Dear Dr. Eric Mayor,

Some info below may be useful:

Blog on Digital Transformation

Data Quality: Upstream or Downstream?

https://www.altoros.com/blog/data-quality-upstream-or-downstream/

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In molecular biology and genetics, upstream and downstream both refer to relative positions of genetic code in DNA or RNA. Each strand of DNA or RNA has a 5' end and a 3' end, so named for the carbon position on the deoxyribose (or ribose) ring. By convention, upstream and downstream relate to the 5' to 3' direction respectively in which RNA transcription takes place. Upstream is toward the 5' end of the RNA molecule and downstream is toward the 3' end.

https://en.wikipedia.org/wiki/Upstream_and_downstream_(DNA)

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https://www.researchgate.net/publication/274319196_Upstream_Regulators_and_Downstream_Effectors_of_NADPH_Oxidases_as_Novel_Therapeutic_Targets_for_Diabetic_Kidney_Disease

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https://www.hindawi.com/journals/

Dear Dr Len Leonid Mizrah, Thank you for the input. I was not referring to DNS sequences, but to the upstream and downstream effectors of proteins / other molecules, as in "The regulation of hippocampal synaptic plasticity by upstream and downstream effectors of histone acetylation."

What I am looking for is a tool referencing proteins and their known effectors. Great if you have suggestions for such tool !

Dear Dr. Eric Mayor,

Perhaps info below is more relevant to your interests:

Next, the 145 known effector proteins of L. pneumophila were analyzed (Burstein et. al., 2009). Results showed that 95.9% of the proteins are hydrophilic, 95.9% have negative. ... Prediction tools for effector proteins are sparse. The two tools currently used ... 1.0: a tool for predicting type IV effectors and exploring their genomic context. Nucleic Acids Res. 41: 9218-9229. ... In the case of soluble, globular proteins there is a remarkable correspondence between the interior portions of their sequence and the regions appearing on the hydrophobic side of the midpoint line, as well as the exterior portions and the regions on the hydrophilic side. The correlation was demonstrated by comparisons between the plotted values and known structures determined by crystallography.

https://www.researchgate.net/publication/305786026_HydroCalc_Proteome_a_tool_to_identify_distinct_characteristics_of_effector_proteins

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https://en.wikipedia.org/wiki/Methods_to_investigate_protein–protein_interactions

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https://www.frontiersin.org/articles/10.3389/fpls.2016.00126/full

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