## Why do we use ontology terms?
diff --git a/content/en/docs/Concepts/classes-and-individuals.md b/content/en/docs/Concepts/classes-and-individuals.md
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+---
+title: "Classes and Individuals"
+linkTitle: "Classes & Individuals"
+weight: 301
+categories: ["overview","help"]
+tags: ["class","individual","instance","ontology","FBbt","term info"]
+description: >
+ The difference between a class (a type of thing) and an individual (a specific
+ instance) in VFB.
+---
+
+VFB describes two kinds of thing, and it helps to know which you are looking at:
+**classes** and **individuals**.
+
+## Classes
+
+A **class** is an ontology term — a general *type* of thing rather than any one
+example of it. "Kenyon cell", "medulla" and "GABAergic neuron" are classes. Each
+class:
+
+- represents a concept, with a definition based on referenced publications;
+- has a label and a set of synonyms;
+- sits in a hierarchy — a specific class such as "MBON01" is a subclass of the
+ more general "mushroom body output neuron", and so on up to "adult neuron";
+- has a persistent, resolvable identifier (for example
+ [FBbt_00100234](https://virtualflybrain.org/reports/FBbt_00100234)).
+
+Most classes in VFB come from the Drosophila Anatomy Ontology (FBbt) for anatomy
+and cell types; genes, developmental stages and biological processes are also
+represented as classes. See [Cell Types](/docs/concepts/cell_types/) for how
+neurons are classified.
+
+## Individuals
+
+An **individual** is a specific *instance* — one concrete example of one or more
+classes. Individuals include:
+
+- a single neuron reconstructed from an EM volume, or one confocal image of an
+ expression pattern;
+- a template brain;
+- a dataset;
+- an scRNAseq cluster;
+- a publication.
+
+An individual is an **instance of** one or more classes: a particular
+reconstructed neuron is an instance of a neuron-type class, which is what tells
+you what type of cell it is. A single individual can be an instance of several
+classes at once.
+
+## Telling them apart on VFB
+
+Both classes and individuals have their own
+[Term Info](/docs/website-features/terminfo/) pages. The `Name` field's tags,
+together with the `Classification` and `Relationships` fields, show how an entity
+is typed and how it relates to the classes above it. As a rough guide, anatomy
+and cell-type **classes** carry ontology identifiers such as `FBbt_…`, while
+**individuals** (images, templates, datasets) usually carry `VFB_…` identifiers.
+
+The distinction matters when [querying](/docs/website-features/queries/): queries
+are specialised by type, so some run on classes (for example *Subclasses of…* or
+*Neurons with some part in…*) and others run on individuals (for example the
+connectivity and similarity queries for a single reconstructed neuron).
diff --git a/content/en/docs/Website Features/queries.md b/content/en/docs/Website Features/queries.md
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+---
+categories: ["overview","help","reference"]
+tags: ["query","term info","connectivity","expression","NBLAST","NeuronBridge","scRNAseq","stocks"]
+title: "Term Info Queries Reference"
+linkTitle: "Queries Reference"
+description: >
+ Every pre-defined query offered in the Term Info pane: which entities show it,
+ what it returns, and what each results column means.
+weight: 203
+---
+
+The [Term Info](/docs/website-features/terminfo/) pane offers a set of ready-made
+**queries** relevant to the currently selected entity. Each query finds related
+entities (neurons, images, datasets, publications, stocks…) or related data
+(connectivity, expression, transcriptomics) and shows them in a sortable,
+filterable results table.
+
+Queries are **specialised by entity type**: the query menu for a brain region is
+not the same as the menu for an individual EM neuron, a driver line, a gene, a
+template or a publication. This page is the complete reference to those queries —
+use it to understand what a query does before running it, and what its results
+columns mean.
+
+## How queries work
+
+- Queries appear as a menu in the Term Info pane, offered according to the
+ **type** of the selected entity — the menu for a brain region differs from that
+ for a neuron, driver line, gene or template. A number badge on each query shows
+ how many results it has for the current term; this can be **0** when the term
+ has no matching results (for example a region with no annotated subclasses or
+ clones).
+
+
+
+- Selecting a query runs it and opens the results in a table. Results can be
+ **filtered** by typing in the top bar and **sorted** by clicking a column
+ header. Clicking a term in the results — the name in the first column, or any
+ highlighted term elsewhere in a row — opens its Term Info. Where images are
+ available, a [thumbnail](/docs/website-features/thumbnails/) is shown and can be
+ clicked to add the image to the 3D viewer; the checkboxes next to the thumbnails
+ let you add or remove several images to/from the viewer at once.
+
+
+
+- The query menu shows a short label with the entity's name filled in, e.g.
+ *"Neurons with some part in medulla"*. In the sections below the entity name is
+ written as *[term]*.
+- **Some individuals inherit their [class's](/docs/concepts/classes-and-individuals/) queries** — but not all. An individual
+ image is offered its parent class's queries only when it is one of these
+ anatomical types: **painted domain, synaptic neuropil (or its domains and
+ subdomains), tract or nerve, split, expression pattern, or muscle**. For those,
+ it shows the queries its class shows, run on the class. Other individuals — in
+ particular individual **cells and neurons** (e.g. EM reconstructions) — do
+ **not** inherit their class's queries; they get only the individual-level
+ queries listed under [Individual neurons & images](#individual-neurons--images).
+
+Each query below lists the columns in its results table; for what those columns
+mean, see [Result columns explained](#result-columns-explained) at the foot of
+this page.
+
+Queries are powered by the open-source [VFBquery](https://github.com/VirtualFlyBrain/VFBquery)
+engine, which is also reachable programmatically — see [APIs](/docs/apis/).
+
+---
+
+## Anatomy: regions, neuropils, tracts, nerves & clones
+
+These queries appear on **anatomical class** pages — brain regions, synaptic
+neuropils, tracts and nerves, clones and other structures. They do **not**
+appear on individual cell types (neurons, glia): see [Neuron types](#neuron-types-classes).
+
+### List all available images of *[term]* {#ListAllAvailableImages}
+All images (individuals) of an anatomical class.
+**Shown on:** anatomy classes.
+**Columns:** Name, Parent Type, Gross Types, Template, Data Source, Dataset, License, Thumbnail.
+
+### Parts of *[term]* {#PartsOf}
+Anatomical sub-parts of the structure (`part_of`).
+**Shown on:** anatomy classes (not individual cells or expression patterns).
+**Columns:** Name, Tags, Template, Imaging Technique, Thumbnail.
+
+### Neurons with some part in *[term]* {#NeuronsPartHere}
+Neuron classes with any part overlapping the region.
+**Shown on:** anatomy / synaptic-neuropil classes (not cells or expression patterns).
+**Columns:** Name, Tags, Template, Imaging Technique, Thumbnail.
+
+### Neurons with synaptic terminals in *[term]* {#NeuronsSynaptic}
+Neuron classes with synaptic terminals (of either polarity) in the region.
+**Shown on:** nervous-system anatomy classes (not cells).
+**Columns:** Name, Tags, Template, Imaging Technique, Thumbnail.
+
+### Neurons with presynaptic terminals in *[term]* {#NeuronsPresynapticHere}
+Neuron classes with **presynaptic** (output) terminals in the region.
+**Shown on:** nervous-system anatomy classes (not cells).
+**Columns:** Name, Tags, Template, Imaging Technique, Thumbnail.
+
+### Neurons with postsynaptic terminals in *[term]* {#NeuronsPostsynapticHere}
+Neuron classes with **postsynaptic** (input) terminals in the region.
+**Shown on:** nervous-system anatomy classes (not cells).
+**Columns:** Name, Tags, Template, Imaging Technique, Thumbnail.
+
+### Images of neurons with some part in *[term]* {#ImagesNeurons}
+Individual neuron **images** (instances) with a part in the region — the image
+counterpart of *Neurons with some part in*.
+**Shown on:** anatomy / synaptic-neuropil classes (not cells).
+**Columns:** Name, Tags, Template, Imaging Technique, Thumbnail.
+
+### Tracts/nerves innervating *[term]* {#TractsNervesInnervatingHere}
+Tracts and nerves that innervate the neuropil.
+**Shown on:** synaptic neuropils and their domains.
+**Columns:** Name, Tags, Template, Imaging Technique, Thumbnail.
+
+### Lineage clones found in *[term]* {#LineageClonesIn}
+Lineage clones overlapping the neuropil.
+**Shown on:** synaptic neuropils and their domains.
+**Columns:** Name, Tags, Template, Imaging Technique, Thumbnail.
+
+### Neurons fasciculating in *[term]* {#NeuronClassesFasciculatingHere}
+Neuron classes that fasciculate with (run along) the tract or nerve.
+**Shown on:** tract / nerve classes.
+**Columns:** Name, Tags, Template, Imaging Technique, Thumbnail.
+
+### Components of *[term]* {#ComponentsOf}
+The component parts of a clone.
+**Shown on:** clone classes.
+**Columns:** Name, Tags, Template, Imaging Technique, Thumbnail.
+
+### Transgene expression in *[term]* {#TransgeneExpressionHere}
+Transgenes/driver lines reported to be expressed in the region or neuron type.
+**Shown on:** nervous-system anatomy classes and neuron types.
+**Columns:** Expression Pattern, Expressed_in, Publications, Tags, Template, Imaging Technique, Thumbnail.
+
+### scRNAseq data for *[term]* {#anatScRNAseqQuery}
+Single-cell transcriptomics clusters and datasets for the anatomical region.
+**Shown on:** anatomy classes that have scRNAseq data.
+**Columns:** Cluster, Cell type, Dataset, Publications, Tags.
+
+---
+
+## Neuron types (classes)
+
+Neuron classes are also anatomical classes, so they additionally offer
+[List all available images](#ListAllAvailableImages),
+[Subclasses of](#SubclassesOf),
+[Transgene expression in](#TransgeneExpressionHere) and, where data exists,
+[scRNAseq data for](#anatScRNAseqQuery).
+
+### Downstream connectivity classes for *[term]* {#DownstreamClassConnectivity}
+Neuron classes that receive synapses **from** this neuron class, aggregated over
+the ontology hierarchy.
+**Shown on:** neuron classes.
+**Columns:** Upstream Class, Downstream Class, Total N, Connected N, % Connected, Pairwise Connections, Total Weight, Avg Weight.
+
+### Upstream connectivity classes for *[term]* {#UpstreamClassConnectivity}
+Neuron classes that send synapses **to** this neuron class, aggregated over the
+ontology hierarchy.
+**Shown on:** neuron classes.
+**Columns:** Upstream Class, Downstream Class, Total N, Connected N, % Connected, Pairwise Connections, Total Weight, Avg Weight.
+
+### Splits targeting *[term]* {#SplitsTargeting}
+Split-GAL4 driver lines that specifically target this neuron type.
+**Shown on:** neuron classes.
+**Columns:** Name, Tags, Template, Imaging Technique, Thumbnail.
+
+---
+
+## Split drivers, neuroblasts & process terms
+
+### Neurons targeted by *[term]* {#TargetNeurons}
+Neuron types targeted by a split-GAL4 driver line.
+**Shown on:** split (intersectional driver) classes.
+**Columns:** Name, Tags, Template, Imaging Technique, Thumbnail.
+
+### Images of neurons that develop from *[term]* {#ImagesThatDevelopFrom}
+Individual neuron images that develop from a neuroblast.
+**Shown on:** neuroblast classes.
+**Columns:** Name, Tags, Template, Imaging Technique, Thumbnail.
+
+### Neurons capable of *[term]* {#NeuronsCapableOf}
+Individual neurons capable of a process — e.g. neurons capable of secreting a
+particular neurotransmitter.
+**Shown on:** neurotransmitter-secretion (GO) process terms.
+**Columns:** Name, Tags, Template, Imaging Technique, Thumbnail.
+
+### Subclasses of *[term]* {#SubclassesOf}
+Direct subclasses of a class.
+**Shown on:** any class that has subclasses.
+**Columns:** Name, Tags, Template, Imaging Technique, Thumbnail.
+
+---
+
+## Individual neurons & images
+
+These appear on **individual** neuron pages (e.g. EM reconstructions and
+registered LM images), depending on the data each neuron carries.
+
+### Neurons connected to *[term]* {#NeuronNeuronConnectivityQuery}
+Synaptic partners of this neuron, with per-partner input and output synapse
+counts.
+**Shown on:** individual neurons with connectivity data.
+**Columns:** Partner Neuron, Type, Outputs, Inputs, Template, Imaging Technique, Tags, Thumbnail.
+
+### Connectivity per region for *[term]* {#NeuronRegionConnectivityQuery}
+This neuron's synaptic terminal counts broken down by brain region.
+**Shown on:** individual neurons with regional connectivity data.
+**Columns:** Brain Region, Type, Presynaptic Terminals (T-bars), Downstream Synapses, Postsynaptic Terminals, Template, Imaging Technique, Tags, Thumbnail.
+
+Individual neurons with connectivity data can also be added to the
+[Circuit Browser](/docs/website-features/circuitbrowser/) to explore connectivity
+interactively.
+
+---
+
+## Similarity queries
+
+**NBLAST** and **NeuronBridge** find entities with similar morphology. Which of
+these is offered depends on the similarity data a neuron or expression pattern
+carries. All are sorted by score, best match first.
+
+### Neurons with similar morphology to *[term]* [NBLAST] {#SimilarMorphologyTo}
+NBLAST matches to an individual neuron.
+**Shown on:** individual neurons with NBLAST data.
+**Columns:** Score, Name, Tags, Type, Source, Source ID, Template, Imaging Technique, Thumbnail.
+
+### Expression patterns with similar morphology to part of *[term]* [NBLAST] {#SimilarMorphologyToPartOf}
+NBLAST matches from a neuron to expression patterns.
+**Shown on:** individual neurons with expression-pattern NBLAST data.
+**Columns:** Expression Pattern, NBLAST Score, Tags, Template, Imaging Technique, Thumbnail.
+
+### Neurons with similar morphology to part of *[term]* [NBLAST] {#SimilarMorphologyToPartOfexp}
+The reverse: NBLAST matches from an expression pattern to neurons.
+**Shown on:** individual expression patterns / fragments with NBLAST data.
+**Columns:** Neuron, NBLAST Score, Tags, Template, Imaging Technique, Thumbnail.
+
+### Expression patterns matching *[term]* [NeuronBridge] {#SimilarMorphologyToNB}
+NeuronBridge matches from a neuron to driver/expression images.
+**Shown on:** individual neurons with NeuronBridge data.
+**Columns:** Match, NB Score, Tags, Template, Imaging Technique, Thumbnail.
+
+### Neurons matching *[term]* [NeuronBridge] {#SimilarMorphologyToNBexp}
+The reverse: NeuronBridge matches from an expression pattern to neurons.
+**Shown on:** individual expression patterns / fragments with NeuronBridge data.
+**Columns:** Match, NB Score, Tags, Type, Template, Imaging Technique, Thumbnail.
+
+### Neurons with similar morphology to your upload *[term]* [NBLAST] {#SimilarMorphologyToUserData}
+NBLAST matches to a neuron **you have uploaded**.
+**Shown on:** user-uploaded neuron data.
+**Columns:** Match, Score.
+
+---
+
+## Expression patterns & driver lines
+
+### Images of fragments of *[term]* {#epFrag}
+Individual expression-pattern **fragment** images belonging to an expression
+pattern.
+**Shown on:** expression-pattern classes.
+**Columns:** Name, Tags, Template, Imaging Technique, Thumbnail.
+
+### Anatomy where *[term]* is expressed {#AnatomyExpressedIn}
+Anatomical classes in which an expression pattern (or fragment) is expressed.
+**Shown on:** expression-pattern and expression-pattern-fragment classes.
+**Columns:** Anatomy, Publications, Tags, Stage, Template, Imaging Technique, Thumbnail.
+
+Expression patterns also offer the reverse similarity queries
+[Neurons with similar morphology to part of](#SimilarMorphologyToPartOfexp)
+[NBLAST] and [Neurons matching](#SimilarMorphologyToNBexp) [NeuronBridge].
+
+---
+
+## Genes
+
+### Clusters expressing *[term]* {#expressionCluster}
+Single-cell transcriptomics clusters that express the gene.
+**Shown on:** gene classes with scRNAseq data.
+**Columns:** Cluster, Cell type, Expression Level, Expression Extent, Tags.
+
+Genes (and other FlyBase features) also offer [Find fly stocks](#FindStocks).
+
+---
+
+## Single-cell transcriptomics
+
+### Genes expressed in *[term]* {#clusterExpression}
+Genes expressed by a scRNAseq cluster, with expression level and extent.
+**Shown on:** scRNAseq clusters.
+**Columns:** Gene, Cell type, Expression Level, Expression Extent, Tags, Function.
+
+### Clusters in dataset *[term]* {#scRNAdatasetData}
+All clusters in a single-cell RNA-seq dataset.
+**Shown on:** scRNAseq datasets.
+**Columns:** Cluster, Cell type, Tags, Publications.
+
+See also [scRNAseq data for [term]](#anatScRNAseqQuery) on anatomy pages.
+
+---
+
+## Templates
+
+Template brains are the reference spaces images are aligned to.
+
+### Painted domains for *[term]* {#PaintedDomains}
+The painted anatomical domains defined in the template.
+**Shown on:** template brains.
+**Columns:** Domain, Type, Definition, Thumbnail.
+
+### All images aligned to *[term]* {#AllAlignedImages}
+Every image registered to the template's coordinate space.
+**Shown on:** template brains.
+**Columns:** Image, Tags, Type, Template, Imaging Technique, Thumbnail.
+
+### Datasets aligned to *[term]* {#AlignedDatasets}
+Datasets with images aligned to the template.
+**Shown on:** template brains.
+**Columns:** Dataset, Reference, Tags, License, Template, Imaging Technique, Thumbnail, Image_count.
+
+### All available datasets {#AllDatasets}
+Every dataset available in VFB (offered from any template page).
+**Shown on:** template brains.
+**Columns:** Dataset, Reference, Tags, License, Template, Imaging Technique, Thumbnail, Image_count.
+
+---
+
+## Datasets
+
+### Images in dataset *[term]* {#DatasetImages}
+All images belonging to a dataset.
+**Shown on:** datasets that contain images.
+**Columns:** Image, Tags, Type, Template, Imaging Technique, Thumbnail.
+
+scRNAseq datasets also offer [Clusters in dataset](#scRNAdatasetData).
+
+---
+
+## Publications
+
+### Terms referencing *[term]* {#TermsForPub}
+Entities (terms and images) that cite the publication.
+**Shown on:** publications.
+**Columns:** Term, Reference type, Tags, Type, Template, Imaging Technique, Thumbnail.
+
+---
+
+## FlyBase features & stocks
+
+Available on FlyBase feature pages (genes, alleles, insertions, constructs,
+combinations and stocks).
+
+### Find fly stocks for *[term]* {#FindStocks}
+Available fly stocks for the feature, sourced from FlyBase.
+**Shown on:** FlyBase features (`FBgn`, `FBal`, `FBti`, `FBtp`, `FBco`, `FBst`) and
+expression patterns driven by them.
+**Columns:** Stock ID, Stock Number, Genotype, Collection.
+
+### Find publications for *[term]* {#FindComboPublications}
+Publications for a split-GAL4 combination, from FlyBase.
+**Shown on:** FlyBase combination (`FBco`) features.
+**Columns:** FBrf, Title, Year, Reference, Type, DOI, PMID, PMCID.
+
+---
+
+## Result columns explained
+
+The header shown above each results column is a human-readable **title**, not the
+underlying data key. The **same kind of data can appear under slightly different
+headers depending on the query** — for example the classification badges are
+headed *Tags* in most tables but *Gross Types* in "List all available images".
+As the site is progressively updated some tables may still show older header
+names (for example *Gross Type* for *Tags*, or *Template Space* for *Template*);
+the equivalences are noted below.
+
+### Columns in most tables
+
+| Header (and variants) | Meaning |
+|---|---|
+| **Name** — also *Image*, *Anatomy*, *Cluster*, *Gene*, *Term*, *Neuron*, *Domain*, *Dataset*, *Expression Pattern*, *Match* | The result's name, linked to its Term Info. The exact header names what the query returns. |
+| **Tags** — also *Gross Types*, *Gross Type* | Classification badges for the result (e.g. Adult, Neuron, Nervous_system). |
+| **Type** / **Parent Type** | The class the result is an instance of / its parent class. |
+| **Thumbnail** — also *Images* | Preview image(s) of the result, aligned to a template. Click to add to the 3D viewer. |
+| **Template** — also *Template Space* | The template brain space the image is registered/aligned to. |
+| **Imaging Technique** | The imaging or reconstruction technique used (e.g. confocal microscopy, EM). |
+| **Publications** — also *Reference* | The publication(s) that are the source of, or reference for, the result. |
+| **Data Source** | The database/dataset the record was drawn from. |
+| **Dataset** | The dataset the result belongs to. |
+| **License** | The data-usage licence the result is released under. |
+| **Stage** | The developmental stage(s) the result applies to. |
+| **Definition** | A short definition of the result. |
+
+### Similarity columns
+
+| Header | Meaning |
+|---|---|
+| **Score** / **NBLAST Score** / **NB Score** | Morphological-similarity score to the queried entity; higher = more similar. Tables are sorted by score, highest first. |
+
+**NBLAST** scores the 3D shape/branching similarity between two neurons.
+**NeuronBridge** finds cross-modality shape matches between light-microscopy
+(driver/expression) images and EM neurons. See [Similarity queries](#similarity-queries).
+
+### Connectivity columns
+
+Per-partner and per-region (individual neurons):
+
+| Header | Meaning |
+|---|---|
+| **Partner Neuron** | The synaptic partner of the queried neuron. |
+| **Outputs** | Synapses **from** the queried neuron **to** the partner (queried neuron presynaptic). |
+| **Inputs** | Synapses **from** the partner **to** the queried neuron (partner presynaptic). |
+| **Brain Region** | The region in which the counts are reported. |
+| **Presynaptic Terminals (T-bars)** | The queried neuron's presynaptic (output) terminals in that region. |
+| **Downstream Synapses** | Downstream postsynaptic terminals on partner neurons in that region (one presynaptic terminal can connect to several). |
+| **Postsynaptic Terminals** | The queried neuron's postsynaptic (input) terminals in that region. |
+
+Per-class (neuron classes) — each row is a *presynaptic class → postsynaptic
+class* pair, rolled up over the ontology's subclass hierarchy:
+
+| Header | Meaning |
+|---|---|
+| **Upstream Class** | The presynaptic (source) neuron class. |
+| **Downstream Class** | The postsynaptic (target) neuron class. |
+| **Total N** | Total neurons in the presynaptic side — i.e. the **Upstream Class** — whether connected or not (the denominator). For *downstream* connectivity this is the queried class's own instance count; for *upstream* connectivity it is the partner class's instance count. |
+| **Connected N** | How many of those Upstream-Class neurons actually take part in the connection. |
+| **% Connected** | *Connected N* ÷ *Total N* × 100 (i.e. the proportion of the Upstream Class that is connected). |
+| **Pairwise Connections** | Number of distinct neuron-to-neuron connection pairs between the two classes. |
+| **Total Weight** | Total synapses summed over those pairwise connections. |
+| **Avg Weight** | Mean synapses per connected pair (*Total Weight* ÷ *Pairwise Connections*). |
+
+> Because class-level rows roll up over the subclass hierarchy, a single raw
+> connection can appear in more than one row, so per-row counts do not sum to a
+> simple grand total.
+
+### Expression & transcriptomics columns
+
+| Header | Meaning |
+|---|---|
+| **Expressed_in** | The anatomical structure(s) where a reported transgene is expressed. |
+| **Expression Level** | Relative/mean expression magnitude of a gene in a cluster (scale is dataset-defined). |
+| **Expression Extent** | Proportion of cells in a cluster that express the gene. |
+| **Function** | Functional category labels for a gene (e.g. neurotransmitter/receptor roles). |
+| **Cell type** | The anatomy / cell type a cluster is "composed primarily of". |
+
+A **cluster** is a group of single cells with similar transcriptomes identified
+in a single-cell RNA-seq (scRNAseq) dataset, taken to represent one cell type.
+
+### Publication & stock columns
+
+| Header | Meaning |
+|---|---|
+| **Reference type** | How a term cites a publication: *Reference*, *Expression*, or both. |
+| **Stock ID** | VFB/FlyBase identifier of a fly stock. |
+| **Stock Number** | The stock-centre catalogue number used to order the stock. |
+| **Genotype** | The full genotype of the stock. |
+| **Collection** | The stock collection/centre that holds the stock (e.g. Bloomington). |
+| **FBrf** | FlyBase reference identifier (`FBrf…`) of a publication. |
+| **Title** / **Year** / **Type** | Title, year and type (paper, review…) of a publication. |
+| **DOI** / **PMID** / **PMCID** | External publication identifiers. |
+
+---
+
+## For developers
+
+The queries above are defined and executed by the
+[VFBquery](https://github.com/VirtualFlyBrain/VFBquery) engine and can be run
+outside the website via its HTTP API and the VFB MCP tools — see
+[APIs](/docs/apis/). The engine decides which queries apply to a given entity
+from that entity's classification (its types/tags), which is why the menu differs
+between entity types. Each query's response carries a `headers` block giving the
+column titles used above.
diff --git a/content/en/docs/Website Features/search_query.md b/content/en/docs/Website Features/search_query.md
index c65b9df..0a6ace6 100644
--- a/content/en/docs/Website Features/search_query.md
+++ b/content/en/docs/Website Features/search_query.md
@@ -32,6 +32,8 @@ The query system can identify neurons innervating any specified neuropil or fasc
Some Term Info panes have pre-defined queries relevant to that term. For example, the Term Info pane for a brain region may have queries for neurons innervating that region and drivers expressing in that region.
+For a complete list of these queries — which entity types show each one, and what every results column means — see the [Term Info Queries Reference](/docs/website-features/queries/).
+
## Query Results
diff --git a/content/en/docs/Website Features/terminfo.md b/content/en/docs/Website Features/terminfo.md
index 96c68a5..3fd1dfb 100644
--- a/content/en/docs/Website Features/terminfo.md
+++ b/content/en/docs/Website Features/terminfo.md
@@ -19,7 +19,7 @@ Each entity in VFB has a unique `Name`. The `Name` field also shows semantic tag
## Ontology terms and Graphs
-`Classification` and `Relationships` fields show parent and related ontology classes for the selected entity. Click to navigate to the Term Info pages for these terms. The `location` and `classification` [Term Context](/docs/website-features/termcontext) graphs show partonomy relationships and parentage of the selected entity, respectively.
+`Classification` and `Relationships` fields show parent and related ontology classes for the selected entity (see [Classes and individuals](/docs/concepts/classes-and-individuals/) for what a class is, and how it differs from an individual instance). Click to navigate to the Term Info pages for these terms. The `location` and `classification` [Term Context](/docs/website-features/termcontext) graphs show partonomy relationships and parentage of the selected entity, respectively.
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