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The Ontology for Biomedical Investigations
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Material Processing > Epitope Tagging #946

Open GullyAPCBurns opened 6 years ago

GullyAPCBurns commented 6 years ago

PROPOSED ACTION IN OBI: Add a new term with label 'Epitope Tagging' as a child of 'Material Processing'

DEFINITION: Epitope tagging is a recombinant DNA method by which a protein encoded by a cloned gene is made immunoreactive to a known antibody.

SOURCES:

First Description: Munro, S. & Pelham, H. R. Use of peptide tagging to detect proteins expressed from cloned genes: deletion mapping functional domains of Drosophila hsp 70. EMBO J 3, 3087–3093 (1984). https://www.ncbi.nlm.nih.gov/pubmed/6526011

Full Review: Jarvik, J. W. & Telmer, C. A. Epitope tagging. Annu Rev Genet 32, 601–618 (1998). doi:10.1146/annurev.genet.32.1.601, https://www.ncbi.nlm.nih.gov/pubmed/9928493

bpeters42 commented 6 years ago

I think 'addition of molecular label' is a perfect fit. I would change the definition to:

DEFINITION: Epitope tagging is an addition of molecular label process in which DNA encoding for an antibody epitope is added to DNA encoding for a protein so that the expressed protein product has an epitope linked to it that can be detected by antibodies specific for the epitope.

On Thu, Jul 5, 2018 at 1:04 PM, Gully Burns notifications@github.com wrote:

PROPOSED ACTION IN OBI: Add a new term with label 'Epitope Tagging' as a child of 'Material Processing'

  • need to figure out if this process is a child of (A) 'addition of molecular label', (B) 'adding a material entity into a target' or some other subtype of material processing.

DEFINITION: Epitope tagging is a recombinant DNA method by which a protein encoded by a cloned gene is made immunoreactive to a known antibody.

SOURCES:

First Description: Munro, S. & Pelham, H. R. Use of peptide tagging to detect proteins expressed from cloned genes: deletion mapping functional domains of Drosophila hsp 70. EMBO J 3, 3087–3093 (1984). https://www.ncbi.nlm.nih.gov/pubmed/6526011

Full Review: Jarvik, J. W. & Telmer, C. A. Epitope tagging. Annu Rev Genet 32, 601–618 (1998). doi:10.1146/annurev.genet.32.1.601, https://www.ncbi.nlm.nih.gov/ pubmed/9928493

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-- Bjoern Peters Professor La Jolla Institute for Allergy and Immunology 9420 Athena Circle La Jolla, CA 92037, USA Tel: 858/752-6914 Fax: 858/752-6987 http://www.liai.org/pages/faculty-peters

GullyAPCBurns commented 6 years ago

Just to make the English a little easier to read:

Epitope tagging is an "addition of molecular label" process in which the DNA encoding for an antibody epitope (X) is added to the DNA encoding for a protein (Y) in a cell. If the protein X is then expressed, then it may be detected by antibodies specific for the epitope Y.

bpeters42 commented 6 years ago

I would remove 'in a cell', which is often not true. Otherwise great!

On Thu, Jul 5, 2018, 4:17 PM Gully Burns notifications@github.com wrote:

Just to make the English a little easier to read:

Epitope tagging is an "addition of molecular label" process in which the DNA encoding for an antibody epitope (X) is added to the DNA encoding for a protein (Y) in a cell. If the protein X is then expressed, then it may be detected by antibodies specific for the epitope Y.

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GullyAPCBurns commented 6 years ago

Great! Here's the latest definition:

Epitope tagging is an "addition of molecular label" process in which the DNA encoding for an antibody epitope (X) is added to the DNA encoding for a protein (Y). If the protein X is then expressed, then it may be detected by antibodies specific for the epitope Y.

bpeters42 commented 6 years ago

Flipped X and Y in the second sentence :) I also don't think it is necessary:

On Fri, Jul 6, 2018 at 9:56 AM, Gully Burns notifications@github.com wrote:

Great! Here's the latest definition:

Epitope tagging is an "addition of molecular label" process in which the DNA encoding for an antibody epitope (X) is added to the DNA encoding for a protein (Y). If the protein X is then expressed, then it may be detected by antibodies specific for the epitope Y.

— You are receiving this because you commented. Reply to this email directly, view it on GitHub https://github.com/obi-ontology/obi/issues/946#issuecomment-403090309, or mute the thread https://github.com/notifications/unsubscribe-auth/ANN9Isjo39M20C5I9-JsuRtNyc3Xv-D-ks5uD5bDgaJpZM4VEdwX .

-- Bjoern Peters Professor La Jolla Institute for Allergy and Immunology 9420 Athena Circle La Jolla, CA 92037, USA Tel: 858/752-6914 Fax: 858/752-6987 http://www.liai.org/pages/faculty-peters

GullyAPCBurns commented 6 years ago

From Becky:

An "addition of molecular label" process in which the DNA encoding for an antibody epitope (X) is added to the DNA encoding for a protein (Y). If the protein Y is then expressed, then it may be detected by antibodies specific for the epitope X.

GullyAPCBurns commented 6 years ago

Great feedback on the call for this process. Thanks Guys!

beckyjackson commented 4 years ago

Hi @GullyAPCBurns - do we still want to add this term as a child of "addition of molecular label"? It looks like it has a home and a definition.