Group Meetings
Wednesdays at 10:00am, the 6th floor conference room Zoom link: https://nih.zoomgov.com/j/1604809536
| Presentation date | Progress Report | Journal Club | |
|---|---|---|---|
| 2023 | |||
| April | |||
| 4/24 | no meeting, @NIAMS BoSC review | - | |
| May | |||
| 5/1 | Gaetano | - | |
| 5/8 | - | - | |
| 5/15 | conference | - | |
| 5/22 | - | - | |
| 5/29 | - | - |
SHAP: https://shap.readthedocs.io/en/latest/
Papers to present:
DegCre, https://www.biorxiv.org/content/10.1101/2023.10.04.560923v1
An encyclopedia of enhancer-gene regulatory interactions in the human genome, https://pubmed.ncbi.nlm.nih.gov/38014075/
Mapping the functional impact of non-coding regulatory elements in primary T cells through single-cell CRISPR screens, https://pubmed.ncbi.nlm.nih.gov/38308274/
Hold out the genome: a roadmap to solving the cis-regulatory code, https://pubmed.ncbi.nlm.nih.gov/38093018/
DeepSHAP (https://arxiv.org/pdf/1705.07874.pdf, https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9349278/pdf/41467_2022_Article_31384.pdf)
TAP-Seq (https://pubmed.ncbi.nlm.nih.gov/32483332/)
CRISPRi TF knockouts (https://academic.oup.com/nar/article/48/D1/D93/5584524, "More than 200 gene expression profiles for TF knockdown or knockout are provided by ENCODE, involving 145 human TFs from four cell lines (14)")
Borzoi (https://www.biorxiv.org/content/10.1101/2023.08.30.555582v1.full.pdf)
Project discussions (Monday meetings)
- Monday, 9:30 am - Di
- Monday, 10:00 am - Jaya
- Monday, 10:30 am - Gaetano
Mehari and Wei - as needed