Anusri Pampari

2 months ago | cell.com | Gabriella E Martyn |Michael Montgomery |Hank Jones |Katherine Guo |Benjamin Doughty |Johannes Linder | +14 more

1Department of Genetics, Stanford University School of Medicine, Stanford, CA 94305, USA 2Basic Science and Engineering Initiative, Stanford Children’s Health, Betty Irene Moore Children’s Heart Center, Stanford, CA 94305, USA 3Calico Life Sciences LLC, South San Francisco, CA 94080, USA 4Department of Genitourinary Medical Oncology, Division of Cancer Medicine, The University of Texas MD Anderson Cancer Center, Houston, TX 77030, USA 5Department of Genomic Medicine, The University of Texas...

May 29, 2024 | biorxiv.org | Sahin Naqvi |Seungsoo Kim |Saman Tabatabaee |Anusri Pampari

AbstractDeep learning approaches have made significant advances in predicting cell type-specific chromatin patterns from the identity and arrangement of transcription factor (TF) binding motifs. However, most models have been applied in unperturbed contexts, precluding a predictive understanding of how chromatin state responds to TF perturbation.

Oct 21, 2023 | biorxiv.org | Surag Nair |Mohamed Ameen |Laksshman Sundaram |Anusri Pampari

AbstractEctopic expression of OCT4, SOX2, KLF4 and MYC (OSKM) transforms differentiated cells into induced pluripotent stem cells. To refine our mechanistic understanding of reprogramming, especially during the early stages, we profiled chromatin accessibility and gene expression at single-cell resolution across a densely sampled time course of human fibroblast reprogramming.

Oct 4, 2023 | biorxiv.org | Surag Nair |Mohamed Ameen |Laksshman Sundaram |Anusri Pampari

AbstractEctopic expression of OCT4, SOX2, KLF4 and MYC (OSKM) transforms differentiated cells into induced pluripotent stem cells. To refine our mechanistic understanding of reprogramming, especially during the early stages, we profiled chromatin accessibility and gene expression at single-cell resolution across a finely sampled time course of human fibroblast reprogramming.