| Modular, efficient and constant-memory single-cell RNA-seq preprocessing P Melsted*, AS Booeshaghi*, L Liu, F Gao, L Lu, KHJ Min, ... Nature biotechnology, 1-6, *co-first author, 2021 | 366* | 2021 |
| A multimodal cell census and atlas of the mammalian primary motor cortex Principal manuscript editors, Analysis coordination, ... Nature 598 (7879), 86-102, 2021 | 312 | 2021 |
| A transcriptomic and epigenomic cell atlas of the mouse primary motor cortex Z Yao, H Liu, F Xie, S Fischer, RS Adkins, AI Aldridge, SA Ament, ... Nature 598 (7879), 103-110, 2021 | 259* | 2021 |
| Massively scaled-up testing for SARS-CoV-2 RNA via next-generation sequencing of pooled and barcoded nasal and saliva samples JS Bloom, L Sathe, C Munugala, EM Jones, M Gasperini, NB Lubock, ... Nature Biomedical Engineering 5 (7), 657-665, 2021 | 108* | 2021 |
| Isoform cell-type specificity in the mouse primary motor cortex AS Booeshaghi, Z Yao, C van Velthoven, K Smith, B Tasic, H Zeng, ... Nature 598 (7879), 195-199, 2021 | 69 | 2021 |
| Principles of open source bioinstrumentation applied to the poseidon syringe pump system AS Booeshaghi, EV Beltrame, D Bannon, J Gehring, L Pachter Scientific reports 9 (1), 12385, 2019 | 65* | 2019 |
| Thermo-electrochemical generator: energy harvesting & thermoregulation for liquid cooling applications AH Kazim, AS Booeshaghi, ST Stephens, BA Cola Sustainable Energy & Fuels 1 (6), 1381-1389, 2017 | 45 | 2017 |
| Normalization of single-cell RNA-seq counts by log(x + 1) or log(1 + x) AS Booeshaghi, L Pachter Bioinformatics 37 (15), 2223-2224, 2021 | 36 | 2021 |
| Depth normalization for single-cell genomics count data AS Booeshaghi, IB Hallgrímsdóttir, Á Gálvez-Merchán, L Pachter BioRxiv, 2022.05. 06.490859, 2022 | 25 | 2022 |
| Metadata retrieval from sequence databases with ffq Á Gálvez-Merchán, KH Min, L Pachter, AS Booeshaghi Bioinformatics 39 (1), btac667, 2023 | 22 | 2023 |
| Markedly heterogeneous COVID-19 testing plans among US colleges and universities AS Booeshaghi*, FH Tan*, B Renton, Z Berger, L Pachter medRxiv, *co-first author, 2020 | 22 | 2020 |
| Reliable and accurate diagnostics from highly multiplexed sequencing assays AS Booeshaghi, NB Lubock, AR Cooper, SW Simpkins, JS Bloom, ... Scientific Reports 10 (1), 21759, 2020 | 17* | 2020 |
| Decrease in ACE2 mRNA expression in aged mouse lung AS Booeshaghi, L Pachter biorxiv, 2020.04. 02.021451, 2020 | 17 | 2020 |
| Low-cost, scalable, and automated fluid sampling for fluidics applications AS Booeshaghi*, YA Kil*, KHJ Min, J Gehring, L Pachter HardwareX, e00201, *co-first author, 2021 | 10 | 2021 |
| A machine-readable specification for genomics assays AS Booeshaghi, X Chen, L Pachter Bioinformatics 40 (4), btae168, 2024 | 9 | 2024 |
| Quantifying orthogonal barcodes for sequence census assays AS Booeshaghi, KH Min, J Gehring, L Pachter Bioinformatics Advances 4 (1), vbad181, 2024 | 8 | 2024 |
| Voyager: exploratory single-cell genomics data analysis with geospatial statistics L Moses, PH Einarsson, K Jackson, L Luebbert, AS Booeshaghi, ... bioRxiv, 2023 | 8 | 2023 |
| Assessing the multimodal tradeoff AS Booeshaghi, F Gao, L Pachter BioRxiv, 2021.12. 08.471788, 2021 | 7* | 2021 |
| kallisto, bustools, and kb-python for quantifying bulk, single-cell, and single-nucleus RNA-seq DK Sullivan, KHJ Min, KE Hjörleifsson, L Luebbert, G Holley, L Moses, ... BioRxiv, 2023 | 6 | 2023 |
| Benchmarking of lightweight-mapping based single-cell RNA-seq pre-processing AS Booeshaghi, L Pachter bioRxiv, 2021.01. 25.428188, 2021 | 5 | 2021 |
