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Software
released
Peak alignment — source
Software for aligning peaks across multiple input files to generate a unified, non-overlapping peak set, with quality control and filtering based on cross-file peak reproducibility.
Software type: aligner
Pipeline
DPL857456
active
Peak Alignment Pipeline
Assays: ATAC-seq
Software: Peak alignment
Publication
released
Single nuclei profiling identifies cell specific markers of skeletal muscle aging, frailty, and senescence
Kevin Perez, Serban Ciotlos, Julia McGirr, et al.
Aging. 2022-12-13;14(23):9393-9422.
Publication
released
A limited set of transcriptional programs define major cell types
Alessandra Breschi, Manuel Muñoz-Aguirre, Valentin Wucher, et al.
Genome Res. 2020-07-29;30(7):1047-1059.
Publication
released
Epigenome-based Splicing Prediction using a Recurrent Neural Network
Donghoon Lee, Jing Zhang, Jason Liu, et al.
PLoS Comput Biol. 2020-06-25;16(6):e1008006.
Publication
released
GWAS-informed data integration and non-coding CRISPRi screen illuminate genetic etiology of bone mineral density
Mitchell Conery, James A. Pippin, Yadav Wagley, et al.
Genome Biology. 2025-10-03;26(1):331.
Publication
released
Identification of target genes and regulatory networks for bone mineral density GWAS loci through systematic targeting and inhibition
Mohammadjavad Kahlani, Larry Mesner, Vedavathi Madhu, et al.
bioRxiv. 2026-02-16;(Preprint)
FileSet
DSR629511
released
Annotation file set: Accessible chromatin sites for Thyroid thyroid follicular (TPO, TG, TSHR+)
Lab: AMP-T2D consortium
Project: AMP
FileSet
DSR756804
released
Annotation file set: Accessible chromatin sites for Thyroid thyroid follicular (TPO, TG, TSHR+)
Lab: AMP-T2D consortium
Project: AMP
FileSet
DSR472640
released
Annotation file set: Accessible chromatin sites for Thyroid skeletal muscle (MYO18B, MYOM1, SOX6)
Lab: AMP-T2D consortium
Project: AMP
FileSet
DSR748262
released
Annotation file set: Accessible chromatin sites for Thyroid fibroblast (COL1A1, COL1A2 positive but not contractile)
Lab: AMP-T2D consortium
Project: AMP
FileSet
DSR896004
released
Annotation file set: Accessible chromatin sites for Thyroid stromal (unclear markers but still has NKAIN3, P3H2 expression)
Lab: AMP-T2D consortium
Project: AMP
FileSet
DSR294681
released
Annotation file set: Accessible chromatin sites for Thyroid thyroid follicular (TPO, TG, TSHR+)
Lab: AMP-T2D consortium
Project: AMP
FileSet
DSR353309
released
Annotation file set: Accessible chromatin sites for Thyroid thyroid follicular (TPO, TG, TSHR+)
Lab: AMP-T2D consortium
Project: AMP
FileSet
DSR527911
released
Annotation file set: Accessible chromatin sites for Thyroid thyroid follicular (TPO, TG, TSHR+)
Lab: AMP-T2D consortium
Project: AMP
FileSet
DSR829752
released
Annotation file set: Accessible chromatin sites for Thymus medullary TEC (myoid) (PAX7+; high expression of TEC(myo) signature)
Lab: AMP-T2D consortium
Project: AMP
FileSet
DSR118746
released
Annotation file set: Accessible chromatin sites for Thymus medullary TEC (myoid) (PAX7+; high expression of TEC(myo) signature)
Lab: AMP-T2D consortium
Project: AMP
FileSet
DSR818942
released
Annotation file set: Accessible chromatin sites for Thymus endothelial cells (PECAM1+/MECOM+)
Lab: AMP-T2D consortium
Project: AMP
FileSet
DSR014629
released
Annotation file set: Accessible chromatin sites for Thymus cortical TEC (CDH1+; ADARB2+; SLIT-ROBO signaling; very minor AIRE+ pre-decontX; high expression of Park et al cTEC/mcTEC genes)
Lab: AMP-T2D consortium
Project: AMP
FileSet
DSR879106
released
Annotation file set: Accessible chromatin sites for Thymus fibroblasts (COL1A2/COl3A1/DCN+)
Lab: AMP-T2D consortium
Project: AMP
FileSet
DSR191253
released
Annotation file set: Accessible chromatin sites for Thymus medullary TEC (myoid Type IIa) (MYH2+)
Lab: AMP-T2D consortium
Project: AMP
FileSet
DSR054201
released
Annotation file set: Accessible chromatin sites for Thymus medullary TEC (myoid Type IIa) (MYOG/MYPN/MYOT/MYH2+ (similar to TEC(myo) in Park et al); clusters with 14)
Lab: AMP-T2D consortium
Project: AMP
FileSet
DSR571981
released
Annotation file set: Accessible chromatin sites for Thymus CD8+ CD4+ thymocytes (PTPRC+; cycling (G2/M and S-assigned); clusters with 0/1; low CD8+)
Lab: AMP-T2D consortium
Project: AMP
FileSet
DSR632061
released
Annotation file set: Accessible chromatin sites for Thymus fibroblasts (FN1+/FLRT2+)
Lab: AMP-T2D consortium
Project: AMP
FileSet
DSR917464
released
Annotation file set: Accessible chromatin sites for Thymus B cells (PAX5+; high expression of Park et al B cell genes)
Lab: AMP-T2D consortium
Project: AMP

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Showing 25 of 48607 results