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References from Gene regulatory network structure informs the distribution of perturbation effects. Local targets link to admitted publications; unresolved targets remain external evidence.
Single-cell RNA sequencing to explore immune cell heterogeneity
10.1038/nri.2017.76 · 2018 · External reference
RNA velocity of single cells
10.1038/s41586-018-0414-6 · 2018 · External reference
Generalizing RNA velocity to transient cell states through dynamical modeling
10.1038/s41587-020-0591-3 · 2020 · External reference
Perturb-Seq: Dissecting Molecular Circuits with Scalable Single-Cell RNA Profiling of Pooled Genetic Screens
10.1016/j.cell.2016.11.038 · 2016 · External reference
Combinatorial single-cell CRISPR screens by direct guide RNA capture and targeted sequencing
10.1038/s41587-020-0470-y · 2020 · External reference
Systematic discovery and perturbation of regulatory genes in human T cells reveals the architecture of immune networks
10.1038/s41588-022-01106-y · 2022 · External reference
10.1101/2023.09.17.557749
10.1101/2023.09.17.557749 · External reference
Convergence of coronary artery disease genes onto endothelial cell programs
10.1038/s41586-024-07022-x · 2024 · External reference
Mapping information-rich genotype-phenotype landscapes with genome-scale Perturb-seq
10.1016/j.cell.2022.05.013 · 2022 · External reference
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10.1145/332306.332355
10.1145/332306.332355 · External reference
10.1007/978-3-540-85066-3_3
10.1007/978-3-540-85066-3_3 · External reference
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Scalable genetic screening for regulatory circuits using compressed Perturb-seq
10.1038/s41587-023-01964-9 · 2023 · External reference
Network Motifs: Simple Building Blocks of Complex Networks
10.1126/science.298.5594.824 · 2002 · External reference
Network motifs in the transcriptional regulation network of Escherichia coli
10.1038/ng881 · 2002 · External reference
The impossibility of low-rank representations for triangle-rich complex networks
10.1073/pnas.1911030117 · 2020 · External reference
Uncovering a Hidden Distributed Architecture Behind Scale-free Transcriptional Regulatory Networks
10.1016/j.jmb.2006.04.026 · 2006 · External reference
Architecture of the human regulatory network derived from ENCODE data
10.1038/nature11245 · 2012 · External reference
Differential gene regulatory networks in development and disease
10.1007/s00018-017-2679-6 · 2018 · External reference
WGCNA: an R package for weighted correlation network analysis
10.1186/1471-2105-9-559 · 2008 · External reference
Wisdom of crowds for robust gene network inference
10.1038/nmeth.2016 · 2012 · External reference
Benchmarking algorithms for gene regulatory network inference from single-cell transcriptomic data
10.1038/s41592-019-0690-6 · 2020 · External reference
Revealing strengths and weaknesses of methods for gene network inference
10.1073/pnas.0913357107 · 2010 · External reference
Network topology and parameter estimation: from experimental design methods to gene regulatory network kinetics using a community based approach
10.1186/1752-0509-8-13 · 2014 · External reference
Stochastic blockmodels: First steps
10.1016/0378-8733(83)90021-7 · 1983 · External reference
Stochastic block models: A comparison of variants and inference methods
10.1371/journal.pone.0215296 · 2019 · External reference
Emergence of Scaling in Random Networks
10.1126/science.286.5439.509 · 1999 · External reference
Growing scale-free networks with tunable clustering
10.1103/physreve.65.026107 · 2002 · External reference
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Collective dynamics of ‘small-world’ networks
10.1038/30918 · 1998 · External reference
Scale-Free Networks Are Ultrasmall
10.1103/physrevlett.90.058701 · 2003 · External reference
SERGIO: A Single-Cell Expression Simulator Guided by Gene Regulatory Networks
10.1016/j.cels.2020.08.003 · 2020 · External reference
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Identifying gene expression programs of cell-type identity and cellular activity with single-cell RNA-Seq
10.7554/elife.43803 · 2019 · External reference
The Human Cell Atlas
10.7554/elife.27041 · 2017 · External reference
The Tabula Sapiens: A multiple-organ, single-cell transcriptomic atlas of humans
2022 · External reference
10.1101/2021.04.05.438318
10.1101/2021.04.05.438318 · External reference
10.1201/9780429399640
10.1201/9780429399640 · External reference
SciPy 1.0: fundamental algorithms for scientific computing in Python
10.1038/s41592-019-0686-2 · 2020 · External reference
The STRING database in 2021 : customizable protein-protein networks, and functional characterization of user-uploaded gene/measurement sets
10.1093/nar/gkab835 · 2021 · External reference
CORUM: the comprehensive resource of mammalian protein complexes-2019
10.1093/nar/gky973 · 2019 · External reference
The Encyclopedia of DNA elements (ENCODE): data portal update
10.1093/nar/gkx1081 · 2018 · External reference
ChIP-Atlas 2021 update: a data-mining suite for exploring epigenomic landscapes by fully integrating ChIP-seq, ATAC-seq and Bisulfite-seq data
2022 · External reference
Scikit-learn: Machine learning in Python
2011 · External reference
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