A
Arjun Raj
Researcher at University of Pennsylvania
Publications - 142
Citations - 21547
Arjun Raj is an academic researcher from University of Pennsylvania. The author has contributed to research in topics: RNA & Gene. The author has an hindex of 50, co-authored 131 publications receiving 18166 citations. Previous affiliations of Arjun Raj include Rutgers University & University of California, San Diego.
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A Comparison Between Single Cell RNA Sequencing And Single Molecule RNA FISH For Rare Cell Analysis
Eduardo A. Torre,Hannah Dueck,Sydney M. Shaffer,Janko Gospocic,Rohit Gupte,Roberto Bonasio,Junhyong Kim,John I. Murray,Arjun Raj +8 more
TL;DR: The Gini coefficient is quantified, a measure of rare-cell expression variability, and it is found that the correspondence between RNA FISH and single cell RNA sequencing for Gini, unlike for mean, increases markedly with per-cell library complexity up to a threshold of ∼2000 genes detected.
Journal ArticleDOI
Overlapping cell population expression profiling and regulatory inference in C. elegans
TL;DR: This work uses RNA-seq to define the transcriptome of diverse partially overlapping FACS-sorted cell populations and identifies thousands of transcripts differentially expressed across embryonic cells, providing new insight into embryonic gene regulation.
Posted ContentDOI
Transcriptional bursting explains the noise-versus-mean relationship in mRNA and protein levels
Roy D. Dar,Sydney M. Shaffer,Siddarth S. Dey,Jonathan E. Foley,Abhyudai Singh,Brandon S. Razooky,Adam P. Arkin,David V. Schafer,Michael L. Simpson,Arjun Raj,Leor S. Weinberger +10 more
TL;DR: It is found that noise in mRNA and protein expression scales inversely with the mean along analytically predicted transcriptional burst-size manifolds, supporting the canonical inverse correlation between noise and mean.
Journal ArticleDOI
clampFISH 2.0 enables rapid, scalable amplified RNA detection in situ
Ian Dardani,Benjamin L. Emert,Yogesh Goyal,Connie L. Jiang,Amanpreet Kaur,Jasmine Lee,Sara H. Rouhanifard,Gretchen M. Alicea,Mitchell Fane,Min Xiao,Meenhard Herlyn,Ashani T. Weeraratna,Arjun Raj +12 more
TL;DR: ClampFISH 2.0 as discussed by the authors uses an inverted padlock design to efficiently detect many RNA species and exponentially amplify their signals at once, while also reducing the time and cost compared with the prior clampFISH method.
Posted ContentDOI
Gene Expression Distribution Deconvolution in Single Cell RNA Sequencing
Jingshu Wang,Mo Huang,Eduardo A. Torre,Hannah Dueck,Sydney M. Shaffer,John I. Murray,Arjun Raj,Mingyao Li,Nan Zhang +8 more
TL;DR: DESCEND is developed, a method that deconvolves the true cross-cell gene expression distribution from observed scRNA-seq counts, leading to improved estimates of properties of the distribution such as dispersion and burstiness.