Rxivist combines preprints from bioRxiv with data from Twitter to help you find the papers being discussed in your field. Currently indexing 70,616 bioRxiv papers from 308,268 authors.

Author: Rob Knight

ORCiD: http://orcid.org/0000-0002-0975-9019
Most recently observed institution: Center for Microbiome Innovation and Departments of Pediatrics, Bioengineering, and Computer Science & Engineering, University of California San Diego, La Jolla, CA

Rankings

All-time downloads: 33,787 (rank: 559 out of 308,293)
Categories:
- bioinformatics: 12,333 (rank: 237 out of 26,826)
- ecology: 1,889 (rank: 659 out of 12,447)
- genomics: 4,789 (rank: 2,962 out of 34,853)
- immunology: 290 (rank: 8,275 (tie) out of 14,770)
- microbiology: 9,980 (rank: 57 out of 31,942)
- molecular biology: 4,309 (rank: 201 (tie) out of 15,050)
- systems biology: 197 (rank: 7,915 (tie) out of 9,258)

Downloads per author, site-wide

Preprints

Algorithmic Learning for Auto-deconvolution of GC-MS Data to Enable Molecular Networking within GNPS.

bioinformatics more details view paper

No bioRxiv download data for this paper yet.

MASST: A Web-based Basic Mass Spectrometry Search Tool for Molecules to Search Public Data.

bioinformatics more details view paper

Downloaded 5,561 times
Download rankings, all-time:
- Site-wide: 381 out of 70,616
- In bioinformatics: 73 out of 6,917
Year to date:
- Site-wide: 3,591 out of 70,616
Since beginning of last month:
- Site-wide: 2,005 out of 70,616

Enabling high-accuracy long-read amplicon sequences using unique molecular identifiers with Nanopore or PacBio sequencing

molecular biology more details view paper

Downloaded 4,309 times
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- Site-wide: 622 out of 70,616
- In molecular biology: 14 out of 2,266
Year to date:
- Site-wide: 18 out of 70,616
Since beginning of last month:
- Site-wide: 260 out of 70,616

Evaluating the information content of shallow shotgun metagenomics

genomics more details view paper

Downloaded 3,373 times
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- Site-wide: 991 out of 70,616
- In genomics: 246 out of 4,714
Year to date:
- Site-wide: 32,906 out of 70,616
Since beginning of last month:
- Site-wide: 24,656 out of 70,616

American Gut: an Open Platform for Citizen-Science Microbiome Research

microbiology more details view paper

Downloaded 3,102 times
Download rankings, all-time:
- Site-wide: 1,182 out of 70,616
- In microbiology: 23 out of 5,733
Year to date:
- Site-wide: 7,751 out of 70,616
Since beginning of last month:
- Site-wide: 5,539 out of 70,616

BugBase Predicts Organism Level Microbiome Phenotypes

bioinformatics more details view paper

Downloaded 2,659 times
Download rankings, all-time:
- Site-wide: 1,536 out of 70,616
- In bioinformatics: 304 out of 6,917
Year to date:
- Site-wide: 2,993 out of 70,616
Since beginning of last month:
- Site-wide: 4,941 out of 70,616

Structure-Based Function Prediction using Graph Convolutional Networks

bioinformatics more details view paper

Downloaded 1,683 times
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- Site-wide: 3,454 out of 70,616
- In bioinformatics: 688 out of 6,917
Year to date:
- Site-wide: 2,449 out of 70,616
Since beginning of last month:
- Site-wide: 789 out of 70,616

Quantifying and understanding well-to-well contamination in microbiome research

genomics more details view paper

Downloaded 1,416 times
Download rankings, all-time:
- Site-wide: 4,653 out of 70,616
- In genomics: 828 out of 4,714
Year to date:
- Site-wide: 2,498 out of 70,616
Since beginning of last month:
- Site-wide: 3,571 out of 70,616

Links between environment, diet, and the hunter-gatherer microbiome

microbiology more details view paper

Downloaded 1,144 times
Download rankings, all-time:
- Site-wide: 6,627 out of 70,616
- In microbiology: 262 out of 5,733
Year to date:
- Site-wide: 10,867 out of 70,616
Since beginning of last month:
- Site-wide: 6,420 out of 70,616

Chemical Impacts of the Microbiome Across Scales Reveal Novel Conjugated Bile Acids

microbiology more details view paper

Downloaded 1,080 times
Download rankings, all-time:
- Site-wide: 7,311 out of 70,616
- In microbiology: 298 out of 5,733
Year to date:
- Site-wide: 2,604 out of 70,616
Since beginning of last month:
- Site-wide: 9,516 out of 70,616

Dramatic differences in gut bacterial densities help to explain the relationship between diet and habitat in rainforest ants

ecology more details view paper

Downloaded 1,064 times
Download rankings, all-time:
- Site-wide: 7,471 out of 70,616
- In ecology: 160 out of 3,035
Year to date:
- Site-wide: 36,690 out of 70,616
Since beginning of last month:
- Site-wide: 20,091 out of 70,616

Metagenomic covariation along densely sampled environmental gradients in the Red Sea

microbiology more details view paper

Downloaded 1,015 times
Download rankings, all-time:
- Site-wide: 8,047 out of 70,616
- In microbiology: 339 out of 5,733
Year to date:
- Site-wide: 11,424 out of 70,616
Since beginning of last month:
- Site-wide: 18,016 out of 70,616

Age and sex-dependent patterns of gut microbial diversity in human adults

microbiology more details view paper

Downloaded 826 times
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- Site-wide: 11,245 out of 70,616
- In microbiology: 501 out of 5,733
Year to date:
- Site-wide: 43,046 out of 70,616
Since beginning of last month:
- Site-wide: 39,183 out of 70,616

Bacterial community composition and dynamics spanning five years in freshwater bog lakes

microbiology more details view paper

Downloaded 824 times
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- Site-wide: 11,279 out of 70,616
- In microbiology: 504 out of 5,733
Year to date:
- Site-wide: 58,014 out of 70,616
Since beginning of last month:
- Site-wide: 54,721 out of 70,616

Species abundance information improves sequence taxonomy classification accuracy

bioinformatics more details view paper

Downloaded 801 times
Download rankings, all-time:
- Site-wide: 11,744 out of 70,616
- In bioinformatics: 1,959 out of 6,917
Year to date:
- Site-wide: 7,248 out of 70,616
Since beginning of last month:
- Site-wide: 24,275 out of 70,616

The development of gut microbiota in ostriches and its association with juvenile growth

microbiology more details view paper

Downloaded 780 times
Download rankings, all-time:
- Site-wide: 12,212 out of 70,616
- In microbiology: 564 out of 5,733
Year to date:
- Site-wide: 30,121 out of 70,616
Since beginning of last month:
- Site-wide: 25,013 out of 70,616

MetaRiPPquest: A Peptidogenomics Approach for the Discovery of Ribosomally Synthesized and Post-translationally Modified Peptides

bioinformatics more details view paper

Downloaded 666 times
Download rankings, all-time:
- Site-wide: 15,361 out of 70,616
- In bioinformatics: 2,399 out of 6,917
Year to date:
- Site-wide: 43,077 out of 70,616
Since beginning of last month:
- Site-wide: 42,437 out of 70,616

Microbial biogeography and ecology of the mouth and implications for periodontal diseases

ecology more details view paper

Downloaded 635 times
Download rankings, all-time:
- Site-wide: 16,470 out of 70,616
- In ecology: 457 out of 3,035
Year to date:
- Site-wide: 5,000 out of 70,616
Since beginning of last month:
- Site-wide: 9,043 out of 70,616

Repository-scale Co- and Re-analysis of Tandem Mass Spectrometry Data

bioinformatics more details view paper

Downloaded 423 times
Download rankings, all-time:
- Site-wide: 27,610 out of 70,616
- In bioinformatics: 3,698 out of 6,917
Year to date:
- Site-wide: 4,190 out of 70,616
Since beginning of last month:
- Site-wide: 7,173 out of 70,616

Deep metagenomics examines the oral microbiome during dental caries, revealing novel taxa and co-occurrences with host molecules

microbiology more details view paper

Downloaded 359 times
Download rankings, all-time:
- Site-wide: 32,902 out of 70,616
- In microbiology: 2,040 out of 5,733
Year to date:
- Site-wide: 6,422 out of 70,616
Since beginning of last month:
- Site-wide: 7,665 out of 70,616

The Molecular and Microbial Microenvironments in Chronically Diseased Lungs

microbiology more details view paper

Downloaded 308 times
Download rankings, all-time:
- Site-wide: 37,984 out of 70,616
- In microbiology: 2,448 out of 5,733
Year to date:
- Site-wide: 64,954 out of 70,616
Since beginning of last month:
- Site-wide: 63,580 out of 70,616

Revisiting microbe-metabolite interactions: doing better than random

bioinformatics more details view paper

Downloaded 294 times
Download rankings, all-time:
- Site-wide: 39,562 out of 70,616
- In bioinformatics: 4,754 out of 6,917
Year to date:
- Site-wide: 4,439 out of 70,616
Since beginning of last month:
- Site-wide: 422 out of 70,616

Multiple sclerosis-associated changes in the composition and immune functions of spore-forming bacteria

immunology more details view paper

Downloaded 290 times
Download rankings, all-time:
- Site-wide: 40,018 out of 70,616
- In immunology: 865 out of 1,820
Year to date:
- Site-wide: 54,463 out of 70,616
Since beginning of last month:
- Site-wide: 56,096 out of 70,616

Visualizing 'omic feature rankings and log-ratios using Qurro

bioinformatics more details view paper

Downloaded 246 times
Download rankings, all-time:
- Site-wide: 45,431 out of 70,616
- In bioinformatics: 5,216 out of 6,917
Year to date:
- Site-wide: 1,804 out of 70,616
Since beginning of last month:
- Site-wide: 810 out of 70,616

Red Sea SAR11 and Prochlorococcus Single-cell Genomes Reflect Globally Distributed Pangenomes

microbiology more details view paper

Downloaded 228 times
Download rankings, all-time:
- Site-wide: 47,868 out of 70,616
- In microbiology: 3,306 out of 5,733
Year to date:
- Site-wide: 67,002 out of 70,616
Since beginning of last month:
- Site-wide: 61,232 out of 70,616

Metabolome-informed microbiome analysis refines metadata classifications and reveals unexpected medication transfer in captive cheetahs

systems biology more details view paper

Downloaded 197 times
Download rankings, all-time:
- Site-wide: 52,103 out of 70,616
- In systems biology: 1,568 out of 1,945
Year to date:
- Site-wide: 28,360 out of 70,616
Since beginning of last month:
- Site-wide: 10,842 out of 70,616

Temporal, environmental, and biological drivers of the mucosal microbiome in a wild marine fish, Scomber japonicus

ecology more details view paper

Downloaded 190 times
Download rankings, all-time:
- Site-wide: 53,260 out of 70,616
- In ecology: 1,921 out of 3,035
Year to date:
- Site-wide: 42,090 out of 70,616
Since beginning of last month:
- Site-wide: 23,801 out of 70,616

Microbial ecology of Atlantic salmon, Salmo salar, hatcheries: impacts of the built environment on fish mucosal microbiota

microbiology more details view paper

Downloaded 172 times
Download rankings, all-time:
- Site-wide: 55,998 out of 70,616
- In microbiology: 4,086 out of 5,733
Year to date:
- Site-wide: 23,618 out of 70,616
Since beginning of last month:
- Site-wide: 7,397 out of 70,616

Microbe-metabolite associations linked to the rebounding murine gut microbiome post-colonization with vancomycin resistant Enterococcus faecium

microbiology more details view paper

Downloaded 142 times
Download rankings, all-time:
- Site-wide: 60,408 out of 70,616
- In microbiology: 4,531 out of 5,733
Year to date:
- Site-wide: 12,470 out of 70,616
Since beginning of last month:
- Site-wide: 11,320 out of 70,616

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