Institution · QB3
Most cited papers from QB3
What are the most cited papers from QB3?
The most cited paper from QB3 is "Diet rapidly and reproducibly alters the human gut microbiome" (Lawrence A. David, Corinne F. Maurice, Rachel N. Carmody et al., 2013), with 10,461 citations. Next come "De novo transcript sequence reconstruction from RNA-seq using the Trinity platform for reference generation and analysis" (9,312) and "Reference-based analysis of lung single-cell sequencing reveals a transitional profibrotic macrophage" (5,566).
Showing 50 of 60 papers. Every paper with more than 903 citations is listed.
| # | Paper | ||
|---|---|---|---|
| 1 | Diet rapidly and reproducibly alters the human gut microbiome Lawrence A. David, Corinne F. Maurice, Rachel N. Carmody et al. · Nature | 11 Dec 2013 | 10,461 |
| 2 | De novo transcript sequence reconstruction from RNA-seq using the Trinity platform for reference generation and analysis Brian J. Haas et al. · Nature Protocols | 11 Jul 2013 | 9,312 |
| 3 | Reference-based analysis of lung single-cell sequencing reveals a transitional profibrotic macrophage Dvir Aran, Agnieszka P. Looney, Leqian Liu et al. · Nature Immunology | 4 Jan 2019 | 5,566 |
| 4 | Repurposing CRISPR as an RNA-Guided Platform for Sequence-Specific Control of Gene Expression Lei Stanley Qi, Matthew H. Larson, Luke A. Gilbert et al. · Cell | Feb 2013 | 5,298 |
| 5 | A SARS-CoV-2 protein interaction map reveals targets for drug repurposing David Ezra Gordon et al. · Nature | 30 Apr 2020 | 4,901 |
| 6 | Genome-Wide Analysis in Vivo of Translation with Nucleotide Resolution Using Ribosome Profiling Nicholas T. Ingolia, Sina Ghaemmaghami, J. Robert Newman et al. · Science | 12 Feb 2009 | 4,184 |
| 7 | Mammalian microRNAs predominantly act to decrease target mRNA levels Huili Guo, Nicholas T. Ingolia, Jonathan S. Weissman et al. · Nature | Aug 2010 | 3,989 |
| 8 | CRISPR-Mediated Modular RNA-Guided Regulation of Transcription in Eukaryotes Luke A. Gilbert, Matthew H. Larson, Leonardo Morsut et al. · Cell | Jul 2013 | 3,892 |
| 9 | PLUMED 2: New feathers for an old bird Gareth A. Tribello, Massimiliano Bonomi, Davide Branduardi et al. · Computer Physics Communications | 29 Sep 2013 | 3,834 |
| 10 | Machine Learning in Medicine Rahul C. Deo · Circulation | 16 Nov 2015 | 3,562 |
| 11 | Evidence for wavelike energy transfer through quantum coherence in photosynthetic systems Gregory S. Engel, Tessa R. Calhoun, Elizabeth L. Read et al. · Nature | Apr 2007 | 3,368 |
| 12 | Genome-Scale CRISPR-Mediated Control of Gene Repression and Activation Luke A. Gilbert, Max A. Horlbeck, Britt Adamson et al. · Cell | Oct 2014 | 2,951 |
| 13 | Production of the antimalarial drug precursor artemisinic acid in engineered yeast Dae‐Kyun Ro, Eric M. Paradise, Mario Ouellet et al. · Nature | 13 Apr 2006 | 2,875 |
| 14 | Guidelines for the use and interpretation of assays for monitoring autophagy (4th edition) 1 Daniel J. Klionsky et al. · Autophagy | 2 Jan 2021 | 2,743 |
| 15 | The Human Cell Atlas Aviv Regev et al. · eLife | 5 Dec 2017 | 2,441 |
| 16 | Statistical potential for assessment and prediction of protein structures Min‐Yi Shen, Andrej Šali · Protein Science | 31 Oct 2006 | 2,419 |
| 17 | Sequencing of 53,831 diverse genomes from the NHLBI TOPMed Program Daniel Taliun et al. · Nature | 10 Feb 2021 | 2,381 |
| 18 | Ribosome Profiling of Mouse Embryonic Stem Cells Reveals the Complexity and Dynamics of Mammalian Proteomes Nicholas T. Ingolia, Liana F. Lareau, Jonathan S. Weissman · Cell | Nov 2011 | 2,351 |
| 19 | Ribosomally synthesized and post-translationally modified peptide natural products: overview and recommendations for a universal nomenclature Paul G. Arnison et al. · Natural Product Reports | 20 Nov 2012 | 2,136 |
| 20 | CRISPR–Cas9 Structures and Mechanisms Fuguo Jiang, Jennifer A. Doudna · Annual Review of Biophysics | 4 Apr 2017 | 2,120 |
| 21 | Dynamic Imaging of Genomic Loci in Living Human Cells by an Optimized CRISPR/Cas System Baohui Chen, Luke A. Gilbert, Beth A. Cimini et al. · Cell | Dec 2013 | 2,115 |
| 22 | antiSMASH: rapid identification, annotation and analysis of secondary metabolite biosynthesis gene clusters in bacterial and fungal genome sequences Marnix H. Medema, Kai Blin, Peter Cimermančič et al. · Nucleic Acids Research | 14 Jun 2011 | 2,083 |
| 23 | Perturb-Seq: Dissecting Molecular Circuits with Scalable Single-Cell RNA Profiling of Pooled Genetic Screens Atray C. Dixit, Oren Parnas, Biyu Li et al. · Cell | Dec 2016 | 2,024 |
| 24 | antiSMASH 3.0—a comprehensive resource for the genome mining of biosynthetic gene clusters Tilmann Weber, Kai Blin, Srikanth Duddela et al. · Nucleic Acids Research | 6 May 2015 | 1,937 |
| 25 | Protein Structure Modeling with MODELLER Narayanan Eswar, David Eramian, Ben Webb et al. · Methods in molecular biology | 2008 | 1,841 |
| 26 | A Protein-Tagging System for Signal Amplification in Gene Expression and Fluorescence Imaging Marvin E. Tanenbaum, Luke A. Gilbert, Lei Stanley Qi et al. · Cell | Oct 2014 | 1,683 |
| 27 | The Role of Endoplasmic Reticulum Stress in Human Pathology Scott A. Oakes, Feroz R. Papa · Annual Review of Pathology Mechanisms of Disease | 11 Nov 2014 | 1,651 |
| 28 | Single-cell proteomic analysis of S. cerevisiae reveals the architecture of biological noise J. Robert Newman, Sina Ghaemmaghami, Jan Ihmels et al. · Nature | 14 May 2006 | 1,590 |
| 29 | A unified catalog of 204,938 reference genomes from the human gut microbiome Alexandre Almeida, Stephen Nayfach, Miguel A. Boland et al. · Nature Biotechnology | 20 Jul 2020 | 1,527 |
| 30 | Analysis of immune-related loci identifies 48 new susceptibility variants for multiple sclerosis Ashley Harris Beecham et al. · Nature Genetics | 29 Sep 2013 | 1,466 |
| 31 | A gut bacterial pathway metabolizes aromatic amino acids into nine circulating metabolites Dylan Dodd, Matthew H. Spitzer, William Van Treuren et al. · Nature | Nov 2017 | 1,464 |
| 32 | Quantifying Absolute Protein Synthesis Rates Reveals Principles Underlying Allocation of Cellular Resources Gene‐Wei Li, David H. Burkhardt, Carol A. Gross et al. · Cell | Apr 2014 | 1,401 |
| 33 | The ribosome profiling strategy for monitoring translation in vivo by deep sequencing of ribosome-protected mRNA fragments Nicholas T. Ingolia, Gloria Ann Brar, Silvi Rouskin et al. · Nature Protocols | 26 Jul 2012 | 1,397 |
| 34 | Markov models of molecular kinetics: Generation and validation Jan-Hendrik Prinz, Hao Wu, Marco Sarich et al. · The Journal of Chemical Physics | 4 May 2011 | 1,378 |
| 35 | Decay of Endoplasmic Reticulum-Localized mRNAs During the Unfolded Protein Response Julie Hollien, Jonathan S. Weissman · Science | 6 Jul 2006 | 1,352 |
| 36 | A Multiplexed Single-Cell CRISPR Screening Platform Enables Systematic Dissection of the Unfolded Protein Response Britt Adamson, Thomas M. Norman, Marco M. Jost et al. · Cell | Dec 2016 | 1,351 |
| 37 | Promoting transparency and reproducibility in enhanced molecular simulations Massimiliano Bonomi et al. · Nature Methods | 30 Jul 2019 | 1,333 |
| 38 | Structures of Cas9 Endonucleases Reveal RNA-Mediated Conformational Activation Martin Jínek, Fuguo Jiang, David Ward Taylor et al. · Science | 6 Feb 2014 | 1,302 |
| 39 | CRISPR interference (CRISPRi) for sequence-specific control of gene expression Matthew H. Larson, Luke A. Gilbert, Xiaowo Wang et al. · Nature Protocols | 17 Oct 2013 | 1,283 |
| 40 | Synthetic protein scaffolds provide modular control over metabolic flux John E. Dueber, Gabriel C. Wu, G. Reza Malmirchegini et al. · Nature Biotechnology | Aug 2009 | 1,266 |
| 41 | Two-dimensional spectroscopy of electronic couplings in photosynthesis Tobias Brixner, Jens Stenger, Harsha M. Vaswani et al. · Nature | Mar 2005 | 1,255 |
| 42 | Interactions between genetic, lifestyle and environmental risk factors for multiple sclerosis Tomas P Olsson, Lisa F. Barcellos, Lars S. Alfredsson · Nature Reviews Neurology | 9 Dec 2016 | 1,211 |
| 43 | The promise and challenge of therapeutic genome editing Jennifer A. Doudna · Nature | 12 Feb 2020 | 1,168 |
| 44 | The Global Phosphorylation Landscape of SARS-CoV-2 Infection Mehdi Bouhaddou et al. · Cell | 28 Jun 2020 | 1,158 |
| 45 | Phenomapping for Novel Classification of Heart Failure With Preserved Ejection Fraction Sanjiv Jayendra Shah, Daniel H. Katz, Senthil Selvaraj et al. · Circulation | 14 Nov 2014 | 1,154 |
| 46 | The genome of the blood fluke Schistosoma mansoni Matthew Berriman et al. · Nature | Jul 2009 | 1,096 |
| 47 | ModBase, a database of annotated comparative protein structure models, and associated resources Ursula Pieper, Benjamin Webb, David T. Barkan et al. · Nucleic Acids Research | 19 Nov 2010 | 1,094 |
| 48 | The molecular architecture of the nuclear pore complex Frank Alber, Svetlana Dokudovskaya, Liesbeth M. Veenhoff et al. · Nature | 29 Nov 2007 | 1,092 |
| 49 | CRISPR technology: A decade of genome editing is only the beginning Joy Y. Wang, Jennifer A. Doudna · Science | 19 Jan 2023 | 1,082 |
| 50 | A Highly Characterized Yeast Toolkit for Modular, Multipart Assembly Michael E. Lee, William C. DeLoache, Bernardo Cervantes et al. · ACS Synthetic Biology | 14 Apr 2015 | 1,067 |
Citations are OpenAlex's own counts, from its 2026-09-23 snapshot, so the ranking can differ from Google Scholar or Web of Science. A paper is listed for an institution when any of its authors gave it as an affiliation; retracted papers and papers whose citation count cannot be traced to citing works are left out, and a preprint and the article it became are shown once. Release dates are OpenAlex's: where a source gave only a month or a year, that is what is shown. How the lists are chosen.