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Contentmining of Open phytochemical literature for medicinal activities
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🎱 ACTIVITIES TABLE - Pharmacological Category Names/IDs #8

Closed EmanuelFaria closed 4 years ago

EmanuelFaria commented 4 years ago

Discussion of: Bioactive(?) Activities of Plants, Essential Oils, and their constituent compounds

EmanuelFaria commented 4 years ago

@petermr I may have found something useful... While digging, I learned "MeSH on Demand is a tool that identifies MeSH vocabulary in a submitted text (such as an abstract). MeSH on Demand uses the NLM Medical Text Indexer (MTI) to provide a list of suggested MeSH vocabulary matching terms in the text submitted."

Can we use this [https://ii.nlm.nih.gov/MTI/index.shtml] to find the list/IDs of Activity categories we're looking for? The tools section looks particularly interesting too.

petermr commented 4 years ago

Absolutely! Go for it, but also record what you used and what the results are.

On Thu, Aug 29, 2019 at 1:27 PM Emanuel Faria notifications@github.com wrote:

@petermr https://github.com/petermr I may have found something useful... While digging, I learned "MeSH on Demand is a tool that identifies MeSH vocabulary in a submitted text (such as an abstract). MeSH on Demand uses the NLM Medical Text Indexer (MTI) to provide a list of suggested MeSH vocabulary matching terms in the text submitted."

Can we use this [https://ii.nlm.nih.gov/MTI/index.shtml] to find the list/IDs of Activity categories we're looking for? The tools section looks particularly interesting too.

— You are receiving this because you were mentioned. Reply to this email directly, view it on GitHub https://github.com/petermr/CEVOpen/issues/8?email_source=notifications&email_token=AAFTCS4JFU3C5VHORIDTASDQG66E5A5CNFSM4IRWJSS2YY3PNVWWK3TUL52HS4DFVREXG43VMVBW63LNMVXHJKTDN5WW2ZLOORPWSZGOD5OJTJY#issuecomment-526162343, or mute the thread https://github.com/notifications/unsubscribe-auth/AAFTCSZNRIK7PKQTADOIDALQG66E5ANCNFSM4IRWJSSQ .

-- Peter Murray-Rust Founder ContentMine.org and Reader Emeritus in Molecular Informatics Dept. Of Chemistry, University of Cambridge, CB2 1EW, UK

EmanuelFaria commented 4 years ago

Go for it, Uhh... this is slightly above my pay grade: https://lsg3.nlm.nih.gov/Specialist/Home/index.html

@petermr I'm going to need your help crafting a help request. Can you check out this draft email and make/suggest some changes, please?

To: metamap@nlm.nih.gov Subject: HELP REQUEST: Pharmalogical Activities List

Hello,

I'm participating in a research project, and need some assistance...

Would you kindly help me find/download/connect to tables that include the individual Category Names and Unique IDs such as the ones below?

At this time, our interests lie mainly the realms of:

(It seems that these may also be referred to on wikidata, on pages such as this one: https://www.wikidata.org/wiki/Q50377176)

If you can help, we'd be most grateful.

Emanuel.

petermr commented 4 years ago

I understand these - they are somewhat variable and certainly not very integrated. But thanks, I'll have a look

On Thu, Aug 29, 2019 at 5:06 PM Emanuel Faria notifications@github.com wrote:

Go for it, Uhh... this is slightly above my pay grade: https://lsg3.nlm.nih.gov/Specialist/Home/index.html

— You are receiving this because you were mentioned. Reply to this email directly, view it on GitHub https://github.com/petermr/CEVOpen/issues/8?email_source=notifications&email_token=AAFTCS3G6C5PY6NXO3U4MKDQG7XZZA5CNFSM4IRWJSS2YY3PNVWWK3TUL52HS4DFVREXG43VMVBW63LNMVXHJKTDN5WW2ZLOORPWSZGOD5PAEPI#issuecomment-526254653, or mute the thread https://github.com/notifications/unsubscribe-auth/AAFTCS2HZOLGEBPYR476TP3QG7XZZANCNFSM4IRWJSSQ .

-- Peter Murray-Rust Founder ContentMine.org and Reader Emeritus in Molecular Informatics Dept. Of Chemistry, University of Cambridge, CB2 1EW, UK

EmanuelFaria commented 4 years ago

I think you may have responded to an earlier draft message, before I edited/added to it. Here it is again, just in case.

@petermr I'm going to need your help crafting a help request. Can you check out this draft email and make/suggest some changes, please?

To: metamap@nlm.nih.gov Subject: HELP REQUEST: Pharmalogical Activities List

Hello,

I'm participating in a research project, and need some assistance...

Would you kindly help me find/download/connect to tables that include the individual Category Names and Unique IDs such as the ones below?

Chemical Actions and Uses [D27]
Pharmacologic Actions [D27.505] (see Tree Structure): https://meshb.nlm.nih.gov/record/ui?ui=D020228
Specialty Uses of Chemicals [D27.720]
Toxic Actions [D27.888]
Pharmacological and Toxicological Phenomena
Pharmacological and Toxicological Phenomena (See Tree Structure) https://meshb.nlm.nih.gov/record/ui?ui=D002620
Drug Therapy (see Tree Structure): https://meshb.nlm.nih.gov/record/ui?ui=D004358

At this time, our interests lie mainly the realms of:

Skin conditions/diseases and their related symptoms and pathogenesis pathways, and how they may be affected by:
plants, their essential oils, and/or their chemical constituents

(It seems that these may also be referred to on wikidata, on pages such as this one: https://www.wikidata.org/wiki/Q50377176)

If you can help, we'd be most grateful.

Emanuel.

petermr commented 4 years ago

Will read when get home , there were two subjects in one mail

On Thu, 29 Aug 2019, 18:49 Emanuel Faria, notifications@github.com wrote:

I think you may have responded to an earlier draft message, before I edited/added to it. Here it is again, just in case.

@petermr https://github.com/petermr I'm going to need your help crafting a help request. Can you check out this draft email and make/suggest some changes, please?

To: metamap@nlm.nih.gov Subject: HELP REQUEST: Pharmalogical Activities List

Hello,

I'm participating in a research project, and need some assistance...

Would you kindly help me find/download/connect to tables that include the individual Category Names and Unique IDs such as the ones below?

Chemical Actions and Uses [D27] Pharmacologic Actions [D27.505] (see Tree Structure): https://meshb.nlm.nih.gov/record/ui?ui=D020228 Specialty Uses of Chemicals [D27.720] Toxic Actions [D27.888] Pharmacological and Toxicological Phenomena Pharmacological and Toxicological Phenomena (See Tree Structure) https://meshb.nlm.nih.gov/record/ui?ui=D002620 Drug Therapy (see Tree Structure): https://meshb.nlm.nih.gov/record/ui?ui=D004358

At this time, our interests lie mainly the realms of:

Skin conditions/diseases and their related symptoms and pathogenesis pathways, and how they may be affected by: plants, their essential oils, and/or their chemical constituents

(It seems that these may also be referred to on wikidata, on pages such as this one: https://www.wikidata.org/wiki/Q50377176)

If you can help, we'd be most grateful.

Emanuel.

— You are receiving this because you were mentioned. Reply to this email directly, view it on GitHub https://github.com/petermr/CEVOpen/issues/8?email_source=notifications&email_token=AAFTCSYBQ2UEZONAYPCOR2TQHADYZA5CNFSM4IRWJSS2YY3PNVWWK3TUL52HS4DFVREXG43VMVBW63LNMVXHJKTDN5WW2ZLOORPWSZGOD5PJGTA#issuecomment-526291788, or mute the thread https://github.com/notifications/unsubscribe-auth/AAFTCS6TCRYBRINGSAOOE7LQHADYZANCNFSM4IRWJSSQ .