I have been searching around for this but do not see any classification of stages within neonatal that seems to represent a community standard. Does Ben Hutton have any particular suggestion?
If you would like to refer to this comment somewhere else in this project, copy and paste the following link:
These community staging ontologies are interoperable with GO and UBERON anatomy, so we we would love some help ensuring that the human staging is appropriate so we can make it interoperable for our reasoning applications. This will be very important for addressing temporality of phenotyping across species.
If you would like to refer to this comment somewhere else in this project, copy and paste the following link:
Some of the terms are not compatible with the HPO definitions so far (that are based on consensus in the human genetics community), so we need to think about exactly what to do here. The Carnegie stages are great, but they are not really useful in a clinical setting. Also, there are a lot of stages like this: "6-year-old human stage", that are perfectly fine, but there are extremely few phenotypic features that have such a specific onset.
This is a difficult topic!
-Peter
Dr. med. Peter N. Robinson, MSc.
Professor of Medical Genomics
Professor in the Bioinformatics Division of the Department of Mathematics and Computer Science of the Freie Universität Berlin
Institut für Medizinische Genetik und Humangenetik
Charité - Universitätsmedizin Berlin
Augustenburger Platz 1
13353 Berlin
Germany
+4930 450566006
Mobile: 0160 93769872
peter.robinson@charite.de http://compbio.charite.de http://www.human-phenotype-ontology.org
Introduction to Bio-Ontologies: http://www.crcpress.com/product/isbn/9781439836651
I have learned from my mistakes, and I am sure I can repeat them exactly
ORCID ID:http://orcid.org/0000-0002-0736-9199
Scopus Author ID 7403719646
Appointment request: http://doodle.com/pnrobinson
Von: Melissa Haendel [mellybelly@users.sf.net]
Gesendet: Sonntag, 3. Mai 2015 14:49
An: [obo:human-phenotype-requests]
Betreff: [obo:human-phenotype-requests] #383 How to describe specific neonatal stages
These community staging ontologies are interoperable with GO and UBERON anatomy, so we we would love some help ensuring that the human staging is appropriate so we can make it interoperable for our reasoning applications. This will be very important for addressing temporality of phenotyping across species.
Status: closed-wont-fix
Group: musculoskeletal
Created: Tue Jan 20, 2015 09:22 PM UTC by Chris Mungall
Last Updated: Sun May 03, 2015 07:01 AM UTC
Owner: Peter N. Robinson
I have been searching around for this but do not see any classification of stages within neonatal that seems to represent a community standard. Does Ben Hutton have any particular suggestion?
Also we had started to align these with the community stage ontologies, here:
https://code.google.com/p/developmental-stage-ontologies/wiki/HsapDv
It would be great to know if there is another standard we should be looking at for this.
These community staging ontologies are interoperable with GO and UBERON anatomy, so we we would love some help ensuring that the human staging is appropriate so we can make it interoperable for our reasoning applications. This will be very important for addressing temporality of phenotyping across species.
Some of the terms are not compatible with the HPO definitions so far (that are based on consensus in the human genetics community), so we need to think about exactly what to do here. The Carnegie stages are great, but they are not really useful in a clinical setting. Also, there are a lot of stages like this: "6-year-old human stage", that are perfectly fine, but there are extremely few phenotypic features that have such a specific onset.
This is a difficult topic!
-Peter
Dr. med. Peter N. Robinson, MSc.
Professor of Medical Genomics
Professor in the Bioinformatics Division of the Department of Mathematics and Computer Science of the Freie Universität Berlin
Institut für Medizinische Genetik und Humangenetik
Charité - Universitätsmedizin Berlin
Augustenburger Platz 1
13353 Berlin
Germany
+4930 450566006
Mobile: 0160 93769872
peter.robinson@charite.de
http://compbio.charite.de
http://www.human-phenotype-ontology.org
Introduction to Bio-Ontologies: http://www.crcpress.com/product/isbn/9781439836651
I have learned from my mistakes, and I am sure I can repeat them exactly
ORCID ID:http://orcid.org/0000-0002-0736-9199
Scopus Author ID 7403719646
Appointment request: http://doodle.com/pnrobinson
Von: Melissa Haendel [mellybelly@users.sf.net]
Gesendet: Sonntag, 3. Mai 2015 14:49
An: [obo:human-phenotype-requests]
Betreff: [obo:human-phenotype-requests] #383 How to describe specific neonatal stages
Also we had started to align these with the community stage ontologies, here:
https://code.google.com/p/developmental-stage-ontologies/wiki/HsapDv
It would be great to know if there is another standard we should be looking at for this.
These community staging ontologies are interoperable with GO and UBERON anatomy, so we we would love some help ensuring that the human staging is appropriate so we can make it interoperable for our reasoning applications. This will be very important for addressing temporality of phenotyping across species.
[human-phenotype-requests:#383] How to describe specific neonatal stages
Status: closed-wont-fix
Group: musculoskeletal
Created: Tue Jan 20, 2015 09:22 PM UTC by Chris Mungall
Last Updated: Sun May 03, 2015 07:01 AM UTC
Owner: Peter N. Robinson
has no children. Are these in scope of HPO?
(request from Ben Hutton)
Sent from sourceforge.net because you indicated interest in https://sourceforge.net/p/obo/human-phenotype-requests/383/https://sourceforge.net/p/obo/human-phenotype-requests/383
To unsubscribe from further messages, please visit https://sourceforge.net/auth/subscriptions/https://sourceforge.net/auth/subscriptions
Related
Human Phenotype Requests:
#383