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Computational biology (Page 1)

data-analytical and theoretical methods, mathematical modeling and computational simulation techniques to the study of biological, behavioral, and social systems

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Papers in this category: 1 751 899 Current Page: 1 / 100
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Cited 9662 times
The functions of animal microRNAs
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1992
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Integrins: Versatility, modulation, and signaling in cell adhesion
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2011
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A framework for variation discovery and genotyping using next-generation DNA sequencing data
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2012
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Comprehensive molecular portraits of human breast tumours
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2001
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Significance analysis of microarrays applied to the ionizing radiation response
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2008
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The RAST Server: Rapid Annotations using Subsystems Technology
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2019
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Comprehensive Integration of Single-Cell Data
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1979
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Mathematical model for studying genetic variation in terms of restriction endonucleases.
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2006
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Greengenes, a Chimera-Checked 16S rRNA Gene Database and Workbench Compatible with ARB
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2002
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The Human Genome Browser at UCSC
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1995
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Quantitative Monitoring of Gene Expression Patterns with a Complementary DNA Microarray
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2010
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A human gut microbial gene catalogue established by metagenomic sequencing
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2007
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Chromatin Modifications and Their Function
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1981
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Identification of common molecular subsequences
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2006
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Principal components analysis corrects for stratification in genome-wide association studies
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2005
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MicroRNA expression profiles classify human cancers
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2015
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BUSCO: assessing genome assembly and annotation completeness with single-copy orthologs
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2013
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Genome engineering using the CRISPR-Cas9 system
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2008
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Velvet: Algorithms for de novo short read assembly using de Bruijn graphs
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2003
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Statistical significance for genomewide studies
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2016
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Analysis of protein-coding genetic variation in 60,706 humans
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2007
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Genome-wide association study of 14,000 cases of seven common diseases and 3,000 shared controls
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2017
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ModelFinder: fast model selection for accurate phylogenetic estimates
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1990
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In vitro selection of RNA molecules that bind specific ligands
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2000
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Selection of Conserved Blocks from Multiple Alignments for Their Use in Phylogenetic Analysis
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2018
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Integrating single-cell transcriptomic data across different conditions, technologies, and species
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2009
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Epithelial-Mesenchymal Transitions in Development and Disease
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2001
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Translating the Histone Code
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2007
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Inference of Macromolecular Assemblies from Crystalline State
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2000
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Analysis of the genome sequence of the flowering plant Arabidopsis thaliana
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2006
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Cd-hit: a fast program for clustering and comparing large sets of protein or nucleotide sequences
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2009
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Circos: An information aesthetic for comparative genomics
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1989
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A system of shuttle vectors and yeast host strains designed for efficient manipulation of DNA in Saccharomyces cerevisiae.
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2000
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Angiogenesis in cancer and other diseases
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2014
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STRING v10: protein–protein interaction networks, integrated over the tree of life
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2000
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EMBOSS: The European Molecular Biology Open Software Suite
DOI: 10.1038/ng1180
2003
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PGC-1α-responsive genes involved in oxidative phosphorylation are coordinately downregulated in human diabetes
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2018
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SWISS-MODEL: homology modelling of protein structures and complexes
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2015
Cited 7961 times
The Phyre2 web portal for protein modeling, prediction and analysis
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2011
Cited 7937 times
SignalP 4.0: discriminating signal peptides from transmembrane regions
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2002
Cited 7888 times
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2009
Cited 7856 times
Enzymatic assembly of DNA molecules up to several hundred kilobases
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2013
Cited 7856 times
RNA-Guided Human Genome Engineering via Cas9
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2013
Cited 7848 times
Signatures of mutational processes in human cancer
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1969
Cited 7797 times
Evolution of Protein Molecules
DOI: 10.1038/nmeth.3176
2014
Cited 7766 times
Fast and sensitive protein alignment using DIAMOND
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2015
Cited 7705 times
Robust enumeration of cell subsets from tissue expression profiles
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2009
Cited 7705 times
MEME SUITE: tools for motif discovery and searching
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2000
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The language of covalent histone modifications
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1997
Cited 7666 times
tRNAscan-SE: A Program for Improved Detection of Transfer RNA Genes in Genomic Sequence
DOI: 10.1186/gb-2003-4-5-p3
2003
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DAVID: Database for Annotation, Visualization, and Integrated Discovery
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2010
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Prodigal: prokaryotic gene recognition and translation initiation site identification
DOI: 10.1038/nbt.3122
2015
Cited 7488 times
StringTie enables improved reconstruction of a transcriptome from RNA-seq reads
DOI: 10.1126/science.abb2507
2020
Cited 7389 times
Cryo-EM structure of the 2019-nCoV spike in the prefusion conformation
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2009
Cited 7353 times
Finding the missing heritability of complex diseases
DOI: 10.1093/bioinformatics/btp348
2009
Cited 7321 times
trimAl: a tool for automated alignment trimming in large-scale phylogenetic analyses
DOI: 10.1101/gr.082701.108
2008
Cited 7304 times
Most mammalian mRNAs are conserved targets of microRNAs
DOI: 10.1101/gr.229202
2002
Cited 7273 times
<tt>BLAT</tt>—The <tt>BLAST</tt>-Like Alignment Tool
DOI: 10.1006/jmbi.1990.9999
1990
Cited 7212 times
Basic Local Alignment Search Tool
DOI: 10.1016/s0092-8674(00)81871-1
1997
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p53, the Cellular Gatekeeper for Growth and Division
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2019
Cited 7202 times
Metascape provides a biologist-oriented resource for the analysis of systems-level datasets
DOI: 10.1093/bioinformatics/bty191
2018
Cited 7192 times
Minimap2: pairwise alignment for nucleotide sequences
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1988
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The Steroid and Thyroid Hormone Receptor Superfamily
DOI: 10.1186/1471-2105-14-7
2013
Cited 7176 times
GSVA: gene set variation analysis for microarray and RNA-Seq data
DOI: 10.1016/j.cels.2015.12.004
2015
Cited 7131 times
The Molecular Signatures Database Hallmark Gene Set Collection
DOI: 10.1126/science.1181369
2009
Cited 7124 times
Comprehensive Mapping of Long-Range Interactions Reveals Folding Principles of the Human Genome
DOI: 10.1126/science.1075762
2002
Cited 7099 times
The Protein Kinase Complement of the Human Genome
DOI: 10.1038/nature11632
2012
Cited 7099 times
An integrated map of genetic variation from 1,092 human genomes
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1975
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Methods for detecting carcinogens and mutagens with the salmonella/mammalian-microsome mutagenicity test
DOI: 10.1093/nar/gks596
2012
Cited 7029 times
Primer3—new capabilities and interfaces
DOI: 10.1038/nature09534
2010
Cited 7011 times
A map of human genome variation from population-scale sequencing
DOI: 10.1038/nature03959
2005
Cited 6965 times
Genome sequencing in microfabricated high-density picolitre reactors
DOI: 10.1073/pnas.0804549105
2008
Cited 6937 times
Circulating microRNAs as stable blood-based markers for cancer detection
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2004
Cited 6931 times
Network biology: understanding the cell's functional organization
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2013
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Predictive functional profiling of microbial communities using 16S rRNA marker gene sequences
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2017
Cited 6894 times
Salmon provides fast and bias-aware quantification of transcript expression
DOI: 10.1111/j.2041-210x.2011.00169.x
2011
Cited 6859 times
phytools: an R package for phylogenetic comparative biology (and other things)
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2006
Cited 6792 times
MicroRNA signatures in human cancers
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2002
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The Pfam protein families database.
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2016
Cited 6759 times
Near-optimal probabilistic RNA-seq quantification
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2000
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The biochemistry of apoptosis
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1997
Cited 6747 times
The Complete Genome Sequence of <i>Escherichia coli</i> K-12
DOI: 10.1038/ismej.2012.8
2012
Cited 6733 times
Ultra-high-throughput microbial community analysis on the Illumina HiSeq and MiSeq platforms
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2008
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Comprehensive genomic characterization defines human glioblastoma genes and core pathways
DOI: 10.1093/nar/gks1193
2012
Cited 6675 times
NCBI GEO: archive for functional genomics data sets—update
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2010
Cited 6658 times
Global patterns of 16S rRNA diversity at a depth of millions of sequences per sample
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2015
Cited 6656 times
CheckM: assessing the quality of microbial genomes recovered from isolates, single cells, and metagenomes
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2018
Cited 6635 times
Minimal information for studies of extracellular vesicles 2018 (MISEV2018): a position statement of the International Society for Extracellular Vesicles and update of the MISEV2014 guidelines
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2002
Cited 6625 times
Relative expression software tool (REST(C)) for group-wise comparison and statistical analysis of relative expression results in real-time PCR
DOI: 10.1093/nar/gkw377
2016
Cited 6621 times
Enrichr: a comprehensive gene set enrichment analysis web server 2016 update
DOI: 10.1007/bf02712670
1983
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A plant DNA minipreparation: Version II
DOI: 10.1093/nar/27.2.573
1999
Cited 6559 times
Tandem repeats finder: a program to analyze DNA sequences
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2006
Cited 6554 times
Construction of <i>Escherichia coli</i> K‐12 in‐frame, single‐gene knockout mutants: the Keio collection
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1995
Cited 6546 times
The nuclear receptor superfamily: The second decade
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2013
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The Genotype-Tissue Expression (GTEx) project
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2002
Cited 6475 times
Initial sequencing and comparative analysis of the mouse genome
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2017
Cited 6457 times
GEPIA: a web server for cancer and normal gene expression profiling and interactive analyses
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1987
Cited 6452 times
MAPMAKER: An interactive computer package for constructing primary genetic linkage maps of experimental and natural populations
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2013
Cited 6446 times
De novo transcript sequence reconstruction from RNA-seq using the Trinity platform for reference generation and analysis
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1982
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Introduction to Quantitative Genetics.
Papers in this category: 1 751 899 Current Page: 1 / 100