus-clustering molecular
subtype discovery. Outcome: GATE_FAILURE (null result). Only 2/10,019 high-confidence
AS events clear BH-FDR<0.05 (need >=20 to proceed to clustering) -- a pre-specified valid
stopping point ("insufficient power to detect stable AS-based subtypes"), not a pipeline bug.
Downstream clustering/KM/permutation-null artifacts were not produced, per… See the full description on the dataset page: https://huggingface.co/datasets/depinwang/jinyang-gse138866-splicing-subtypes-results-v1.lsec-fcn2-splicing-viz-pseudobulk-psi-v1
lsec-fcn2-splicing-viz-pseudobulk-psi-v1
JAseC-faithful pseudobulk PSI replication for the FCN2 SE event, all 17 samples. E/I computed with JAseC's exact counting rules (bamJuncCount_10x: mapped, N-containing CIGAR, CB+UB tags, NH==1, no secondary/supplementary filter, UMI collapse per (junction,strand,cell), antisense merge at same jc_pos). match column compares E_ref/I_ref from the JAseC reference run: 17/17 exact.
Dataset Info
Rows: 17
Columns: 17… See the full description on the dataset page: https://huggingface.co/datasets/depinwang/lsec-fcn2-splicing-viz-pseudobulk-psi-v1.