dhimmel / rephetio

Miscellaneous Content for Project Rephetio to repurpose drugs
https://think-lab.github.io/p/rephetio/
6 stars 2 forks source link

Quick image hosting for the Rephetio project #1 #1

Closed dhimmel closed 7 years ago

dhimmel commented 8 years ago

This issue is intended for hosting images with GitHub's drag & drop functionality. For example, you want to upload an image to a Thinklab discussion, but Thinklab doesn't currently have drag & drop upload. Therefore, you make a comment here to host your image.

Example GitHub issue markdown

Uploaded for http://thinklab.com/d/196#3

```markdown
![Rephetio metagraph and visualization](https://cloud.githubusercontent.com/assets/1117703/14371774/aff6b0de-fcef-11e5-9e4b-341b385abcdd.png "Rephetio metagraph and visualization")

Rephetio metagraph and visualization

## Example GitHub issue rendering

Uploaded for http://thinklab.com/d/196#3

``` markdown
![Rephetio metagraph and visualization](https://cloud.githubusercontent.com/assets/1117703/14371774/aff6b0de-fcef-11e5-9e4b-341b385abcdd.png "Rephetio metagraph and visualization")

Rephetio metagraph and visualization

dhimmel commented 8 years ago

Thinklab search engine results

Uploaded for http://thinklab.com/discussion/improving-search-engine-previewing/198

![startpage-results](https://cloud.githubusercontent.com/assets/1117703/14406855/1fa373d4-fe69-11e5-829c-e07cc51344f9.png)

startpage-results

antoine-lizee commented 8 years ago
screenshot 2016-04-12 09 10 22
sebaran commented 8 years ago
![Hetionet v1.0 visualization](https://cloud.githubusercontent.com/assets/1117703/14993630/95ba3f0c-1120-11e6-9cb2-d91e175b2b91.png)

Hetionet v1.0 visualization

dhimmel commented 8 years ago

Neo4j Browser Screenshot

![neo4j-browser](https://cloud.githubusercontent.com/assets/1117703/16320501/216f2626-3966-11e6-8a0d-215f70b44be2.png)

neo4j-browser

dhimmel commented 8 years ago

Does Amitriptyline treat migraine?

Does Amitriptyline treat migraine?

From https://neo4j.het.io/browser/?cmd=play&arg=https://neo4j.het.io/guides/rep/DB00321/DOID_6364.html

![Does Amitriptyline treat migraine?](https://cloud.githubusercontent.com/assets/1117703/16347762/6f9e5c7a-3a1c-11e6-8f3d-4d8abf81e2c0.png)
dhimmel commented 8 years ago

Does Nortriptyline treat migraine?

:play https://neo4j.het.io/guides/rep/DB00540/DOID_6364.html

![nortriptyline-migraine](https://cloud.githubusercontent.com/assets/1117703/16348316/c1a5ef12-3a1f-11e6-8d00-c44609f3e7fb.png)

nortriptyline-migraine

dhimmel commented 8 years ago

Posted here

![ms-retina](https://cloud.githubusercontent.com/assets/1117703/16359510/2ff3a870-3b05-11e6-8e3f-b9b50bf1e937.png)

ms-retina

dhimmel commented 8 years ago
![myelination-compounds](https://cloud.githubusercontent.com/assets/1117703/16385926/c77bec90-3c5c-11e6-88b3-1c6d01725086.png)

myelination-compounds

dhimmel commented 8 years ago

Does Bupropion treat nicotine dependence?

:play https://neo4j.het.io/guides/rep/DB01156/DOID_0050742.html

![bupropion-nicotine](https://cloud.githubusercontent.com/assets/1117703/16503512/5d56d140-3ee1-11e6-9522-e820c30f67fd.png)

bupropion-nicotine

dhimmel commented 7 years ago

Project JSON export error. See https://thinklab.com/d/191#16

![export-error](https://cloud.githubusercontent.com/assets/1117703/17527200/64ffde5c-5e38-11e6-8035-ff675c6e89ac.png)
dhimmel commented 7 years ago
![Cushingoid-NR3C1 Paths](https://cloud.githubusercontent.com/assets/1117703/18132708/d5b53e4c-6f65-11e6-9924-7a64603a6343.png)

Cushingoid-NR3C1 Paths

dhimmel commented 7 years ago

Decitabine

https://thinklab.com/discussion/predictions-of-whether-a-compound-treats-a-disease/203#9

lung cancer

decitabine-lung-cancer

![decitabine-lung-cancer](https://cloud.githubusercontent.com/assets/1117703/18216262/ad56cfe6-7123-11e6-96ef-60b35cf1ca1b.png)

MS

decitabine-ms

![decitabine-ms](https://cloud.githubusercontent.com/assets/1117703/18216265/ae89218e-7123-11e6-992c-6c87067330ef.png)
dhimmel commented 7 years ago

Trifluridine

Colon cancer

![trifluridine-colon-cancer](https://cloud.githubusercontent.com/assets/1117703/18218455/d91001c2-7130-11e6-96aa-66e0ad94d8a4.png)

trifluridine-colon-cancer

AIDS

![trifluridine-aids](https://cloud.githubusercontent.com/assets/1117703/18218456/d916072a-7130-11e6-9fdf-bd55ff8d6ed6.png)

trifluridine-aids

MS

![trifluridine-ms](https://cloud.githubusercontent.com/assets/1117703/18218457/d91644c4-7130-11e6-996b-6e8781281943.png)

trifluridine-ms

dhimmel commented 7 years ago

sevoflurane -- epilepsy

![sevoflurane-epilepsy](https://cloud.githubusercontent.com/assets/1117703/18256790/2c9d1312-7388-11e6-8c33-873058fc4965.png)

sevoflurane-epilepsy

sevoflurane-epilepsy.svg.zip

dhimmel commented 7 years ago

clofarabine-ms

![clofarabine-ms](https://cloud.githubusercontent.com/assets/1117703/18327558/1ed9d890-7519-11e6-8127-773e7cb64746.png)

Figure 4. Visualizing the prediction that Clofarabine treats multiple sclerosis

Clofarabine was the top prediction for multiple sclerosis that wasn't already a known treatment. It received a probability of 8.80%, representing a 24-fold enrichment in probability over random. The ten paths that provide the greatest support for the efficacy of clofarabine in treating multiple sclerosis are shown.

dhimmel commented 7 years ago

PK's epilepsy prediction visualizations

Pouya Khankhanian's epilepsy prediction visualizations for https://thinklab.com/d/203#14

![Top 100 Epilepsy Prediction Plot](https://cloud.githubusercontent.com/assets/1117703/18519933/b5056b04-7a73-11e6-98f3-774feed6963d.png)

Top 100 Epilepsy Prediction Plot


![Top 100 Epilepsy Prediction Plot](https://cloud.githubusercontent.com/assets/1117703/18519932/b50443fa-7a73-11e6-8729-324700787d56.png)

Top 100 Epilepsy Prediction Plot

dhimmel commented 7 years ago

Figure by Pouya Khankhanian:

![prediction score by disease](https://cloud.githubusercontent.com/assets/1117703/18564280/d392df62-7b58-11e6-9c6f-16b6f977458b.png)

prediction score by disease

cgreene commented 7 years ago

Black background converted networks via imagemagick convert hetionet-v1.0-labeled-landscape.png -modulate 100,100,0 -negate hetionet-v1.0-labeled-landscape-invertcr.png

![hetionet-v1 0-labeled-landscape-invertcr](https://cloud.githubusercontent.com/assets/542643/19480670/41b61926-9519-11e6-8db3-126980293bcb.png)

![hetionet-v1 0-labeled-invertcr](https://cloud.githubusercontent.com/assets/542643/19480669/41b30d8a-9519-11e6-84d2-721f5d0aeece.png)

hetionet-v1 0-labeled-landscape-invertcr hetionet-v1 0-labeled-invertcr

dhimmel commented 7 years ago

Metaedge Table

Posted to https://thinklab.com/d/115#5

![Screenshot of the Project Rephetio Metaedge Browser at http://het.io/repurpose/metapaths.html](https://cloud.githubusercontent.com/assets/1117703/20021803/df14bac8-a2ad-11e6-904e-8c12813582e0.png)

Screenshot of the Project Rephetio Metaedge Browser at http://het.io/repurpose/metapaths.html

dhimmel commented 7 years ago

Figure 2 from https://doi.org/cnfsgc

Used in https://thinklab.com/d/224#7.

From:

Farook et al (2008) Acamprosate attenuates the handling induced convulsions during alcohol withdrawal in Swiss Webster mice. Physiology & Behavior DOI: 10.1016/j.physbeh.2008.05.020

1-s2 0-s003193840800190x-gr2

Caption: Effects of IP administration of diazepam (0.25, 0.5 and 1 mg/kg) and acamprosate (100, 200 and 300 mg/kg) in male Swiss Webster mice 10 h after the last ‘alcohol + 4-MP’ injection on day 3 in HIC test. Drug solutions or saline (for ‘control’ or ‘alcohol + 4-MP’ treated animals) were administered 30 min prior to the test. Values are expressed as ± S.E.M. ⁎p < 0.05, ⁎⁎p < 0.001 by post hoc Tukey HSD against the alcohol + 4-MP group.

![1-s2 0-s003193840800190x-gr2](https://cloud.githubusercontent.com/assets/1117703/20408655/6d95be10-ace4-11e6-8c50-51afaa048f0b.jpg)
dhimmel commented 7 years ago

acamprosate for epilepsy

Used in https://thinklab.com/d/224#7.

From https://neo4j.het.io/browser/?cmd=play&arg=https://neo4j.het.io/guides/rep/DB00659/DOID_1826.html

acamprosate-epilepsy

![acamprosate-epilepsy](https://cloud.githubusercontent.com/assets/1117703/20409718/a8f1e066-ace8-11e6-9ff2-d31fc2d9d7d5.png)

Also as SVG: acamprosate-epilepsy.svg.txt

dhimmel commented 7 years ago
![epilepsy-prediction-resemblance](https://cloud.githubusercontent.com/assets/1117703/21754174/c5ceafc6-d5c8-11e6-85da-111d94ec5525.png)

epilepsy-prediction-resemblance

dhimmel commented 7 years ago

Network by Lars Juhl Jensen

See https://thinklab.com/d/230#9. Embed markdown:

![compound-network-ljj](https://cloud.githubusercontent.com/assets/1117703/22377022/557b3946-e47e-11e6-957f-0130ada2f6ca.png)

compound-network-ljj