| # | Title | Journal | Year | Citations |
|---|
| 1 | PROTEIN MEASUREMENT WITH THE FOLIN PHENOL REAGENT | Journal of Biological Chemistry | 1951 | 284,654 |
| 2 | Protein measurement with the Folin phenol reagent | Journal of Biological Chemistry | 1951 | 242,821 |
| 3 | A rapid and sensitive method for the quantitation of microgram quantities of protein utilizing the principle of protein-dye binding | Analytical Biochemistry | 1976 | 215,588 |
| 4 | Analysis of Relative Gene Expression Data Using Real-Time Quantitative PCR and the 2−ΔΔCT Method | Methods | 2001 | 145,087 |
| 5 | A Rapid and Sensitive Method for the Quantitation of Microgram Quantities of Protein Utilizing the Principle of Protein-Dye Binding | Analytical Biochemistry | 1976 | 92,750 |
| 6 | Basic local alignment search tool | Journal of Molecular Biology | 1990 | 82,180 |
| 7 | Single-step method of RNA isolation by acid guanidinium thiocyanate-phenol-chloroform extraction | Analytical Biochemistry | 1987 | 58,438 |
| 8 | A SIMPLE METHOD FOR THE ISOLATION AND PURIFICATION OF TOTAL LIPIDES FROM ANIMAL TISSUES | Journal of Biological Chemistry | 1957 | 55,906 |
| 9 | Preferred Reporting Items for Systematic Reviews and Meta-Analyses: The PRISMA Statement | PLoS Medicine | 2009 | 50,671 |
| 10 | The Sequence Alignment/Map format and SAMtools | Bioinformatics | 2009 | 49,124 |
| 11 | The neighbor-joining method: a new method for reconstructing phylogenetic trees. | Molecular Biology and Evolution | 1987 | 49,040 |
| 12 | Fiji: an open-source platform for biological-image analysis | Nature Methods | 2012 | 47,818 |
| 13 | NIH Image to ImageJ: 25 years of image analysis | Nature Methods | 2012 | 46,756 |
| 14 | Trimmomatic: a flexible trimmer for Illumina sequence data | Bioinformatics | 2014 | 46,646 |
| 15 | Fast and accurate short read alignment with Burrows–Wheeler transform | Bioinformatics | 2009 | 43,062 |
| 16 | Fast gapped-read alignment with Bowtie 2 | Nature Methods | 2012 | 42,357 |
| 17 | A simple method for the isolation and purification of total lipides from animal tissues | Journal of Biological Chemistry | 1957 | 41,692 |
| 18 | MEGA6: Molecular Evolutionary Genetics Analysis Version 6.0 | Molecular Biology and Evolution | 2013 | 37,728 |
| 19 | MEGA7: Molecular Evolutionary Genetics Analysis Version 7.0 for Bigger Datasets | Molecular Biology and Evolution | 2016 | 36,708 |
| 20 | MEGA5: Molecular Evolutionary Genetics Analysis Using Maximum Likelihood, Evolutionary Distance, and Maximum Parsimony Methods | Molecular Biology and Evolution | 2011 | 36,550 |
| 21 | Detection of specific sequences among DNA fragments separated by gel electrophoresis | Journal of Molecular Biology | 1975 | 35,546 |
| 22 | STAR: ultrafast universal RNA-seq aligner | Bioinformatics | 2013 | 35,376 |
| 23 | Oligomerization and phosphorylation of the Ire1p kinase during intracellular signaling from the endoplasmic reticulum to the nucleus. | EMBO Journal | 1996 | 35,118 |
| 24 | edgeR: a Bioconductor package for differential expression analysis of digital gene expression data | Bioinformatics | 2010 | 32,955 |
| 25 | MAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability | Molecular Biology and Evolution | 2013 | 32,012 |
| 26 | QIIME allows analysis of high-throughput community sequencing data | Nature Methods | 2010 | 31,818 |
| 27 | Single-Step Method of RNA Isolation by Acid Guanidinium Thiocyanate–Phenol–Chloroform Extraction | Analytical Biochemistry | 1987 | 27,111 |
| 28 | RAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies | Bioinformatics | 2014 | 26,744 |
| 29 | MrBayes 3: Bayesian phylogenetic inference under mixed models | Bioinformatics | 2003 | 26,519 |
| 30 | MEGA4: Molecular Evolutionary Genetics Analysis (MEGA) Software Version 4.0 | Molecular Biology and Evolution | 2007 | 25,988 |
| 31 | A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences | Journal of Molecular Evolution | 1980 | 25,715 |
| 32 | MEGA X: Molecular Evolutionary Genetics Analysis across Computing Platforms | Molecular Biology and Evolution | 2018 | 25,630 |
| 33 | Clustal W and Clustal X version 2.0 | Bioinformatics | 2007 | 25,174 |
| 34 | A technique for radiolabeling DNA restriction endonuclease fragments to high specific activity | Analytical Biochemistry | 1983 | 24,572 |
| 35 | Tissue sulfhydryl groups | Archives of Biochemistry and Biophysics | 1959 | 23,177 |
| 36 | Assay for lipid peroxides in animal tissues by thiobarbituric acid reaction | Analytical Biochemistry | 1979 | 22,890 |
| 37 | A simple method for displaying the hydropathic character of a protein | Journal of Molecular Biology | 1982 | 22,171 |
| 38 | clusterProfiler: an R Package for Comparing Biological Themes Among Gene Clusters | OMICS A Journal of Integrative Biology | 2012 | 21,237 |
| 39 | BEDTools: a flexible suite of utilities for comparing genomic features | Bioinformatics | 2010 | 20,367 |
| 40 | SPAdes: A New Genome Assembly Algorithm and Its Applications to Single-Cell Sequencing | Journal of Computational Biology | 2012 | 20,193 |
| 41 | A new generation of Ca2+ indicators with greatly improved fluorescence properties. | Journal of Biological Chemistry | 1985 | 20,165 |
| 42 | MRBAYES: Bayesian inference of phylogenetic trees | Bioinformatics | 2001 | 20,154 |
| 43 | The calculation of small molecular interactions by the differences of separate total energies. Some procedures with reduced errors | Molecular Physics | 1970 | 20,046 |
| 44 | Measurement of protein using bicinchoninic acid | Analytical Biochemistry | 1985 | 19,774 |
| 45 | The Reliability of Molecular Weight Determinations by Dodecyl Sulfate-Polyacrylamide Gel Electrophoresis | Journal of Biological Chemistry | 1969 | 19,178 |
| 46 | MODELTEST: testing the model of DNA substitution | Bioinformatics | 1998 | 18,761 |
| 47 | DADA2: High-resolution sample inference from Illumina amplicon data | Nature Methods | 2016 | 18,691 |
| 48 | Search and clustering orders of magnitude faster than BLAST | Bioinformatics | 2010 | 18,572 |
| 49 | High resolution two-dimensional electrophoresis of proteins. | Journal of Biological Chemistry | 1975 | 17,755 |
| 50 | THE COLORIMETRIC DETERMINATION OF PHOSPHORUS | Journal of Biological Chemistry | 1925 | 17,551 |
| 51 | SciPy 1.0: fundamental algorithms for scientific computing in Python | Nature Methods | 2020 | 17,539 |
| 52 | WGCNA: an R package for weighted correlation network analysis | BMC Bioinformatics | 2008 | 17,294 |
| 53 | HTSeq—a Python framework to work with high-throughput sequencing data | Bioinformatics | 2015 | 17,270 |
| 54 | featureCounts: an efficient general purpose program for assigning sequence reads to genomic features | Bioinformatics | 2014 | 16,839 |
| 55 | A new generation of Ca2+ indicators with greatly improved fluorescence properties | Journal of Biological Chemistry | 1985 | 16,813 |
| 56 | IQ-TREE: A Fast and Effective Stochastic Algorithm for Estimating Maximum-Likelihood Phylogenies | Molecular Biology and Evolution | 2015 | 16,610 |
| 57 | Improved M13 phage cloning vectors and host strains: nucleotide sequences of the M13mpl8 and pUC19 vectors | Gene | 1985 | 16,607 |
| 58 | The reliability of molecular weight determinations by dodecyl sulfate-polyacrylamide gel electrophoresis | Journal of Biological Chemistry | 1969 | 16,592 |
| 59 | HISAT: a fast spliced aligner with low memory requirements | Nature Methods | 2015 | 16,262 |
| 60 | Geneious Basic: An integrated and extendable desktop software platform for the organization and analysis of sequence data | Bioinformatics | 2012 | 16,096 |
| 61 | RSEM: accurate transcript quantification from RNA-Seq data with or without a reference genome | BMC Bioinformatics | 2011 | 16,042 |
| 62 | The Ferric Reducing Ability of Plasma (FRAP) as a Measure of “Antioxidant Power”: The FRAP Assay | Analytical Biochemistry | 1996 | 16,000 |
| 63 | High resolution two-dimensional electrophoresis of proteins | Journal of Biological Chemistry | 1975 | 15,403 |
| 64 | BLAST+: architecture and applications | BMC Bioinformatics | 2009 | 14,935 |
| 65 | RAxML-VI-HPC: maximum likelihood-based phylogenetic analyses with thousands of taxa and mixed models | Bioinformatics | 2006 | 14,675 |
| 66 | Glutathione S-Transferases | Journal of Biological Chemistry | 1974 | 14,618 |
| 67 | GENEPOP (Version 1.2): Population Genetics Software for Exact Tests and Ecumenicism | Journal of Heredity | 1995 | 14,222 |
| 68 | DETERMINATION OF SERUM PROTEINS BY MEANS OF THE BIURET REACTION | Journal of Biological Chemistry | 1949 | 14,083 |
| 69 | The PRISMA Statement for Reporting Systematic Reviews and Meta-Analyses of Studies That Evaluate Health Care Interventions: Explanation and Elaboration | PLoS Medicine | 2009 | 13,772 |
| 70 | DnaSP v5: a software for comprehensive analysis of DNA polymorphism data | Bioinformatics | 2009 | 13,645 |
| 71 | jModelTest 2: more models, new heuristics and parallel computing | Nature Methods | 2012 | 13,416 |
| 72 | UCHIME improves sensitivity and speed of chimera detection | Bioinformatics | 2011 | 13,241 |
| 73 | Haploview: analysis and visualization of LD and haplotype maps | Bioinformatics | 2005 | 13,223 |
| 74 | UPARSE: highly accurate OTU sequences from microbial amplicon reads | Nature Methods | 2013 | 13,193 |
| 75 | Labeling deoxyribonucleic acid to high specific activity in vitro by nick translation with DNA polymerase I | Journal of Molecular Biology | 1977 | 13,093 |
| 76 | Prokka: rapid prokaryotic genome annotation | Bioinformatics | 2014 | 12,881 |
| 77 | Evolutionary trees from DNA sequences: A maximum likelihood approach | Journal of Molecular Evolution | 1981 | 12,784 |
| 78 | Phosphorus Assay in Column Chromatography | Journal of Biological Chemistry | 1959 | 12,077 |
| 79 | Mapping and quantifying mammalian transcriptomes by RNA-Seq | Nature Methods | 2008 | 12,050 |
| 80 | Comparative Protein Modelling by Satisfaction of Spatial Restraints | Journal of Molecular Biology | 1993 | 11,892 |
| 81 | Tricine-sodium dodecyl sulfate-polyacrylamide gel electrophoresis for the separation of proteins in the range from 1 to 100 kDa | Analytical Biochemistry | 1987 | 11,692 |
| 82 | FLASH: fast length adjustment of short reads to improve genome assemblies | Bioinformatics | 2011 | 11,573 |
| 83 | A procedure for the isolation of deoxyribonucleic acid from micro-organisms | Journal of Molecular Biology | 1961 | 11,512 |
| 84 | A method and server for predicting damaging missense mutations | Nature Methods | 2010 | 11,491 |
| 85 | Predicting transmembrane protein topology with a hidden markov model: application to complete genomes11Edited by F. Cohen | Journal of Molecular Biology | 2001 | 11,404 |
| 86 | Integrative Analysis of Complex Cancer Genomics and Clinical Profiles Using the cBioPortal | Science Signaling | 2013 | 11,344 |
| 87 | The variant call format and VCFtools | Bioinformatics | 2011 | 11,326 |
| 88 | TopHat: discovering splice junctions with RNA-Seq | Bioinformatics | 2009 | 11,265 |
| 89 | PAML 4: Phylogenetic Analysis by Maximum Likelihood | Molecular Biology and Evolution | 2007 | 11,130 |
| 90 | fastp: an ultra-fast all-in-one FASTQ preprocessor | Bioinformatics | 2018 | 11,005 |
| 91 | Superoxide Dismutase | Journal of Biological Chemistry | 1969 | 10,959 |
| 92 | Glutathione S-transferases. The first enzymatic step in mercapturic acid formation | Journal of Biological Chemistry | 1974 | 10,908 |
| 93 | Studies on transformation of Escherichia coli with plasmids | Journal of Molecular Biology | 1983 | 10,861 |
| 94 | Analysis of nitrate, nitrite, and [15N]nitrate in biological fluids | Analytical Biochemistry | 1982 | 10,819 |
| 95 | GenAlEx 6.5: genetic analysis in Excel. Population genetic software for teaching and research—an update | Bioinformatics | 2012 | 10,741 |
| 96 | APE: Analyses of Phylogenetics and Evolution in R language | Bioinformatics | 2004 | 10,601 |
| 97 | MEGA3: Integrated software for Molecular Evolutionary Genetics Analysis and sequence alignment | Briefings in Bioinformatics | 2004 | 10,598 |
| 98 | Blast2GO: a universal tool for annotation, visualization and analysis in functional genomics research | Bioinformatics | 2005 | 10,566 |
| 99 | RNA-Seq: a revolutionary tool for transcriptomics | Nature Reviews Genetics | 2009 | 10,529 |
| 100 | Superoxide dismutase: Improved assays and an assay applicable to acrylamide gels | Analytical Biochemistry | 1971 | 10,405 |
