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Biognosys maxquant analysis

Maxquant Analysis, supplied by Biognosys, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
https://www.bioz.com/product/maxquant+analysis/maxquant/pmc07560198-321-4-19
Average 90 stars, based on 1 article reviews
maxquant analysis - by Bioz Stars, 2026-09
90/100 stars

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1) Product Images from "An optimized quantitative proteomics method establishes the cell type‐resolved mouse brain secretome"

Article Title: An optimized quantitative proteomics method establishes the cell type‐resolved mouse brain secretome

Journal: The EMBO Journal

doi: 10.15252/embj.2020105693


Figure Legend Snippet:

Techniques Used: Cell Culture, Mouse Assay, Sandwich ELISA, Enzyme-linked Immunosorbent Assay, Software, Mass Spectrometry

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Data-dependent acquisition:

Article Title: Distinct cell type-specific protein signatures in GRN and MAPT genetic subtypes of frontotemporal dementia.
Article Snippet: .. We first analysed the DDA data from our pooled library samples and identified 3,422 protein groups by MaxQuant search (version 1.5.2.8) [13] against the human proteome using the UniProt FASTA (release February 2015) and Biognosys iRT FASTA databases. ..

Article Title: High-Throughput and Integrated Chemical Proteomic Approach for Profiling Phosphotyrosine Signaling Complexes.
Article Snippet: Phosphotyrosine (pTyr) signaling complexes are important resources of biomarkers and drug targets which often need to be profiled with enough throughput.. Current profiling approaches are not feasible to meet this need due to either biased profiling by antibody-based detection or low throughput by traditional affinity purification-mass spectrometry approach (AP-MS), as exemplified by our previously developed photo-pTyr-scaffold approach.. To address these limitations, we developed a 96-well microplate-based sample preparation and fast data independent proteomic analysis workflow.

Article Title: Distinct cell type-specific protein signatures in GRN and MAPT genetic subtypes of frontotemporal dementia
Article Snippet: .. We first analysed the DDA data from our pooled library samples and identified 3,422 protein groups by MaxQuant search (version 1.5.2.8) [ ] against the human proteome using the UniProt FASTA (release February 2015) and Biognosys iRT FASTA databases. ..

Article Title: Ezrin deficiency triggers glial fibrillary acidic protein upregulation and a distinct reactive astrocyte phenotype.
Article Snippet: .. For library creation, DDA data (pools, individual samples or high pH data) was searched using MaxQuant (version 1.5.3.28; Martinsried, Germany) against a species-specific (Mus musculus) Uniprot database with a list of common contaminants appended – as well as the HRM peptide sequences, using Spectronaut Pulsar (version 11.0.15038; Biognosys, Switzerland). ..

Software:

Article Title: High-Throughput and Integrated Chemical Proteomic Approach for Profiling Phosphotyrosine Signaling Complexes.
Article Snippet: Phosphotyrosine (pTyr) signaling complexes are important resources of biomarkers and drug targets which often need to be profiled with enough throughput.. Current profiling approaches are not feasible to meet this need due to either biased profiling by antibody-based detection or low throughput by traditional affinity purification-mass spectrometry approach (AP-MS), as exemplified by our previously developed photo-pTyr-scaffold approach.. To address these limitations, we developed a 96-well microplate-based sample preparation and fast data independent proteomic analysis workflow.

Sequencing:

Article Title: High-Throughput and Integrated Chemical Proteomic Approach for Profiling Phosphotyrosine Signaling Complexes.
Article Snippet: Phosphotyrosine (pTyr) signaling complexes are important resources of biomarkers and drug targets which often need to be profiled with enough throughput.. Current profiling approaches are not feasible to meet this need due to either biased profiling by antibody-based detection or low throughput by traditional affinity purification-mass spectrometry approach (AP-MS), as exemplified by our previously developed photo-pTyr-scaffold approach.. To address these limitations, we developed a 96-well microplate-based sample preparation and fast data independent proteomic analysis workflow.

Article Title: RIOK2 phosphorylation by RSK promotes synthesis of the human small ribosomal subunit
Article Snippet: .. Data were searched against the UniProtKB/Swiss-Prot protein database released 2015_07 with Homo sapiens taxonomy (11953 sequences) supplemented with the human 3HA-RIOK2 sequence, the Biognosys iRT peptide sequences and a list of frequently observed contaminant sequences provided in MaxQuant 1.5.2.8. ..

Quantitative Proteomics:

Article Title: High-Throughput and Integrated Chemical Proteomic Approach for Profiling Phosphotyrosine Signaling Complexes.
Article Snippet: Phosphotyrosine (pTyr) signaling complexes are important resources of biomarkers and drug targets which often need to be profiled with enough throughput.. Current profiling approaches are not feasible to meet this need due to either biased profiling by antibody-based detection or low throughput by traditional affinity purification-mass spectrometry approach (AP-MS), as exemplified by our previously developed photo-pTyr-scaffold approach.. To address these limitations, we developed a 96-well microplate-based sample preparation and fast data independent proteomic analysis workflow.

Phospho-proteomics:

Article Title: High-Throughput and Integrated Chemical Proteomic Approach for Profiling Phosphotyrosine Signaling Complexes.
Article Snippet: Phosphotyrosine (pTyr) signaling complexes are important resources of biomarkers and drug targets which often need to be profiled with enough throughput.. Current profiling approaches are not feasible to meet this need due to either biased profiling by antibody-based detection or low throughput by traditional affinity purification-mass spectrometry approach (AP-MS), as exemplified by our previously developed photo-pTyr-scaffold approach.. To address these limitations, we developed a 96-well microplate-based sample preparation and fast data independent proteomic analysis workflow.

other:

Article Title: Data independent acquisition of plasma biomarkers of response to neoadjuvant chemotherapy in pancreatic ductal adenocarcinoma.
Article Snippet: The detection of disease-related plasma biomarkers has challenged the proteomic community for years.. Attractive features for plasma proteomics includes the ease of collection and small volume needed for analysis, but on the other hand, the presence of highly abundant proteins complicates sample preparation procedures and reduces dynamic range.. Data independent acquisition label free quantitation (DIA-LFQ) by mass spectrometry partly overcomes the dynamic range issue; however, generating the peptide spectral reference libraries that allow extensive analysis of the plasma proteome can be a slow and expensive task which is unattainable for many laboratories.

Data-independent acquisition:

Article Title: An optimized quantitative proteomics method establishes the cell type‐resolved mouse brain secretome
Article Snippet: .. The results of the MaxQuant analysis were used to generate DIA spectral libraries of proteins in Spectronaut Pulsar X (Biognosys). .. Data generated with DIA were analyzed using Spectronaut Pulsar X (Biognosys) using the self‐generated spectral libraries applying default settings: quantification on the MS2 level of the top N (1–3) peptide spectra and a FDR of 1%.



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Image Search Results


Shotgun proteomics to compare saliva and CSF and correlation analysis of differentially expressed genes in saliva. A) GO Biological pathways for salivary proteins. B) Number of shared proteins between saliva and CSF. C) Number of shared hits between common proteins and AD related proteins. D) STRING map shows the functional association based on the string database indicating the interactome of commonly shared proteins in saliva and CSF with AD. E) Volcano plots showing differential expression in saliva and F) CSF between AD and CN. G) Abundance rank dot plots for saliva and H) CSF shows the range of expression levels for the differentially expressed proteins. I) STRING map shows the interaction of differentially expressed proteins in saliva and J) in CSF. In the STRING map, the pink line represents the known interaction that is experimentally determined, blue line represents the known interaction from curated databases, green line represents predicted interaction due to gene neighborhood, red line represents prediction due to gene fusions and dark blue line represents prediction due to gene co-occurrence.

Journal: Journal of Alzheimer's Disease Reports

Article Title: Salivary Proteomics Identifies Transthyretin as a Biomarker of Early Dementia Conversion

doi: 10.3233/ADR-210056

Figure Lengend Snippet: Shotgun proteomics to compare saliva and CSF and correlation analysis of differentially expressed genes in saliva. A) GO Biological pathways for salivary proteins. B) Number of shared proteins between saliva and CSF. C) Number of shared hits between common proteins and AD related proteins. D) STRING map shows the functional association based on the string database indicating the interactome of commonly shared proteins in saliva and CSF with AD. E) Volcano plots showing differential expression in saliva and F) CSF between AD and CN. G) Abundance rank dot plots for saliva and H) CSF shows the range of expression levels for the differentially expressed proteins. I) STRING map shows the interaction of differentially expressed proteins in saliva and J) in CSF. In the STRING map, the pink line represents the known interaction that is experimentally determined, blue line represents the known interaction from curated databases, green line represents predicted interaction due to gene neighborhood, red line represents prediction due to gene fusions and dark blue line represents prediction due to gene co-occurrence.

Article Snippet: CSF and saliva proteome from AD patients and age-matched control subjects were investigated using the open-source MaxQuant Perseus proteomics analysis software; protein expression variability within the clinical group was analyzed using homogeneity of variance.

Techniques: Functional Assay, Quantitative Proteomics, Expressing

Journal: The EMBO Journal

Article Title: An optimized quantitative proteomics method establishes the cell type‐resolved mouse brain secretome

doi: 10.15252/embj.2020105693

Figure Lengend Snippet:

Article Snippet: The results of the MaxQuant analysis were used to generate DIA spectral libraries of proteins in Spectronaut Pulsar X (Biognosys).

Techniques: Cell Culture, Mouse Assay, Sandwich ELISA, Enzyme-linked Immunosorbent Assay, Software, Mass Spectrometry