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Author: Howard Y Chang

Rankings

  • All-time downloads: 155,897 (rank: 978 )
  • Categories:
    • bioinformatics: 3,274 (rank: 6,005 (tie) )
    • cancer biology: 10,452 (rank: 271 )
    • cell biology: 12,198 (rank: 417 )
    • developmental biology: 717 (rank: 10,817 (tie) )
    • evolutionary biology: 1,699 (rank: 5,433 (tie) )
    • genetics: 3,304 (rank: 7,321 (tie) )
    • genomics: 79,341 (rank: 145 )
    • immunology: 13,688 (rank: 1,146 )
    • microbiology: 3,429 (rank: 6,564 (tie) )
    • molecular biology: 10,663 (rank: 310 )
    • neuroscience: 12,096 (rank: 1,634 )

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Preprints

Chromatin activity identifies differential gene regulation across human ancestries

genomics more details view paper

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Bidirectional epigenetic editing reveals hierarchies in gene regulation

genomics more details view paper

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Massively parallel single-cell chromatin landscapes of human immune cell development and intratumoral T cell exhaustion

genomics more details view paper
  • Downloaded 13,926 times
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    • Site-wide: 888
    • In genomics: 45
  • Year to date:
    • Site-wide: 21,283
  • Since beginning of last month:
    • Site-wide: 26,441

Atlas of Subcellular RNA Localization Revealed by APEX-seq

cell biology more details view paper
  • Downloaded 9,412 times
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    • Site-wide: 1,443
    • In cell biology: 19
  • Year to date:
    • Site-wide: 56,436
  • Since beginning of last month:
    • Site-wide: 32,033

ArchR: An integrative and scalable software package for single-cell chromatin accessibility analysis

genomics more details view paper
  • Downloaded 7,090 times
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    • Site-wide: 2,122
    • In genomics: 151
  • Year to date:
    • Site-wide: 18,197
  • Since beginning of last month:
    • Site-wide: 43,538

Chromatin and gene-regulatory dynamics of the developing human cerebral cortex at single-cell resolution

neuroscience more details view paper
  • Downloaded 6,937 times
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    • Site-wide: 2,190
    • In neuroscience: 100
  • Year to date:
    • Site-wide: 2,372
  • Since beginning of last month:
    • Site-wide: 10,149

Clonal replacement of tumor-specific T cells following PD-1 blockade

immunology more details view paper
  • Downloaded 6,770 times
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    • Site-wide: 2,271
    • In immunology: 87
  • Year to date:
    • Site-wide: 45,389
  • Since beginning of last month:
    • Site-wide: 27,949

Single-cell epigenomic identification of inherited risk loci in Alzheimer's and Parkinson's disease

genomics more details view paper
  • Downloaded 6,464 times
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    • Site-wide: 2,411
    • In genomics: 181
  • Year to date:
    • Site-wide: 16,204
  • Since beginning of last month:
    • Site-wide: 13,834

A single cell framework for multi-omic analysis of disease identifies malignant regulatory signatures in mixed phenotype acute leukemia

genomics more details view paper
  • Downloaded 6,107 times
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    • Site-wide: 2,608
    • In genomics: 199
  • Year to date:
    • Site-wide: 21,571
  • Since beginning of last month:
    • Site-wide: 32,405

Single-cell epigenomics maps the continuous regulatory landscape of human hematopoietic differentiation

genomics more details view paper
  • Downloaded 5,812 times
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    • Site-wide: 2,773
    • In genomics: 215
  • Year to date:
    • Site-wide: 126,758
  • Since beginning of last month:
    • Site-wide: 79,318

Genetic determinants of co-accessible chromatin regions in T cell activation across humans

genomics more details view paper
  • Downloaded 5,257 times
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    • Site-wide: 3,192
    • In genomics: 267
  • Year to date:
    • Site-wide: 112,705
  • Since beginning of last month:
    • Site-wide: 60,822

An improved ATAC-seq protocol reduces background and enables interrogation of frozen tissues

genomics more details view paper
  • Downloaded 4,773 times
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    • Site-wide: 3,629
    • In genomics: 319
  • Year to date:
    • Site-wide: 60,818
  • Since beginning of last month:
    • Site-wide: 55,009

Coupled single-cell CRISPR screening and epigenomic profiling reveals causal gene regulatory networks

genomics more details view paper
  • Downloaded 4,712 times
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    • Site-wide: 3,699
    • In genomics: 326
  • Year to date:
    • Site-wide: 112,800
  • Since beginning of last month:
    • Site-wide: 55,477

EcDNA hubs drive cooperative intermolecular oncogene expression

cancer biology more details view paper
  • Downloaded 4,233 times
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    • Site-wide: 4,289
    • In cancer biology: 56
  • Year to date:
    • Site-wide: 11,678
  • Since beginning of last month:
    • Site-wide: 15,586

Super-resolution Imaging Reveals 3D Structure and Organizing Mechanism of Accessible Chromatin

molecular biology more details view paper
  • Downloaded 3,918 times
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    • Site-wide: 4,803
    • In molecular biology: 98
  • Year to date:
    • Site-wide: 45,772
  • Since beginning of last month:
    • Site-wide: 40,771

Transient "rest" induces functional reinvigoration and epigenetic remodeling in exhausted CAR-T cells

immunology more details view paper
  • Downloaded 3,577 times
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    • Site-wide: 5,472
    • In immunology: 213
  • Year to date:
    • Site-wide: 53,535
  • Since beginning of last month:
    • Site-wide: 58,478

Systematic discovery and functional interrogation of SARS-CoV-2 viral RNA-host protein interactions during infection

microbiology more details view paper
  • Downloaded 3,508 times
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    • Site-wide: 5,641
    • In microbiology: 369
  • Year to date:
    • Site-wide: 23,155
  • Since beginning of last month:
    • Site-wide: 23,124

Systematic discovery of receptor-ligand biology by engineered cell entry and single-cell genomics

genomics more details view paper
  • Downloaded 3,482 times
  • Download rankings, all-time:
    • Site-wide: 5,716
    • In genomics: 641
  • Year to date:
    • Site-wide: 1,109
  • Since beginning of last month:
    • Site-wide: 1,316

Enhancer connectome in primary human cells reveals target genes of disease-associated DNA elements

genomics more details view paper
  • Downloaded 3,348 times
  • Download rankings, all-time:
    • Site-wide: 6,054
    • In genomics: 553
  • Year to date:
    • Site-wide: 111,119
  • Since beginning of last month:
    • Site-wide: 53,555

B cell-specific XIST complex enforces X-inactivation and restrains atypical B cells

genomics more details view paper
  • Downloaded 3,347 times
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    • Site-wide: 6,060
    • In genomics: 565
  • Year to date:
    • Site-wide: 3,957
  • Since beginning of last month:
    • Site-wide: 22,656

HiChIP: Efficient and sensitive analysis of protein-directed genome architecture

genomics more details view paper
  • Downloaded 2,821 times
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    • Site-wide: 7,726
    • In genomics: 712
  • Year to date:
    • Site-wide: 120,574
  • Since beginning of last month:
    • Site-wide: 148,216

Principles of ecDNA random inheritance drive rapid genome change and therapy resistance in human cancers

cancer biology more details view paper
  • Downloaded 2,708 times
  • Download rankings, all-time:
    • Site-wide: 8,231
    • In cancer biology: 157
  • Year to date:
    • Site-wide: 2,666
  • Since beginning of last month:
    • Site-wide: 6,222

Joint single-cell DNA accessibility and protein epitope profiling reveals environmental regulation of epigenomic heterogeneity

genomics more details view paper
  • Downloaded 2,690 times
  • Download rankings, all-time:
    • Site-wide: 8,311
    • In genomics: 762
  • Year to date:
    • Site-wide: 183,162
  • Since beginning of last month:
    • Site-wide: 128,568

Cerebellar nuclei evolved by repeatedly duplicating a conserved cell type set

neuroscience more details view paper
  • Downloaded 2,524 times
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    • Site-wide: 9,129
    • In neuroscience: 829
  • Year to date:
    • Site-wide: 57,748
  • Since beginning of last month:
    • Site-wide: 39,847

Single-cell multiome of the human retina and deep learning nominate causal variants in complex eye diseases

genomics more details view paper
  • Downloaded 2,459 times
  • Download rankings, all-time:
    • Site-wide: 9,501
    • In genomics: 937
  • Year to date:
    • Site-wide: 851
  • Since beginning of last month:
    • Site-wide: 14,374

Dynamic Regulation of RNA Structure in Mammalian Cells

molecular biology more details view paper
  • Downloaded 2,291 times
  • Download rankings, all-time:
    • Site-wide: 10,572
    • In molecular biology: 233
  • Year to date:
    • Site-wide: 118,300
  • Since beginning of last month:
    • Site-wide: 61,180

The dynamic, combinatorial cis-regulatory lexicon of epidermal differentiation

genomics more details view paper
  • Downloaded 2,185 times
  • Download rankings, all-time:
    • Site-wide: 11,376
    • In genomics: 1,035
  • Year to date:
    • Site-wide: 60,281
  • Since beginning of last month:
    • Site-wide: 75,394

Frequent extrachromosomal oncogene amplification drives aggressive tumors

cancer biology more details view paper
  • Downloaded 2,170 times
  • Download rankings, all-time:
    • Site-wide: 11,497
    • In cancer biology: 204
  • Year to date:
    • Site-wide: 51,186
  • Since beginning of last month:
    • Site-wide: 142,698

Targeted profiling of human extrachromosomal DNA by CRISPR-CATCH

cancer biology more details view paper
  • Downloaded 2,110 times
  • Download rankings, all-time:
    • Site-wide: 12,029
    • In cancer biology: 316
  • Year to date:
    • Site-wide: 2,407
  • Since beginning of last month:
    • Site-wide: 4,489

Single-cell lineage tracing by endogenous mutations enriched in transposase accessible mitochondrial DNA

genomics more details view paper
  • Downloaded 2,057 times
  • Download rankings, all-time:
    • Site-wide: 12,450
    • In genomics: 1,109
  • Year to date:
    • Site-wide: 126,595
  • Since beginning of last month:
    • Site-wide: 81,249

Polycomb-mediated Genome Architecture Enables Long-range Spreading of H3K27 methylation

genetics more details view paper
  • Downloaded 2,050 times
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    • Site-wide: 12,513
    • In genetics: 485
  • Year to date:
    • Site-wide: 21,467
  • Since beginning of last month:
    • Site-wide: 39,400

Systematic identification of cis-interacting lncRNAs and their targets

genomics more details view paper
  • Downloaded 1,963 times
  • Download rankings, all-time:
    • Site-wide: 13,390
    • In genomics: 1,411
  • Year to date:
    • Site-wide: 8,192
  • Since beginning of last month:
    • Site-wide: 30,882

Evolutionary dynamics of roX lncRNA function and genomic occupancy

evolutionary biology more details view paper
  • Downloaded 1,711 times
  • Download rankings, all-time:
    • Site-wide: 16,468
    • In evolutionary biology: 448
  • Year to date:
    • Site-wide: 199,960
  • Since beginning of last month:
    • Site-wide: 199,664

RNA-GPS Predicts SARS-CoV-2 RNA Localization to Host Mitochondria and Nucleolus

bioinformatics more details view paper
  • Downloaded 1,690 times
  • Download rankings, all-time:
    • Site-wide: 16,781
    • In bioinformatics: 1,745
  • Year to date:
    • Site-wide: 111,859
  • Since beginning of last month:
    • Site-wide: 104,871

Human B cell clonal expansion and convergent antibody responses to SARS-CoV-2

immunology more details view paper
  • Downloaded 1,485 times
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    • Site-wide: 20,640
    • In immunology: 740
  • Year to date:
    • Site-wide: 96,490
  • Since beginning of last month:
    • Site-wide: 75,148

Structural modularity of the XIST ribonucleoprotein complex

molecular biology more details view paper
  • Downloaded 1,390 times
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    • Site-wide: 22,950
    • In molecular biology: 570
  • Year to date:
    • Site-wide: 130,457
  • Since beginning of last month:
    • Site-wide: 142,321

PEPATAC: An optimized pipeline for ATAC-seq data analysis with serial alignments

genomics more details view paper
  • Downloaded 1,329 times
  • Download rankings, all-time:
    • Site-wide: 24,586
    • In genomics: 2,323
  • Year to date:
    • Site-wide: 14,571
  • Since beginning of last month:
    • Site-wide: 23,092

Functional classification of noncoding RNAs associated with distinct histone modifications by PIRCh-seq

cell biology more details view paper
  • Downloaded 1,202 times
  • Download rankings, all-time:
    • Site-wide: 28,838
    • In cell biology: 989
  • Year to date:
    • Site-wide: 159,266
  • Since beginning of last month:
    • Site-wide: 111,153

Global DNA methylation remodeling during direct reprogramming of fibroblasts to neurons

neuroscience more details view paper
  • Downloaded 1,153 times
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    • Site-wide: 30,774
    • In neuroscience: 3,635
  • Year to date:
    • Site-wide: 106,148
  • Since beginning of last month:
    • Site-wide: 109,919

Macrophage inflammatory and regenerative response periodicity is programmed by cell cycle and chromatin state

immunology more details view paper
  • Downloaded 1,143 times
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    • Site-wide: 31,200
    • In immunology: 1,200
  • Year to date:
    • Site-wide: 19,943
  • Since beginning of last month:
    • Site-wide: 12,526

KLF4 Recruits SWI/SNF to Increase Chromatin Accessibility and Reprogram the Endothelial Enhancer Landscape under Laminar Shear Stress

molecular biology more details view paper
  • Downloaded 1,125 times
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    • Site-wide: 31,992
    • In molecular biology: 843
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    • Site-wide: 29,606

A primed immune transcriptional program is activated in oligodendroglia in multiple sclerosis

neuroscience more details view paper
  • Downloaded 1,109 times
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    • Site-wide: 32,693
    • In neuroscience: 4,108
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    • Site-wide: 41,733
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    • Site-wide: 48,026

Feedback Regulation between Initiation and Maturation Networks Orchestrates the Chromatin Dynamics of Epidermal Lineage Commitment

cell biology more details view paper
  • Downloaded 957 times
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    • Site-wide: 41,002
    • In cell biology: 1,547
  • Year to date:
    • Site-wide: 166,077
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    • Site-wide: 128,776

Spen links RNA-mediated endogenous retrovirus silencing and X chromosome inactivation

genomics more details view paper
  • Downloaded 868 times
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    • Site-wide: 47,579
    • In genomics: 3,479
  • Year to date:
    • Site-wide: 145,283
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    • Site-wide: 139,423

Exploring the role of Polycomb recruitment in Xist-mediated silencing of the X chromosome in ES cells

genetics more details view paper
  • Downloaded 866 times
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    • Site-wide: 47,801
    • In genetics: 1,841
  • Year to date:
    • Site-wide: 159,813
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    • Site-wide: 111,215

CRISPRpic: Fast and precise analysis for CRISPR-induced mutations via prefixed index counting

bioinformatics more details view paper
  • Downloaded 860 times
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    • Site-wide: 48,282
    • In bioinformatics: 4,601
  • Year to date:
    • Site-wide: 206,883
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    • Site-wide: None

Satb1 integrates DNA sequence, shape, motif density and torsional stress to differentially bind targets in nucleosome-dense regions.

molecular biology more details view paper
  • Downloaded 860 times
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    • Site-wide: 48,301
    • In molecular biology: 1,291
  • Year to date:
    • Site-wide: 180,332
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    • Site-wide: 71,252

RNA-BINDING PROTEINS DIRECT MYOGENIC CELL FATE DECISIONS

molecular biology more details view paper
  • Downloaded 851 times
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    • Site-wide: 49,010
    • In molecular biology: 1,312
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    • Site-wide: 34,578
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    • Site-wide: 157,977

The Autism Risk Factor CHD8 Is a Chromatin Activator and Functionally Dependent on the ERK-MAPK Pathway Effector ELK1

cell biology more details view paper
  • Downloaded 767 times
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    • Site-wide: 57,119
    • In cell biology: 2,474
  • Year to date:
    • Site-wide: 64,357
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    • Site-wide: 58,712

Integrative analysis of single cell genomics data by coupled nonnegative matrix factorizations

bioinformatics more details view paper
  • Downloaded 765 times
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    • Site-wide: 57,337
    • In bioinformatics: 5,430
  • Year to date:
    • Site-wide: 201,206
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    • Site-wide: 171,125

Clonal inactivation of telomerase promotes accelerated stem cell differentiation

developmental biology more details view paper
  • Downloaded 760 times
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    • Site-wide: 57,930
    • In developmental biology: 1,369
  • Year to date:
    • Site-wide: 39,708
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    • Site-wide: 56,646

The novel lncRNA lnc-NR2F1 is pro-neurogenic and mutated in human neurodevelopmental disorders

neuroscience more details view paper
  • Downloaded 734 times
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    • Site-wide: 60,961
    • In neuroscience: 8,444
  • Year to date:
    • Site-wide: 122,320
  • Since beginning of last month:
    • Site-wide: 95,614

Extrachromosomal DNA in the cancerous transformation of Barrett's esophagus

genomics more details view paper
  • Downloaded 670 times
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    • Site-wide: 69,446
    • In genomics: 7,059
  • Year to date:
    • Site-wide: 6,543
  • Since beginning of last month:
    • Site-wide: 3,035

Distinct T cell chromatin landscapes in scleroderma subtypes

immunology more details view paper
  • Downloaded 600 times
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    • Site-wide: 80,251
    • In immunology: 2,620
  • Year to date:
    • Site-wide: 43,917
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    • Site-wide: 57,089

Enhanced Effector Activity of Mediator Kinase Module Deficient CAR-T Cells

immunology more details view paper
  • Downloaded 510 times
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    • Site-wide: 97,828
    • In immunology: None
  • Year to date:
    • Site-wide: 10,285
  • Since beginning of last month:
    • Site-wide: 1,378

Morphogen-Lineage Selector Interactions During Surface Epithelial Commitment

genetics more details view paper
  • Downloaded 495 times
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    • Site-wide: 101,043
    • In genetics: 3,821
  • Year to date:
    • Site-wide: 150,266
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    • Site-wide: 91,686

Locus specific epigenetic modalities of random allelic expression imbalance

molecular biology more details view paper
  • Downloaded 465 times
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    • Site-wide: 108,223
    • In molecular biology: 3,065
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    • Site-wide: 120,282
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    • Site-wide: 117,018

Spatial organization of the 3D genome encodes gene co-expression programs in single cells

genomics more details view paper
  • Downloaded 436 times
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    • Site-wide: 115,250
    • In genomics: None
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    • Site-wide: 13,424
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    • Site-wide: 485

Integrative profiling of early host chromatin accessibility responses in human neutrophils with sensitive pathogen detection.

immunology more details view paper
  • Downloaded 395 times
  • Download rankings, all-time:
    • Site-wide: 126,242
    • In immunology: 3,883
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    • Site-wide: 171,153
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