Check biochemistry, genetics and molecular biology papers: citations, claims and retractions

Analysis of Relative Gene Expression Data Using Real-Time Quantitative PCR and the 2−ΔΔCT Method

Livak, K. J., & Schmittgen, T. D. (2001) · Methods

Molecular Biology Techniques and ApplicationsGene expression and cancer classification

Cited by 180,860

Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2

Love, M. I., Huber, W., & Anders, S. (2014) · Genome Biology

Gene expression and cancer classificationGenomics and Phylogenetic Studies

Cited by 95,106

Gapped BLAST and PSI-BLAST: a new generation of protein database search programs

Altschul, S. (1997) · Nucleic Acids Research

Genomics and Phylogenetic StudiesAlgorithms and Data Compression

Cited by 73,302

DNA sequencing with chain-terminating inhibitors

Sanger, F., Nicklen, S., & Coulson, A. R. (1977) · Proceedings of the National Academy of Sciences

DNA and Nucleic Acid ChemistryGenomics and Phylogenetic Studies

Cited by 68,572

Fiji: an open-source platform for biological-image analysis

Schindelin, J., Arganda-Carreras, I., Frise, E., Kaynig, V., Longair, M., Pietzsch, T., Preibisch, S., Rueden, C., Saalfeld, S., Schmid, B., et al. (2012) · Nature Methods

Cell Image Analysis TechniquesScientific Computing and Data Management

Cited by 66,890

Trimmomatic: a flexible trimmer for Illumina sequence data

Bolger, A. M., Lohse, M., & Usadel, B. (2014) · Bioinformatics

Genomics and Phylogenetic StudiesAlgorithms and Data Compression

Cited by 65,548

NIH Image to ImageJ: 25 years of image analysis

Schneider, C. A., Rasband, W. S., & Eliceiri, K. W. (2012) · Nature Methods

Cell Image Analysis TechniquesScientific Computing and Data Management

Cited by 64,638

CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice

Thompson, J. D., Higgins, D. G., & Gibson, T. J. (1994) · Nucleic Acids Research

Genomics and Phylogenetic StudiesFractal and DNA sequence analysis

Cited by 64,617

The Sequence Alignment/Map format and SAMtools

Li, H., Handsaker, B., Wysoker, A., Fennell, T., Ruan, J., Homer, N., Marth, G., Abecasis, G., Durbin, R., & 1000 Genome Project Data Processing Subgroup (2009) · Bioinformatics

Genomics and Phylogenetic StudiesAlgorithms and Data Compression

Cited by 62,041

Fast and accurate short read alignment with Burrows-Wheeler transform

Li, H., & Durbin, R. (2009) · Bioinformatics

Genomics and Phylogenetic StudiesAlgorithms and Data Compression

Cited by 58,607

Fast gapped-read alignment with Bowtie 2

Langmead, B., & Salzberg, S. L. (2012) · Nature Methods

Genomics and Phylogenetic StudiesAlgorithms and Data Compression

Cited by 56,400

A RAPID METHOD OF TOTAL LIPID EXTRACTION AND PURIFICATION

Bligh, E. G., & Dyer, W. J. (1959) · Canadian Journal of Biochemistry and Physiology

Lipid metabolism and biosynthesisEdible Oils Quality and Analysis

Cited by 54,751

Gene set enrichment analysis: A knowledge-based approach for interpreting genome-wide expression profiles

Subramanian, A., Tamayo, P., Mootha, V. K., Mukherjee, S., Ebert, B. L., Gillette, M. A., Paulovich, A., Pomeroy, S. L., Golub, T. R., Lander, E. S., et al. (2005) · Proceedings of the National Academy of Sciences

Bioinformatics and Genomic NetworksGene expression and cancer classification

Cited by 53,625

Colorimetric Method for Determination of Sugars and Related Substances

DuBois, M., Gilles, K. A., Hamilton, J. K., Rebers, P. A., & Smith, F. (1956) · Analytical Chemistry

Advanced Glycation End Products researchSugarcane Cultivation and Processing

Cited by 52,269

Cytoscape: A software Environment for integrated models of biomolecular interaction networks

Shannon, P., Markiel, A., Ozier, O., Baliga, N. S., Wang, J. T., Ramage, D., Amin, N., Schwikowski, B., & Ideker, T. (2003) · Genome Research

Bioinformatics and Genomic NetworksGene Regulatory Network Analysis

Cited by 51,888

STAR: ultrafast universal RNA-seq aligner

Dobin, A., Davis, C. A., Schlesinger, F., Drenkow, J., Zaleski, C., Jha, S., Batut, P., Chaisson, M., & Gingeras, T. R. (2013) · Bioinformatics

Genomics and Phylogenetic StudiesRNA Research and Splicing

Cited by 51,709

MAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability

Katoh, K., & Standley, D. M. (2013) · Molecular Biology and Evolution

Genomics and Phylogenetic StudiesFractal and DNA sequence analysis

Cited by 46,209

MUSCLE: multiple sequence alignment with high accuracy and high throughput

Edgar, R. C. (2004) · Nucleic Acids Research

Genomics and Phylogenetic StudiesFractal and DNA sequence analysis

Cited by 44,662

Highly accurate protein structure prediction with AlphaFold

Jumper, J., Evans, R., Pritzel, A., Green, T., Figurnov, M., Ronneberger, O., Tunyasuvunakool, K., Bates, R., Žídek, A., Potapenko, A., et al. (2021) · Nature

Protein Structure and DynamicsMachine Learning in Bioinformatics

Cited by 43,764

<tt>edgeR</tt> : a Bioconductor package for differential expression analysis of digital gene expression data

Robinson, M. D., McCarthy, D. J., & Smyth, G. K. (2010) · Bioinformatics

Gene expression and cancer classificationGenomics and Phylogenetic Studies

Cited by 41,364

limma powers differential expression analyses for RNA-sequencing and microarray studies

Ritchie, M. E., Phipson, B., Wu, D., Hu, Y., Law, C. W., Shi, W., & Smyth, G. K. (2015) · Nucleic Acids Research

Gene expression and cancer classificationGenomics and Phylogenetic Studies

Cited by 40,458

KEGG: Kyoto Encyclopedia of Genes and Genomes

Kanehisa, M. (2000) · Nucleic Acids Research

Bioinformatics and Genomic NetworksGenomics and Phylogenetic Studies

Cited by 37,077

clusterProfiler: an R Package for Comparing Biological Themes Among Gene Clusters

Yu, G., Wang, L.-G., Han, Y., & He, Q.-Y. (2012) · OMICS: A Journal of Integrative Biology

Bioinformatics and Genomic NetworksGenomics and Phylogenetic Studies

Cited by 36,259

Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources

Huang, D. W., Sherman, B. T., & Lempicki, R. A. (2009) · Nature Protocols

Bioinformatics and Genomic NetworksBiomedical Text Mining and Ontologies

Cited by 35,890