Guides

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

1. Connect the genome browser to the track hub

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
6
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
3
Number of different Assays
2

Biosamples

Developmental Stage
2-cell, 8-cell, 16-cell, 64-cell, 256-cell, 1k-cell
Lab
A
Gen. background
AB
Sample type
whole organism

Assay

Lab
A
Assay Type
CAGE-seq
Lab
B
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
B
Platform
Illumina
Instrument
HiSeq 2000
Sequencing mode
paired end
Maximal read length
58
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

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).

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
with processed files
initial entry
complete upload
Name
whole organism
tissue
stem cells
cell line
Name
zonule
zone of polarizing activity pelvic fin bud
zone of polarizing activity pectoral fin bud
zona radiata
zona limitans intrathalamica
YSL
yolk larval melanophore stripe
yolk
xanthophore
xanthoblast
whole organism
white matter
Weberian vertebra
Weberian ossicle
Weberian apparatus
vpG2
vpG1
vmGy
vmGx
vmG7
vmG6
vmG5
vmG4
vmG3
vmG2
vmG1
vitreous
visual system
visual pigment cell (sensu Vertebrata)
visible light photoreceptor cell
viscerosensory commissural nucleus of Cajal
visceromotor neuron
visceromotor column
visceral peritoneum
visceral fat
vH ionocyte
vestibulo-spinal tract
vestibulolateralis lobe
vestibuloauditory system
vertical myoseptum
vertebral column
vertebral artery
vertebra 9
vertebra 8
vertebra 7
vertebra 6 - vertebra 7 joint
vertebra 6
vertebra 5-vertebra 6 joint
vertebra 5
vertebra 4-vertebra 5 joint
vertebra 4
vertebra 3
vertebra 2
vertebra 12
vertebra 11
vertebra 10
vertebra 1
vertebra
venule
ventro-rostral cluster
ventroposterior zone olfactory bulb
ventromedial zone olfactory bulb
ventromedial thalamic nucleus
ventrolateral thalamic nucleus
ventrolateral optic tract
ventrolateral nucleus
ventro-caudal cluster
ventroanterior zone of olfactory bulb
ventriculo bulbo valve
ventricular zone
ventricular system
ventricular myocardium
ventricular epicardium
ventricular endocardium
ventral zone olfactory bulb
ventral wall of dorsal aorta
ventral transverse
ventral tooth row
ventral thalamus nucleus
ventral thalamus
ventral telencephalon
ventral sulcus
ventral spinal nerve septal branch
ventral spinal nerve median branch
ventral spinal nerve
ventral root
ventral rhombencephalic commissure medulla oblongata
ventral rhombencephalic commissure
ventral rectus
ventral proneural cluster
ventral posterior glomerulus
ventral pelvic arrector
ventral oblique extraocular muscle
ventral oblique branchial muscle
ventral nucleus of ventral telencephalon
ventral motor nucleus trigeminal nerve
ventral mesoderm
ventral mesentery
ventral mesenchyme
ventral mandibular arch
ventral liver lobe
ventral lateral mesoderm
ventral larval melanophore stripe
ventral intermandibularis posterior
ventral intermandibularis anterior
ventral interfilamental caudal muscle
ventral hypothalamic zone
ventral hypohyal-urohyal joint
ventral hypohyal bone
ventral hyoid arch
ventral horn spinal cord
ventral habenular nucleus
ventral funiculus
ventral fin fold
ventral entopeduncular nucleus of ventral telencephalon
ventral caudal adductor
ventral canal eye
ventral branch nasal ciliary artery
ventral arrector
ventral aorta
ventral anterior lateral line nerve
ventral anterior lateral line ganglion
ventral actinotrichium
ventral accessory optic nucleus
vent
VeLD
vein
vasculature
vascular sprouts
vascular smooth muscle
vascular lymphangioblast
vascular endothelium
vascular cord
vascular associated smooth muscle cell
VaP motor neuron
valvula cerebelli
vagal sensory zone
vagal root
vagal placode 4
vagal placode 3
vagal placode 2
vagal placode 1
vagal neural crest
vagal lobe
vagal ganglion 4
vagal ganglion 3
vagal ganglion 2
vagal ganglion 1
vagal ganglion
UV sensitive photoreceptor cell
utriculosaccular foramen
utricle
urothelial cell
urostyle
uroneural
urohyal
urogenital papilla
ural vertebra 2
ural centrum 2
upper right intestinal lymph vessel
upper rhombic lip
upper oral valve
upper lip
upper left intestinal lymph vessel
unspecified
unipolar neuron
unilaminar epithelium
unfertilized egg
uncrossed tecto-bulbar tract
ultimobranchial body
UCoD
tunica interna
tunica externa
trunk vasculature
trunk sensory canal
trunk neural crest cell
trunk neural crest
trunk musculature
trunk mesenchyme
trunk ganglion
trunk
trochlear motor nucleus
tri-tipped trabecula
tripus
trigeminal sensory neuron
trigeminal placode
trigeminal neural crest
trigeminal motor nucleus
trigeminal ganglion
transverse canal
transverse band
transitional stage B cell
transitional epithelial cell
trans-choroid plexus branch
tract of the postoptic commissure
tract of the caudal commissure
trabecular layer of ventricle
trabecular layer of the atrium
trabecular layer
trabecula cranii
trabecula communis
totipotent stem cell
torus semicircularis
torus longitudinalis
torus lateralis
tooth row
tooth pulp
tooth placode
tooth cusp
tooth 5V
tooth 4V
tooth 4MD
tooth 3V
tooth 3MD
tooth 2V
tooth 2MD
tooth 2D
tooth 1V
tooth 1MD
tooth 1D
tongue
T interneuron
t-interneuron
thyroid stimulating hormone secreting cell
thyroid primordium
thyroid hormone secreting cell
thyroid follicle
thymus primordium
thymus
thymic epithelium
thrombocyte
thromboblast
thoracic duct
third ventricle
thermoreceptor cell
thecal cell layer
theca cell
thalamus
tether cell
testosterone secreting cell
testis
tertiary gustatory nucleus
terminal Schwann cell
terminal nerve
tendon cell
tendon
telencephalon diencephalon boundary
telencephalon
telencephalic white matter
telencephalic ventricle
telencephalic nucleus
tela chorioidea third ventricle
tela chorioidea telencephalic ventricle
tela chorioidea tectal ventricle
tela chorioidea fourth ventricle
tela chorioidea
tegmentum
tegmental nucleus
tectum synoticum
tecto-bulbar tract
tectal ventricle
T cell
taste receptor cell
taste bud
tangential nucleus
tail bud
taenia marginalis posterior
taenia marginalis anterior
synovial joint
synovial fluid
synovial cell
synostosis
synencephalon
symplectic
sympathetic neuron
sympathetic nervous system
sympathetic chain ganglion
swim bladder bud
swim bladder artery
swim bladder
sustentacular cell
suspensorium
surface structure
supratemporal sensory canal
supraorbital sensory canal
supraorbital lateral line neuromast
supraorbital lateral line
supraorbital bone
supraoptic tract
supraoptic commissure
supraoccipital-parietal joint
supraoccipital
supraneural 9
supraneural 8
supraneural 7
supraneural 6
supraneural 5
supraneural 3
supraneural 2
supraneural 10
supraneural
supraintestinal vein
supraintestinal lymphatic vessel
supraintestinal artery
supraethmoid
supradorsal
supracommissural nucleus of ventral telencephalon
supracleithrum-vertebral ligament
supracleithrum-intercalar ligament
supracleithrum
suprachiasmatic nucleus
supracarinalis
supportive cell
superior reticular formation tegmentum
superior reticular formation medial column
superior raphe nucleus
superior cervical ganglion
superior caudal ventral flexor
superior caudal dorsal flexor
superficial pretectum
superficial pelvic adductor
superficial pelvic abductor
superficial ophthalmic nerve foramen
superficial layer of breeding tubercle
superficial lateralis
superficial grey and white zone
superficial caudal fin musculature
superficial blastomere
superficial adductor
superficial abductor
sulcus ypsiloniformis
subtemporal fossa
substance P secreting cell
subopercle
subintestinal vein
subcutaneous fat
subcommissural organ
structural cell
stromal cell
striated muscle cell
stretch receptor cell
stratum periventriculare
stratum opticum
stratum marginale
stratum griseum centrale
stratum fibrosum et griseum superficiale
stratum album centrale
stratified squamous epithelial cell
stratified keratinized epithelial stem cell
stratified epithelial stem cell
stratified epithelial cell
stratified cuboidal epithelial cell
stomodeum
steroid hormone secreting cell
sternohyoid
stellate interneuron
stellate cell
statoacoustic (VIII) nucleus
statoacoustic (VIII) ganglion
s-shaped body
squamous epithelial cell
spleen
splanchnocranium
spinous layer of breeding tubercle
spinal neuromere
spinal nerve root
spinal nerve
spinal cord neural tube
spinal cord neural rod
spinal cord neural plate
spinal cord neural keel
spinal cord interneuron
spinal cord
spinal artery
spinal accessory motor neuron
sphenotic-prootic fossa
sphenotic
sphenoid region
sperm duct
spermatogonium
spermatocyte
spermatid
sperm
specialized hemal arch and spine
somite border
somite 9
somite 8
somite 7
somite 6
somite 5
somite 4
somite 30
somite 3
somite 29
somite 28
somite 27
somite 26
somite 25
somite 24
somite 23
somite 22
somite 21
somite 20
somite 2
somite 19
somite 18
somite 17
somite 16
somite 15
somite 14
somite 13
somite 12
somite 11
somite 10
somite 1
somite
somatotropin secreting cell
somatostatin secreting cell
somatomotor neuron
somatic stem cell
somatic cell
solid lens vesicle
solid compound organ
snout
smooth muscle myoblast
smooth muscle cell
smooth muscle
slow muscle myoblast
slow muscle cell somite 9
slow muscle cell somite 8
slow muscle cell somite 7
slow muscle cell somite 6
slow muscle cell somite 5
slow muscle cell somite 4
slow muscle cell somite 30
slow muscle cell somite 3
slow muscle cell somite 29
slow muscle cell somite 28
slow muscle cell somite 27
slow muscle cell somite 26
slow muscle cell somite 25
slow muscle cell somite 24
slow muscle cell somite 23
slow muscle cell somite 22
slow muscle cell somite 21
slow muscle cell somite 20
slow muscle cell somite 2
slow muscle cell somite 19
slow muscle cell somite 18
slow muscle cell somite 17
slow muscle cell somite 16
slow muscle cell somite 15
slow muscle cell somite 14
slow muscle cell somite 13
slow muscle cell somite 12
slow muscle cell somite 11
slow muscle cell somite 10
slow muscle cell somite 1
slow muscle cell
skin flap
skeletal tissue
skeletal system
skeletal muscle satellite cell
skeletal muscle myoblast
skeletal muscle cell
skeletal muscle
skeletal element
sinus venosus
sinusoidal blood vessel endothelium
sinus impar
sinoatrial valve
sinoatrial ring
sinoatrial region
sinoatrial node
single fate stem cell
single ciliated epithelial cell
simple squamous epithelium
simple organ
simple cuboidal epithelium
simple columnar epithelium
simple columnar epithelial cell
silver iridophore
Sertoli cell
serous membrane
serotonin secreting cell
serotonergic neuron
sensory trigeminal nucleus
sensory system
sensory root of facial nerve
sensory processing neuron
sensory neuron
sensory epithelial cell
sensory canal tubule
sensory canal tubular ossicle
sensory canal
seminal fluid secreting cell
semicircular canal
segmental plate
segmental intercostal artery
second tier layer of breeding tubercle
secondary posterior lateral line primordium
secondary neuron
secondary motor neuron
secondary islet
secondary gustatory tract
secondary gustatory nucleus trigeminal nucleus
secondary gustatory nucleus medulla oblongata
sclerotome somite 9
sclerotome somite 8
sclerotome somite 7
sclerotome somite 6
sclerotome somite 5
sclerotome somite 4
sclerotome somite 30
sclerotome somite 3
sclerotome somite 29
sclerotome somite 28
sclerotome somite 27
sclerotome somite 26
sclerotome somite 25
sclerotome somite 24
sclerotome somite 23
sclerotome somite 22
sclerotome somite 21
sclerotome somite 20
sclerotome somite 2
sclerotome somite 19
sclerotome somite 18
sclerotome somite 17
sclerotome somite 16
sclerotome somite 15
sclerotome somite 14
sclerotome somite 13
sclerotome somite 12
sclerotome somite 11
sclerotome somite 10
sclerotome somite 1
sclerotome
sclerotic cartilage
sclerotic bone
scleral cell
sclera
Schlemm's canal
scapulo-vertebral ligament
scapulocoracoid
scapular foramen
scapula
scaphium
scale primordium
scale
sagitta
saccus dorsalis
sacculoagenar foramen
saccule
rudimentary neural arch
RoV3
rostrolateral thalamic nucleus of Butler & Saidel
rostral tuberal nucleus
rostral thalamic nucleus
rostral tegmental nucleus
rostral root of abducens nerve
rostral preglomerular nucleus
rostral parvocellular preoptic nucleus
rostral pars anterior
rostral octaval nucleus
rostral octaval nerve motor nucleus
rostral motor nucleus
rostral mesencephalo-cerebellar tract
rostral cerebellar tract
rostral blood island
RoP motor neuron
roof plate spinal cord region
roof plate rhombomere region
roof plate rhombomere 8
roof plate rhombomere 7
roof plate rhombomere 6
roof plate rhombomere 5
roof plate rhombomere 4
roof plate rhombomere 3
roof plate rhombomere 2
roof plate rhombomere 1
roof plate neural tube region
roof plate midbrain region
roof plate diencephalic region
roof plate
roofing cartilage
RoM3m
RoM3l
RoM2m
RoM2l
RoM1r
RoM1c
RoL3
RoL2r
RoL2c
RoL2
RoL1
RoI2R
RoI2C
Rohon-Beard neuron
rod bipolar cell
right liver lobe
right intestinal lymphatics
rib of vertebra 6
rib of vertebra 5
rib of vertebra 4
rib of vertebra 3
rib of vertebra 2
rib of vertebra 1
rib
rhombomere 8
rhombomere 7
rhombomere 6
rhombomere 5
rhombomere 4
rhombomere 3
rhombomere 2
rhombomere 1
rhombomere
rhombic lip
rhombencephalic octavola-teral efferent neuron
rhombencephalic efferent neurons to the lateral line
retroarticular
retinal rod cell
retinal pigmented epithelium
retinal photoreceptor layer
retinal outer plexiform layer
retinal outer nuclear layer
retinal neural layer
retinal inner plexiform layer
retinal inner nuclear layer
retinal ganglion cell layer
retinal ganglion cell
retinal cone cell
retinal bipolar neuron
retina
reticulocyte
reticular formation
reticular cell
respiratory system
reproductive system
replacement element
replacement bone
renal vesicle
renal tubule
renal system
renal principal cell
renal portal vein
renal intercalated cell
renal glomerulus
renal glomerular capsule epithelium
renal glomerular capsule
renal duct
renal corpuscle
renal capsular space
renal artery
renal alpha-intercalated cell
regeneration fibroblast
regeneration epithelium
regenerating tissue
regenerating fin
red sensitive photoreceptor cell
recurrent branch afferent branchial artery
recessus lateralis
receptor cell (sensu Animalia)
ray vein
raphe nucleus
radial glial cell
radial
quadrate ventral process
quadrate-metapterygoid joint
quadrate-hyomandibula joint
quadrate-entopterygoid joint
quadrate-anguloarticular joint
quadrate
pyramidal cell
Purkinje cell layer valvula cerebelli
Purkinje cell layer corpus cerebelli
Purkinje cell
pupil
pterotic fossa
pterotic
pterosphenoid-orbitosphenoid joint
pterosphenoid
pseudounipolar neuron
pseudobranchial artery
proximal straight tubule
proximal pars anterior
proximal convoluted tubule
protractor hyoidei
protoneuromast
pro-T cell
prosencephalic artery
propterygium
prootic-pterosphenoid joint
prootic foramen
prootic-exoccipital joint
prootic depression
prootic bulla
prootic
pro-NK cell
proneural cluster
pronephros
pronephric tubule
pronephric proximal straight tubule
pronephric proximal convoluted tubule
pronephric podocyte
pronephric mesoderm
pronephric glomerulus
pronephric glomerular capsule epithelium
pronephric glomerular capsule
pronephric glomerular capillary
pronephric glomerular basement membrane
pronephric duct opening
pronephric duct
pronephric distal late tubule
pronephric distal early tubule
pronephric capsular space
promonocyte
proliferative region
prolactin secreting cell
progesterone secreting cell
professional antigen presenting cell
proepicardial cluster
proctodeum
pro-B cell
primordial vasculature
primordial midbrain channel
primordial ligament
primordial hindbrain channel
primordial germ cell
primitive prosencephalic artery
primitive pectoral fin adductor
primitive pectoral fin abductor
primitive olfactory epithelium
primitive mesencephalic artery
primitive meninx
primitive internal carotid artery
primitive heart tube
primary posterior lateral line primordium
primary olfactory fiber layer
primary neuron hindbrain
primary neuron
primary motor neuron
primary islet
primary interneuron
primary head sinus
primary germ layer
primary dental epithelium
prevomer
preural vertebra
preural centrum 1+ ural centrum 1
preural 2 vertebra
preural 1 vertebra
pretectum
pretecto-mammillary tract
pretectal periventricular nucleus
presumptive ventral mesoderm
presumptive ventral fin fold
presumptive telencephalon
presumptive swim bladder
presumptive structure
presumptive spinal cord
presumptive sinus venosus
presumptive shield
presumptive segmental plate
presumptive rhombomere 8
presumptive rhombomere 7
presumptive rhombomere 6
presumptive rhombomere 5
presumptive rhombomere 4
presumptive rhombomere 3
presumptive rhombomere 2
presumptive rhombomere 1
presumptive retinal pigmented epithelium
presumptive pronephric mesoderm
presumptive paraxial mesoderm
presumptive neural retina
presumptive neural plate
presumptive midbrain
presumptive mesoderm
presumptive median fin fold
presumptive intervening zone
presumptive hypochord
presumptive hindbrain
presumptive forebrain
presumptive floor plate
presumptive enteric nervous system
presumptive endoderm
presumptive endocardium
presumptive ectoderm
presumptive dorsal mesoderm
presumptive dorsal fin fold
presumptive diencephalon
presumptive cephalic mesoderm
presumptive cardiac ventricle primitive heart tube
presumptive cardiac ventricle heart tube
presumptive bulbus arteriosus
presumptive brain
presumptive blood
presumptive atrium primitive heart tube
presumptive atrium heart tube
presumptive atrioventricular canal
pressoreceptor cell
preplacodal ectoderm
preopticohypothalamic tract
preopticohypophyseal tract
preoptic area
preoperculo-mandibular sensory canal
preopercular sensory canal
preopercle vertical limb-hyomandibula joint
preopercle vertical limb
preopercle-retroarticular ligament
preopercle horizontal limb-symplectic joint
preopercle horizontal limb
preopercle
premaxillo-rostroid ligament
premaxillary-maxillary ligament
premaxilla ascending process
premaxilla
preglomerular nucleus
preethmoid bone
predentine
precursor B cell
prechordal plate
precaudal vertebra
post-Weberian supraneural
post-vent vasculature
post-vent region
posttemporal fossa
posttemporal
postovulatory follicle
post-otic sensory canal
postoptic commissure
posteromedial glomerulus
posterior semicircular canal
posterior segment eye
posterior sclerotic bone
posterior recess
posterior pronephric duct
posterior presumptive neural plate
posterior pancreatic bud
posterior neural tube
posterior neural rod
posterior neural plate
posterior neural keel
posterior naris
posterior mesenteric artery
posterior mesencephalic central artery
posterior macula
posterior lateral plate mesoderm
posterior lateral mesoderm
posterior lateral line system
posterior lateral line primordium
posterior lateral line placode
posterior lateral line neuromast
posterior lateral line nerve
posterior lateral line ganglion
posterior lateral line
posterior kidney
posterior intestine epithelium
posterior intestine
posterior crista primordium
posterior crista
posterior communicating artery
posterior chamber swim bladder
posterior cerebral vein
posterior caudal vein
posterior cardinal vein
postcranial axial skeleton
postcranial axial cartilage
postcommissural nucleus of ventral telencephalon
postcleithrum
portion of tissue
portion of organism substance
portion of connective tissue
pore
polymodal neuron
polychromatophilic erythroblast
polster
podocyte
pneumatic duct
pleuroperitoneal cavity
plasma cell
pioneer neuron
pinealocyte
pineal complex
pillar of the semicircular canal
pillar of the posterior semicircular canal
pillar of the lateral semicircular canal
pillar of the anterior semicircular canal
pigment erythroblast
pigmented epithelial cell
pigment cell (sensu Vertebrata)
pigment cell
photoreceptor outer segment layer
photoreceptor inner segment layer
photoreceptor cell
photopic photoreceptor cell
pharynx
pharyngohyoid
pharyngobranchial cartilage
pharyngobranchial bone
pharyngobranchial 4 cartilage
pharyngobranchial 3 cartilage
pharyngobranchial 3 bone
pharyngobranchial 2 cartilage
pharyngobranchial 2 bone
pharyngeal vasculature
pharyngeal pouches 2-6
pharyngeal pouch 6
pharyngeal pouch 5
pharyngeal pouch 4
pharyngeal pouch 3
pharyngeal pouch 2
pharyngeal pouch 1
pharyngeal pouch
pharyngeal musculature
pharyngeal mesoderm
pharyngeal epithelium
pharyngeal endoderm
pharyngeal ectoderm
pharyngeal arch cartilage
pharyngeal arch 7 skeleton
pharyngeal arch 7
pharyngeal arch 6 skeleton
pharyngeal arch 6
pharyngeal arch 5 skeleton
pharyngeal arch 5
pharyngeal arch 4 skeleton
pharyngeal arch 4
pharyngeal arch 3 skeleton
pharyngeal arch 3-7 skeleton
pharyngeal arch 3-7
pharyngeal arch 3
pharyngeal arch 2 skeleton
pharyngeal arch 2
pharyngeal arch 1
pharyngeal arch
phagocyte
periventricular nucleus of ventral telencephalon
periventricular nucleus of caudal tuberculum
periventricular nucleus
periventricular grey zone
peritoneum
peritoneal macrophage
peripheral olfactory organ
peripheral nucleus of ventral telencephalon
peripheral neuron
peripheral nervous system
peripheral cardiac conduction system
periorbital fat
periocular mesenchyme
perineuronal satellite cell
perilymphatic space
perilymphatic duct
perilymph
perijunctional fibroblast
peridermal cell
periderm
pericyte
perichordal connective tissue
perichordal bone
perichondrium
perichondral bone
pericardium
pericardial muscle
pericardial fat
pericardial cavity
periarticular chondrocyte
peptidergic neuron
peptide hormone secreting cell
pelvic radial cartilage
pelvic radial 3 cartilage
pelvic radial 3
pelvic radial 2 cartilage
pelvic radial 2
pelvic radial 1 cartilage
pelvic radial 1
pelvic radial
pelvic girdle
pelvic fin skeleton
pelvic fin musculature
pelvic fin lepidotrichium 4
pelvic fin lepidotrichium 3
pelvic fin lepidotrichium 2
pelvic fin lepidotrichium 1
pelvic fin lepidotrichium
pelvic fin field
pelvic fin cartilage
pelvic fin bud
pelvic fin actinotrichium
pelvic fin
pelvic adductor profundus
pelvic abductor profundus
pectoral vein
pectoral lymphatic vessel
pectoral girdle
pectoral fin vasculature
pectoral fin skeleton
pectoral fin sensory nerve
pectoral fin radial
pectoral fin proximal radial
pectoral fin plate fat
pectoral fin nerve
pectoral fin musculature
pectoral fin motor nerve 4
pectoral fin motor nerve 3
pectoral fin motor nerve 2
pectoral fin motor nerve 1
pectoral fin motor nerve
pectoral fin lymph vessel
pectoral fin lepidotrichium 7
pectoral fin lepidotrichium 6
pectoral fin lepidotrichium 5
pectoral fin lepidotrichium 4
pectoral fin lepidotrichium 3
pectoral fin lepidotrichium 2
pectoral fin lepidotrichium 1
pectoral fin lepidotrichium
pectoral fin fold
pectoral fin field
pectoral fin endoskeletal disc
pectoral fin distal radial
pectoral fin cartilage
pectoral fin bud
pectoral fin breeding tubercle
pectoral fin blood vessel
pectoral fin actinotrichium
pectoral fin
pectoral artery
pectinate muscle
parvocellular superficial pretectal nucleus
parvocellular preoptic nucleus
pars superior ear
pars subcommissuralis of ventral telencephalon
pars intermedia
pars inferior ear
pars anterior
parietal peritoneum
parietal bone
parhypural
paraxial mesoderm
paraventricular organ
parathyroid hormone secreting cell
parasympathetic neuron
parasympathetic nervous system
parasphenoid-basioccipital joint
parasphenoid
parapophysis/rib
parapophysis 2
parapophysis 1
parapophysis
parapineal organ
parallel fiber
parafollicular cell
paracrine cell
paracommissural nucleus
parachordal vessel
parachordal cartilage
pancreatic system
pancreatic PP cell
pancreatic lobule
pancreatic intralobular duct
pancreatic interlobular duct
pancreatic fat
pancreatic epsilon cell
pancreatic ductal cell
pancreatic duct
pancreatic D cell
pancreatic centroacinar cell
pancreatic bud
pancreatic B cell
pancreatic acinar gland
pancreatic acinar cell
pancreatic A cell
pancreas primordium
pancreas
palatoquadrate cartilage
palatoquadrate arch
palatocerebral vein
palatocerebral artery
palate
paired fin skeleton
paired fin cartilage
paired fin
pain receptor cell
oxygen accumulating cell
oviduct
ovary
ovarian follicle stage IV
ovarian follicle stage III
ovarian follicle stage II
ovarian follicle stage I
ovarian follicle
outer limiting membrane
outer dental epithelium
otolith organ
otolithic lymph vessel
otolith
otic vesicle ventral protrusion
otic vesicle protrusion
otic vesicle posterior protrusion
otic vesicle lateral protrusion
otic vesicle anterior protrusion
otic vesicle
otic squamous epithelium
otic sensory epithelium
otic sensory canal
otic region
otic placode
otic lateral line neuromast
otic lateral line
otic epithelium
otic duct
osteoprogenitor cell
osteocyte
osteoclast
osteoblast
os suspensorium medial flange
os suspensorium
organizer inducing center
organism subdivision
orbitosphenoid-prootic joint
orbitosphenoid-lateral ethmoid joint
orbitosphenoid
orbital region
orbital foramen
orbit
oral region
oral epithelium
oral ectoderm
oral cavity
optic vesicle
optic vein
optic tract
optic tectum
optic stalk
optic recess
optic primordium
optic nerve head
optic furrow
optic foramen
optic fissure
optic fiber layer
optic cup
optic choroid vascular plexus
optic choroid
optic chiasm
optic artery
opercular lateral line neuromast
opercular lateral line
opercular flap
opercular cavity
opercular artery
opercle-interopercle joint
opercle
oocyte stage V
oocyte stage IV
oocyte stage III
oocyte stage II
oocyte stage I
oocyte
ON-bipolar cell
oligodendrocyte
olfactory system
olfactory support cell
olfactory rosette
olfactory region
olfactory receptor cell
olfactory placode
olfactory pit
olfactory nerve foramen
olfactory granule cell
olfactory field
olfactory epithelium
olfactory epithelial support cell
olfactory bulb protoglomerulus
olfactory bulb glomerulus
olfactory bulb
OFF-bipolar cell
odontoid tissue
odontocyte
odontoclast
odontoblast
oculomotor nucleus
ocular blood vessel
octaval nerve sensory nucleus
octaval nerve motor nucleus
occipital region
occipital lateral line neuromast
occipital lateral line
occipital arch cartilage
nucleus taeniae
nucleus subglomerulosis
nucleus ruber
nucleus of the tract of the postoptic commissure
nucleus of the tract of the anterior commissure
nucleus of the posterior recess
nucleus of the medial longitudinal fasciculus synencephalon
nucleus of the medial longitudinal fasciculus medulla oblongata
nucleus of the lateral recess
nucleus of the descending root
nucleus lateralis valvulae
nucleus isthmi
nucleus Edinger-Westphal
nucleate erythrocyte
notochord posterior region
notochord outer sheath cell
notochord inner cell
notochordal ossification
notochord
norepinephrin secreting cell
non-Weberian precaudal vertebra
non neural ectoderm
noninvoluting endocytic marginal cell cluster
nitrergic neuron
nevus
neutrophil progenitor cell
neutrophilic promyelocyte
neutrophilic myelocyte
neutrophilic myeloblast
neutrophilic metamyelocyte
neutrophil
neurosecretory neuron
neuroplacodal cell
neuron neural crest derived
neuronal stem cell
neuron
neuromere
neuromast support cell
neuromast mantle cell
neuromast hair cell
neuromast foramen
neuromast
neurohypophysis
neuroglioform cell
neurogenic placode
neurogenic field
neuroepithelial cell
neuroendocrine cell
neuroectoderm
neurocranium
neurocranial trabecula
neuroblast (sensu Vertebrata)
neuroblast
neurecto-epithelial cell
neurectodermal cell
neuraxis flexure
neural tube
neural spine 4
neural spine
neural rod
neural prezygapophysis
neural postzygapophysis
neural plate
neural keel
neural crest telencephalon
neural crest midbrain
neural crest hindbrain
neural crest diencephalon
neural crest cell
neural crest
neural complex
neural arch 4
neural arch 3
neural arch
nervous system
nerve
nephron progenitor
nephron
nephrogenic mesenchyme stem cell
NCC ionocyte
natural killer cell
nasal vein
nasal ciliary artery
nasal capsule
nasal bone
nasal artery
naris
NaK ionocyte
naive B cell
myotome somite 9
myotome somite 8
myotome somite 7
myotome somite 6
myotome somite 5
myotome somite 4
myotome somite 30
myotome somite 3
myotome somite 29
myotome somite 28
myotome somite 27
myotome somite 26
myotome somite 25
myotome somite 24
myotome somite 23
myotome somite 22
myotome somite 21
myotome somite 20
myotome somite 2
myotome somite 19
myotome somite 18
myotome somite 17
myotome somite 16
myotome somite 15
myotome somite 14
myotome somite 13
myotome somite 12
myotome somite 11
myotome somite 10
myotome somite 1
myotome
myoseptum
myoepithelial cell
myocardium
myocardial precursor
myoblast
myeloid lineage restricted progenitor cell
myeloid leukocyte
myeloid cell
myeloblast
myelinating Schwann cell
myelin accumulating cell
musculature system
muscle stem cell
muscle precursor cell
muscle pioneer somite 9
muscle pioneer somite 8
muscle pioneer somite 7
muscle pioneer somite 6
muscle pioneer somite 5
muscle pioneer somite 4
muscle pioneer somite 30
muscle pioneer somite 3
muscle pioneer somite 29
muscle pioneer somite 28
muscle pioneer somite 27
muscle pioneer somite 26
muscle pioneer somite 25
muscle pioneer somite 24
muscle pioneer somite 23
muscle pioneer somite 22
muscle pioneer somite 21
muscle pioneer somite 20
muscle pioneer somite 2
muscle pioneer somite 19
muscle pioneer somite 18
muscle pioneer somite 17
muscle pioneer somite 16
muscle pioneer somite 15
muscle pioneer somite 14
muscle pioneer somite 13
muscle pioneer somite 12
muscle pioneer somite 11
muscle pioneer somite 10
muscle pioneer somite 1
muscle pioneer
muscle cell
muscle
multi-tissue structure
multipolar neuron
multilaminar epithelium
multi fate stem cell
multi-ciliated epithelial cell
Muller cell
mucus secreting cell
mouth
motor nucleus of vagal nerve
motor neuron
motile cell
mossy fiber
mononuclear phagocyte
mononuclear osteoclast
mononuclear odontoclast
mononuclear cell
monocyte
monoblast
molecular layer valvula cerebelli
molecular layer corpus cerebelli
MiV2
MiV1
MiR2
MiR1
MiP motor neuron
MiM1
migratory slow muscle precursor cell
midline column
mid intestine epithelium
mid intestine
middle mesencephalic central artery
middle lateral line system
middle lateral line primordium
middle lateral line placode
middle lateral line neuromast
middle lateral line nerve
middle lateral line ganglion
middle lateral line
mid diencephalic organizer
mid cerebral vein
midbrain nucleus
midbrain neural tube
midbrain neural rod
midbrain neural plate
midbrain neural keel
midbrain interneuron
midbrain hindbrain boundary neural tube
midbrain hindbrain boundary neural rod
midbrain hindbrain boundary neural plate
midbrain hindbrain boundary neural keel
midbrain hindbrain boundary
midbrain
MiD3i
MiD3cm
MiD3cl
MiD2i
MiD2cm
MiD2cl
microvillous olfactory receptor neuron
micropylar cell
microglial cell
microcirculatory vessel
metencephalic artery
metapterygoid-symplectic fenestra
metapterygoid
mesovarium
mesothelial cell
mesonephric podocyte
mesonephric nephron
mesonephric duct
meso-epithelial cell
mesoderm pelvic fin bud
mesoderm pectoral fin bud
mesodermal cell
mesoderm
mesocoracoid cartilage
mesocoracoid bone
mesethmoid-vomer joint
mesethmoid-lateral ethmoid joint
mesethmoid bone
mesentery
mesenchyme pelvic fin
mesenchyme pectoral fin
mesenchyme median fin fold
mesenchyme dorsal fin
mesenchyme derived from trunk neural crest
mesenchyme derived from head neural crest
mesenchyme derived from head mesoderm
mesenchyme condensation cell
mesenchyme
mesenchymal lymphangioblast
mesenchymal cell
mesencephalic vein
mesencephalic nucleus of trigeminal nerve
mesencephalic artery
mesangial cell
Merkel cell
mental barbel
memory T cell
memory B cell
membrane bone
MeM1
MeM
MeLr
MeLm
MeLc
melanophore stripe
melanocyte stimulating hormone secreting cell
melanocyte
melanoblast
MeL
megakaryocyte erythroid progenitor cell
medulla oblongata
mediodorsal zone of the olfactory bulb
mediodorsal tooth row
median tuberal portion
median palatocerebral vein
median fin fold
median fin cartilage
median fin
median axial vein
medial zone olfactory bulb
medial zone of dorsal telencephalon
medial valvula cerebelli
medial rectus
medial protoglomerulus 4
medial protoglomerulus 3
medial protoglomerulus 2
medial protoglomerulus 1
medial protoglomerulus
medial preglomerular nucleus
medial olfactory tract
medial octavolateralis nucleus
medial motor nucleus of vagal nerve
medial migration pathway mesenchyme
medial longitudinal fasciculus
medial longitudinal catecholaminergic tract
medial funicular nucleus trigeminal nucleus
medial funicular nucleus medulla oblongata
medial forebrain bundle telencephalon
medial forebrain bundle diencephalon
medial forebrain bundle
medial floor plate
medial facial lymph vessel
medial column
medial caudal lobe
Meckel's cartilage
mechanoreceptor cell
mdG6
mdG5
mdG4
mdG3
mdG2
mdG1
MCoD
M cell
maxillo-rostroid ligament
maxillo-mandibular ligament
maxillary barbel vasculature
maxillary barbel proximal plexus
maxillary barbel lymph vessel
maxillary barbel blood vessel
maxillary barbel blood sinus
maxillary barbel
maxilla
Mauthner neuron
mature neutrophil
mature natural killer cell
mature gamma-delta T cell
mature B cell
marginal blastomere
margin
manubrium
mandibular symphysis
mandibular sensory canal
mandibular neural crest
mandibular muscle
mandibular lateral line neuromast
mandibular lateral line
mandibular fat
mandibular arch skeleton
male organism
main intrapancreatic duct
maGx
magnocellular superficial pretectal nucleus
magnocellular preoptic nucleus
magnocellular octaval nucleus
maG1
macula utricle
macula saccule
macula neglecta
macula lagena
macula communis
macula
macrophage
macroglial cell
lymph vessel endothelium
lymph vessel
lymph vasculature
lymphoid progenitor cell
lymphocyte
lymphatic system
lymphatic capillary
lymphatic branchial arch 4
lymphatic branchial arch 3
lymphatic branchial arch 2
lymphatic branchial arch 1
lymphangiogenic sprout
lymphangioblast cord
lymphangioblast
lymph
luteinizing hormone secreting cell
lower right intestinal lymph vessel
lower rhombic lip
lower oral valve
lower lip
lower left intestinal lymph vessel
longitudinal lateral lymphatic vessel
longitudinal hypochordal
locus coeruleus
liver and biliary system
liver
lip epithelium
lip
lining cell
ligament cell
ligament
lGx
lG6
lG5
lG4
lG3
lG2
lG1
Leydig cell
levator operculi
levator arcus palatini
leukocyte
leucophore
leucoblast
leptomeningeal cell
lepidotrichium segment
lepidotrichium joint
lepidotrichium
lens placode
lens epithelium
lens capsule
lens
left liver lobe
left intestinal lymphatics
lateral zone olfactory bulb
lateral zone of dorsal telencephalon
lateral wall telencephalic region
lateral wall spinal cord
lateral wall rhombomere 8
lateral wall rhombomere 7
lateral wall rhombomere 6
lateral wall rhombomere 5
lateral wall rhombomere 4
lateral wall rhombomere 3
lateral wall rhombomere 2
lateral wall rhombomere 1
lateral wall neural tube
lateral wall neural rod
lateral wall midbrain region
lateral wall diencephalic region
lateral valvula cerebelli
lateral spinal nerve
lateral semicircular canal
lateral reticular nucleus
lateral rectus
lateral recess
lateral protoglomerulus 4
lateral protoglomerulus 3
lateral protoglomerulus 2
lateral protoglomerulus 1
lateral protoglomerulus
lateral preglomerular nucleus
lateral plate mesoderm
lateral olfactory tract
lateral nucleus of ventral telencephalon
lateral migration pathway mesenchyme
lateral mesoderm
lateral mesenchyme derived from mesoderm
lateral longitudinal fasciculus
lateral line system
lateral line sensory nucleus
lateral line scale
lateral line primordium
lateral line nerve
lateral line ganglion
lateral line
lateral lemniscus nucleus
lateral larval melanophore stripe
lateral hypothalamic nucleus
lateral funiculus
lateral forebrain bundle telencephalon
lateral forebrain bundle diencephalon
lateral forebrain bundle
lateral fontanel of frontal
lateral floor plate
lateral facial lymph vessel
lateral ethmoid-supraethmoid
lateral ethmoid-frontal joint
lateral ethmoid-ectopterygoid ligament
lateral ethmoid-autopalatine ligament
lateral ethmoid
lateral dorsal aorta
lateral crista primordium
lateral crista
lateral column
larval melanophore stripe
lapillus
lamina rara interna
lamina rara externa
lamina orbitonasalis
lamina densa
lagenar capsule
lagena
lacunocanalicular system
lacunocanalicular canal
lacuna
labial cavity
Kupffer's vesicle
Kolmer-Agduhr neuron
kinethmoid cartilage
kinethmoid bone
kidney vasculature
kidney medulla cell
kidney interstitial cell
kidney epithelial cell
kidney cell
kidney blood vessel
kidney
keratinocyte
keratin accumulating cell
kappe olfactory receptor neuron
juxtaglomerular cell
jugular lymphatic vessel
joint
jaw row breeding tubercle
jaw flap breeding tubercle
jaw flap
I-YSL
ito cell
isthmic primary nucleus
islet
iris stroma
iris blood vessels
iris
iridophore
iridoblast
ionocyte
intrapancreatic duct
intramembranous bone
intrahepatic bile duct epithelial cell
intrahepatic bile duct
intestine lumen
intestine
intestinal villus
intestinal rod
intestinal opening
intestinal mucosal muscle
intestinal mucosa
intestinal lymphatic network
intestinal lamina propria mucosa
intestinal interlymphatic vessel
intestinal epithelium
intestinal epithelial cell
intestinal bulb primordium
intestinal bulb epithelium
intestinal bulb
intervillus pockets
intervessel commissure
inter-ventral hypohyal joint
intervening zone
intertectal commissure
intersegmental vessel
intersegmental vein
intersegmental lymph vessel
intersegmental artery
interrenal vessel
interrenal primordium
interrenal gland
interrenal angiogenic sprout
interray vessel
interradialis caudalis
inter-premaxillary joint
interpeduncular nucleus tegmentum
interpeduncular nucleus medulla oblongata
inter-parietal joint
interossicular ligament
interopercular-mandibular ligament
interopercle
interneuron
interneuromast cell
internal pharyngoclavicularis
internal levator
internal gill bud
internal cellular layer
internal carotid artery
intermuscular bone
intermediate thalamic nucleus
intermediate reticular formation
intermediate nucleus
intermediate mesoderm
intermediate mesenchyme
intermediate hypothalamus
intermediate cell mass of mesoderm
intermandibularis
inter-hypobranchial 3 joint
interhyoideus
interhyal-epihyal joint
interhyal cartilage
inter-frontal joint
intercostal ligament
inter-coracoid joint
intercalated duct pancreas
intercalarium ascending process
intercalarium articulating process
intercalarium
intercalar
inter-basipterygium joint
integument ionocyte
integument
insulin secreting cell
insulating cell
inner optic circle
inner mental barbel
inner limiting membrane
inner ear foramen
inner ear
inner dental epithelium
inhibitory interneuron
infundibulum
infraorbital series
infraorbital sensory canal
infraorbital lateral line neuromast
infraorbital lateral line
infraorbital 5
infraorbital 4
infraorbital 3
infraorbital 2
infraorbital 1
infraorbital
infracarinalis
inferior reticular formation
inferior raphe nucleus
inferior olive
inferior lobe
inferior hyohyoid
inferior caudal ventral flexor
inferior caudal dorsal flexor
inclinator muscle
immune system
immature thymic epithelium
immature Schwann cell
immature posterior macula
immature neutrophil
immature natural killer cell
immature macula
immature hair cell posterior macula
immature hair cell anterior macula
immature gonad
immature gamma-delta T cell
immature eye
immature B cell
immature anterior macula
hypurapophysis
hypural muscle
hypural 5
hypural 4
hypural 3
hypural 2
hypural 1
hypural
hypothalamus
hypophysis
hypophyseal vein
hypophyseal fenestra
hypophyseal capillary
hypophyseal artery
hypohyal bone
hypodermis
hypodermal cell
hypocretin-secreting neuron
hypochord
hypobranchial cartilage
hypobranchial bone
hypobranchial artery
hypobranchial 4 cartilage
hypobranchial 4 bone
hypobranchial 3 cartilage
hypobranchial 3 bone
hypobranchial 2 cartilage
hypobranchial 2 bone
hypobranchial 1 cartilage
hypobranchial 1 bone
hypoblast
hypertrophic chondrocyte
hypaxial region somite 9
hypaxial region somite 8
hypaxial region somite 7
hypaxial region somite 6
hypaxial region somite 5
hypaxial region somite 4
hypaxial region somite 30
hypaxial region somite 3
hypaxial region somite 29
hypaxial region somite 28
hypaxial region somite 27
hypaxial region somite 26
hypaxial region somite 25
hypaxial region somite 24
hypaxial region somite 23
hypaxial region somite 22
hypaxial region somite 21
hypaxial region somite 20
hypaxial region somite 2
hypaxial region somite 19
hypaxial region somite 18
hypaxial region somite 17
hypaxial region somite 16
hypaxial region somite 15
hypaxial region somite 14
hypaxial region somite 13
hypaxial region somite 12
hypaxial region somite 11
hypaxial region somite 10
hypaxial region somite 1
hypaxial myotome region
hypaxialis
hyosymplectic cartilage
hyomandibular-otic region joint
hyomandibular foramen
hyomandibula-pterotic joint
hyomandibula-opercle joint
hyomandibula-metapterygoid joint
hyomandibula
hyoid neural crest
hyoid muscle
hyoideomandibular nerve
hyohyoideus
hyaloid vessel
hyaloid vein
hyaloid artery
horizontal myoseptum
horizontal commissure
horizontal cell
hindbrain nucleus
hindbrain neural tube
hindbrain neural rod
hindbrain neural plate
hindbrain neural keel
hindbrain interneuron
hindbrain commissure
hindbrain
hepatopancreatic ampulla
hepatocyte
hepatoblast
hepatic vein
hepatic sinusoid
hepatic portal vein
hepatic duct
hepatic artery
hematopoietic system
hematopoietic stem cell
hematopoietic multipotent progenitor cell
hematopoietic cell
hemal spine
hemal prezygapophysis
hemal postzygapophysis
hemal arch
heart vasculature
heart valve
heart tube
heart rudiment
heart primordium
heart
head sensory canal system
head muscle
head mesenchyme
head kidney
head
hatching gland cell
hatching gland
hair cell posterior macula
hair cell anterior macula
hair cell
habenular commissure
habenula
gut epithelium
gut endothelial cell
gut absorptive cell
gut
gustatory system
groove
griseum centrale
grey matter
green sensitive photoreceptor cell
granulosa cell layer
granulosa cell
granulocyte monocyte progenitor cell
granulocyte
granule cell
granular layer valvula cerebelli
granular layer corpus cerebelli
granular eminence
gonad primordium
gonad
Golgi cell
gold iridophore
goblet cell
glycinergic neuron
glutamatergic neuron
glucocorticoid secreting cell
glucagon secreting cell
glossopharyngeal placode
glossopharyngeal neural crest
glossopharyngeal lobe
glossopharyngeal ganglion
glomerular layer
glomerular capillary
glomerular basement membrane
glioblast (sensu Vertebrata)
glioblast
glial cell (sensu Vertebrata)
glial cell
gill ray
gill raker
gill opening
gill lamella
gill ionocyte
gill filament
gill
gigantocellular part of magnocellular preoptic nucleus
ghrelin secreting cell
germ ring
germ line cell
gastrula cell
ganglion
gamma-delta T cell
gamma-delta intraepithelial T cell
gamete
gall bladder
GAG secreting cell
GABAergic neuron
frontal-pterotic joint
frontal-parietal joint
frontal bone
fourth ventricle
fossa
forerunner cell group
forebrain ventricle
forebrain neural tube
forebrain neural rod
forebrain neural plate
forebrain neural keel
forebrain midbrain boundary neural tube
forebrain midbrain boundary neural rod
forebrain midbrain boundary neural plate
forebrain midbrain boundary neural keel
forebrain midbrain boundary
forebrain
foramen magnum
foramen
fontanel
folliculostellate cell
follicle stimulating hormone secreting cell
floor plate telencephalic region
floor plate spinal cord region
floor plate rhombomere region
floor plate rhombomere 8
floor plate rhombomere 7
floor plate rhombomere 6
floor plate rhombomere 5
floor plate rhombomere 4
floor plate rhombomere 3
floor plate rhombomere 2
floor plate rhombomere 1
floor plate neural tube
floor plate neural rod
floor plate midbrain region
floor plate diencephalic region
floor plate
flexural organ
flexor muscle
fin vasculature
fin musculature
fin lymph vessel
fin fold pectoral fin bud
fin fold actinotrichium
fin bud
fin blood vessel
fin
filamental artery
fibrous joint
fibroblast
fertilized egg
fenestrated cell
fenestrated blood vessel endothelium
female organism
fat cell
fast muscle myoblast
fast muscle cell somite 9
fast muscle cell somite 8
fast muscle cell somite 7
fast muscle cell somite 6
fast muscle cell somite 5
fast muscle cell somite 4
fast muscle cell somite 30
fast muscle cell somite 3
fast muscle cell somite 29
fast muscle cell somite 28
fast muscle cell somite 27
fast muscle cell somite 26
fast muscle cell somite 25
fast muscle cell somite 24
fast muscle cell somite 23
fast muscle cell somite 22
fast muscle cell somite 21
fast muscle cell somite 20
fast muscle cell somite 2
fast muscle cell somite 19
fast muscle cell somite 18
fast muscle cell somite 17
fast muscle cell somite 16
fast muscle cell somite 15
fast muscle cell somite 14
fast muscle cell somite 13
fast muscle cell somite 12
fast muscle cell somite 11
fast muscle cell somite 10
fast muscle cell somite 1
fast muscle cell
fasciculus retroflexus
facio-acoustic neural crest
facial placode
facial neural crest
facial nerve motor nucleus
facial lymphatic vessel
facial lymphatic sprout
facial lymphatic network
facial lobe
facial ganglion
E-YSL
eye photoreceptor cell
eye
extrascapula
extrapancreatic duct
extraocular musculature
extramedullary cell
extrahepatic duct
extraembryonic structure
extraembryonic cell
extracellular matrix secreting cell
extracellular lipid lamellae
external pharyngoclavicularis
external levatores
external lateral ventral muscle
external lateral dorsal muscle
external cellular layer
extension
exocrine pancreas
exocrine cell
exoccipital posteroventral region
exoccipital
EVL
eurydendroid cell
ethmoid cartilage
estradiol secreting cell
esophagus
esophageal striated muscle
esophageal sphincter
esophageal fat
esophageal epithelium
erythrophore
erythroid progenitor cell
erythroid lineage cell
erythroblast
erector muscle
epural
epithelium
epithelial mesenchymal boundary
epithelial cell of pancreas
epithelial cell of esophagus
epithelial cell
epithalamus
epipleural
epiphysis
epiphyseal stalk
epiphyseal cluster
epiphyseal bar
epiotic
epineural
epinephrin secreting cell
epihyal-ceratohyal joint
epihyal-branchiostegal ray joint
epihyal
epidermis
epidermal superficial stratum
epidermal placode
epidermal intermediate stratum
epidermal cell
epidermal basal stratum
epicardium
epibranchial uncinate process
epibranchial placode
epibranchial ganglion
epibranchial field
epibranchial cartilage
epibranchial bone
epibranchial 5
epibranchial 4 cartilage
epibranchial 4 bone
epibranchial 3 cartilage
epibranchial 3 bone
epibranchial 2 cartilage
epibranchial 2 bone
epibranchial 1 cartilage
epibranchial 1 bone
epiblast
ependymoglial cell
ependymal cell
epaxial region somite 9
epaxial region somite 8
epaxial region somite 7
epaxial region somite 6
epaxial region somite 5
epaxial region somite 4
epaxial region somite 30
epaxial region somite 3
epaxial region somite 29
epaxial region somite 28
epaxial region somite 27
epaxial region somite 26
epaxial region somite 25
epaxial region somite 24
epaxial region somite 23
epaxial region somite 22
epaxial region somite 21
epaxial region somite 20
epaxial region somite 2
epaxial region somite 19
epaxial region somite 18
epaxial region somite 17
epaxial region somite 16
epaxial region somite 15
epaxial region somite 14
epaxial region somite 13
epaxial region somite 12
epaxial region somite 11
epaxial region somite 10
epaxial region somite 1
epaxial myotome region
epaxialis
entopterygoid-metapterygoid joint
entopterygoid
enteroendocrine cell
enterocyte
enteric neuron
enteric nervous system
enteric musculature
enteric longitudinal muscle
enteric circular muscle
enkephalin secreting cell
endothelial tip cell
endothelial cell
endorphin secreting cell
endolymphatic duct
endolymph
endohypothalamic tract
endo-epithelial cell
endodermal cell
endoderm
endocrine system
endocrine pancreas
endocrine cell
endochondral element
endochondral bone
endocardium
endocardial ring
endocardial precursor
endocardial cushion
enameloid
eminentia thalami
embryonic structure
embryonic blood vessel endothelial progenitor cell
electrically signaling cell
electrically responsive cell
electrically active cell
efferent neuron
efferent lamellar arteriole
efferent glomerular arteriole
efferent filamental artery
efferent branchial artery
ectopterygoid-quadrate joint
ectopterygoid-entopterygoid joint
ectopterygoid
ectomesenchyme
ecto-epithelial cell
ectodermal cell
ectoderm
early embryonic cell
ductus communicans
duct epithelial cell
duct
dorsoventral diencephalic tract
dorso-rostral cluster
dorsomedial optic tract
dorsolateral zone olfactory bulb
dorsolateral septum
dorsolateral placode
dorsolateral motor nucleus of vagal nerve
dorsolateral field
dorsal zone olfactory bulb
dorsal zone of dorsal telencephalon
dorsal transverse
dorsal tooth row
dorsal thalamus
dorsal telencephalon
dorsal tegmental nucleus
dorsal spinal nerve
dorsal root ganglion
dorsal root
dorsal retractor
dorsal rectus
dorsal proneural cluster
dorsal periventricular hypothalamus
dorsal pelvic arrector
dorsal oblique extraocular muscle
dorsal oblique branchial muscle
dorsal nucleus of ventral telencephalon
dorsal motor root of V
dorsal motor nucleus trigeminal nerve
dorsal mesentery
dorsal longitudinal vein
dorsal longitudinal lymphatic vessel
dorsal longitudinal fasciculus
dorsal longitudinal anastomotic vessel
dorsal lateral line neuromast
dorsal lateral line
dorsal larval melanophore stripe
dorsal interfilamental caudal muscle
dorsal inclinator
dorsal hypothalamic zone
dorsal hypohyal-ventral hypohyal joint
dorsal hypohyal-urohyal joint
dorsal hypohyal bone
dorsal hyoid arch
dorsal horn spinal cord
dorsal habenular nucleus
dorsal funiculus
dorsal fin skeleton
dorsal fin retractor
dorsal fin radial
dorsal fin pterygiophore 8
dorsal fin pterygiophore 7
dorsal fin pterygiophore 6
dorsal fin pterygiophore 5
dorsal fin pterygiophore 4
dorsal fin pterygiophore 3
dorsal fin pterygiophore 2
dorsal fin pterygiophore 1
dorsal fin pterygiophore
dorsal fin proximal radial 8
dorsal fin proximal radial 7
dorsal fin proximal radial 6
dorsal fin proximal radial 5
dorsal fin proximal radial 4
dorsal fin proximal radial 3
dorsal fin proximal radial 2
dorsal fin proximal radial 1
dorsal fin proximal radial
dorsal fin protractor
dorsal fin musculature
dorsal fin lepidotrichium 7
dorsal fin lepidotrichium 6
dorsal fin lepidotrichium 5
dorsal fin lepidotrichium 4
dorsal fin lepidotrichium 3
dorsal fin lepidotrichium 2
dorsal fin lepidotrichium 1
dorsal fin lepidotrichium
dorsal fin fold
dorsal fin distal radial 8
dorsal fin distal radial 7
dorsal fin distal radial 6
dorsal fin distal radial 5
dorsal fin distal radial 4
dorsal fin distal radial 3
dorsal fin distal radial 2
dorsal fin distal radial 1
dorsal fin distal radial
dorsal fin
dorsal erector
dorsal entopeduncular nucleus of ventral telencephalon
dorsal depressor
dorsal ciliary vein
dorsal caudal thalamic nucleus
dorsal branch nasal ciliary artery
dorsal axial hypoblast
dorsal arrector
dorsal aorta
dorsal anterior lateral line nerve
dorsal anterior lateral line ganglion
dorsal actinotrichium
dorsal accessory optic nucleus
dopaminergic neuron
DoLA
dlG5
dlG4
dlG3
dlG2
dlG1
distal late tubule
distal epidermal cap
distal early tubule
distal bulb of the maxillary blood sinus
dilator operculi
digestive system duct
digestive system
digestive enzyme secreting cell
diffuse nucleus inferior lobe
diencephalon
diencephalic white matter
diencephalic nucleus
diencephalic efferent neurons to the lateral line
dG1
developing mesonephric proximal tubule
developing mesonephric nephron
developing mesonephric distal tubule
descending trigeminal root
descending octaval nucleus
Descemet's membrane
dermomyotome
dermis
dermatocranium
dermal superficial region
dermal deep region
dermal bone
depressor muscle
dentine
dentary foramen
dentary-anguloarticular joint
dentary
dental papilla cell
dental papilla
dental organ
dental mesenchyme
dental epithelium
dendritic cell
DEL
deep white zone
deep lateral ventral muscle
deep lateral dorsal muscle
deep caudal fin musculature
deep blastomere
decussation of the medial octavolateralis nucleus
decussation of medial funicular nucleus
D cell
cystic duct
cyanophore
cyanoblast
cupula
crypt olfactory receptor neuron
crypt neuron olfactory support cell
crossed tecto-bulbar tract
cranium
cranial vault
cranial vasculature
cranial neural crest cell
cranial neural crest
cranial nerve X
cranial nerve VIII
cranial nerve VII
cranial nerve VI
cranial nerve V
cranial nerve root
cranial nerve IX
cranial nerve IV
cranial nerve III
cranial nerve II
cranial nerve I
cranial nerve
cranial motor neuron
cranial lymph vessel
cranial ganglion
cranial fat
cranial division of the internal carotid artery
cranial cartilage
cranial blood vessel
CoSA
corpus mamillare
corpuscles of Stannius
corpus cerebelli
coronomeckelian
coronary vein
coronary capillary
coronary artery
corneo-scleral junction
corneal stroma
corneal primordium
corneal epithelium
corneal epithelial cell
corneal endothelium
corneal endothelial cell
cornea
coracoradialis
coracoid foramen
coracoid
copula 2
copula 1
copula
CoPA
continuous blood vessel endothelium
constrictor dorsalis
connective tissue cell
cone retinal bipolar cell
concurrent branch afferent branchial artery
compound organ component
compound organ
compact layer of ventricle
communicating vessel palatocerebral artery
common myeloid progenitor
common lymphoid progenitor
common crus
common cardinal vein
common bile duct
commissure of the secondary gustatory nucleus
commissure of the caudal tuberculum
commissure infima of Haller
commissura rostral, pars ventralis
commissura rostral, pars dorsalis
commissura cerebelli
comma-shaped body
columnar/cuboidal epithelial cell
columnar chondrocyte
collecting duct
collagen secreting cell
collagenous dermal stroma
CoLA
coelom
CoBL
CoB
CNS short range interneuron
CNS neuron (sensu Vertebrata)
CNS long range interneuron
CNS interneuron
cloacal epithelium
cloacal chamber
cloaca
climbing fiber
cleithrum-vertebral ligament
cleithrum
cleft cell
claustrum cartilage
claustrum bone
circulus
circulating cell
ciliated olfactory receptor neuron
ciliated epithelial cell
ciliated cell
ciliary zone
ciliary marginal zone
CiD
CiA
chromaffin cell
choroid plexus vascular circuit
choroid plexus third ventricle
choroid plexus telencephalic ventricle
choroid plexus tectal ventricle
choroid plexus fourth ventricle
choroid plexus epithelial cell
choroid plexus
choroidal fissure
choroidal cell of the eye
chorion
chordo neural hinge
chondrocyte
chondrocranium cartilage
chondrocranium
chondroblast
chondral bone
cholinergic neuron
cholangiocyte
chemoreceptor cell
cerebrospinal fluid secreting cell
cerebral spinal fluid
cerebellum
cerebellovestibular tract
cerebellar white matter
cerebellar granule cell
cerebellar crest
cerebellar central artery
ceratohyal-ventral hypohyal joint
ceratohyal-dorsal hypohyal joint
ceratohyal cartilage
ceratohyal-branchiostegal ray joint
ceratohyal bone
ceratobranchial cartilage
ceratobranchial bone
ceratobranchial 5 tooth
ceratobranchial 5 ligament
ceratobranchial 5 cartilage
ceratobranchial 5 bone
ceratobranchial 4 cartilage
ceratobranchial 4 bone
ceratobranchial 3 cartilage
ceratobranchial 3 bone
ceratobranchial 2 cartilage
ceratobranchial 2 bone
ceratobranchial 1 cartilage
ceratobranchial 1 bone
cephalic musculature
cephalic flexure
centrum
central zone protoglomerulus 5
central zone protoglomerulus 4
central zone protoglomerulus 3
central zone protoglomerulus 2
central zone protoglomerulus 1
central zone protoglomerulus
central zone olfactory bulb
central zone of the optic tectum
central zone of dorsal telencephalon
central vein
central ray artery
central pretectum
central pretectal nucleus
central nucleus torus semicircularis
central nucleus of ventral telencephalon
central nucleus inferior lobe
central nervous system
central chamber of the maxillary blood sinus
central caudal thalamic nucleus
central cardiac conduction system
central canal
central artery
cementocyte
cementoblast
cell
celiacomesenteric artery
cavitated compound organ
CaV
caudal zone of dorsal telencephalon
caudal vertebra
caudal vein plexus
caudal vein
caudal tuberculum
caudal tuberal nucleus
caudal thalamic nucleus
caudal root of abducens nerve
caudal pretectal nucleus
caudal preglomerular nucleus
caudal periventricular hypothalamus
caudal peduncle
caudal parvocellular preoptic nucleus
caudal octavolateralis nucleus
caudal octaval nucleus
caudal octaval nerve motor nucleus
caudal oblique
caudal motor nucleus
caudal mesencephalo-cerebellar tract
caudal levator
caudal hypothalamic zone
caudal fin ventral procurrent ray
caudal fin vasculature
caudal fin upper lobe
caudal fin skeleton
caudal fin procurrent ray
caudal fin principal ray 9
caudal fin principal ray 8
caudal fin principal ray 7
caudal fin principal ray 6
caudal fin principal ray 5
caudal fin principal ray 4
caudal fin principal ray 3
caudal fin principal ray 2
caudal fin principal ray 19
caudal fin principal ray 18
caudal fin principal ray 17
caudal fin principal ray 16
caudal fin principal ray 15
caudal fin principal ray 14
caudal fin principal ray 13
caudal fin principal ray 12
caudal fin principal ray 11
caudal fin principal ray 10
caudal fin principal ray 1
caudal fin principal ray
caudal fin musculature
caudal fin lymph vessel
caudal fin lower lobe
caudal fin lepidotrichium
caudal fin fat
caudal fin dorsal procurrent ray
caudal fin blood vessel
caudal fin actinotrichium
caudal fin
caudal division of the internal carotid artery
caudal commissure
caudal artery
cartilaginous joint
cartilage tissue
cartilage element
carotid artery
cardiovascular system
cardinal system
cardiac ventricle
cardiac neural crest
cardiac muscle myoblast
cardiac muscle cell
cardiac muscle
cardiac mesenchymal cell
cardiac jelly
cardiac conduction system
CaP motoneuron
capillary loop nephron
capillary
calcitonin secreting cell
Cajal-Retzius cell
CaD
bulbus arteriosus outer layer
bulbus arteriosus middle layer
bulbus arteriosus inner layer
bulbus arteriosus
bulbo-spinal tract
brush border epithelial cell
Bruch's membrane
breeding tubercle
branchiostegal ray 3
branchiostegal ray 2
branchiostegal ray 1
branchiostegal ray
branchiostegal membrane
branchiomotor neuron
branchial muscle
branchial mesenchyme
branched dorsal fin ray
branched caudal fin ray
branched anal fin ray
brain vasculature
brainstem and spinal white matter
brainstem
brain nucleus
brain
Brachet's cleft
Bowman's layer
bony shelf above orbit
bony projection
bony plate
bone tissue
bone element
blue sensitive photoreceptor cell
blood vessel endothelium
blood vessel endothelial cell
blood vessel
blood vasculature
blood sinus cavity
blood sinus
blood plasma
blood island
blood cell
blood
blastomere
blastodisc
blastoderm cell
blastoderm
blastemal cell
blastema
bipolar neuron
biogenic amine secreting cell
bile ductule
bile canaliculus
bifurcate interneuron
Bergmann glial cell
B cell
basophilic erythroblast
basket cell
basiventral
basipterygium cartilage
basipterygium
basioccipital-prootic joint
basioccipital posterodorsal region
basioccipital-exoccipital joint
basioccipital
basilar artery
basihyal cartilage
basihyal bone
basidorsal
basicapsular fenestra
basibranchial 4
basibranchial 3
basibranchial 2
basibranchial 1
basibranchial
basal regeneration epithelium
basal plate midbrain region
basal plate cartilage
basal layer breeding tubercle
basal lamina
basal communicating artery
barrier epithelial cell
barrier cell
barbel primordium
barbel
band form neutrophil
ball
axis
axial vasculature
axial mesoderm
axial lymph vessel
axial hypoblast
axial fin skeleton
axial chorda mesoderm
axial blood vessel
autopalatine-vomer joint
autopalatine-preethmoid joint
autopalatine-maxillary joint
autopalatine-lateral ethmoid joint
autopalatine
autonomic neuron
autonomic nervous system
auditory receptor cell
auditory foramen
auditory fenestra
auditory epithelial support cell
auditory capsule
atypical epithelium
atrium of sinus impar
atrium
atrioventricular valve
atrioventricular ring
atrioventricular node
atrioventricular canal endocardium
atrioventricular canal
atrial myocardium
atrial epicardium
atrial endocardium
astrocyte
asteriscus
articular fossa of opercle
articular cartilage
artery
arteriole
arrector muscle
area postrema
aqueous humor
aponeurosis
apical epidermal cap
apical ectodermal ridge pelvic fin bud
apical ectodermal ridge pelvic fin
apical ectodermal ridge pectoral fin bud
apical ectodermal ridge median fin fold
apical ectodermal ridge dorsal fin
apical ectodermal ridge
aortic arch 6
aortic arch 5
aortic arch 4
aortic arch 3
aortic arch 2
aortic arch 1
aortic arch
anteromedial zone olfactory bulb
anterior ventromedial process of autopalatine
anterior swim bladder bud
anterior semicircular canal
anterior segment eye
anterior sclerotic bone
anterior presumptive neural plate
anterior pancreatic bud
anterior neural tube
anterior neural rod
anterior neural plate
anterior neural keel
anterior nasal barbel
anterior naris
anterior myodome
anterior mesenteric artery
anterior mesencephalic central artery
anterior macula
anterior lateral process of autopalatine
anterior lateral plate mesoderm
anterior lateral mesoderm
anterior lateral line system
anterior lateral line primordium
anterior lateral line placode
anterior lateral line neuromast
anterior lateral line nerve
anterior lateral line ganglion
anterior lateral line
anterior dorsomedial process of autopalatine
anterior crista primordium
anterior crista
anterior commissure
anterior chamber swim bladder
anterior cerebral vein
anterior catecholaminergic tract
anterior cardinal vein
anterior axial hypoblast
ansulate commissure
annular ligament
anguloarticular-retroarticular joint
anguloarticular
angular bone
angiogenic sprout
angioblastic mesenchymal cell
androgen secreting cell
anatomical system
anatomical surface
anatomical structure
anatomical space
anatomical line
anatomical group
anatomical cluster
anal inclinator
anal fin skeleton
anal fin radial
anal fin pterygiophore
anal fin proximal radial
anal fin musculature
anal fin lepidotrichium 7
anal fin lepidotrichium 6
anal fin lepidotrichium 5
anal fin lepidotrichium 4
anal fin lepidotrichium 3
anal fin lepidotrichium 2
anal fin lepidotrichium 1
anal fin lepidotrichium
anal fin distal radial
anal fin actinotrichium
anal fin
anal erector
anal depressor
ampullary nerve
amelocyte
ameloblast
amacrine cell
alpha-beta T cell
alkali secreting cell
alar plate midbrain region
afferent neuron
afferent lamellar arteriole
afferent glomerular arteriole
afferent filamental artery
afferent branchial artery
adrenocorticotropic hormone secreting cell
adrenergic neuron
adrenal medulla cell
adipose tissue
adenohypophysis
adenohypophyseal placode
adductor profundus
adductor operculi
adductor muscle
adductor mandibulae complex
adductor mandibulae
adductor hyomandibulae
adductor hyohyoid
adductor arcus palatini
adductor
adaxial cell
actinotrichium
acinar cell
acid secreting cell
acellular anatomical structure
accessory pretectal nucleus
accessory chamber of the maxillary blood sinus
absorptive cell
abductor profundus
abductor muscle
abductor hyohyoid
abducens motor nucleus
abdominal musculature
Lab Name Principal Investigator Institution Country
Zon Lab Leonard Zon Boston Children's Hospital USA
Zhang Lab Yuji Zhang University of Maryland USA
Yang Lab Hongxing Yang Shanghai Chenshan Botanical Garden China
Xu Lab Anlong Xu School of Life Sciences, Sun Yat-sen University China
Xie Lab Wei Xie Tsinghua University, Beijing China
Wong lab Ryan Y. Wong University of Nebraska Omaha USA
Winata Lab Cecilia Winata IIMCB Warsaw Poland
Wei Lab Chunyao Wei Vanderbilt University USA
Wardle Lab Fiona Wardle King's College London England
Vastenhouw lab Nadine Vastenhouw Max Planck Institute of Molecular Cell Biology and Genetics Germany
Vaquerizas Lab Juan M. Vaquerizas Max Planck Institute for Molecular Biomedicine Germany
Strahle Lab Uwe Strähle Karlsruhe Institute of Technology Germany
Stainier Lab Didier Stainier Max Planck Institute For Heart and Lung Research Germany
Skarmeta Lab José Luis Gómez-Skarmeta Centro Andaluz de Biologia del Desarrollo Spain
Shkumatava Lab Alena Shkumatava Institut Curie France
Schier Lab Alex Schier Harvard University USA
Sauka-Spengler Lab Tatjana Sauka-Spengler University of Oxford UK
Sadler Lab Kirsten Sadler Edepli New York University Abu Dhabi United Arab Emirates
Rotterdam Genomics core Erasmus MC The Netherlands
RIKEN Piero Carninci RIKEN Japan
Postlethwait Lab John H. Postlethwait Institute of Neuroscience, University of Oregon USA
Peers Lab Bernard Peers University of Liege Belgium
Pandey Lab Akhilesh Pandey Johns Hopkins University School of Medicine USA
Onichtchouk Lab Daria Onichtchouk University of Freiburg Germany
Novogene - - China
NGI Sweden Carsten Daub National Genomic Infrastructure Sweden
Mueller lab Ferenc Mueller University of Birmingham UK
MRC-CSC Genomics facility MRC-CSC UK
Mathavan Lab Sinnakaruppan Mathavan NTU Medical School Singapore
Liu Lab Jiang Liu Beijing Institute of Genomics, CAS China
Lister lab Ryan Lister University of Western Australia Australia
Liangbiao Lab Chen Liangbiao Shanghai Ocean University China
Lenhard Lab Boris Lenhard Imperial College London UK
Lawson Lab Nathan D. Lawson University of Massachusetts Medical School USA
Klose Lab Rob Klose University of Oxford UK
Kere Lab Juha Kere Karolinska Institute Sweden
Kamminga Lab Leonie Kamminga Radboud University The Netherlands
Johns Hopkins Deep Sequencing and Microarray Core Facility USA
Horsfield Lab Julia Horsfield Department of Pathology, Dunedin School of Medicine, University of Otago New Zealand
Gong Lab Zhiyuan Gong National University of Singapore Singapore
Gomez Lab Manuel J. Gomez CNIC Spain
Giraldez Lab Antonio Giraldez Yale USA
Genome Technology Access Center Washington University, St. Louis USA
GeneWiz NGS services Genewiz United States of America
Ferrer lab Jorge Ferrer IDIBAPS Spain
Englert lab Christoph Englert Leibniz Institute for Age Research - Fritz Lipmann Institute Germany
Ekker Lab Stephen C Ekker Mayo Clinic, Rochester United States of America
Driever Lab Wolfgang Driever University of Freiburg Germany
Doe Lab Janine Doe ISS Space
de Wit Lab Elzo de Wit Division Of Gene Regulation, Netherlands Cancer Institute The Netherlands
Daub Lab Carsten Daub KI Sweden
Chatterjee Lab Aniruddha Chatterjee Department of Pathology, Dunedin School of Medicine, University of Otago New Zealand
Cairns Lab Brad Cairns HHMI USA
Busch-Nentwich Lab Elisabeth Busch-Nentwich Wellcome Trust Sanger Institute UK
Bobe lab Julien Bobe Laboratoire de Physiologie et Genomique des Poissons, INRA, Rennes France
Barts and The London Genome Center Queen Mary University of London UK
Bartel Lab David P. Bartel Whitehead Institute for Biomedical Research USA
Alestrom Lab Peter Alestrom Norwegian University of Life Sciences Norway
Name
TAB-seq
STARR-seq
small-RNA-seq
SELEX-seq
SAPAS
RRBS
RNA-seq
RIP-seq
Ribo-seq
PAS-seq
PAR-Clip-seq
PAL-seq
mRNA-seq
MNase-seq
miRNA-seq
MethylC-seq
MethylCap-seq
MeDIP-seq
iCLIP-seq
Hi-C
GRO-seq
FAIRE-seq
DNAse-seq
ChIP-seq
ChIP-exo-seq
ChIA-PET
Capture-C
CAGE-seq
BS-seq
Bru-seq
ATAC-seq
4C-seq
3P-seq
Name
Sphere
Shield
Protruding-mouth
Prim-5
Prim-25
Prim-15
Pec-fin
Oblong
Long-pec
High-pec
High
Germ-ring
Dome
Days 7-13
Days 45-89
Days 30-44
Days 21-29
Days 14-20
Day 6
Day 5
Day 4
Bud
90%-epiboly
90 Days-2 Years
8-cell
75%-epiboly
64-cell
5-9 somites
512-cell
50%-epiboly
4-cell
32-cell
30%-epiboly
2-cell
26+ somites
256-cell
20-25 somites
1k-cell
1-cell
16-cell
1-4 somites
14-19 somites
128-cell
10-13 somites
Name
WT
WIK/AB
WIK
TU/TL
TU
TL/TLF
TLN
TL
SPF AB
SPF 5-D
SJD/C32
SJD
SJA
SING
SH
SAT
RW
NHGRI-1
NA
LSB
KOLN
INDO
IND
HSB
HLF
HK/SING
HK/AB
HK
EKW
DAR
crossbreed
C32
AB/TU
AB/TL
AB/PS
AB/EKW
AB/C32
AB
Name
NextSeq 500 Mid-Output
NextSeq 500 High-Output
MiSeq v3
Li-Cor 4300 DNA Analysis System
HiSeq X Ten
HiSeq Rapid Run
HiSeq High-Output v4
HiSeq High-Output v3
HiSeq 5000
HiSeq 4000
HiSeq 3000
HiSeq 2500
HiSeq 2000
HiSeq 1500
HiSeq 1000
HiScanSQ
Genome Sequence FLX+ / FLX
Genome Sequence 20
GAIIx
AB SOLiD System
ABI 377 automated sequencer
Name
SOLiD
Roche 454
PacBio
Ion
Illumina
Name
m
f
Name
unstranded
reverse
forward