Guides

How to use the DANIO-CODE track hub on the UCSC genome browser
How to download the data from the DANIO-CODE DCC
How to upload data and annotations

Example annotation
Example csv file

How to use the DANIO-CODE track hub on the UCSC genome browser

1. Connect the genome browser to the track hub

Load the UCSC genome browser with DANIO-CODE track hub using one of the following links:
- danRer10 version
- danRer11 version

2. Add a track to the genome browser

Click on the desired assay type underneath the tracks
Click on the assay type name again, to get to the track settings
Select the desired tracks, e.g. based on developmental stage, by ticking the respective box
Click on submit to update the genome browser tracks

Track hub organisation

Tracks are grouped together based on assay. When possible, regions of enrichment are generated and showed (ChIP-seq and ATAC-seq peaks, CAGE-seq tag clusters and methylation level of cytosines in each context for BS-seq).

Inside assay type composites, the tracks are organised in subgroups based on developmental stages. This enables all tracks from the same stages to be shown in bulk. Tracks are by default ordered based on developmental time course. BS-seq and ChIP-seq have additional grouping, corresponding to cytosine context and ChIP-seq target respectively.

The tracks are named and labeled according to their respective DANIO-CODE DCC sequencing id. The long label shown above the track in the browser represent the developmental stage, group which generated the data, tissue, and geo/sra reference number. Missing information are represented by `nan`. Futher information about how the tracks were generated can be found on each composite page.

How to download the data from the DANIO-CODE DCC

There are two different data types you can download, annotation and sequencing data.

The annotation data are provided as csv files, which follow the terms of the annotation system.

You can either download it using the data export tool and clicking "Download annotation" or from the details page of a series.

The sequencing/processed files can be downloaded either using the data export tool, the individual download buttons on the series details page or via the URLs provided in the annotation csv files.

How to upload data and annotations

Video Tutorials

CSV Interface

Web Form Interface

Series

The title of the series
The series type, i.e. if the series is a case-control or a survey study
A short description of the series, similar to an abstract
If the data is public

optional:

The DOI to a publication containing this series, if the series was part of a scientific paper.
The GEO ID, if the series was uploaded to GEO

Biosample

The following information is needed for each biosample and its replicates

The lab which handled the biosamples
The genetic background of the Zebrafish (the backgrounds are given as a list, see appendix)
The type of the sample, i.e. does it consist of the whole organism, a specific tissue (the anatomical term of which also has to be specified), stem cells or cell line (the specific cell line type has to be specified as well)
If the sample type is whole organism or tissue the developmental stage has to be stated (list of controlled vocabulary terms)
If the sample type is whole organism or tissue the hours post fertilization has to be given
If the sample type is tissue, the anatomical term describing the sample has to be given
If it is a case control study, the control biosample and its replicates (for anntotation uploads using the web interface the first group is always considered as the control)

optional:

The description of the mutation, e.g. the alleles.
The treatment applied on the zebrafish
The source of zebrafish, e.g. a zebrafish distribution center
The sex of the sample

Assay

The following information is needed for each assay.

The lab which applied the assay to the biosample.
The specific assay type (given as a list of possible techniques, see appendix).
If the technique uses a specific target, e.g. a protein or a Histone modification, this target is also needed.
For RNA-based techniques, information of the library preparation e.g., poly(A)+, poly(A)-, rRNA depletion is also needed.
The description of the Assay, e.g. a concise version of its protocol.
The lab which applied the assay to the biosample.

Applied Assay

The information on which assay was applied to which biological replicate is needed for the Applied Assay section.

Sequencing

The following information is needed for each biosample-assay pair.

The lab which performed the sequencing
The platform the sequencing was performed on
The specific instrument of the platform which was used for sequencing
If the sequencing was done single or double ended
The date of the sequencing (YYYY-MM-DD)
For RNA-seq, if the sequencing was performed unstranded, forward or reverse stranded

optional:

The maximal read length of the sequences
The chemistry version used for sequencing

Data

The file name, if it is inside a folder this field should contain the file path from the user directory. For files on web-accesible servers, their full url is needed here. Only demultiplexed FASTQ files, exactly one if single end sequencing was used and exactly two for paired end sequencing.

Data Transfer

Only demultiplexed FASTQ files are allowed. Exactly one file per sequencing if it was one in single end mode and exactly two for paired end sequencing each with a web accessible URL to download the data from (entered in the fields described below). For large amounts of data, write to daniocode@gmail.com to request a preloading on the server.

Data Annotation Protocol

The data annotation tool is available at danio-code.zfin.org. You need to create a user account to be able to view data. After a security check your account will have access to the annotation upload tools.

Data producers are requested to start gathering their metadata according to the nomenclatures listed below, and collect them in a format which will allow them to use CSV files during data annotation and batch annotation using the online DCC tool.

CSV Batch Annotation

In addition to the web application annotation procedure, we have provided a batch CSV uploading procedure. This will be useful for users that have a large amount of data for which the web application may be cumbersome or error prone.

Batch uploads are accomplished using CSV files that describe the annotation details (series, biosamples, assays, sequences) and associated data files. CSV files can be created in excel and "saved as" any provided CSV format. CSV files can also be automatedly produced CSV file, but must adhere exactly to the guidelines below. This CSV file can be uploaded and processed through the batch upload page at danio-code.zfin.org.

An excel document with an example upload can be found at this link.
In order to use this as a batch upload csv file the first column must be removed and this file must be saved in any supported CSV format from excel.
You can find the an example of a correctly formated CSV file at this link. If you open this file in excel please reformat the sequencing__sequencing_date to the correct date format (YYYY-MM-DD).

Each row of the uploaded CSV file can create new annotation records or work with references to already existing records via the DANIO-CODE id’s. Links between annotation records (i.e. that a biosample belongs to a series) are created between any annotation/data records on each line of the CSV file. Thus each row must contain columns describing the annotation details (series, biosample, assay, and sequencing) and the associated data. Once an annotation record has been entered on a line of the CSV file, all following lines may simply reference the interal_id field to link that record to several data files. If additional annotation record attributes are provided they must match those in the first record with that annotation record internal_id. The requirements for all annotation record attributes are listed below.

Unless otherwise noted fields may contain free text (most fields allow a maximum of 200 characters). Unless otherwise noted each field is required (unless a previous line has defined the annotation record attributes associated with this internal_id).

The header for the CSV files is strictly controlled to ensure correct annotation of each sample. Header fields for each attribute must match exactly the annotation record (series, biosample, assay, etc.) follow by two underscores (“__”) and the attribute name (internal_id, series_type, etc.). Thus the header field for a series id would be “series__series_id” and the header field for a biosample type would be “biosample__biosample_type”. Optional fields need not be included in the CSV file if this attribute will not be defined for any sample.

The following terms and their restrictions may change, please always check the most recent version of this document.

Series ("series__" fields)

internal_id: This field is a record within a single CSV file in order to show equality of a particular record as two different records may be identical in all other fields. If two lines reference the same series__internal_id all those after the first need not include additional fields describing the series, but if they are provided they must match the fields from the first record in the CSV file.
series_id: This field indicates that this line is adding information to a series already within the DANIO-CODE DCC. This series_id must match a record already found within the DANIO-CODE DCC.
series_type: This is a controlled vocabulary field.
is_public: This is a boolean text field, enter either “True” or “False”
title
description
publication (optional)
geo_sra_id (optional)

Biosample ("biosample__" fields)

internal_id: This field is a record within a single CSV file in order to show equality of a particular record as two different records may be identical in all other fields. If two lines reference the same biosample__internal_id all those after the first need not include additional fields describing the biosample, but if they are provided they must match the fields from the first record in the CSV file.
biosample_id: This field indicates that this line is adding information to a biosample already within the DANIO-CODE DCC. This biosample_id must match a record already found within the DANIO-CODE DCC.
biosample_type: This is a controlled vocabulary field.
biosample_lab: This is a controlled vocabulary field.
genetic_background: This is a controlled vocabulary field.
anatomical_term (required for biosample_type tissue): This is a controlled vocabulary field.
stage (required for biosample_type tissue or whole organism): This is a controlled vocabulary field.
cell_line_type (required for biosample_type cell line)
post_fertilization (required for biosample_type tissue or whole organism): The number of hours after fertilization.
controlled_by (optional): This field indicates that this biosample has as a biological control. This field must be either an existing DANIO-CODE biosample_id or a biosample__internal_id from the same submitted CSV file.
sex (optional): This is a controlled vocabulary field.
treatment (optional)
description (optional)
source (optional)
mutation_description (optional)

Biosample replicate ("biosample_replicate__" fields)

internal_id

Assay ("assay__" fields)

internal_id: This field is a record within a single CSV file in order to show equality of a particular record as two different records may be identical in all other fields. If two lines reference the same assay__internal_id all those after the first need not include additional fields describing the assay, but if they are provided they must match the fields from the first record in the CSV file.
assay_id: This field indicates that this line is adding information to an assay already within the DANIO-CODE DCC. This assay_id must match a record already found within the DANIO-CODE DCC.
assay_type: This is a controlled vocabulary field
assay_lab: This is a controlled vocabulary field
description
target: (required if assay_type is one of the following: CHIP-SEq, SELEX, Rip-Seq, Par-Clip, iClip, ChIP-exo-seq) To indicate technical controls use the target “mock”
library_prep: (required if assay_type is RNA-based: RNA-seq, RIP-seq, etc)

Applied Assay (“applied_assay__” fields)

internal_id: This field is a record within a single CSV file in order to show equality of a particular record as two different records may be identical in all other fields. If two lines reference the same applied_assay__internal_id all those after the first need not include additional fields describing the applied assay, but if they are provided they must match the fields from the first record in the CSV file.
controlled_by: This field indicates that this applied assay has as a technical control. This field must be either an existing DANIO-CODE applied_assay_id or an applied_assay__internal_id from the same submitted CSV file.
Technical replicate ("technical_replicate__" fields)
internal_id

Sequencing ("sequencing__" fields)

internal_id: This field is a record within a single CSV file in order to show equality of a particular record as two different records may be identical in all other fields. If two lines reference the same sequencing__internal_id all those after the first need not include additional fields describing the sequencing, but if they are provided they must match the fields from the first record in the CSV file.
sequencing_lab: This is a controlled vocabulary field.
platform: This is a controlled vocabulary field.
lab: This is a controlled vocabulary field.
instrument: This is a controlled vocabulary field.
paired_end: This is a boolean field. Enter “True” if the paired end sequencing was performed or “False” otherwise.
Sequencing_date: The date the sequencing was performed in the ISO 8601, i.e. YYYY-MM-DD. If the exact date is unknown, enter at least the year and 01 for the month or day, respectively.
strand_mode (required if assay_type is RNA-based: RNA-seq, RIP-seq, etc): This is a controlled vocabulary field.
max_read_length (optional): Positive integer field.
chemistry_version (optional)

Data ("data__" fields)

internal_id: This field is a record within a single CSV file in order to show equality of a particular record as two different records may be identical in all other fields. If two lines reference the same data__internal_id all those after the first need not include additional fields describing the experiment, but if they are provided they must match the fields from the first record in the CSV file.
primary_file_name: This field should contain the filename of the sequencing file in the case of single end sequencing or the first reads for paired end sequencing (see section Data Transfer for details on the file name structure)
primary_file_URL: This field should contain the publicly accessible URL for the sequencing file in the case of single end sequencing or the first strand for paired end sequencing
secondary_file_name: Leave blank for single-end sequencing. For paired end please provide the name or path to the second reads file here.
secondary_file_URL: Leave blank for single-end sequencing. For paired end please provide the URL to the second reads file here.

If you need any help, please contact matthias.hortenhuber@ki.se.

Example of data annotation

In order to study the promoter and histone modification shift in early development, Lab A used CAGE-seq and H3K36me3 ChIP-seq. Lab A used whole organism samples of the AB strain at six time steps (2-cell, 8-cell, 16-cell, 64-cell, 256-cell, 1k-cell) with one sample each for CAGE-seq in three technical replicates per time step and one sample for each time step for ChIP-seq in three technical replicates per time step. Lab B sequenced all libraries these using Illumina’s HiSeq 2000 with single-end mode and a maximal read length of 58bp for CAGE-Seq sometime in April 2014; paired-end mode and a maximal read length of 58bp for ChIP-Seq, resulting in (6 time steps * 3 replicates * 1 single-end =) 18 FASTQ files for CAGE-Seq and (6 time steps * (3 replicates + 1 mock) * 2 paired-ends =) 48 FASTQ files for ChIP-Seq.

Series

Series Title

The promoter and methylation shift in early development

Publication (DOI)

12345

Series type

Survey

Number of Biosamples

Description

a nucleotide-resolution map of transcription initiation events in the zebrafish genome, generated by CAGE and ChIP-seq across 6 stages

Number of replicates

Number of different Assays

Biosamples

Developmental Stage

2-cell, 8-cell, 16-cell, 64-cell, 256-cell, 1k-cell

Lab

Gen. background

Sample type

whole organism

Assay

Lab

Assay Type

CAGE-seq

Lab

Assay Type

ChIP-seq

Target

H3K36me3

Applied Assay

18 CAGE-seq libraries

24 ChIP-seq libraries (four out of them as mock IPs)

Sequencing

To each of the 42 libraries the following is assigned:

Lab

Platform

Illumina

Instrument

HiSeq 2000

Sequencing mode

paired end

Maximal read length

Sequencing date

2014-04-01

Data

To each of the 66 data sets (18 CAGE-Seq and 48 ChIP-Seq) the following is assigned:

File type

FASTQ

URL to each of the individual FASTQ files

Example CSV Files

Terms

Series

A series corresponds to a research question/experiment, which motivates the generation of the data. It is thereby connecting biosamples with each other.

Title: A title given to the series.
Series Type: The Series Type is either Survey or Case Control. A survey is collection of samples without any further order to them, i.e. the samples were not ordered into cases. In Case Control, biosamples are ordered into cases, e.g. treatment and control.
Description: The description of the series. This can entail the research question, the aim of the experiments, a description of the different cases in case control studies, etc.
Reference: The DOI of the published results of this series.
GEO/SRA ID: The ID to the uploaded Series in GEO or SRA.
Public: If the series should be publicly available or only to members of DANIO-CODE

Biosample

A biosample corresponds to the physical entity which is the source of the gene material. One biosample entity includes all its biological replicates.

Lab: The lab which handled the biosample and the extraction of the gene material.
Sample Type: The type describes the organic material of origin for the biosample.
Anatomical Term: The site or tissue type of the sample (controlled only required for sample type tissue).
Stage: The developmental stage of the organism (required for sample type whole organism and tissue).
Post Fertilization: The hours between fertilisation and the exitus of the organism or extrusion of the sample (only applicable for sample type whole organism and tissue).
Genetic Background: The specific biological background of the biosample (controlled).
Description: A description of the sample (optional).
Mutation description: The mutation of the biosample, i.e. the targeted Gene.
Source: The origin/distributor of the specific fish strain (optional).
Treatment: The treatment applied on the sample (optional).
Sex: The sex of the biosample (optional).
Cell line type: The type of the cell line (only applicable for the biosample type “cell line”).

Assay

Assay Type: The technique used to produce the sequenced library, e.g. RNA-seq, ChIP-seq (controlled)
Lab: The lab which applied the assay on the biosample
Description: A more detailed description of the assay, e.g. the protocol.
Target: The target-chemical of the different IP-seq assay (required for ChIP-seq, SELEX-seq, RIP-seq, PAR-Clip-seq, iCLIP-seq, ChIP-exo-seq, Methyl-seq)

Library Preparation

The library preparation used for RNA-based assays, e.g. poly(A)+, poly(A)-, rRNA depletion, etc. (required for RNA-seq, short-RNA-seq, miRNA-seq, Ribo-seq, RIP-seq, PAR-Clip-seq, iCLIP-seq, GRO-seq, CAGE-seq)

Applied assay

The applied assay which will be sequenced and which is the product of an assay applied to a biosample entity, i.e. the group of replicates.

Sequencing

The specific sequencing techniques used to produce the data sets.

Platform: The sequencing platform used to produce the data (controlled).
Instrument: The sequencing instrument used to produce the data (controlled).
Lab: The lab which performed the sequencing (controlled).
Strand Mode: The direction the reads have, with respect to the target mRNA (required for RNA based assays, controlled)
Sequencing Date: The date the sequencing was performed in the ISO 8601, i.e. YYYY-MM-DD. If the exact date is unknown, enter at least the year and 01 for the month or day, respectively.
Chemistry Version: The specific chemistry version used for the sequencing (optional).
Maximum read length: The longest read length of the sequencing (optional).
Sequencing mode: The sequencing direction mode, i.e.single/paired ended (controlled)

Data

The data which is the result of all the steps above.

File: The name of the sequencing file, if it is inside a folder this field should contain the file path from the user directory (only one filename per sequencing for single ended and two for paired end sequenced files)

Name
initial entry
complete upload
with processed files

Name
whole organism
tissue
stem cells
cell line

Name
abdominal musculature
abducens motor nucleus
abductor hyohyoid
abductor muscle
abductor profundus
absorptive cell
accessory chamber of the maxillary blood sinus
accessory pretectal nucleus
acellular anatomical structure
acid secreting cell
acinar cell
actinotrichium
adaxial cell
adductor
adductor arcus palatini
adductor hyohyoid
adductor hyomandibulae
adductor mandibulae
adductor mandibulae complex
adductor muscle
adductor operculi
adductor profundus
adenohypophyseal placode
adenohypophysis
adipose tissue
adrenal medulla cell
adrenergic neuron
adrenocorticotropic hormone secreting cell
afferent branchial artery
afferent filamental artery
afferent glomerular arteriole
afferent lamellar arteriole
afferent neuron
alar plate midbrain region
alkali secreting cell
alpha-beta T cell
amacrine cell
ameloblast
amelocyte
ampullary nerve
anal depressor
anal erector
anal fin
anal fin actinotrichium
anal fin distal radial
anal fin lepidotrichium
anal fin lepidotrichium 1
anal fin lepidotrichium 2
anal fin lepidotrichium 3
anal fin lepidotrichium 4
anal fin lepidotrichium 5
anal fin lepidotrichium 6
anal fin lepidotrichium 7
anal fin musculature
anal fin proximal radial
anal fin pterygiophore
anal fin radial
anal fin skeleton
anal inclinator
anatomical cluster
anatomical group
anatomical line
anatomical space
anatomical structure
anatomical surface
anatomical system
androgen secreting cell
angioblastic mesenchymal cell
angiogenic sprout
angular bone
anguloarticular
anguloarticular-retroarticular joint
annular ligament
ansulate commissure
anterior axial hypoblast
anterior cardinal vein
anterior catecholaminergic tract
anterior cerebral vein
anterior chamber swim bladder
anterior commissure
anterior crista
anterior crista primordium
anterior dorsomedial process of autopalatine
anterior lateral line
anterior lateral line ganglion
anterior lateral line nerve
anterior lateral line neuromast
anterior lateral line placode
anterior lateral line primordium
anterior lateral line system
anterior lateral mesoderm
anterior lateral plate mesoderm
anterior lateral process of autopalatine
anterior macula
anterior mesencephalic central artery
anterior mesenteric artery
anterior myodome
anterior naris
anterior nasal barbel
anterior neural keel
anterior neural plate
anterior neural rod
anterior neural tube
anterior pancreatic bud
anterior presumptive neural plate
anterior sclerotic bone
anterior segment eye
anterior semicircular canal
anterior swim bladder bud
anterior ventromedial process of autopalatine
anteromedial zone olfactory bulb
aortic arch
aortic arch 1
aortic arch 2
aortic arch 3
aortic arch 4
aortic arch 5
aortic arch 6
apical ectodermal ridge
apical ectodermal ridge dorsal fin
apical ectodermal ridge median fin fold
apical ectodermal ridge pectoral fin bud
apical ectodermal ridge pelvic fin
apical ectodermal ridge pelvic fin bud
apical epidermal cap
aponeurosis
aqueous humor
area postrema
arrector muscle
arteriole
artery
articular cartilage
articular fossa of opercle
asteriscus
astrocyte
atrial endocardium
atrial epicardium
atrial myocardium
atrioventricular canal
atrioventricular canal endocardium
atrioventricular node
atrioventricular ring
atrioventricular valve
atrium
atrium of sinus impar
atypical epithelium
auditory capsule
auditory epithelial support cell
auditory fenestra
auditory foramen
auditory receptor cell
autonomic nervous system
autonomic neuron
autopalatine
autopalatine-lateral ethmoid joint
autopalatine-maxillary joint
autopalatine-preethmoid joint
autopalatine-vomer joint
axial blood vessel
axial chorda mesoderm
axial fin skeleton
axial hypoblast
axial lymph vessel
axial mesoderm
axial vasculature
axis
B cell
ball
band form neutrophil
barbel
barbel primordium
barrier cell
barrier epithelial cell
basal communicating artery
basal lamina
basal layer breeding tubercle
basal plate cartilage
basal plate midbrain region
basal regeneration epithelium
basibranchial
basibranchial 1
basibranchial 2
basibranchial 3
basibranchial 4
basicapsular fenestra
basidorsal
basihyal bone
basihyal cartilage
basilar artery
basioccipital
basioccipital posterodorsal region
basioccipital-exoccipital joint
basioccipital-prootic joint
basipterygium
basipterygium cartilage
basiventral
basket cell
basophilic erythroblast
Bergmann glial cell
bifurcate interneuron
bile canaliculus
bile ductule
biogenic amine secreting cell
bipolar neuron
blastema
blastemal cell
blastoderm
blastoderm cell
blastodisc
blastomere
blood
blood cell
blood island
blood plasma
blood sinus
blood sinus cavity
blood vasculature
blood vessel
blood vessel endothelial cell
blood vessel endothelium
blue sensitive photoreceptor cell
bone element
bone tissue
bony plate
bony projection
bony shelf above orbit
Bowman's layer
Brachet's cleft
brain
brain nucleus
brain vasculature
brainstem
brainstem and spinal white matter
branched anal fin ray
branched caudal fin ray
branched dorsal fin ray
branchial mesenchyme
branchial muscle
branchiomotor neuron
branchiostegal membrane
branchiostegal ray
branchiostegal ray 1
branchiostegal ray 2
branchiostegal ray 3
breeding tubercle
Bruch's membrane
brush border epithelial cell
bulbo-spinal tract
bulbus arteriosus
bulbus arteriosus inner layer
bulbus arteriosus middle layer
bulbus arteriosus outer layer
CaD
Cajal-Retzius cell
calcitonin secreting cell
CaP motoneuron
capillary
capillary loop nephron
cardiac conduction system
cardiac jelly
cardiac mesenchymal cell
cardiac muscle
cardiac muscle cell
cardiac muscle myoblast
cardiac neural crest
cardiac ventricle
cardinal system
cardiovascular system
carotid artery
cartilage element
cartilage tissue
cartilaginous joint
caudal artery
caudal commissure
caudal division of the internal carotid artery
caudal fin
caudal fin actinotrichium
caudal fin blood vessel
caudal fin dorsal procurrent ray
caudal fin fat
caudal fin lepidotrichium
caudal fin lower lobe
caudal fin lymph vessel
caudal fin musculature
caudal fin principal ray
caudal fin principal ray 1
caudal fin principal ray 10
caudal fin principal ray 11
caudal fin principal ray 12
caudal fin principal ray 13
caudal fin principal ray 14
caudal fin principal ray 15
caudal fin principal ray 16
caudal fin principal ray 17
caudal fin principal ray 18
caudal fin principal ray 19
caudal fin principal ray 2
caudal fin principal ray 3
caudal fin principal ray 4
caudal fin principal ray 5
caudal fin principal ray 6
caudal fin principal ray 7
caudal fin principal ray 8
caudal fin principal ray 9
caudal fin procurrent ray
caudal fin skeleton
caudal fin upper lobe
caudal fin vasculature
caudal fin ventral procurrent ray
caudal hypothalamic zone
caudal levator
caudal mesencephalo-cerebellar tract
caudal motor nucleus
caudal oblique
caudal octaval nerve motor nucleus
caudal octaval nucleus
caudal octavolateralis nucleus
caudal parvocellular preoptic nucleus
caudal peduncle
caudal periventricular hypothalamus
caudal preglomerular nucleus
caudal pretectal nucleus
caudal root of abducens nerve
caudal thalamic nucleus
caudal tuberal nucleus
caudal tuberculum
caudal vein
caudal vein plexus
caudal vertebra
caudal zone of dorsal telencephalon
CaV
cavitated compound organ
celiacomesenteric artery
cell
cementoblast
cementocyte
central artery
central canal
central cardiac conduction system
central caudal thalamic nucleus
central chamber of the maxillary blood sinus
central nervous system
central nucleus inferior lobe
central nucleus of ventral telencephalon
central nucleus torus semicircularis
central pretectal nucleus
central pretectum
central ray artery
central vein
central zone of dorsal telencephalon
central zone of the optic tectum
central zone olfactory bulb
central zone protoglomerulus
central zone protoglomerulus 1
central zone protoglomerulus 2
central zone protoglomerulus 3
central zone protoglomerulus 4
central zone protoglomerulus 5
centrum
cephalic flexure
cephalic musculature
ceratobranchial 1 bone
ceratobranchial 1 cartilage
ceratobranchial 2 bone
ceratobranchial 2 cartilage
ceratobranchial 3 bone
ceratobranchial 3 cartilage
ceratobranchial 4 bone
ceratobranchial 4 cartilage
ceratobranchial 5 bone
ceratobranchial 5 cartilage
ceratobranchial 5 ligament
ceratobranchial 5 tooth
ceratobranchial bone
ceratobranchial cartilage
ceratohyal bone
ceratohyal cartilage
ceratohyal-branchiostegal ray joint
ceratohyal-dorsal hypohyal joint
ceratohyal-ventral hypohyal joint
cerebellar central artery
cerebellar crest
cerebellar granule cell
cerebellar white matter
cerebellovestibular tract
cerebellum
cerebral spinal fluid
cerebrospinal fluid secreting cell
chemoreceptor cell
cholangiocyte
cholinergic neuron
chondral bone
chondroblast
chondrocranium
chondrocranium cartilage
chondrocyte
chordo neural hinge
chorion
choroid plexus
choroid plexus epithelial cell
choroid plexus fourth ventricle
choroid plexus tectal ventricle
choroid plexus telencephalic ventricle
choroid plexus third ventricle
choroid plexus vascular circuit
choroidal cell of the eye
choroidal fissure
chromaffin cell
CiA
CiD
ciliary marginal zone
ciliary zone
ciliated cell
ciliated epithelial cell
ciliated olfactory receptor neuron
circulating cell
circulus
claustrum bone
claustrum cartilage
cleft cell
cleithrum
cleithrum-vertebral ligament
climbing fiber
cloaca
cloacal chamber
cloacal epithelium
CNS interneuron
CNS long range interneuron
CNS neuron (sensu Vertebrata)
CNS short range interneuron
CoB
CoBL
coelom
CoLA
collagen secreting cell
collagenous dermal stroma
collecting duct
columnar chondrocyte
columnar/cuboidal epithelial cell
comma-shaped body
commissura cerebelli
commissura rostral, pars dorsalis
commissura rostral, pars ventralis
commissure infima of Haller
commissure of the caudal tuberculum
commissure of the secondary gustatory nucleus
common bile duct
common cardinal vein
common crus
common lymphoid progenitor
common myeloid progenitor
communicating vessel palatocerebral artery
compact layer of ventricle
compound organ
compound organ component
concurrent branch afferent branchial artery
cone retinal bipolar cell
connective tissue cell
constrictor dorsalis
continuous blood vessel endothelium
CoPA
copula
copula 1
copula 2
coracoid
coracoid foramen
coracoradialis
cornea
corneal endothelial cell
corneal endothelium
corneal epithelial cell
corneal epithelium
corneal primordium
corneal stroma
corneo-scleral junction
coronary artery
coronary capillary
coronary vein
coronomeckelian
corpus cerebelli
corpus mamillare
corpuscles of Stannius
CoSA
cranial blood vessel
cranial cartilage
cranial division of the internal carotid artery
cranial fat
cranial ganglion
cranial lymph vessel
cranial motor neuron
cranial nerve
cranial nerve I
cranial nerve II
cranial nerve III
cranial nerve IV
cranial nerve IX
cranial nerve root
cranial nerve V
cranial nerve VI
cranial nerve VII
cranial nerve VIII
cranial nerve X
cranial neural crest
cranial neural crest cell
cranial vasculature
cranial vault
cranium
crossed tecto-bulbar tract
crypt neuron olfactory support cell
crypt olfactory receptor neuron
cupula
cyanoblast
cyanophore
cystic duct
D cell
decussation of medial funicular nucleus
decussation of the medial octavolateralis nucleus
deep blastomere
deep caudal fin musculature
deep lateral dorsal muscle
deep lateral ventral muscle
deep white zone
DEL
dendritic cell
dental epithelium
dental mesenchyme
dental organ
dental papilla
dental papilla cell
dentary
dentary foramen
dentary-anguloarticular joint
dentine
depressor muscle
dermal bone
dermal deep region
dermal superficial region
dermatocranium
dermis
dermomyotome
Descemet's membrane
descending octaval nucleus
descending trigeminal root
developing mesonephric distal tubule
developing mesonephric nephron
developing mesonephric proximal tubule
dG1
diencephalic efferent neurons to the lateral line
diencephalic nucleus
diencephalic white matter
diencephalon
diffuse nucleus inferior lobe
digestive enzyme secreting cell
digestive system
digestive system duct
dilator operculi
distal bulb of the maxillary blood sinus
distal early tubule
distal epidermal cap
distal late tubule
dlG1
dlG2
dlG3
dlG4
dlG5
DoLA
dopaminergic neuron
dorsal accessory optic nucleus
dorsal actinotrichium
dorsal anterior lateral line ganglion
dorsal anterior lateral line nerve
dorsal aorta
dorsal arrector
dorsal axial hypoblast
dorsal branch nasal ciliary artery
dorsal caudal thalamic nucleus
dorsal ciliary vein
dorsal depressor
dorsal entopeduncular nucleus of ventral telencephalon
dorsal erector
dorsal fin
dorsal fin distal radial
dorsal fin distal radial 1
dorsal fin distal radial 2
dorsal fin distal radial 3
dorsal fin distal radial 4
dorsal fin distal radial 5
dorsal fin distal radial 6
dorsal fin distal radial 7
dorsal fin distal radial 8
dorsal fin fold
dorsal fin lepidotrichium
dorsal fin lepidotrichium 1
dorsal fin lepidotrichium 2
dorsal fin lepidotrichium 3
dorsal fin lepidotrichium 4
dorsal fin lepidotrichium 5
dorsal fin lepidotrichium 6
dorsal fin lepidotrichium 7
dorsal fin musculature
dorsal fin protractor
dorsal fin proximal radial
dorsal fin proximal radial 1
dorsal fin proximal radial 2
dorsal fin proximal radial 3
dorsal fin proximal radial 4
dorsal fin proximal radial 5
dorsal fin proximal radial 6
dorsal fin proximal radial 7
dorsal fin proximal radial 8
dorsal fin pterygiophore
dorsal fin pterygiophore 1
dorsal fin pterygiophore 2
dorsal fin pterygiophore 3
dorsal fin pterygiophore 4
dorsal fin pterygiophore 5
dorsal fin pterygiophore 6
dorsal fin pterygiophore 7
dorsal fin pterygiophore 8
dorsal fin radial
dorsal fin retractor
dorsal fin skeleton
dorsal funiculus
dorsal habenular nucleus
dorsal horn spinal cord
dorsal hyoid arch
dorsal hypohyal bone
dorsal hypohyal-urohyal joint
dorsal hypohyal-ventral hypohyal joint
dorsal hypothalamic zone
dorsal inclinator
dorsal interfilamental caudal muscle
dorsal larval melanophore stripe
dorsal lateral line
dorsal lateral line neuromast
dorsal longitudinal anastomotic vessel
dorsal longitudinal fasciculus
dorsal longitudinal lymphatic vessel
dorsal longitudinal vein
dorsal mesentery
dorsal motor nucleus trigeminal nerve
dorsal motor root of V
dorsal nucleus of ventral telencephalon
dorsal oblique branchial muscle
dorsal oblique extraocular muscle
dorsal pelvic arrector
dorsal periventricular hypothalamus
dorsal proneural cluster
dorsal rectus
dorsal retractor
dorsal root
dorsal root ganglion
dorsal spinal nerve
dorsal tegmental nucleus
dorsal telencephalon
dorsal thalamus
dorsal tooth row
dorsal transverse
dorsal zone of dorsal telencephalon
dorsal zone olfactory bulb
dorso-rostral cluster
dorsolateral field
dorsolateral motor nucleus of vagal nerve
dorsolateral placode
dorsolateral septum
dorsolateral zone olfactory bulb
dorsomedial optic tract
dorsoventral diencephalic tract
duct
duct epithelial cell
ductus communicans
E-YSL
early embryonic cell
ecto-epithelial cell
ectoderm
ectodermal cell
ectomesenchyme
ectopterygoid
ectopterygoid-entopterygoid joint
ectopterygoid-quadrate joint
efferent branchial artery
efferent filamental artery
efferent glomerular arteriole
efferent lamellar arteriole
efferent neuron
electrically active cell
electrically responsive cell
electrically signaling cell
embryonic blood vessel endothelial progenitor cell
embryonic structure
eminentia thalami
enameloid
endo-epithelial cell
endocardial cushion
endocardial precursor
endocardial ring
endocardium
endochondral bone
endochondral element
endocrine cell
endocrine pancreas
endocrine system
endoderm
endodermal cell
endohypothalamic tract
endolymph
endolymphatic duct
endorphin secreting cell
endothelial cell
endothelial tip cell
enkephalin secreting cell
enteric circular muscle
enteric longitudinal muscle
enteric musculature
enteric nervous system
enteric neuron
enterocyte
enteroendocrine cell
entopterygoid
entopterygoid-metapterygoid joint
epaxial myotome region
epaxial region somite 1
epaxial region somite 10
epaxial region somite 11
epaxial region somite 12
epaxial region somite 13
epaxial region somite 14
epaxial region somite 15
epaxial region somite 16
epaxial region somite 17
epaxial region somite 18
epaxial region somite 19
epaxial region somite 2
epaxial region somite 20
epaxial region somite 21
epaxial region somite 22
epaxial region somite 23
epaxial region somite 24
epaxial region somite 25
epaxial region somite 26
epaxial region somite 27
epaxial region somite 28
epaxial region somite 29
epaxial region somite 3
epaxial region somite 30
epaxial region somite 4
epaxial region somite 5
epaxial region somite 6
epaxial region somite 7
epaxial region somite 8
epaxial region somite 9
epaxialis
ependymal cell
ependymoglial cell
epiblast
epibranchial 1 bone
epibranchial 1 cartilage
epibranchial 2 bone
epibranchial 2 cartilage
epibranchial 3 bone
epibranchial 3 cartilage
epibranchial 4 bone
epibranchial 4 cartilage
epibranchial 5
epibranchial bone
epibranchial cartilage
epibranchial field
epibranchial ganglion
epibranchial placode
epibranchial uncinate process
epicardium
epidermal basal stratum
epidermal cell
epidermal intermediate stratum
epidermal placode
epidermal superficial stratum
epidermis
epihyal
epihyal-branchiostegal ray joint
epihyal-ceratohyal joint
epinephrin secreting cell
epineural
epiotic
epiphyseal bar
epiphyseal cluster
epiphyseal stalk
epiphysis
epipleural
epithalamus
epithelial cell
epithelial cell of esophagus
epithelial cell of pancreas
epithelial mesenchymal boundary
epithelium
epural
erector muscle
erythroblast
erythroid lineage cell
erythroid progenitor cell
erythrophore
esophageal epithelium
esophageal fat
esophageal sphincter
esophageal striated muscle
esophagus
estradiol secreting cell
ethmoid cartilage
eurydendroid cell
EVL
exoccipital
exoccipital posteroventral region
exocrine cell
exocrine pancreas
extension
external cellular layer
external lateral dorsal muscle
external lateral ventral muscle
external levatores
external pharyngoclavicularis
extracellular lipid lamellae
extracellular matrix secreting cell
extraembryonic cell
extraembryonic structure
extrahepatic duct
extramedullary cell
extraocular musculature
extrapancreatic duct
extrascapula
eye
eye photoreceptor cell
facial ganglion
facial lobe
facial lymphatic network
facial lymphatic sprout
facial lymphatic vessel
facial nerve motor nucleus
facial neural crest
facial placode
facio-acoustic neural crest
fasciculus retroflexus
fast muscle cell
fast muscle cell somite 1
fast muscle cell somite 10
fast muscle cell somite 11
fast muscle cell somite 12
fast muscle cell somite 13
fast muscle cell somite 14
fast muscle cell somite 15
fast muscle cell somite 16
fast muscle cell somite 17
fast muscle cell somite 18
fast muscle cell somite 19
fast muscle cell somite 2
fast muscle cell somite 20
fast muscle cell somite 21
fast muscle cell somite 22
fast muscle cell somite 23
fast muscle cell somite 24
fast muscle cell somite 25
fast muscle cell somite 26
fast muscle cell somite 27
fast muscle cell somite 28
fast muscle cell somite 29
fast muscle cell somite 3
fast muscle cell somite 30
fast muscle cell somite 4
fast muscle cell somite 5
fast muscle cell somite 6
fast muscle cell somite 7
fast muscle cell somite 8
fast muscle cell somite 9
fast muscle myoblast
fat cell
female organism
fenestrated blood vessel endothelium
fenestrated cell
fertilized egg
fibroblast
fibrous joint
filamental artery
fin
fin blood vessel
fin bud
fin fold actinotrichium
fin fold pectoral fin bud
fin lymph vessel
fin musculature
fin vasculature
flexor muscle
flexural organ
floor plate
floor plate diencephalic region
floor plate midbrain region
floor plate neural rod
floor plate neural tube
floor plate rhombomere 1
floor plate rhombomere 2
floor plate rhombomere 3
floor plate rhombomere 4
floor plate rhombomere 5
floor plate rhombomere 6
floor plate rhombomere 7
floor plate rhombomere 8
floor plate rhombomere region
floor plate spinal cord region
floor plate telencephalic region
follicle stimulating hormone secreting cell
folliculostellate cell
fontanel
foramen
foramen magnum
forebrain
forebrain midbrain boundary
forebrain midbrain boundary neural keel
forebrain midbrain boundary neural plate
forebrain midbrain boundary neural rod
forebrain midbrain boundary neural tube
forebrain neural keel
forebrain neural plate
forebrain neural rod
forebrain neural tube
forebrain ventricle
forerunner cell group
fossa
fourth ventricle
frontal bone
frontal-parietal joint
frontal-pterotic joint
GABAergic neuron
GAG secreting cell
gall bladder
gamete
gamma-delta intraepithelial T cell
gamma-delta T cell
ganglion
gastrula cell
germ line cell
germ ring
ghrelin secreting cell
gigantocellular part of magnocellular preoptic nucleus
gill
gill filament
gill ionocyte
gill lamella
gill opening
gill raker
gill ray
glial cell
glial cell (sensu Vertebrata)
glioblast
glioblast (sensu Vertebrata)
glomerular basement membrane
glomerular capillary
glomerular layer
glossopharyngeal ganglion
glossopharyngeal lobe
glossopharyngeal neural crest
glossopharyngeal placode
glucagon secreting cell
glucocorticoid secreting cell
glutamatergic neuron
glycinergic neuron
goblet cell
gold iridophore
Golgi cell
gonad
gonad primordium
granular eminence
granular layer corpus cerebelli
granular layer valvula cerebelli
granule cell
granulocyte
granulocyte monocyte progenitor cell
granulosa cell
granulosa cell layer
green sensitive photoreceptor cell
grey matter
griseum centrale
groove
gustatory system
gut
gut absorptive cell
gut endothelial cell
gut epithelium
habenula
habenular commissure
hair cell
hair cell anterior macula
hair cell posterior macula
hatching gland
hatching gland cell
head
head kidney
head mesenchyme
head muscle
head sensory canal system
heart
heart primordium
heart rudiment
heart tube
heart valve
heart vasculature
hemal arch
hemal postzygapophysis
hemal prezygapophysis
hemal spine
hematopoietic cell
hematopoietic multipotent progenitor cell
hematopoietic stem cell
hematopoietic system
hepatic artery
hepatic duct
hepatic portal vein
hepatic sinusoid
hepatic vein
hepatoblast
hepatocyte
hepatopancreatic ampulla
hindbrain
hindbrain commissure
hindbrain interneuron
hindbrain neural keel
hindbrain neural plate
hindbrain neural rod
hindbrain neural tube
hindbrain nucleus
horizontal cell
horizontal commissure
horizontal myoseptum
hyaloid artery
hyaloid vein
hyaloid vessel
hyohyoideus
hyoid muscle
hyoid neural crest
hyoideomandibular nerve
hyomandibula
hyomandibula-metapterygoid joint
hyomandibula-opercle joint
hyomandibula-pterotic joint
hyomandibular foramen
hyomandibular-otic region joint
hyosymplectic cartilage
hypaxial myotome region
hypaxial region somite 1
hypaxial region somite 10
hypaxial region somite 11
hypaxial region somite 12
hypaxial region somite 13
hypaxial region somite 14
hypaxial region somite 15
hypaxial region somite 16
hypaxial region somite 17
hypaxial region somite 18
hypaxial region somite 19
hypaxial region somite 2
hypaxial region somite 20
hypaxial region somite 21
hypaxial region somite 22
hypaxial region somite 23
hypaxial region somite 24
hypaxial region somite 25
hypaxial region somite 26
hypaxial region somite 27
hypaxial region somite 28
hypaxial region somite 29
hypaxial region somite 3
hypaxial region somite 30
hypaxial region somite 4
hypaxial region somite 5
hypaxial region somite 6
hypaxial region somite 7
hypaxial region somite 8
hypaxial region somite 9
hypaxialis
hypertrophic chondrocyte
hypoblast
hypobranchial 1 bone
hypobranchial 1 cartilage
hypobranchial 2 bone
hypobranchial 2 cartilage
hypobranchial 3 bone
hypobranchial 3 cartilage
hypobranchial 4 bone
hypobranchial 4 cartilage
hypobranchial artery
hypobranchial bone
hypobranchial cartilage
hypochord
hypocretin-secreting neuron
hypodermal cell
hypodermis
hypohyal bone
hypophyseal artery
hypophyseal capillary
hypophyseal fenestra
hypophyseal vein
hypophysis
hypothalamus
hypural
hypural 1
hypural 2
hypural 3
hypural 4
hypural 5
hypural muscle
hypurapophysis
I-YSL
immature anterior macula
immature B cell
immature eye
immature gamma-delta T cell
immature gonad
immature hair cell anterior macula
immature hair cell posterior macula
immature macula
immature natural killer cell
immature neutrophil
immature posterior macula
immature Schwann cell
immature thymic epithelium
immune system
inclinator muscle
inferior caudal dorsal flexor
inferior caudal ventral flexor
inferior hyohyoid
inferior lobe
inferior olive
inferior raphe nucleus
inferior reticular formation
infracarinalis
infraorbital
infraorbital 1
infraorbital 2
infraorbital 3
infraorbital 4
infraorbital 5
infraorbital lateral line
infraorbital lateral line neuromast
infraorbital sensory canal
infraorbital series
infundibulum
inhibitory interneuron
inner dental epithelium
inner ear
inner ear foramen
inner limiting membrane
inner mental barbel
inner optic circle
insulating cell
insulin secreting cell
integument
integument ionocyte
inter-basipterygium joint
inter-coracoid joint
inter-frontal joint
inter-hypobranchial 3 joint
inter-parietal joint
inter-premaxillary joint
inter-ventral hypohyal joint
intercalar
intercalarium
intercalarium articulating process
intercalarium ascending process
intercalated duct pancreas
intercostal ligament
interhyal cartilage
interhyal-epihyal joint
interhyoideus
intermandibularis
intermediate cell mass of mesoderm
intermediate hypothalamus
intermediate mesenchyme
intermediate mesoderm
intermediate nucleus
intermediate reticular formation
intermediate thalamic nucleus
intermuscular bone
internal carotid artery
internal cellular layer
internal gill bud
internal levator
internal pharyngoclavicularis
interneuromast cell
interneuron
interopercle
interopercular-mandibular ligament
interossicular ligament
interpeduncular nucleus medulla oblongata
interpeduncular nucleus tegmentum
interradialis caudalis
interray vessel
interrenal angiogenic sprout
interrenal gland
interrenal primordium
interrenal vessel
intersegmental artery
intersegmental lymph vessel
intersegmental vein
intersegmental vessel
intertectal commissure
intervening zone
intervessel commissure
intervillus pockets
intestinal bulb
intestinal bulb epithelium
intestinal bulb primordium
intestinal epithelial cell
intestinal epithelium
intestinal interlymphatic vessel
intestinal lamina propria mucosa
intestinal lymphatic network
intestinal mucosa
intestinal mucosal muscle
intestinal opening
intestinal rod
intestinal villus
intestine
intestine lumen
intrahepatic bile duct
intrahepatic bile duct epithelial cell
intramembranous bone
intrapancreatic duct
ionocyte
iridoblast
iridophore
iris
iris blood vessels
iris stroma
islet
isthmic primary nucleus
ito cell
jaw flap
jaw flap breeding tubercle
jaw row breeding tubercle
joint
jugular lymphatic vessel
juxtaglomerular cell
kappe olfactory receptor neuron
keratin accumulating cell
keratinocyte
kidney
kidney blood vessel
kidney cell
kidney epithelial cell
kidney interstitial cell
kidney medulla cell
kidney vasculature
kinethmoid bone
kinethmoid cartilage
Kolmer-Agduhr neuron
Kupffer's vesicle
labial cavity
lacuna
lacunocanalicular canal
lacunocanalicular system
lagena
lagenar capsule
lamina densa
lamina orbitonasalis
lamina rara externa
lamina rara interna
lapillus
larval melanophore stripe
lateral column
lateral crista
lateral crista primordium
lateral dorsal aorta
lateral ethmoid
lateral ethmoid-autopalatine ligament
lateral ethmoid-ectopterygoid ligament
lateral ethmoid-frontal joint
lateral ethmoid-supraethmoid
lateral facial lymph vessel
lateral floor plate
lateral fontanel of frontal
lateral forebrain bundle
lateral forebrain bundle diencephalon
lateral forebrain bundle telencephalon
lateral funiculus
lateral hypothalamic nucleus
lateral larval melanophore stripe
lateral lemniscus nucleus
lateral line
lateral line ganglion
lateral line nerve
lateral line primordium
lateral line scale
lateral line sensory nucleus
lateral line system
lateral longitudinal fasciculus
lateral mesenchyme derived from mesoderm
lateral mesoderm
lateral migration pathway mesenchyme
lateral nucleus of ventral telencephalon
lateral olfactory tract
lateral plate mesoderm
lateral preglomerular nucleus
lateral protoglomerulus
lateral protoglomerulus 1
lateral protoglomerulus 2
lateral protoglomerulus 3
lateral protoglomerulus 4
lateral recess
lateral rectus
lateral reticular nucleus
lateral semicircular canal
lateral spinal nerve
lateral valvula cerebelli
lateral wall diencephalic region
lateral wall midbrain region
lateral wall neural rod
lateral wall neural tube
lateral wall rhombomere 1
lateral wall rhombomere 2
lateral wall rhombomere 3
lateral wall rhombomere 4
lateral wall rhombomere 5
lateral wall rhombomere 6
lateral wall rhombomere 7
lateral wall rhombomere 8
lateral wall spinal cord
lateral wall telencephalic region
lateral zone of dorsal telencephalon
lateral zone olfactory bulb
left intestinal lymphatics
left liver lobe
lens
lens capsule
lens epithelium
lens placode
lepidotrichium
lepidotrichium joint
lepidotrichium segment
leptomeningeal cell
leucoblast
leucophore
leukocyte
levator arcus palatini
levator operculi
Leydig cell
lG1
lG2
lG3
lG4
lG5
lG6
lGx
ligament
ligament cell
lining cell
lip
lip epithelium
liver
liver and biliary system
locus coeruleus
longitudinal hypochordal
longitudinal lateral lymphatic vessel
lower left intestinal lymph vessel
lower lip
lower oral valve
lower rhombic lip
lower right intestinal lymph vessel
luteinizing hormone secreting cell
lymph
lymph vasculature
lymph vessel
lymph vessel endothelium
lymphangioblast
lymphangioblast cord
lymphangiogenic sprout
lymphatic branchial arch 1
lymphatic branchial arch 2
lymphatic branchial arch 3
lymphatic branchial arch 4
lymphatic capillary
lymphatic system
lymphocyte
lymphoid progenitor cell
M cell
macroglial cell
macrophage
macula
macula communis
macula lagena
macula neglecta
macula saccule
macula utricle
maG1
magnocellular octaval nucleus
magnocellular preoptic nucleus
magnocellular superficial pretectal nucleus
maGx
main intrapancreatic duct
male organism
mandibular arch skeleton
mandibular fat
mandibular lateral line
mandibular lateral line neuromast
mandibular muscle
mandibular neural crest
mandibular sensory canal
mandibular symphysis
manubrium
margin
marginal blastomere
mature B cell
mature gamma-delta T cell
mature natural killer cell
mature neutrophil
Mauthner neuron
maxilla
maxillary barbel
maxillary barbel blood sinus
maxillary barbel blood vessel
maxillary barbel lymph vessel
maxillary barbel proximal plexus
maxillary barbel vasculature
maxillo-mandibular ligament
maxillo-rostroid ligament
MCoD
mdG1
mdG2
mdG3
mdG4
mdG5
mdG6
mechanoreceptor cell
Meckel's cartilage
medial caudal lobe
medial column
medial facial lymph vessel
medial floor plate
medial forebrain bundle
medial forebrain bundle diencephalon
medial forebrain bundle telencephalon
medial funicular nucleus medulla oblongata
medial funicular nucleus trigeminal nucleus
medial longitudinal catecholaminergic tract
medial longitudinal fasciculus
medial migration pathway mesenchyme
medial motor nucleus of vagal nerve
medial octavolateralis nucleus
medial olfactory tract
medial preglomerular nucleus
medial protoglomerulus
medial protoglomerulus 1
medial protoglomerulus 2
medial protoglomerulus 3
medial protoglomerulus 4
medial rectus
medial valvula cerebelli
medial zone of dorsal telencephalon
medial zone olfactory bulb
median axial vein
median fin
median fin cartilage
median fin fold
median palatocerebral vein
median tuberal portion
mediodorsal tooth row
mediodorsal zone of the olfactory bulb
medulla oblongata
megakaryocyte erythroid progenitor cell
MeL
melanoblast
melanocyte
melanocyte stimulating hormone secreting cell
melanophore stripe
MeLc
MeLm
MeLr
MeM
MeM1
membrane bone
memory B cell
memory T cell
mental barbel
Merkel cell
mesangial cell
mesencephalic artery
mesencephalic nucleus of trigeminal nerve
mesencephalic vein
mesenchymal cell
mesenchymal lymphangioblast
mesenchyme
mesenchyme condensation cell
mesenchyme derived from head mesoderm
mesenchyme derived from head neural crest
mesenchyme derived from trunk neural crest
mesenchyme dorsal fin
mesenchyme median fin fold
mesenchyme pectoral fin
mesenchyme pelvic fin
mesentery
mesethmoid bone
mesethmoid-lateral ethmoid joint
mesethmoid-vomer joint
meso-epithelial cell
mesocoracoid bone
mesocoracoid cartilage
mesoderm
mesoderm pectoral fin bud
mesoderm pelvic fin bud
mesodermal cell
mesonephric duct
mesonephric nephron
mesonephric podocyte
mesothelial cell
mesovarium
metapterygoid
metapterygoid-symplectic fenestra
metencephalic artery
microcirculatory vessel
microglial cell
micropylar cell
microvillous olfactory receptor neuron
mid cerebral vein
mid diencephalic organizer
mid intestine
mid intestine epithelium
MiD2cl
MiD2cm
MiD2i
MiD3cl
MiD3cm
MiD3i
midbrain
midbrain hindbrain boundary
midbrain hindbrain boundary neural keel
midbrain hindbrain boundary neural plate
midbrain hindbrain boundary neural rod
midbrain hindbrain boundary neural tube
midbrain interneuron
midbrain neural keel
midbrain neural plate
midbrain neural rod
midbrain neural tube
midbrain nucleus
middle lateral line
middle lateral line ganglion
middle lateral line nerve
middle lateral line neuromast
middle lateral line placode
middle lateral line primordium
middle lateral line system
middle mesencephalic central artery
midline column
migratory slow muscle precursor cell
MiM1
MiP motor neuron
MiR1
MiR2
MiV1
MiV2
molecular layer corpus cerebelli
molecular layer valvula cerebelli
monoblast
monocyte
mononuclear cell
mononuclear odontoclast
mononuclear osteoclast
mononuclear phagocyte
mossy fiber
motile cell
motor neuron
motor nucleus of vagal nerve
mouth
mucus secreting cell
Muller cell
multi fate stem cell
multi-ciliated epithelial cell
multi-tissue structure
multilaminar epithelium
multipolar neuron
muscle
muscle cell
muscle pioneer
muscle pioneer somite 1
muscle pioneer somite 10
muscle pioneer somite 11
muscle pioneer somite 12
muscle pioneer somite 13
muscle pioneer somite 14
muscle pioneer somite 15
muscle pioneer somite 16
muscle pioneer somite 17
muscle pioneer somite 18
muscle pioneer somite 19
muscle pioneer somite 2
muscle pioneer somite 20
muscle pioneer somite 21
muscle pioneer somite 22
muscle pioneer somite 23
muscle pioneer somite 24
muscle pioneer somite 25
muscle pioneer somite 26
muscle pioneer somite 27
muscle pioneer somite 28
muscle pioneer somite 29
muscle pioneer somite 3
muscle pioneer somite 30
muscle pioneer somite 4
muscle pioneer somite 5
muscle pioneer somite 6
muscle pioneer somite 7
muscle pioneer somite 8
muscle pioneer somite 9
muscle precursor cell
muscle stem cell
musculature system
myelin accumulating cell
myelinating Schwann cell
myeloblast
myeloid cell
myeloid leukocyte
myeloid lineage restricted progenitor cell
myoblast
myocardial precursor
myocardium
myoepithelial cell
myoseptum
myotome
myotome somite 1
myotome somite 10
myotome somite 11
myotome somite 12
myotome somite 13
myotome somite 14
myotome somite 15
myotome somite 16
myotome somite 17
myotome somite 18
myotome somite 19
myotome somite 2
myotome somite 20
myotome somite 21
myotome somite 22
myotome somite 23
myotome somite 24
myotome somite 25
myotome somite 26
myotome somite 27
myotome somite 28
myotome somite 29
myotome somite 3
myotome somite 30
myotome somite 4
myotome somite 5
myotome somite 6
myotome somite 7
myotome somite 8
myotome somite 9
naive B cell
NaK ionocyte
naris
nasal artery
nasal bone
nasal capsule
nasal ciliary artery
nasal vein
natural killer cell
NCC ionocyte
nephrogenic mesenchyme stem cell
nephron
nephron progenitor
nerve
nervous system
neural arch
neural arch 3
neural arch 4
neural complex
neural crest
neural crest cell
neural crest diencephalon
neural crest hindbrain
neural crest midbrain
neural crest telencephalon
neural keel
neural plate
neural postzygapophysis
neural prezygapophysis
neural rod
neural spine
neural spine 4
neural tube
neuraxis flexure
neurecto-epithelial cell
neurectodermal cell
neuroblast
neuroblast (sensu Vertebrata)
neurocranial trabecula
neurocranium
neuroectoderm
neuroendocrine cell
neuroepithelial cell
neurogenic field
neurogenic placode
neuroglioform cell
neurohypophysis
neuromast
neuromast foramen
neuromast hair cell
neuromast mantle cell
neuromast support cell
neuromere
neuron
neuron neural crest derived
neuronal stem cell
neuroplacodal cell
neurosecretory neuron
neutrophil
neutrophil progenitor cell
neutrophilic metamyelocyte
neutrophilic myeloblast
neutrophilic myelocyte
neutrophilic promyelocyte
nevus
nitrergic neuron
non neural ectoderm
non-Weberian precaudal vertebra
noninvoluting endocytic marginal cell cluster
norepinephrin secreting cell
notochord
notochord inner cell
notochord outer sheath cell
notochord posterior region
notochordal ossification
nucleate erythrocyte
nucleus Edinger-Westphal
nucleus isthmi
nucleus lateralis valvulae
nucleus of the descending root
nucleus of the lateral recess
nucleus of the medial longitudinal fasciculus medulla oblongata
nucleus of the medial longitudinal fasciculus synencephalon
nucleus of the posterior recess
nucleus of the tract of the anterior commissure
nucleus of the tract of the postoptic commissure
nucleus ruber
nucleus subglomerulosis
nucleus taeniae
occipital arch cartilage
occipital lateral line
occipital lateral line neuromast
occipital region
octaval nerve motor nucleus
octaval nerve sensory nucleus
ocular blood vessel
oculomotor nucleus
odontoblast
odontoclast
odontocyte
odontoid tissue
OFF-bipolar cell
olfactory bulb
olfactory bulb glomerulus
olfactory bulb protoglomerulus
olfactory epithelial support cell
olfactory epithelium
olfactory field
olfactory granule cell
olfactory nerve foramen
olfactory pit
olfactory placode
olfactory receptor cell
olfactory region
olfactory rosette
olfactory support cell
olfactory system
oligodendrocyte
ON-bipolar cell
oocyte
oocyte stage I
oocyte stage II
oocyte stage III
oocyte stage IV
oocyte stage V
opercle
opercle-interopercle joint
opercular artery
opercular cavity
opercular flap
opercular lateral line
opercular lateral line neuromast
optic artery
optic chiasm
optic choroid
optic choroid vascular plexus
optic cup
optic fiber layer
optic fissure
optic foramen
optic furrow
optic nerve head
optic primordium
optic recess
optic stalk
optic tectum
optic tract
optic vein
optic vesicle
oral cavity
oral ectoderm
oral epithelium
oral region
orbit
orbital foramen
orbital region
orbitosphenoid
orbitosphenoid-lateral ethmoid joint
orbitosphenoid-prootic joint
organism subdivision
organizer inducing center
os suspensorium
os suspensorium medial flange
osteoblast
osteoclast
osteocyte
osteoprogenitor cell
otic duct
otic epithelium
otic lateral line
otic lateral line neuromast
otic placode
otic region
otic sensory canal
otic sensory epithelium
otic squamous epithelium
otic vesicle
otic vesicle anterior protrusion
otic vesicle lateral protrusion
otic vesicle posterior protrusion
otic vesicle protrusion
otic vesicle ventral protrusion
otolith
otolith organ
otolithic lymph vessel
outer dental epithelium
outer limiting membrane
ovarian follicle
ovarian follicle stage I
ovarian follicle stage II
ovarian follicle stage III
ovarian follicle stage IV
ovary
oviduct
oxygen accumulating cell
pain receptor cell
paired fin
paired fin cartilage
paired fin skeleton
palate
palatocerebral artery
palatocerebral vein
palatoquadrate arch
palatoquadrate cartilage
pancreas
pancreas primordium
pancreatic A cell
pancreatic acinar cell
pancreatic acinar gland
pancreatic B cell
pancreatic bud
pancreatic centroacinar cell
pancreatic D cell
pancreatic duct
pancreatic ductal cell
pancreatic epsilon cell
pancreatic fat
pancreatic interlobular duct
pancreatic intralobular duct
pancreatic lobule
pancreatic PP cell
pancreatic system
parachordal cartilage
parachordal vessel
paracommissural nucleus
paracrine cell
parafollicular cell
parallel fiber
parapineal organ
parapophysis
parapophysis 1
parapophysis 2
parapophysis/rib
parasphenoid
parasphenoid-basioccipital joint
parasympathetic nervous system
parasympathetic neuron
parathyroid hormone secreting cell
paraventricular organ
paraxial mesoderm
parhypural
parietal bone
parietal peritoneum
pars anterior
pars inferior ear
pars intermedia
pars subcommissuralis of ventral telencephalon
pars superior ear
parvocellular preoptic nucleus
parvocellular superficial pretectal nucleus
pectinate muscle
pectoral artery
pectoral fin
pectoral fin actinotrichium
pectoral fin blood vessel
pectoral fin breeding tubercle
pectoral fin bud
pectoral fin cartilage
pectoral fin distal radial
pectoral fin endoskeletal disc
pectoral fin field
pectoral fin fold
pectoral fin lepidotrichium
pectoral fin lepidotrichium 1
pectoral fin lepidotrichium 2
pectoral fin lepidotrichium 3
pectoral fin lepidotrichium 4
pectoral fin lepidotrichium 5
pectoral fin lepidotrichium 6
pectoral fin lepidotrichium 7
pectoral fin lymph vessel
pectoral fin motor nerve
pectoral fin motor nerve 1
pectoral fin motor nerve 2
pectoral fin motor nerve 3
pectoral fin motor nerve 4
pectoral fin musculature
pectoral fin nerve
pectoral fin plate fat
pectoral fin proximal radial
pectoral fin radial
pectoral fin sensory nerve
pectoral fin skeleton
pectoral fin vasculature
pectoral girdle
pectoral lymphatic vessel
pectoral vein
pelvic abductor profundus
pelvic adductor profundus
pelvic fin
pelvic fin actinotrichium
pelvic fin bud
pelvic fin cartilage
pelvic fin field
pelvic fin lepidotrichium
pelvic fin lepidotrichium 1
pelvic fin lepidotrichium 2
pelvic fin lepidotrichium 3
pelvic fin lepidotrichium 4
pelvic fin musculature
pelvic fin skeleton
pelvic girdle
pelvic radial
pelvic radial 1
pelvic radial 1 cartilage
pelvic radial 2
pelvic radial 2 cartilage
pelvic radial 3
pelvic radial 3 cartilage
pelvic radial cartilage
peptide hormone secreting cell
peptidergic neuron
periarticular chondrocyte
pericardial cavity
pericardial fat
pericardial muscle
pericardium
perichondral bone
perichondrium
perichordal bone
perichordal connective tissue
pericyte
periderm
peridermal cell
perijunctional fibroblast
perilymph
perilymphatic duct
perilymphatic space
perineuronal satellite cell
periocular mesenchyme
periorbital fat
peripheral cardiac conduction system
peripheral nervous system
peripheral neuron
peripheral nucleus of ventral telencephalon
peripheral olfactory organ
peritoneal macrophage
peritoneum
periventricular grey zone
periventricular nucleus
periventricular nucleus of caudal tuberculum
periventricular nucleus of ventral telencephalon
phagocyte
pharyngeal arch
pharyngeal arch 1
pharyngeal arch 2
pharyngeal arch 2 skeleton
pharyngeal arch 3
pharyngeal arch 3 skeleton
pharyngeal arch 3-7
pharyngeal arch 3-7 skeleton
pharyngeal arch 4
pharyngeal arch 4 skeleton
pharyngeal arch 5
pharyngeal arch 5 skeleton
pharyngeal arch 6
pharyngeal arch 6 skeleton
pharyngeal arch 7
pharyngeal arch 7 skeleton
pharyngeal arch cartilage
pharyngeal ectoderm
pharyngeal endoderm
pharyngeal epithelium
pharyngeal mesoderm
pharyngeal musculature
pharyngeal pouch
pharyngeal pouch 1
pharyngeal pouch 2
pharyngeal pouch 3
pharyngeal pouch 4
pharyngeal pouch 5
pharyngeal pouch 6
pharyngeal pouches 2-6
pharyngeal vasculature
pharyngobranchial 2 bone
pharyngobranchial 2 cartilage
pharyngobranchial 3 bone
pharyngobranchial 3 cartilage
pharyngobranchial 4 cartilage
pharyngobranchial bone
pharyngobranchial cartilage
pharyngohyoid
pharynx
photopic photoreceptor cell
photoreceptor cell
photoreceptor inner segment layer
photoreceptor outer segment layer
pigment cell
pigment cell (sensu Vertebrata)
pigment erythroblast
pigmented epithelial cell
pillar of the anterior semicircular canal
pillar of the lateral semicircular canal
pillar of the posterior semicircular canal
pillar of the semicircular canal
pineal complex
pinealocyte
pioneer neuron
plasma cell
pleuroperitoneal cavity
pneumatic duct
podocyte
polster
polychromatophilic erythroblast
polymodal neuron
pore
portion of connective tissue
portion of organism substance
portion of tissue
post-otic sensory canal
post-vent region
post-vent vasculature
post-Weberian supraneural
postcleithrum
postcommissural nucleus of ventral telencephalon
postcranial axial cartilage
postcranial axial skeleton
posterior cardinal vein
posterior caudal vein
posterior cerebral vein
posterior chamber swim bladder
posterior communicating artery
posterior crista
posterior crista primordium
posterior intestine
posterior intestine epithelium
posterior kidney
posterior lateral line
posterior lateral line ganglion
posterior lateral line nerve
posterior lateral line neuromast
posterior lateral line placode
posterior lateral line primordium
posterior lateral line system
posterior lateral mesoderm
posterior lateral plate mesoderm
posterior macula
posterior mesencephalic central artery
posterior mesenteric artery
posterior naris
posterior neural keel
posterior neural plate
posterior neural rod
posterior neural tube
posterior pancreatic bud
posterior presumptive neural plate
posterior pronephric duct
posterior recess
posterior sclerotic bone
posterior segment eye
posterior semicircular canal
posteromedial glomerulus
postoptic commissure
postovulatory follicle
posttemporal
posttemporal fossa
precaudal vertebra
prechordal plate
precursor B cell
predentine
preethmoid bone
preglomerular nucleus
premaxilla
premaxilla ascending process
premaxillary-maxillary ligament
premaxillo-rostroid ligament
preopercle
preopercle horizontal limb
preopercle horizontal limb-symplectic joint
preopercle vertical limb
preopercle vertical limb-hyomandibula joint
preopercle-retroarticular ligament
preopercular sensory canal
preoperculo-mandibular sensory canal
preoptic area
preopticohypophyseal tract
preopticohypothalamic tract
preplacodal ectoderm
pressoreceptor cell
presumptive atrioventricular canal
presumptive atrium heart tube
presumptive atrium primitive heart tube
presumptive blood
presumptive brain
presumptive bulbus arteriosus
presumptive cardiac ventricle heart tube
presumptive cardiac ventricle primitive heart tube
presumptive cephalic mesoderm
presumptive diencephalon
presumptive dorsal fin fold
presumptive dorsal mesoderm
presumptive ectoderm
presumptive endocardium
presumptive endoderm
presumptive enteric nervous system
presumptive floor plate
presumptive forebrain
presumptive hindbrain
presumptive hypochord
presumptive intervening zone
presumptive median fin fold
presumptive mesoderm
presumptive midbrain
presumptive neural plate
presumptive neural retina
presumptive paraxial mesoderm
presumptive pronephric mesoderm
presumptive retinal pigmented epithelium
presumptive rhombomere 1
presumptive rhombomere 2
presumptive rhombomere 3
presumptive rhombomere 4
presumptive rhombomere 5
presumptive rhombomere 6
presumptive rhombomere 7
presumptive rhombomere 8
presumptive segmental plate
presumptive shield
presumptive sinus venosus
presumptive spinal cord
presumptive structure
presumptive swim bladder
presumptive telencephalon
presumptive ventral fin fold
presumptive ventral mesoderm
pretectal periventricular nucleus
pretecto-mammillary tract
pretectum
preural 1 vertebra
preural 2 vertebra
preural centrum 1+ ural centrum 1
preural vertebra
prevomer
primary dental epithelium
primary germ layer
primary head sinus
primary interneuron
primary islet
primary motor neuron
primary neuron
primary neuron hindbrain
primary olfactory fiber layer
primary posterior lateral line primordium
primitive heart tube
primitive internal carotid artery
primitive meninx
primitive mesencephalic artery
primitive olfactory epithelium
primitive pectoral fin abductor
primitive pectoral fin adductor
primitive prosencephalic artery
primordial germ cell
primordial hindbrain channel
primordial ligament
primordial midbrain channel
primordial vasculature
pro-B cell
pro-NK cell
pro-T cell
proctodeum
proepicardial cluster
professional antigen presenting cell
progesterone secreting cell
prolactin secreting cell
proliferative region
promonocyte
pronephric capsular space
pronephric distal early tubule
pronephric distal late tubule
pronephric duct
pronephric duct opening
pronephric glomerular basement membrane
pronephric glomerular capillary
pronephric glomerular capsule
pronephric glomerular capsule epithelium
pronephric glomerulus
pronephric mesoderm
pronephric podocyte
pronephric proximal convoluted tubule
pronephric proximal straight tubule
pronephric tubule
pronephros
proneural cluster
prootic
prootic bulla
prootic depression
prootic foramen
prootic-exoccipital joint
prootic-pterosphenoid joint
propterygium
prosencephalic artery
protoneuromast
protractor hyoidei
proximal convoluted tubule
proximal pars anterior
proximal straight tubule
pseudobranchial artery
pseudounipolar neuron
pterosphenoid
pterosphenoid-orbitosphenoid joint
pterotic
pterotic fossa
pupil
Purkinje cell
Purkinje cell layer corpus cerebelli
Purkinje cell layer valvula cerebelli
pyramidal cell
quadrate
quadrate ventral process
quadrate-anguloarticular joint
quadrate-entopterygoid joint
quadrate-hyomandibula joint
quadrate-metapterygoid joint
radial
radial glial cell
raphe nucleus
ray vein
receptor cell (sensu Animalia)
recessus lateralis
recurrent branch afferent branchial artery
red sensitive photoreceptor cell
regenerating fin
regenerating tissue
regeneration epithelium
regeneration fibroblast
renal alpha-intercalated cell
renal artery
renal capsular space
renal corpuscle
renal duct
renal glomerular capsule
renal glomerular capsule epithelium
renal glomerulus
renal intercalated cell
renal portal vein
renal principal cell
renal system
renal tubule
renal vesicle
replacement bone
replacement element
reproductive system
respiratory system
reticular cell
reticular formation
reticulocyte
retina
retinal bipolar neuron
retinal cone cell
retinal ganglion cell
retinal ganglion cell layer
retinal inner nuclear layer
retinal inner plexiform layer
retinal neural layer
retinal outer nuclear layer
retinal outer plexiform layer
retinal photoreceptor layer
retinal pigmented epithelium
retinal rod cell
retroarticular
rhombencephalic efferent neurons to the lateral line
rhombencephalic octavola-teral efferent neuron
rhombic lip
rhombomere
rhombomere 1
rhombomere 2
rhombomere 3
rhombomere 4
rhombomere 5
rhombomere 6
rhombomere 7
rhombomere 8
rib
rib of vertebra 1
rib of vertebra 2
rib of vertebra 3
rib of vertebra 4
rib of vertebra 5
rib of vertebra 6
right intestinal lymphatics
right liver lobe
rod bipolar cell
Rohon-Beard neuron
RoI2C
RoI2R
RoL1
RoL2
RoL2c
RoL2r
RoL3
RoM1c
RoM1r
RoM2l
RoM2m
RoM3l
RoM3m
roof plate
roof plate diencephalic region
roof plate midbrain region
roof plate neural tube region
roof plate rhombomere 1
roof plate rhombomere 2
roof plate rhombomere 3
roof plate rhombomere 4
roof plate rhombomere 5
roof plate rhombomere 6
roof plate rhombomere 7
roof plate rhombomere 8
roof plate rhombomere region
roof plate spinal cord region
roofing cartilage
RoP motor neuron
rostral blood island
rostral cerebellar tract
rostral mesencephalo-cerebellar tract
rostral motor nucleus
rostral octaval nerve motor nucleus
rostral octaval nucleus
rostral pars anterior
rostral parvocellular preoptic nucleus
rostral preglomerular nucleus
rostral root of abducens nerve
rostral tegmental nucleus
rostral thalamic nucleus
rostral tuberal nucleus
rostrolateral thalamic nucleus of Butler & Saidel
RoV3
rudimentary neural arch
s-shaped body
saccule
sacculoagenar foramen
saccus dorsalis
sagitta
scale
scale primordium
scaphium
scapula
scapular foramen
scapulo-vertebral ligament
scapulocoracoid
Schlemm's canal
sclera
scleral cell
sclerotic bone
sclerotic cartilage
sclerotome
sclerotome somite 1
sclerotome somite 10
sclerotome somite 11
sclerotome somite 12
sclerotome somite 13
sclerotome somite 14
sclerotome somite 15
sclerotome somite 16
sclerotome somite 17
sclerotome somite 18
sclerotome somite 19
sclerotome somite 2
sclerotome somite 20
sclerotome somite 21
sclerotome somite 22
sclerotome somite 23
sclerotome somite 24
sclerotome somite 25
sclerotome somite 26
sclerotome somite 27
sclerotome somite 28
sclerotome somite 29
sclerotome somite 3
sclerotome somite 30
sclerotome somite 4
sclerotome somite 5
sclerotome somite 6
sclerotome somite 7
sclerotome somite 8
sclerotome somite 9
second tier layer of breeding tubercle
secondary gustatory nucleus medulla oblongata
sternohyoid
secondary gustatory nucleus trigeminal nucleus
secondary gustatory tract
secondary islet
secondary motor neuron
secondary neuron
secondary posterior lateral line primordium
segmental intercostal artery
segmental plate
semicircular canal
seminal fluid secreting cell
sensory canal
sensory canal tubular ossicle
sensory canal tubule
sensory epithelial cell
sensory neuron
sensory processing neuron
sensory root of facial nerve
sensory system
sensory trigeminal nucleus
serotonergic neuron
serotonin secreting cell
serous membrane
Sertoli cell
silver iridophore
simple columnar epithelial cell
simple columnar epithelium
simple cuboidal epithelium
simple organ
simple squamous epithelium
single ciliated epithelial cell
single fate stem cell
sinoatrial node
sinoatrial region
sinoatrial ring
sinoatrial valve
sinus impar
sinus venosus
sinusoidal blood vessel endothelium
skeletal element
skeletal muscle
skeletal muscle cell
skeletal muscle myoblast
skeletal muscle satellite cell
skeletal system
skeletal tissue
skin flap
slow muscle cell
slow muscle cell somite 1
slow muscle cell somite 10
slow muscle cell somite 11
slow muscle cell somite 12
slow muscle cell somite 13
slow muscle cell somite 14
slow muscle cell somite 15
slow muscle cell somite 16
slow muscle cell somite 17
slow muscle cell somite 18
slow muscle cell somite 19
slow muscle cell somite 2
slow muscle cell somite 20
slow muscle cell somite 21
slow muscle cell somite 22
slow muscle cell somite 23
slow muscle cell somite 24
slow muscle cell somite 25
slow muscle cell somite 26
slow muscle cell somite 27
slow muscle cell somite 28
slow muscle cell somite 29
slow muscle cell somite 3
slow muscle cell somite 30
slow muscle cell somite 4
slow muscle cell somite 5
slow muscle cell somite 6
slow muscle cell somite 7
slow muscle cell somite 8
slow muscle cell somite 9
slow muscle myoblast
smooth muscle
smooth muscle cell
smooth muscle myoblast
snout
solid compound organ
solid lens vesicle
somatic cell
somatic stem cell
somatomotor neuron
somatostatin secreting cell
somatotropin secreting cell
somite
somite 1
somite 10
somite 11
somite 12
somite 13
somite 14
somite 15
somite 16
somite 17
somite 18
somite 19
somite 2
somite 20
somite 21
somite 22
somite 23
somite 24
somite 25
somite 26
somite 27
somite 28
somite 29
somite 3
somite 30
somite 4
somite 5
somite 6
somite 7
somite 8
somite 9
somite border
specialized hemal arch and spine
sperm
sperm duct
spermatid
spermatocyte
spermatogonium
sphenoid region
sphenotic
sphenotic-prootic fossa
spinal accessory motor neuron
spinal artery
spinal cord
spinal cord interneuron
spinal cord neural keel
spinal cord neural plate
spinal cord neural rod
spinal cord neural tube
spinal nerve
spinal nerve root
spinal neuromere
spinous layer of breeding tubercle
splanchnocranium
spleen
squamous epithelial cell
statoacoustic (VIII) ganglion
statoacoustic (VIII) nucleus
stellate cell
stellate interneuron
steroid hormone secreting cell
stomodeum
stratified cuboidal epithelial cell
stratified epithelial cell
stratified epithelial stem cell
stratified keratinized epithelial stem cell
stratified squamous epithelial cell
stratum album centrale
stratum fibrosum et griseum superficiale
stratum griseum centrale
stratum marginale
stratum opticum
stratum periventriculare
stretch receptor cell
striated muscle cell
stromal cell
structural cell
subcommissural organ
subcutaneous fat
subintestinal vein
subopercle
substance P secreting cell
subtemporal fossa
sulcus ypsiloniformis
superficial abductor
superficial adductor
superficial blastomere
superficial caudal fin musculature
superficial grey and white zone
superficial lateralis
superficial layer of breeding tubercle
superficial ophthalmic nerve foramen
superficial pelvic abductor
superficial pelvic adductor
superficial pretectum
superior caudal dorsal flexor
superior caudal ventral flexor
superior cervical ganglion
superior raphe nucleus
superior reticular formation medial column
superior reticular formation tegmentum
supportive cell
supracarinalis
suprachiasmatic nucleus
supracleithrum
supracleithrum-intercalar ligament
supracleithrum-vertebral ligament
supracommissural nucleus of ventral telencephalon
supradorsal
supraethmoid
supraintestinal artery
supraintestinal lymphatic vessel
supraintestinal vein
supraneural
supraneural 10
supraneural 2
supraneural 3
supraneural 5
supraneural 6
supraneural 7
supraneural 8
supraneural 9
supraoccipital
supraoccipital-parietal joint
supraoptic commissure
supraoptic tract
supraorbital bone
supraorbital lateral line
supraorbital lateral line neuromast
supraorbital sensory canal
supratemporal sensory canal
surface structure
suspensorium
sustentacular cell
swim bladder
swim bladder artery
swim bladder bud
sympathetic chain ganglion
sympathetic nervous system
sympathetic neuron
symplectic
synencephalon
synostosis
synovial cell
synovial fluid
synovial joint
T cell
T interneuron
t-interneuron
taenia marginalis anterior
taenia marginalis posterior
tail bud
tangential nucleus
taste bud
taste receptor cell
tectal ventricle
tecto-bulbar tract
tectum synoticum
tegmental nucleus
tegmentum
tela chorioidea
tela chorioidea fourth ventricle
tela chorioidea tectal ventricle
tela chorioidea telencephalic ventricle
tela chorioidea third ventricle
telencephalic nucleus
telencephalic ventricle
telencephalic white matter
telencephalon
telencephalon diencephalon boundary
tendon
tendon cell
terminal nerve
terminal Schwann cell
tertiary gustatory nucleus
testis
testosterone secreting cell
tether cell
thalamus
theca cell
thecal cell layer
thermoreceptor cell
third ventricle
thoracic duct
thromboblast
thrombocyte
thymic epithelium
thymus
thymus primordium
thyroid follicle
thyroid hormone secreting cell
thyroid primordium
thyroid stimulating hormone secreting cell
tongue
tooth 1D
tooth 1MD
tooth 1V
tooth 2D
tooth 2MD
tooth 2V
tooth 3MD
tooth 3V
tooth 4MD
tooth 4V
tooth 5V
tooth cusp
tooth placode
tooth pulp
tooth row
torus lateralis
torus longitudinalis
torus semicircularis
totipotent stem cell
trabecula communis
trabecula cranii
trabecular layer
trabecular layer of the atrium
trabecular layer of ventricle
tract of the caudal commissure
tract of the postoptic commissure
trans-choroid plexus branch
transitional epithelial cell
transitional stage B cell
transverse band
transverse canal
tri-tipped trabecula
trigeminal ganglion
trigeminal motor nucleus
trigeminal neural crest
trigeminal placode
trigeminal sensory neuron
tripus
trochlear motor nucleus
trunk
trunk ganglion
trunk mesenchyme
trunk musculature
trunk neural crest
trunk neural crest cell
trunk sensory canal
trunk vasculature
tunica externa
tunica interna
UCoD
ultimobranchial body
uncrossed tecto-bulbar tract
unfertilized egg
unilaminar epithelium
unipolar neuron
unspecified
upper left intestinal lymph vessel
upper lip
upper oral valve
upper rhombic lip
upper right intestinal lymph vessel
ural centrum 2
ural vertebra 2
urogenital papilla
urohyal
uroneural
urostyle
urothelial cell
utricle
utriculosaccular foramen
UV sensitive photoreceptor cell
vagal ganglion
vagal ganglion 1
vagal ganglion 2
vagal ganglion 3
vagal ganglion 4
vagal lobe
vagal neural crest
vagal placode 1
vagal placode 2
vagal placode 3
vagal placode 4
vagal root
vagal sensory zone
valvula cerebelli
VaP motor neuron
vascular associated smooth muscle cell
vascular cord
vascular endothelium
vascular lymphangioblast
vascular smooth muscle
vascular sprouts
vasculature
vein
VeLD
vent
ventral accessory optic nucleus
ventral actinotrichium
ventral anterior lateral line ganglion
ventral anterior lateral line nerve
ventral aorta
ventral arrector
ventral branch nasal ciliary artery
ventral canal eye
ventral caudal adductor
ventral entopeduncular nucleus of ventral telencephalon
ventral fin fold
ventral funiculus
ventral habenular nucleus
ventral horn spinal cord
ventral hyoid arch
ventral hypohyal bone
ventral hypohyal-urohyal joint
ventral hypothalamic zone
ventral interfilamental caudal muscle
ventral intermandibularis anterior
ventral intermandibularis posterior
ventral larval melanophore stripe
ventral lateral mesoderm
ventral liver lobe
ventral mandibular arch
ventral mesenchyme
ventral mesentery
ventral mesoderm
ventral motor nucleus trigeminal nerve
ventral nucleus of ventral telencephalon
ventral oblique branchial muscle
ventral oblique extraocular muscle
ventral pelvic arrector
ventral posterior glomerulus
ventral proneural cluster
ventral rectus
ventral rhombencephalic commissure
ventral rhombencephalic commissure medulla oblongata
ventral root
ventral spinal nerve
ventral spinal nerve median branch
ventral spinal nerve septal branch
ventral sulcus
ventral telencephalon
ventral thalamus
ventral thalamus nucleus
ventral tooth row
ventral transverse
ventral wall of dorsal aorta
ventral zone olfactory bulb
ventricular endocardium
ventricular epicardium
ventricular myocardium
ventricular system
ventricular zone
ventriculo bulbo valve
ventro-caudal cluster
ventro-rostral cluster
ventroanterior zone of olfactory bulb
ventrolateral nucleus
ventrolateral optic tract
ventrolateral thalamic nucleus
ventromedial thalamic nucleus
ventromedial zone olfactory bulb
ventroposterior zone olfactory bulb
venule
vertebra
vertebra 1
vertebra 10
vertebra 11
vertebra 12
vertebra 2
vertebra 3
vertebra 4
vertebra 4-vertebra 5 joint
vertebra 5
vertebra 5-vertebra 6 joint
vertebra 6
vertebra 6 - vertebra 7 joint
vertebra 7
vertebra 8
vertebra 9
vertebral artery
vertebral column
vertical myoseptum
vestibulo-spinal tract
vestibuloauditory system
vestibulolateralis lobe
vH ionocyte
visceral fat
visceral peritoneum
visceromotor column
visceromotor neuron
viscerosensory commissural nucleus of Cajal
visible light photoreceptor cell
visual pigment cell (sensu Vertebrata)
visual system
vitreous
vmG1
vmG2
vmG3
vmG4
vmG5
vmG6
vmG7
vmGx
vmGy
vpG1
vpG2
Weberian apparatus
Weberian ossicle
Weberian vertebra
white matter
whole organism
xanthoblast
xanthophore
yolk
yolk larval melanophore stripe
YSL
zona limitans intrathalamica
zona radiata
zone of polarizing activity pectoral fin bud
zone of polarizing activity pelvic fin bud
zonule

Lab Name	Principal Investigator	Institution	Country
Daub Lab	Carsten Daub	KI	Sweden
Wardle Lab	Fiona Wardle	King's College London	England
Mueller lab	Ferenc Mueller	University of Birmingham	UK
Shkumatava Lab	Alena Shkumatava	Institut Curie	France
Sauka-Spengler Lab	Tatjana Sauka-Spengler	University of Oxford	UK
Giraldez Lab	Antonio Giraldez	Yale	USA
Winata Lab	Cecilia Winata	IIMCB Warsaw	Poland
Mathavan Lab	Sinnakaruppan Mathavan	NTU Medical School	Singapore
Onichtchouk Lab	Daria Onichtchouk	University of Freiburg	Germany
Busch-Nentwich Lab	Elisabeth Busch-Nentwich	Wellcome Trust Sanger Institute	UK
Lenhard Lab	Boris Lenhard	Imperial College London	UK
Zon Lab	Leonard Zon	Boston Children's Hospital	USA
Postlethwait Lab	John H. Postlethwait	Institute of Neuroscience, University of Oregon	USA
MRC-CSC Genomics facility	—	MRC-CSC	UK
Barts and The London Genome Center	—	Queen Mary University of London	UK
Vaquerizas Lab	Juan M. Vaquerizas	Max Planck Institute for Molecular Biomedicine	Germany
Driever Lab	Wolfgang Driever	University of Freiburg	Germany
Strahle Lab	Uwe Strähle	Karlsruhe Institute of Technology	Germany
RIKEN	Piero Carninci	RIKEN	Japan
Liu Lab	Jiang Liu	Beijing Institute of Genomics, CAS	China
Ferrer lab	Jorge Ferrer	IDIBAPS	Spain
Skarmeta Lab	José Luis Gómez-Skarmeta	Centro Andaluz de Biologia del Desarrollo	Spain
Peers Lab	Bernard Peers	University of Liege	Belgium
Johns Hopkins Deep Sequencing and Microarray Core Facility	—	—	USA
Schier Lab	Alex Schier	Harvard University	USA
Klose Lab	Rob Klose	University of Oxford	UK
Cairns Lab	Brad Cairns	HHMI	USA
Vastenhouw lab	Nadine Vastenhouw	Max Planck Institute of Molecular Cell Biology and Genetics	Germany
Lister lab	Ryan Lister	University of Western Australia	Australia
Yang Lab	Hongxing Yang	Shanghai Chenshan Botanical Garden	China
Kere Lab	Juha Kere	Karolinska Institute	Sweden
Gong Lab	Zhiyuan Gong	National University of Singapore	Singapore
Stainier Lab	Didier Stainier	Max Planck Institute For Heart and Lung Research	Germany
Bartel Lab	David P. Bartel	Whitehead Institute for Biomedical Research	USA
Xu Lab	Anlong Xu	School of Life Sciences, Sun Yat-sen University	China
Sadler Lab	Kirsten Sadler Edepli	New York University Abu Dhabi	United Arab Emirates
Zhang Lab	Yuji Zhang	University of Maryland	USA
Englert lab	Christoph Englert	Leibniz Institute for Age Research - Fritz Lipmann Institute	Germany
Pandey Lab	Akhilesh Pandey	Johns Hopkins University School of Medicine	USA
Gomez Lab	Manuel J. Gomez	CNIC	Spain
Wong lab	Ryan Y. Wong	University of Nebraska Omaha	USA
Bobe lab	Julien Bobe	Laboratoire de Physiologie et Genomique des Poissons, INRA, Rennes	France
Liangbiao Lab	Chen Liangbiao	Shanghai Ocean University	China
Wei Lab	Chunyao Wei	Vanderbilt University	USA
de Wit Lab	Elzo de Wit	Division Of Gene Regulation, Netherlands Cancer Institute	The Netherlands
Rotterdam Genomics core	—	Erasmus MC	The Netherlands
Kamminga Lab	Leonie Kamminga	Radboud University	The Netherlands
Chatterjee Lab	Aniruddha Chatterjee	Department of Pathology, Dunedin School of Medicine, University of Otago	New Zealand
Horsfield Lab	Julia Horsfield	Department of Pathology, Dunedin School of Medicine, University of Otago	New Zealand
Genome Technology Access Center	—	Washington University, St. Louis	USA
Novogene	-	-	China
Xie Lab	Wei Xie	Tsinghua University, Beijing	China
Alestrom Lab	Peter Alestrom	Norwegian University of Life Sciences	Norway
Lawson Lab	Nathan D. Lawson	University of Massachusetts Medical School	USA
Ekker Lab	Stephen C Ekker	Mayo Clinic, Rochester	United States of America
GeneWiz NGS services	—	Genewiz	United States of America
NGI Sweden	Carsten Daub	National Genomic Infrastructure	Sweden
Doe Lab	Janine Doe	ISS	Space

Name
RNA-seq
ChIP-seq
DNAse-seq
FAIRE-seq
ATAC-seq
CAGE-seq
Bru-seq
PAS-seq
Ribo-seq
SELEX-seq
STARR-seq
RIP-seq
PAR-Clip-seq
iCLIP-seq
ChIP-exo-seq
BS-seq
TAB-seq
GRO-seq
MeDIP-seq
4C-seq
MNase-seq
MethylC-seq
RRBS
MethylCap-seq
miRNA-seq
PAL-seq
3P-seq
Hi-C
Capture-C
ChIA-PET
SAPAS
mRNA-seq
small-RNA-seq

Name
1-cell
2-cell
4-cell
8-cell
16-cell
32-cell
64-cell
128-cell
256-cell
512-cell
1k-cell
High
Oblong
Sphere
Dome
30%-epiboly
50%-epiboly
Germ-ring
Shield
75%-epiboly
90%-epiboly
Bud
1-4 somites
5-9 somites
10-13 somites
14-19 somites
20-25 somites
26+ somites
Prim-5
Prim-15
Prim-25
High-pec
Long-pec
Pec-fin
Protruding-mouth
Day 4
Day 5
Day 6
Days 7-13
Days 14-20
Days 21-29
Days 30-44
Days 45-89
90 Days-2 Years

Name
AB
AB/C32
AB/EKW
AB/TL
AB/TU
C32
KOLN
DAR
EKW
HK/AB
HK/SING
HK
IND
INDO
SPF 5-D
SPF AB
NA
RW
SAT
SING
SJA
SJD
SJD/C32
TU
TL
TLN
WIK
WIK/AB
WT
SH
LSB
HSB
NHGRI-1
crossbreed
HLF
AB/PS
TL/TLF
TU/TL

Name
AB SOLiD System
ABI 377 automated sequencer
Genome Sequence 20
Genome Sequence FLX+ / FLX
HiSeq X Ten
HiSeq 2000
HiSeq 2500
HiSeq 3000
HiSeq 4000
HiSeq 5000
NextSeq 500 High-Output
NextSeq 500 Mid-Output
HiSeq High-Output v4
HiSeq High-Output v3
HiSeq Rapid Run
HiScanSQ
GAIIx
Li-Cor 4300 DNA Analysis System
MiSeq v3
HiSeq 1500
HiSeq 1000

Name
Illumina
Ion
PacBio
Roche 454
SOLiD

Name
m
f

Name
unstranded
forward
reverse