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Rxivist combines preprints from bioRxiv with data from Twitter to help you find the papers being discussed in your field. Currently indexing 64,995 bioRxiv papers from 288,045 authors.

Author: Fabian J. Theis

  • Most recently observed institution: Institute of Computational Biology, Helmholtz Center Munich, Germany.

Rankings

  • All-time downloads: 48,254 (rank: 293 out of 288,045)
  • Categories:
    • bioinformatics: 33,886 (rank: 52 out of 25,059)
    • genetics: 858 (rank: 11,207 (tie) out of 28,651)
    • immunology: 3,800 (rank: 168 (tie) out of 13,264)
    • systems biology: 9,710 (rank: 18 out of 8,742)

Downloads per author, site-wide

Preprints

Graph abstraction reconciles clustering with trajectory inference through a topology preserving map of single cells

bioinformatics more details view paper
  • Downloaded 6,068 times
  • Download rankings, all-time:
    • Site-wide: 298 out of 64,995
    • In bioinformatics: 51 out of 6,434
  • Year to date:
    • Site-wide: 319 out of 64,995
  • Since beginning of last month:
    • Site-wide: 1,331 out of 64,995

Single cell RNA-seq denoising using a deep count autoencoder

bioinformatics more details view paper
  • Downloaded 5,418 times
  • Download rankings, all-time:
    • Site-wide: 368 out of 64,995
    • In bioinformatics: 70 out of 6,434
  • Year to date:
    • Site-wide: 1,253 out of 64,995
  • Since beginning of last month:
    • Site-wide: 7,231 out of 64,995

Reconstructing cell cycle and disease progression using deep learning

bioinformatics more details view paper
  • Downloaded 5,381 times
  • Download rankings, all-time:
    • Site-wide: 371 out of 64,995
    • In bioinformatics: 71 out of 6,434
  • Year to date:
    • Site-wide: 1,134 out of 64,995
  • Since beginning of last month:
    • Site-wide: 9,206 out of 64,995

Generative modeling and latent space arithmetics predict single-cell perturbation response across cell types, studies and species

bioinformatics more details view paper
  • Downloaded 4,413 times
  • Download rankings, all-time:
    • Site-wide: 542 out of 64,995
    • In bioinformatics: 107 out of 6,434
  • Year to date:
    • Site-wide: 158 out of 64,995
  • Since beginning of last month:
    • Site-wide: 860 out of 64,995

DeepWAS: Multivariate genotype-phenotype associations by directly integrating regulatory information using deep learning

systems biology more details view paper
  • Downloaded 3,879 times
  • Download rankings, all-time:
    • Site-wide: 697 out of 64,995
    • In systems biology: 12 out of 1,833
  • Year to date:
    • Site-wide: 1,943 out of 64,995
  • Since beginning of last month:
    • Site-wide: 9,703 out of 64,995

Diffusion pseudotime robustly reconstructs lineage branching

bioinformatics more details view paper
  • Downloaded 3,220 times
  • Download rankings, all-time:
    • Site-wide: 976 out of 64,995
    • In bioinformatics: 199 out of 6,434
  • Year to date:
    • Site-wide: 2,547 out of 64,995
  • Since beginning of last month:
    • Site-wide: 3,805 out of 64,995

A cellular census of healthy lung and asthmatic airway wall identifies novel cell states in health and disease

immunology more details view paper
  • Downloaded 2,728 times
  • Download rankings, all-time:
    • Site-wide: 1,340 out of 64,995
    • In immunology: 18 out of 1,644
  • Year to date:
    • Site-wide: 248 out of 64,995
  • Since beginning of last month:
    • Site-wide: 720 out of 64,995

An atlas of the aging lung mapped by single cell transcriptomics and deep tissue proteomics

systems biology more details view paper
  • Downloaded 2,220 times
  • Download rankings, all-time:
    • Site-wide: 1,940 out of 64,995
    • In systems biology: 47 out of 1,833
  • Year to date:
    • Site-wide: 2,623 out of 64,995
  • Since beginning of last month:
    • Site-wide: 9,958 out of 64,995

destiny – diffusion maps for large-scale single-cell data in R

bioinformatics more details view paper
  • Downloaded 2,003 times
  • Download rankings, all-time:
    • Site-wide: 2,331 out of 64,995
    • In bioinformatics: 477 out of 6,434
  • Year to date:
    • Site-wide: 18,483 out of 64,995
  • Since beginning of last month:
    • Site-wide: 22,742 out of 64,995

Generalizing RNA velocity to transient cell states through dynamical modeling

bioinformatics more details view paper
  • Downloaded 1,899 times
  • Download rankings, all-time:
    • Site-wide: 2,547 out of 64,995
    • In bioinformatics: 514 out of 6,434
  • Year to date:
    • Site-wide: 509 out of 64,995
  • Since beginning of last month:
    • Site-wide: 21 out of 64,995

Longitudinal single cell transcriptomics reveals Krt8+ alveolar epithelial progenitors in lung regeneration

systems biology more details view paper
  • Downloaded 1,828 times
  • Download rankings, all-time:
    • Site-wide: 2,713 out of 64,995
    • In systems biology: 65 out of 1,833
  • Year to date:
    • Site-wide: 547 out of 64,995
  • Since beginning of last month:
    • Site-wide: 615 out of 64,995

Scanpy for analysis of large-scale single-cell gene expression data

bioinformatics more details view paper
  • Downloaded 1,781 times
  • Download rankings, all-time:
    • Site-wide: 2,834 out of 64,995
    • In bioinformatics: 576 out of 6,434
  • Year to date:
    • Site-wide: 15,158 out of 64,995
  • Since beginning of last month:
    • Site-wide: 24,185 out of 64,995

Impulse model-based differential expression analysis of time course sequencing data

bioinformatics more details view paper
  • Downloaded 1,342 times
  • Download rankings, all-time:
    • Site-wide: 4,571 out of 64,995
    • In bioinformatics: 894 out of 6,434
  • Year to date:
    • Site-wide: 24,270 out of 64,995
  • Since beginning of last month:
    • Site-wide: 18,201 out of 64,995

Meeting the challenges of high-dimensional data analysis in immunology

immunology more details view paper
  • Downloaded 1,072 times
  • Download rankings, all-time:
    • Site-wide: 6,649 out of 64,995
    • In immunology: 102 out of 1,644
  • Year to date:
    • Site-wide: 3,974 out of 64,995
  • Since beginning of last month:
    • Site-wide: 8,362 out of 64,995

epiScanpy: integrated single-cell epigenomic analysis

bioinformatics more details view paper
  • Downloaded 943 times
  • Download rankings, all-time:
    • Site-wide: 8,140 out of 64,995
    • In bioinformatics: 1,427 out of 6,434
  • Year to date:
    • Site-wide: 1,873 out of 64,995
  • Since beginning of last month:
    • Site-wide: 2,466 out of 64,995

Characterization of missing values in untargeted MS-based metabolomics data and evaluation of missing data handling strategies

systems biology more details view paper
  • Downloaded 824 times
  • Download rankings, all-time:
    • Site-wide: 10,049 out of 64,995
    • In systems biology: 281 out of 1,833
  • Year to date:
    • Site-wide: 17,644 out of 64,995
  • Since beginning of last month:
    • Site-wide: 16,040 out of 64,995

Model-based branching point detection in single-cell data by K-Branches clustering

bioinformatics more details view paper
  • Downloaded 607 times
  • Download rankings, all-time:
    • Site-wide: 15,605 out of 64,995
    • In bioinformatics: 2,444 out of 6,434
  • Year to date:
    • Site-wide: 56,826 out of 64,995
  • Since beginning of last month:
    • Site-wide: 59,026 out of 64,995

Network-based metabolite ratios for an improved functional characterization of genome-wide association study results

genetics more details view paper
  • Downloaded 498 times
  • Download rankings, all-time:
    • Site-wide: 20,247 out of 64,995
    • In genetics: 1,360 out of 3,686
  • Year to date:
    • Site-wide: 50,655 out of 64,995
  • Since beginning of last month:
    • Site-wide: 39,152 out of 64,995

MPRAnalyze - A statistical framework for Massively Parallel Reporter Assays

bioinformatics more details view paper
  • Downloaded 431 times
  • Download rankings, all-time:
    • Site-wide: 24,031 out of 64,995
    • In bioinformatics: 3,369 out of 6,434
  • Year to date:
    • Site-wide: 7,246 out of 64,995
  • Since beginning of last month:
    • Site-wide: 20,832 out of 64,995

Exact Bayesian lineage tree-based inference identifies Nanog negative autoregulation in mouse embryonic stem cells

systems biology more details view paper
  • Downloaded 387 times
  • Download rankings, all-time:
    • Site-wide: 27,010 out of 64,995
    • In systems biology: 815 out of 1,833
  • Year to date:
    • Site-wide: 55,705 out of 64,995
  • Since beginning of last month:
    • Site-wide: 58,754 out of 64,995

cgCorrect: A method to correct for confounding cell-cell variation due to cell growth in single-cell transcriptomics

bioinformatics more details view paper
  • Downloaded 380 times
  • Download rankings, all-time:
    • Site-wide: 27,490 out of 64,995
    • In bioinformatics: 3,707 out of 6,434
  • Year to date:
    • Site-wide: 61,076 out of 64,995
  • Since beginning of last month:
    • Site-wide: 59,495 out of 64,995

Variably methylated regions in the newborn epigenome: environmental, genetic and combined influences

genetics more details view paper
  • Downloaded 360 times
  • Download rankings, all-time:
    • Site-wide: 29,097 out of 64,995
    • In genetics: 1,872 out of 3,686
  • Year to date:
    • Site-wide: 20,496 out of 64,995
  • Since beginning of last month:
    • Site-wide: 39,859 out of 64,995

Scalable parameter estimation for genome-scale biochemical reaction networks

systems biology more details view paper
  • Downloaded 358 times
  • Download rankings, all-time:
    • Site-wide: 29,313 out of 64,995
    • In systems biology: 891 out of 1,833
  • Year to date:
    • Site-wide: 61,828 out of 64,995
  • Since beginning of last month:
    • Site-wide: 54,170 out of 64,995

Model-based analysis of response and resistance factors of cetuximab treatment in gastric cancer cell lines

systems biology more details view paper
  • Downloaded 214 times
  • Download rankings, all-time:
    • Site-wide: 44,371 out of 64,995
    • In systems biology: 1,371 out of 1,833
  • Year to date:
    • Site-wide: 20,794 out of 64,995
  • Since beginning of last month:
    • Site-wide: 25,119 out of 64,995

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