Source 1review2020The Plant Cell
Toolkit/targeted proteomics
targeted proteomics
Taxonomy: Technique Branch / Method. Workflows sit above the mechanism and technique branches rather than replacing them.
Summary
targeted proteomics have produced long lists of proteins potentially regulated by Cys oxidation/thioredoxin, Met-SO formation, phosphorylation, or Lys acetylation
Usefulness & Problems
Why this is useful
Targeted proteomics is described as a way to generate long lists of proteins potentially regulated by cysteine oxidation/thioredoxin, methionine sulfoxide formation, phosphorylation, or lysine acetylation. In this review it functions as a discovery-layer assay rather than a definitive functional test.; cataloging candidate PTM-regulated proteins in plant mitochondria; surveying multiple PTM classes at scale
Source:
Targeted proteomics is described as a way to generate long lists of proteins potentially regulated by cysteine oxidation/thioredoxin, methionine sulfoxide formation, phosphorylation, or lysine acetylation. In this review it functions as a discovery-layer assay rather than a definitive functional test.
Source:
cataloging candidate PTM-regulated proteins in plant mitochondria
Source:
surveying multiple PTM classes at scale
Problem solved
It helps identify many candidate PTM-regulated mitochondrial proteins that would be difficult to enumerate one by one. This supports broad mapping of possible regulatory layers in plant mitochondria.; generates broad candidate lists of proteins potentially regulated by redox-associated PTMs
Source:
It helps identify many candidate PTM-regulated mitochondrial proteins that would be difficult to enumerate one by one. This supports broad mapping of possible regulatory layers in plant mitochondria.
Source:
generates broad candidate lists of proteins potentially regulated by redox-associated PTMs
Problem links
generates broad candidate lists of proteins potentially regulated by redox-associated PTMs
LiteratureIt helps identify many candidate PTM-regulated mitochondrial proteins that would be difficult to enumerate one by one. This supports broad mapping of possible regulatory layers in plant mitochondria.
Source:
It helps identify many candidate PTM-regulated mitochondrial proteins that would be difficult to enumerate one by one. This supports broad mapping of possible regulatory layers in plant mitochondria.
Taxonomy & Function
Primary hierarchy
Technique Branch
Method: A concrete measurement method used to characterize an engineered system.
Mechanisms
No mechanism tags yet.
Techniques
Functional AssayTarget processes
No target processes tagged yet.
Implementation Constraints
cofactor dependency: cofactor requirement unknownencoding mode: genetically encodedimplementation constraint: context specific validationoperating role: sensor
The abstract only supports that proteomic measurement is used to detect candidate PTM-regulated proteins. Specific instrumentation, sample preparation, or analysis requirements are not described here.; requires downstream functional follow-up to distinguish meaningful PTMs from noise
The review states that the functional importance of only a few PTMs is currently understood, so proteomic detection alone does not establish regulatory significance. It also does not rule out that some site modifications are molecular noise.; functional importance is currently understood for only a few PTMs; some detected site modifications may be molecular noise caused by spurious reactions
Validation
Cell-freeBacteriaMammalianMouseHumanTherapeuticIndep. Replication
Supporting Sources
Ranked Claims
Some detected PTM sites may represent molecular noise caused by spurious reactions rather than functional regulation.
Targeted proteomics has generated many candidate PTM-regulated mitochondrial proteins, but the functional importance of only a few PTMs is currently understood.
Approval Evidence
1 source2 linked approval claimsfirst-pass slug targeted-proteomics
targeted proteomics have produced long lists of proteins potentially regulated by Cys oxidation/thioredoxin, Met-SO formation, phosphorylation, or Lys acetylation
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caveatsupports
Some detected PTM sites may represent molecular noise caused by spurious reactions rather than functional regulation.
Source:
evidence gapsupports
Targeted proteomics has generated many candidate PTM-regulated mitochondrial proteins, but the functional importance of only a few PTMs is currently understood.
Source:
Comparisons
Source-stated alternatives
The abstract contrasts broad proteomic listing with later functional understanding of only a few PTMs, implying the need for functional follow-up approaches. No specific alternative assay is named in the abstract.
Source:
The abstract contrasts broad proteomic listing with later functional understanding of only a few PTMs, implying the need for functional follow-up approaches. No specific alternative assay is named in the abstract.
Source-backed strengths
produces long lists of candidate regulated proteins
Source:
produces long lists of candidate regulated proteins
Compared with Langendorff perfused heart electrical recordings
targeted proteomics and Langendorff perfused heart electrical recordings address a similar problem space.
Shared frame: same top-level item type
Strengths here: looks easier to implement in practice.
Compared with native green gel system
targeted proteomics and native green gel system address a similar problem space.
Shared frame: same top-level item type
Strengths here: looks easier to implement in practice.
targeted proteomics and sub-picosecond pump-probe analysis of bacteriorhodopsin pigments address a similar problem space.
Shared frame: same top-level item type
Strengths here: looks easier to implement in practice.
Ranked Citations
- 1.