Publications Archive - Parse Biosciences

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Mouse Lung

Common human genetic variants of APOE impact murine COVID-19 mortality

Benjamin N. Ostendorf, Mira A. Patel, Jana Bilanovic, H.-Heinrich Hoffmann, Sebastian E. Carrasco, Charles M. Rice, and Sohail. F. Tavazoie

Lung tissue from knock-in mice expressing common variants of human APOE (APOE2, APOE3 and APO4) showed differences in gene expression that causally impacted the outcome of COVID-19 infection. APOE2 and APOE4 knock-in mice had increased disease progression and mortality relative to APOE3 knock-in mice. Human data from the UK Biobank supports the finding that genetic variation in APOE partially explains the variation in severity of COVID-19 disease outcomes.

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Ovarian PDX

A Risk-reward Examination of Sample Multiplexing Reagents for Single Cell RNA-Seq

Daniel V. Brown, Casey J.A. Anttila, Ling Ling, Patrick Grave, Tracey M. Baldwin, Ryan Munnings, Anthony J. Farchione, Vanessa L. Bryant, Amelia Dunstone, Christine Biben, Samir Taoudi, Tom S. Weber, Shalin H. Naik, Anthony Hadla, Holly E. Barker, Cassandra J. Vandenberg, Genevieve Dall, Clare L. Scott, Zachery Moore, James R. Whittle, Saskia Freytag, Sarah A. Best, Anthony T. Papenfuss, Sam W.Z. Olechnowicz, Sarah E. MacRaild, Stephen Wilcox, Peter F. Hickey, Daniela Amann-Zalcenstein, Rory Bowden

The authors compared various scRNA-Seq reagents. Parse WT v2 and 10x Flex were tested on fixed tumor nuclei. 10x Flex failed due to clogging. Parse data had more reads, genes, and fewer doublets than 10x fresh nuclei data. 10X data had high mitochondrial and ribosomal transcripts, but gene expression was concordant with Parse data. Parse WT v2 captured more biological variation and outperformed other assays.

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Publications

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Mouse Eye

Conditional deletion of miR-204 and miR-211 in murine retinal pigment epithelium results in retinal degeneration

Samuel W. Du, Ravikiran Komirisetty, Dominik Lewandowski, Elliot H. Choi, Damian Panas, Susie Suh, Marcin Tabaka, Roxana A. Radu, Krzysztof Palczewski

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Human Liver
+1

Characterization of Pro-Fibrotic Signaling Pathways using Human Hepatic Organoids

Yuan Guan, Zhuoqing Fang, Angelina Hu, Sarah Roberts, Meiyue Wang, Wenlong Ren, Patrik K. Johansson, Sarah C. Heilshorn, Annika Enejder, Gary Peltz

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Nuclei

Systematic reconstruction of molecular pathway signatures using scalable single-cell perturbation screens

Longda Jiang, Carol Dalgarno, Efthymia Papalexi, sabella Mascio, Hans-Hermann Wessels, Huiyoung Yun, Nika Iremadze, Gila Lithwick-Yanai, Doron Lipson, Rahul Satija

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WT Mega
Mouse Brain

Single nuclei transcriptomics in diabetic mice reveals altered brain hippocampal endothelial cell function, permeability, and behavior

Saivageethi Nuthikattu, Dragan Milenkovic, Jennifer E. Norman, Amparo C. Villablanca

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Whole Transcriptome

Immune Profiling

Additional Capabilities

Publications and Posters

Common human genetic variants of APOE impact murine COVID-19 mortality

A Risk-reward Examination of Sample Multiplexing Reagents for Single Cell RNA-Seq

Publications

Conditional deletion of miR-204 and miR-211 in murine retinal pigment epithelium results in retinal degeneration

Characterization of Pro-Fibrotic Signaling Pathways using Human Hepatic Organoids

Systematic reconstruction of molecular pathway signatures using scalable single-cell perturbation screens

Single nuclei transcriptomics in diabetic mice reveals altered brain hippocampal endothelial cell function, permeability, and behavior

Posters

Automation of the Parse Biosciences Evercode Workflow with the INTEGRA Assist Plus Liquid Handler

Automated Single-Cell Sequencing Using Evercode Split-Pool Combinatorial Barcoding on a Hamilton Vantage Liquid Handler

Targeted Transcriptome Sequencing Enables Exponential Scaling of Combinatorial Barcoding

Evercode Whole Transcriptome Single-Cell RNA-Seq with Focal Barcoding Enables Single-Cell Transcriptomes Coupled with Gene or Vector-Enriched Readouts

Improving Sensitivity of Combinatorial Barcoding-based Single Cell Sequencing

Scalable & Sensitive Single Cell RNA-seq with Combinatorial Barcoding

Single Cell Sequencing Using the Parse Biosciences Evercode™ WT Kit on the G4™ Platform

Fast and gentle multiparametric cell sorting upstream of transcriptomics via split-pool combinatorial barcoding

Isolation of neural cell subsets using a fast and gentle microfluidic cell sorter results in highly viable cells that can be used for downstream culture, imaging, and transcriptomics