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Everything about Genome
All genetic material of an organism
In the fields of molecular biology and genetics, a genome is all the genetic information of an organism. It consists of nucleotide sequences of DNA. The nuclear genome includes protein-coding genes and non-coding genes, other functional regions of the genome such as regulatory sequences, and often a substantial fraction of junk DNA with no evident function. Almost all eukaryotes have mitochondria and a small mitochondrial genome. Algae and plants also contain chloroplasts with a chloroplast genome. Wikipedia →
🧭 Start here: a 6-step reading path
- Read the overview: GenomeA 5-minute orientation
- Skim a recent paper: The STRING database in 2023: protein–protein association networks and functional enrichment analyses for any sequenced genome of interestInfluential work since 2022
- Pick up a classic book: Advances in geneticsThe most-reprinted book on the subject
- Read the landmark paper: Gene set enrichment analysis: A knowledge-based approach for interpreting genome-wide expression profilesCited 51,066 times
- Go sideways: Repeated sequence (DNA)A closely related topic
- Go sideways: Non-coding DNAA closely related topic
📖 Definitions
Noun The complete genetic information (either DNA or, in some viruses, RNA) of an organism.
🏆 Landmark papers (most cited)
Gene set enrichment analysis: A knowledge-based approach for interpreting genome-wide expression profiles
PLINK: A Tool Set for Whole-Genome Association and Population-Based Linkage Analyses
The Genome Analysis Toolkit: A MapReduce framework for analyzing next-generation DNA sequencing data
SPAdes: A New Genome Assembly Algorithm and Its Applications to Single-Cell Sequencing
RSEM: accurate transcript quantification from RNA-Seq data with or without a reference genome
Ultrafast and memory-efficient alignment of short DNA sequences to the human genome
Full-length transcriptome assembly from RNA-Seq data without a reference genome
Prokka: rapid prokaryotic genome annotation
🆕 Influential since 2022
The STRING database in 2023: protein–protein association networks and functional enrichment analyses for any sequenced genome of interest
The complete sequence of a human genome
GTDB-Tk v2: memory friendly classification with the genome taxonomy database
CheckM2: a rapid, scalable and accurate tool for assessing microbial genome quality using machine learning
MitoHiFi: a python pipeline for mitochondrial genome assembly from PacBio high fidelity reads
📚 Books worth reading
Advances in geneticsJeffrey C. Hall, Jay C. Dunlap · 1996
The GeneSiddhartha Mukherjee, Dennis Boutsikaris · 2016
A Brief History of Everyone Who Ever LivedAdam Rutherford, Siddhartha Mukherjee · 2016
GenomeMatt Ridley · 1999
Genetics and Genomics in MedicineTom Strachan, Judith Goodship · 2014
Molecular BiologyJordanka Zlatanova, Kensal E. van Holde · 2015
Environmental microbiologyEugene L. Madsen · 2008
Welcome to the genomeRob DeSalle, Michael Yudell · 2004
Ranked by number of editions on Open Library, a rough measure of how lasting a book is.
🔗 Related topics
- Repeated sequence (DNA) Repeated sequences (also known as repetitive elements, repeating units or repeats) are short or long patterns that occur in multiple copies throughout…
- Non-coding DNA Non-coding DNA (ncDNA) sequences are components of an organism's DNA that do not encode protein sequences. Some non-coding DNA is transcribed into functional…
- Retrotransposon Retrotransposons (also called class I transposable elements) are mobile elements which move in the host genome by converting their transcribed RNA into…
- Transposable element Transposable elements (TEs), also known as transposons, jumping genes, or mobile genetic elements, are DNA sequences that can change their position, or…
- Exon shuffling Exon shuffling is a molecular mechanism for the formation of new genes. It is a process through which two or more exons from different genes can be brought…
- DNA transposon DNA transposons are DNA sequences, sometimes referred to "jumping genes", that can move and integrate to different locations within the genome. They are…
- Mobile genetic elements Mobile genetic elements (MGEs), sometimes called selfish genetic elements, are a type of genetic material that can move around within a genome, or that…
- Short interspersed nuclear element Short interspersed nuclear elements (SINEs) are non-autonomous, non-coding transposable elements (TEs) that are about 100 to 700 base pairs in length.…