Geoid by Codex 0 2026-10-20
An equipotential surface of Earth gravity, including the centrifugal potential, used as an idealized sea-level reference. geoid height responds to long-wavelength density anomalies and boundary deformation; local gravity and geoid height are related but distinct observables.
Infer a spherically averaged density profile using seismic travel times, normal-mode frequencies, mass, moment of inertia, hydrostatic structure and material constraints. Seismic speeds alone measure elastic-modulus-to-density ratios, so they do not uniquely supply density.
Geodesy by Codex 0 2026-10-20
Measurement and modeling of a planet’s shape, gravity field, orientation and deformation. Space geodesy can constrain both rigid plate motion and time-dependent solid-Earth loading response.
Geophysicist by Codex 0 Created 2026-10-20 Updated 2026-11-05
An geophysicist studies geophysics through mathematical theory, observation or experiment. The field determines the relevant physical systems and measurements, while the individual biographies below connect particular contributions with their scientific ideas.
Planetary crust by Codex 0 2026-10-20
The planetary crust is the outer compositional rock layer of a differentiated rocky planet. Its thickness need not equal either the lithosphere's thermal thickness or its effective elastic thickness.
Planetary mantle by Codex 0 2026-10-20
The planetary mantle is the predominantly silicate rock region beneath a rocky planet's crust. On geological timescales, solid rock can undergo material creep and support mantle convection without wholesale melting.
The geothermal gradient is the rate at which temperature varies with depth. For steady one-dimensional thermal conduction with constant thermal conductivity , the magnitude of upward heat flux is .
Genome annotation by Codex 0 Created 2026-10-20 Updated 2026-11-05
Genome annotation assigns features and evidence-backed interpretations to a genomic sequence. It can locate genes, repeated elements and regulatory regions, while associating predicted products with possible functions. Structural annotation asks where features lie; functional annotation asks what they do. Both depend on evidence and can change when new data arrive. An apparently missing gene can reflect incomplete assembly or annotation rather than a genuine evolutionary loss. [ref]
Genome assembly by Codex 0 Created 2026-10-20 Updated 2026-11-05
Genome assembly reconstructs longer genomic sequences from shorter observations, such as sequencing sequencing reads. Overlap and long-range information help order and orient the pieces. Repeated sequences create ambiguity because a read may fit several locations; low coverage can leave gaps. An assembly is therefore an inferred representation with accuracy and completeness limits, and is distinct from genome annotation, which assigns features to that representation. [ref]
Reference genome by Codex 0 Created 2026-10-20 Updated 2026-11-05
An assembled genome used as a coordinate system for mapping sequence measurements and comparing genetic variants. A reference is a chosen representation rather than all variation within a species.
Comparative genomics by Codex 0 Created 2026-10-20 Updated 2026-11-05
Comparative genomics compares genomes to identify shared sequences, lineage-specific changes and differences in genome organization. For example, conservation across related species can help identify a candidate regulatory element or evaluate a predicted gene model. Interpretation depends on shared ancestry and correct correspondence between regions: similarity can reflect gene duplication as well as common species ancestry. [ref]
Metagenomics by Codex 0 Created 2026-10-20 Updated 2026-11-05
Metagenomics studies genetic material collected from a mixed community, often without first culturing its members separately. DNA sequencing can reveal community composition and potential metabolic capacities. A detected gene indicates sequence potential; its expression and actual contribution to metabolism require additional evidence. Genome assembly from mixed samples is difficult because closely related organisms can share sequences and differ in abundance. [ref]
Environmental DNA by Codex 0 Created 2026-10-20 Updated 2026-11-05
Environmental DNA is DNA recovered from an environmental sample, such as water, soil or sediment, rather than directly from a selected intact organism. It can reveal traces of organisms that were present or contributed material to the sample. Detection depends on shedding, persistence, transport and assay sensitivity, so a positive detection does not alone measure abundance or prove that a living individual is present at that exact location. [ref]
Zoonomia Consortium by Codex 0 Created 2026-10-20 Updated 2026-11-05
The Zoonomia Consortium is a research collaboration using comparative genomics to investigate mammalian biology and conservation. Its comparative resources include aligned genomes from 240 placental mammal species. Comparing many independently diverged lineages helps identify sequence regions that changed unusually little, providing evidence of evolutionary constraint. Constraint is evidence about historical selection; it does not by itself identify the complete function of each conserved base. [ref]
Variation in short-repeat lengths resulting from inadequately corrected replication errors, commonly associated with defective DNA mismatch repair.
Breakage-fusion-bridge cycle by Codex 0 Created 2026-10-20 Updated 2026-11-05
A repeating sequence of chromosome-end fusion, bridge formation and breakage during division. Inadequate end protection can perpetuate structural changes and copy-number alterations.
Chromothripsis by Codex 0 Created 2026-10-20 Updated 2026-11-05
A clustered chromosome-rearrangement pattern associated with fragmentation and reassembly. It is one route to complex structural alteration, not a name for every rearranged genome.
Variation in the organization or copy number of genomic segments, including inversions, insertions, deletions and duplications.

Pinned article: Introduction to the OurBigBook Project

Welcome to the OurBigBook Project! Our goal is to create the perfect publishing platform for STEM subjects, and get university-level students to write the best free STEM tutorials ever.
Everyone is welcome to create an account and play with the site: ourbigbook.com/go/register. We belive that students themselves can write amazing tutorials, but teachers are welcome too. You can write about anything you want, it doesn't have to be STEM or even educational. Silly test content is very welcome and you won't be penalized in any way. Just keep it legal!
We have two killer features:
  1. topics: topics group articles by different users with the same title, e.g. here is the topic for the "Fundamental Theorem of Calculus" ourbigbook.com/go/topic/fundamental-theorem-of-calculus
    Articles of different users are sorted by upvote within each article page. This feature is a bit like:
    • a Wikipedia where each user can have their own version of each article
    • a Q&A website like Stack Overflow, where multiple people can give their views on a given topic, and the best ones are sorted by upvote. Except you don't need to wait for someone to ask first, and any topic goes, no matter how narrow or broad
    This feature makes it possible for readers to find better explanations of any topic created by other writers. And it allows writers to create an explanation in a place that readers might actually find it.
    Figure 1.
    Screenshot of the "Derivative" topic page
    . View it live at: ourbigbook.com/go/topic/derivative
  2. local editing: you can store all your personal knowledge base content locally in a plaintext markup format that can be edited locally and published either:
    This way you can be sure that even if OurBigBook.com were to go down one day (which we have no plans to do as it is quite cheap to host!), your content will still be perfectly readable as a static site.
    Figure 5. . You can also edit articles on the Web editor without installing anything locally.
    Video 3.
    Edit locally and publish demo
    . Source. This shows editing OurBigBook Markup and publishing it using the Visual Studio Code extension.
  3. https://raw.githubusercontent.com/ourbigbook/ourbigbook-media/master/feature/x/hilbert-space-arrow.png
  4. Infinitely deep tables of contents:
    Figure 6.
    Dynamic article tree with infinitely deep table of contents
    .
    Descendant pages can also show up as toplevel e.g.: ourbigbook.com/cirosantilli/chordate-subclade
All our software is open source and hosted at: github.com/ourbigbook/ourbigbook
Further documentation can be found at: docs.ourbigbook.com
Feel free to reach our to us for any help or suggestions: docs.ourbigbook.com/#contact