Author: John Marioni
- ORCiD: http://orcid.org/0000-0001-9092-0852
- Most recently observed institution: European Molecular Biology Laboratory - European Bioinformatics Institute
Rankings
- All-time downloads: 94,457 (rank: 1,782 )
- Categories:
- bioinformatics: 35,031 (rank: 93 )
- cell biology: 15,981 (rank: 95 )
- developmental biology: 15,067 (rank: 35 )
- evolutionary biology: 1,582 (rank: 4,689 (tie) )
- genetics: 4,443 (rank: 4,446 (tie) )
- genomics: 14,479 (rank: 1,291 )
- immunology: 3,614 (rank: 3,437 (tie) )
- infectious diseases: 2,741 (rank: 16,359 (tie) )
- molecular biology: 1,519 (rank: 4,573 (tie) )
Downloads per author, site-wide
Preprints
The Human Cell Atlas
cell biology more details view paper- Downloaded 12,890 times
- Download rankings, all-time:
- Site-wide: 773
- In cell biology: 6
- Year to date:
- Site-wide: 22,225
- Since beginning of last month:
- Site-wide: 29,450
Single cell multi-omics profiling reveals a hierarchical epigenetic landscape during mammalian germ layer specification
developmental biology more details view paper- Downloaded 6,409 times
- Download rankings, all-time:
- Site-wide: 1,902
- In developmental biology: 13
- Year to date:
- Site-wide: 31,732
- Since beginning of last month:
- Site-wide: 29,284
Correcting batch effects in single-cell RNA sequencing data by matching mutual nearest neighbours.
bioinformatics more details view paper- Downloaded 5,309 times
- Download rankings, all-time:
- Site-wide: 2,437
- In bioinformatics: 182
- Year to date:
- Site-wide: 67,261
- Since beginning of last month:
- Site-wide: 98,511
Multi-Omics factor analysis - a framework for unsupervised integration of multi-omic data sets
bioinformatics more details view paper- Downloaded 5,271 times
- Download rankings, all-time:
- Site-wide: 2,467
- In bioinformatics: 185
- Year to date:
- Site-wide: 30,925
- Since beginning of last month:
- Site-wide: 22,160
scNMT-seq enables joint profiling of chromatin accessibility DNA methylation and transcription in single cells
genomics more details view paper- Downloaded 5,083 times
- Download rankings, all-time:
- Site-wide: 2,610
- In genomics: 239
- Year to date:
- Site-wide: 43,342
- Since beginning of last month:
- Site-wide: 64,279
Highly multiplexed spatially resolved gene expression profiling of mouse organogenesis
developmental biology more details view paper- Downloaded 4,599 times
- Download rankings, all-time:
- Site-wide: 2,983
- In developmental biology: 22
- Year to date:
- Site-wide: 1,836
- Since beginning of last month:
- Site-wide: 9,136
CellBender remove-background: a deep generative model for unsupervised removal of background noise from scRNA-seq datasets
bioinformatics more details view paper- Downloaded 4,424 times
- Download rankings, all-time:
- Site-wide: 3,163
- In bioinformatics: 249
- Year to date:
- Site-wide: 2,021
- Since beginning of last month:
- Site-wide: 1,815
Milo: differential abundance testing on single-cell data using k-NN graphs
bioinformatics more details view paper- Downloaded 4,309 times
- Download rankings, all-time:
- Site-wide: 3,285
- In bioinformatics: 268
- Year to date:
- Site-wide: 1,059
- Since beginning of last month:
- Site-wide: 1,110
iRAP - an integrated RNA-seq Analysis Pipeline
bioinformatics more details view paper- Downloaded 3,783 times
- Download rankings, all-time:
- Site-wide: 3,929
- In bioinformatics: 351
- Year to date:
- Site-wide: 79,730
- Since beginning of last month:
- Site-wide: 87,768
Population-scale single-cell RNA-seq profiling across dopaminergic neuron differentiation
genetics more details view paper- Downloaded 3,526 times
- Download rankings, all-time:
- Site-wide: 4,330
- In genetics: 150
- Year to date:
- Site-wide: 6,007
- Since beginning of last month:
- Site-wide: 21,106
Distinguishing cells from empty droplets in droplet-based single-cell RNA sequencing data
bioinformatics more details view paper- Downloaded 3,369 times
- Download rankings, all-time:
- Site-wide: 4,638
- In bioinformatics: 431
- Year to date:
- Site-wide: 70,641
- Since beginning of last month:
- Site-wide: 34,864
MOFA+: a probabilistic framework for comprehensive integration of structured single-cell data
bioinformatics more details view paper- Downloaded 2,759 times
- Download rankings, all-time:
- Site-wide: 6,175
- In bioinformatics: 616
- Year to date:
- Site-wide: 37,225
- Since beginning of last month:
- Site-wide: 37,992
Single-cell RNA-seq of differentiating iPS cells reveals dynamic genetic effects on gene expression
genomics more details view paper- Downloaded 2,627 times
- Download rankings, all-time:
- Site-wide: 6,630
- In genomics: 670
- Year to date:
- Site-wide: 90,101
- Since beginning of last month:
- Site-wide: 130,765
The cellular immune response to COVID-19 deciphered by single cell multi-omics across three UK centres
infectious diseases more details view paper- Downloaded 2,366 times
- Download rankings, all-time:
- Site-wide: 7,770
- In infectious diseases: 1,254
- Year to date:
- Site-wide: 1,565
- Since beginning of last month:
- Site-wide: 12,187
Cells of the human intestinal tract mapped across space and time
cell biology more details view paper- Downloaded 2,136 times
- Download rankings, all-time:
- Site-wide: 9,012
- In cell biology: 196
- Year to date:
- Site-wide: 1,783
- Since beginning of last month:
- Site-wide: 3,182
Interplay of cis and trans mechanisms driving transcription factor binding and gene expression evolution
genomics more details view paper- Downloaded 1,913 times
- Download rankings, all-time:
- Site-wide: 10,621
- In genomics: 1,049
- Year to date:
- Site-wide: 138,723
- Since beginning of last month:
- Site-wide: 139,495
Staged developmental mapping and X chromosome transcriptional dynamics during mouse spermatogenesis
developmental biology more details view paper- Downloaded 1,702 times
- Download rankings, all-time:
- Site-wide: 12,644
- In developmental biology: 178
- Year to date:
- Site-wide: 113,737
- Since beginning of last month:
- Site-wide: 125,899
Detection and removal of barcode swapping in single-cell RNA-seq data
genomics more details view paper- Downloaded 1,661 times
- Download rankings, all-time:
- Site-wide: 13,103
- In genomics: 1,309
- Year to date:
- Site-wide: 117,686
- Since beginning of last month:
- Site-wide: 137,555
Transposable element expression at unique loci in single cells with CELLO-seq
molecular biology more details view paper- Downloaded 1,519 times
- Download rankings, all-time:
- Site-wide: 15,074
- In molecular biology: 407
- Year to date:
- Site-wide: 12,784
- Since beginning of last month:
- Site-wide: 6,643
Specificity of RNAi, LNA and CRISPRi as loss-of-function methods in transcriptional analysis
genomics more details view paper- Downloaded 1,352 times
- Download rankings, all-time:
- Site-wide: 18,037
- In genomics: 1,724
- Year to date:
- Site-wide: 112,459
- Since beginning of last month:
- Site-wide: 137,614
Rora regulates activated T helper cells during inflammation
immunology more details view paper- Downloaded 1,333 times
- Download rankings, all-time:
- Site-wide: 18,433
- In immunology: 643
- Year to date:
- Site-wide: 23,441
- Since beginning of last month:
- Site-wide: 36,595
Altered composition of the γδ T cell pool in lymph nodes during ageing enhances tumour growth
immunology more details view paper- Downloaded 1,271 times
- Download rankings, all-time:
- Site-wide: 19,794
- In immunology: 691
- Year to date:
- Site-wide: 30,314
- Since beginning of last month:
- Site-wide: 31,908
Assessing The Reliability Of Spike-In Normalization For Analyses Of Single-Cell RNA Sequencing Data
bioinformatics more details view paper- Downloaded 1,238 times
- Download rankings, all-time:
- Site-wide: 20,579
- In bioinformatics: 2,323
- Year to date:
- Site-wide: 113,810
- Since beginning of last month:
- Site-wide: 147,556
Investigating higher order interactions in single cell data with scHOT
bioinformatics more details view paper- Downloaded 1,177 times
- Download rankings, all-time:
- Site-wide: 22,236
- In bioinformatics: 2,511
- Year to date:
- Site-wide: 54,533
- Since beginning of last month:
- Site-wide: 57,245
Beyond comparisons of means: understanding changes in gene expression at the single-cell level
genomics more details view paper- Downloaded 1,142 times
- Download rankings, all-time:
- Site-wide: 23,249
- In genomics: 2,155
- Year to date:
- Site-wide: 150,364
- Since beginning of last month:
- Site-wide: 160,377
Secreted inhibitors drive the loss of regeneration competence in Xenopus limbs
developmental biology more details view paper- Downloaded 1,130 times
- Download rankings, all-time:
- Site-wide: 23,608
- In developmental biology: 405
- Year to date:
- Site-wide: 19,541
- Since beginning of last month:
- Site-wide: 73,511
CellRegMap: A statistical framework for mapping context-specific regulatory variants using scRNA-seq
bioinformatics more details view paper- Downloaded 1,082 times
- Download rankings, all-time:
- Site-wide: 25,280
- In bioinformatics: 2,834
- Year to date:
- Site-wide: 4,716
- Since beginning of last month:
- Site-wide: 3,524
Ageing compromises mouse thymus function and remodels epithelial cell differentiation
immunology more details view paper- Downloaded 1,010 times
- Download rankings, all-time:
- Site-wide: 28,034
- In immunology: 949
- Year to date:
- Site-wide: 58,739
- Since beginning of last month:
- Site-wide: 77,612
A high-content RNAi screen reveals multiple roles for long noncoding RNAs in cell division
cell biology more details view paper- Downloaded 955 times
- Download rankings, all-time:
- Site-wide: 30,392
- In cell biology: 1,149
- Year to date:
- Site-wide: 146,587
- Since beginning of last month:
- Site-wide: 148,811
Overcoming confounding plate effects in differential expression analyses of single-cell RNA-seq data
bioinformatics more details view paper- Downloaded 936 times
- Download rankings, all-time:
- Site-wide: 31,341
- In bioinformatics: 3,443
- Year to date:
- Site-wide: 117,742
- Since beginning of last month:
- Site-wide: 162,785
Mapping interindividual dynamics of innate immune response at single-cell resolution
genetics more details view paper- Downloaded 917 times
- Download rankings, all-time:
- Site-wide: 32,308
- In genetics: 1,418
- Year to date:
- Site-wide: 6,073
- Since beginning of last month:
- Site-wide: 4,345
Whole-body single-cell sequencing of the Platynereis larva reveals a subdivision into apical versus non-apical tissues
evolutionary biology more details view paper- Downloaded 794 times
- Download rankings, all-time:
- Site-wide: 39,769
- In evolutionary biology: 1,785
- Year to date:
- Site-wide: 119,982
- Since beginning of last month:
- Site-wide: 88,518
Structure and evolutionary history of a large family of NLR proteins in the zebrafish
evolutionary biology more details view paper- Downloaded 788 times
- Download rankings, all-time:
- Site-wide: 40,210
- In evolutionary biology: 1,811
- Year to date:
- Site-wide: 142,550
- Since beginning of last month:
- Site-wide: 151,789
Robust expression variability testing reveals heterogeneous T cell responses
bioinformatics more details view paper- Downloaded 762 times
- Download rankings, all-time:
- Site-wide: 42,282
- In bioinformatics: 4,429
- Year to date:
- Site-wide: 159,150
- Since beginning of last month:
- Site-wide: 150,816
Coordinated Changes in Gene Expression Kinetics Underlie both Mouse and Human Erythroid Maturation
developmental biology more details view paper- Downloaded 719 times
- Download rankings, all-time:
- Site-wide: 45,818
- In developmental biology: 1,014
- Year to date:
- Site-wide: 11,717
- Since beginning of last month:
- Site-wide: 25,467
Flipping between Polycomb repressed and active transcriptional states introduces noise in gene expression
genomics more details view paper- Downloaded 701 times
- Download rankings, all-time:
- Site-wide: 47,516
- In genomics: 3,652
- Year to date:
- Site-wide: 138,773
- Since beginning of last month:
- Site-wide: 141,134
geneBasis: an iterative approach for unsupervised selection of targeted gene panels from scRNA-seq.
bioinformatics more details view paper- Downloaded 612 times
- Download rankings, all-time:
- Site-wide: 57,110
- In bioinformatics: 5,648
- Year to date:
- Site-wide: 11,516
- Since beginning of last month:
- Site-wide: 9,437
Acquisition of alveolar fate and differentiation competence by human fetal lung epithelial progenitor cells
developmental biology more details view paper- Downloaded 508 times
- Download rankings, all-time:
- Site-wide: 71,540
- In developmental biology: 1,802
- Year to date:
- Site-wide: 15,355
- Since beginning of last month:
- Site-wide: 11,720
Factor V is an immune inhibitor that is expressed at increased levels in leukocytes of patients with severe Covid-19
infectious diseases more details view paper- Downloaded 375 times
- Download rankings, all-time:
- Site-wide: 97,677
- In infectious diseases: 4,623
- Year to date:
- Site-wide: 24,522
- Since beginning of last month:
- Site-wide: 85,335
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