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JaviF
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Message 1805 - Posted: 27 Apr 2020, 12:26:02 UTC - in response to Message 1804.

166976 today....we are almost over :)

Profile Buro87 [Lombardia]
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Message 1806 - Posted: 27 Apr 2020, 12:26:57 UTC - in response to Message 1804.

Some 166977 completed :)

Falconet
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Message 1807 - Posted: 27 Apr 2020, 19:39:47 UTC

Already received work from other batches ahead of 166977.
Are these still SARS-CoV-2 related or from the Homo Sapiens (OneGenE - FANTOM-1) data set?

Profile valterc
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Message 1808 - Posted: 28 Apr 2020, 9:38:47 UTC - in response to Message 1807.

Already received work from other batches ahead of 166977.
Are these still SARS-CoV-2 related or from the Homo Sapiens (OneGenE - FANTOM-1) data set?

mixed, for now, for instance ENPEP and TMPRSS2 should be related to SARS-CoV-2. Keep in mind that all genes/isoforms are taken from the FANTOM dataset. We are prioritizing those (human) genes related to the Covid-19 disease, infection and/or pathology.

Falconet
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Message 1811 - Posted: 28 Apr 2020, 11:58:40 UTC - in response to Message 1808.

Thanks for the update!

Falconet
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Message 1812 - Posted: 28 Apr 2020, 21:23:36 UTC - in response to Message 1742.

...Any result we get is immediately available to the scientific community (biologists etc.), for example the ACE2 expansions we completed a few days ago will soon be analyzed by a immunologist, etc.

We are also studying the possibility of doing some work on specific gene datasets recently made up from cells of SARS-CoV-2 infected individuals. In this case we will put 'on hold' the OneGenE Hs project.



Any update on that?

Gunnar Hjern
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Message 1833 - Posted: 17 May 2020, 15:12:58 UTC - in response to Message 1712.

Hi Valter!

Really glad to see that we're doing work on some very urgent issues like the SARS-VoV-2!
I've put all my old cans working on it. :-)

valterc:

We just added some other genes related to ACE2, according to this https://string-db.org/cgi/network.pl?taskId=fBQjTFzroyIX
They are AGT AGTR1 AGTR2 REN MME DPP4 PRCP MEP1B MEP1A XPNPEP2, among them we already expanded MME and DPP4. You may see the others' names coded inside the workunits string.

valterc:
Added a few genes, related to DPP4, according to StringDB:
INS GIP SLC5A2 SLC5A5 ADA GCG GLP1R

Buro87:
Some 166977 completed :)

Falconet:
Already received work from other batches ahead of 166977.
Are these still SARS-CoV-2 related or from the Homo Sapiens (OneGenE - FANTOM-1) data set?


How many of those genes have we completed and sent by now?
Have the scientific community responded yet on any of the results that we've produced?
Do all relevant immunologists and virologists all over the world really know about our work?

Kindest regards,
Gunnar

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Message 1850 - Posted: 25 May 2020, 16:54:30 UTC - in response to Message 1833.

The first batch of genes related to COVID-19 has been completed. We sent the results, for further analysis, to the Univ. of Modena & Reggio Emilia School of Medicine, Italy. Starting from today we added another batch of genes, per request of the aforementioned institution. Most of them are antibodies, so the focus right now is the immune system.

Here is the list of the genes: PTPRC CD28 CCR7 PDCD1 SNCA SPATA2 CD27 B3GAT1 IL7 IL2RA ISG20 FAS PTPN13 CD38 CD74 CD24 CR2

Falconet
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Message 1851 - Posted: 25 May 2020, 23:18:02 UTC - in response to Message 1850.

Many thanks for the update.

Profile bozz4science
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Message 1868 - Posted: 26 Jun 2020, 20:43:30 UTC

Any updates on this front? any new corona-related batches? Did the prior batches already get analysed?

thx

robertmiles
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Message 1872 - Posted: 29 Jun 2020, 12:59:47 UTC
Last modified: 29 Jun 2020, 13:00:19 UTC

A scientific paper showing that many viruses use glycans for shielding from the immune system:

https://www.biorxiv.org/content/10.1101/2020.02.20.957472v1.full.pdf

See Figure 6.

This appears to show that the glycans shielding the viruses are built from mannose.

Question: Does all of this mannose come from the diet, or is it built in the body from something else?

If all of it comes from the diet, would altering the carbohydrate types in the diet so that they produce less mannose after digestion help control both this virus and the others mentioned?

If not, does this make the various protein sites where the glycans bind a good target for binding something to block glycan attachment?

Jim1348
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Message 1873 - Posted: 29 Jun 2020, 14:29:23 UTC - in response to Message 1872.

All very good questions that could explain why some people are more susceptible than others. It shows the huge amount of work that has already been done. It will undoubtedly take years to process it all.

robertmiles
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Message 1874 - Posted: 29 Jun 2020, 19:33:27 UTC

I found partial answers to my questions.

Human metabolism can turn glucose into mannose; therefore diet is not the only source of mannose except in some people with genetic disorders blocking this conversion.

Human metabolism uses mannose for various purpose, so permanently eliminating it is not a good idea.

It is normally NOT used as an energy source.

Too high a level of mannose can be fatal.

High levels of mannose are often seen in those with diabetes; this MIGHT be why COVID-19 is often more severe in those with diabetes.

MANNOSE METABOLISM: MORE THAN MEETS THE EYE

https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4252654/

robertmiles
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Message 1875 - Posted: 29 Jun 2020, 22:26:39 UTC

The places where proteins or glycans connect to cell walls are called GPI anchors.

Glycosylphosphatidylinositol (GPI) Anchors: Biochemistry and Cell Biology: Introduction to a Thematic Review Series

https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4689333/

Human metabolism uses some on human cell walls, so elimination all of them is not a good idea.

A GPI anchor contains mannose and a phospholipid.

robertmiles
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Message 1876 - Posted: 29 Jun 2020, 22:27:50 UTC

The SARS-CoV2 virus which causes COVID-19 DOES use glycans, built mostly from mannose, for shielding from the immune system.

Site-specific glycan analysis of the SARS-CoV-2 spike

https://science.sciencemag.org/content/early/2020/05/01/science.abb9983

Falconet
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Message 1882 - Posted: 4 Jul 2020, 14:04:01 UTC - in response to Message 1868.

Any updates on this front? any new corona-related batches? Did the prior batches already get analysed?

thx


Valterc mentioned he was very busy. Maybe after the 10th we'll get an update,

robertmiles
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Message 1884 - Posted: 7 Jul 2020, 15:21:37 UTC

An article claiming that hydroxychloroquine can help control COVID-19 safely, but only if used with a zinc supplement.

It says that the main thing hydroxychloroquine does in this treatment is to help the zinc get into the cells, and therefore toxic doses are not needed.

The zinc acts on the virus instead.

This is NOT a scientific paper, but it still suggests something for the scientists to test.

Distorting science in the COVID pandemic

https://drmalcolmkendrick.org/2020/07/05/distorting-science-in-the-covid-pandemic/

robertmiles
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Message 1885 - Posted: 7 Jul 2020, 15:42:50 UTC

There is a scientific paper on this, although not yet peer-reviewed.

COVID-19 Outpatients – Early Risk-Stratified Treatment with Zinc Plus Low Dose Hydroxychloroquine and Azithromycin: A Retrospective Case Series Study

https://www.preprints.org/manuscript/202007.0025/v1

Profile [B@P] Daniel
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Message 1886 - Posted: 8 Jul 2020, 12:28:11 UTC

Scientists discovered that genes SLC6A20, LZTFL1, CCR9, FYCO1, CXCR6, and XCR1 are associated with severe COVID-19 cases:
https://www.physiciansbriefing.com/infectious-disease-8/coronavirus-1008/genomewide-level-associations-identified-for-severe-covid-19-758771.html
https://www.nejm.org/doi/full/10.1056/NEJMoa2020283
____________

Profile bozz4science
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Message 1889 - Posted: 11 Jul 2020, 14:18:06 UTC - in response to Message 1886.

Thanks for the intermediate updates @Daniel and @RobertMiles. Very interesting read!

@Falconet: I hope for additional news in the next update from Valterc as well, but he has proven an awesome track record on the forum and has a great forum policy in place. We'll see if the coronavirus-related gene expansions will be able to shed some more light in the fight against it.

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