Research Summary
Computational and experimental methods for genomics. Currently focused on the development of single cell sequencing based technologies and their application to RNA biology.
Profile
The Pachter Lab develops computational and experimental methods for genomics. We are currently focused on the development of single cell sequencing based technologies and their application to RNA biology. The computational challenges we are addressing involve the analysis of high-dimensional data. Theorems are sometimes proven, experiments are occasionally successful, and usable software is distributed on GitHub. Our group includes students and postdocs with backgrounds in biochemistry, computer science, genetics, mathematics, molecular biology, physics and statistics
Publications
- Sullivan, Delaney K.;Pachter, Lior (2024) Flexible parsing, interpretation, and editing of technical sequences with splitcodeBioinformatics
- Dorff, Tanya B.;Blanchard, M. Suzette et al. (2024) PSCA-CAR T cell therapy in metastatic castration-resistant prostate cancer: a phase 1 trialNature Medicine
- Sierra, Noemie;Olsman, Noah et al. (2024) A novel approach to comparative RNA-Seq does not support a conserved set of orthologs underlying animal regenerationGenome Biology and Evolution
- Rich, Joseph M.;Moses, Lambda et al. (2024) The impact of package selection and versioning on single-cell RNA-seq analysis
- Booeshaghi, Ali Sina;Chen, Xi et al. (2024) A machine-readable specification for genomics assaysBioinformatics
- Booeshaghi, A. Sina;Galvez-Merchán, Ángel et al. (2024) Algorithms for a Commons Cell Atlas
- Galvez-Merchán, Ángel;Booeshaghi, A. Sina et al. (2024) A human commons cell atlas reveals cell type specificity for OAS1 isoforms
- Luebbert, Laura;Hoang, Chi et al. (2024) Fast and scalable querying of eukaryotic linear motifs with gget elmBioinformatics
- Gorin, Gennady;Pachter, Lior (2024) New and notable: Revisiting the "two cultures" through extrinsic noiseBiophysical Journal
- Booeshaghi, A. Sina;Min, Kyung Hoi (Joseph) et al. (2024) Quantifying orthogonal barcodes for sequence census assaysBioinformatics Advances