Data Integration

ADTnorm

A robust normalization and integration method for CITE-seq protein data analysis

Ye Zheng . (2024)

Dec 29, 2024

scVI-3D

Deep generative modeling framework for normalization and de-noising of single-cell Hi-C data

Ye Zheng, Siqi Shen . (2024)

May 26, 2024

scGAD

R package for extracting three-dimensional chromatin interactions at the gene level and integrating single-cell 3D genomics with other modalities

Jan 15, 2024

scGAD: single-cell gene associating domain scores for exploratory analysis of scHi-C data

Quantitative tools are needed to leverage the unprecedented resolution of single-cell high-throughput chromatin conformation (scHi-C) …

Shen S, Zheng Y , Keles S

Perspectives on ENCODE

The ENCODE Project Consortium, Snyder MP, Gingeras TR, Moore JE, Weng Z, Gerstein MB, Ren B, Hardison RC, Stamatoyannopoulos JA, Graveley BR, Feingold EA, Pazin MJ