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proteome discoverer 1.4  (Thermo Fisher)


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    Thermo Fisher proteome discoverer 1.4
    Proteome Discoverer 1.4, supplied by Thermo Fisher, 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/proteome+discoverer+1%2E4/proteome+discoverer+1+4/10__22175_slash_mmb__17305-77-7-12
    Average 90 stars, based on 1 article reviews
    proteome discoverer 1.4 - by Bioz Stars, 2026-11
    90/100 stars

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    Related Articles

    Software:

    Article Title: SIRT5-modified human umbilical cord mesenchymal stem cells loaded with antioxidant polydopamine nanozyme enhance parpi resistance in ovarian cancer via fatty acid metabolism reprogramming.
    Article Snippet: All MS and MS/MS raw spectra were processed using Proteome Discoverer 1.4 (PD1.4, Thermo Fisher Scientific, USA).

    Article Title: Electron flow in hydrogenotrophic methanogens under nickel limitation.
    Article Snippet: Software and code Policy information about availability of computer code Data collection EPU (Thermo Fisher Scientific) Data analysis SEQUEST HT embedded in Proteome Discoverer 1.4, DIA-NN 1.8, CryoSPARC Live, cryoSPARC v3.2 and 4.1; Relion 4.0; Relion 5.0; CTFFind4.1; Pyem; Phenix 4487; Coot 0.9; ChimeraX; Q-Score; Model Angelo For manuscripts utilizing custom algorithms or software that are central to the research but not yet described in published literature, software must be made available to editors and reviewers.

    Article Title: Regulatory mechanism for host-cell contact-dependent T3SS gene expression in Vibrio parahaemolyticus .
    Article Snippet: The mass spectrometric conditions were as follows: ion spray voltage, 1.9 kV; HCD collision energy, 35%; mass range, m/z 350-1500; and dynamic exclusion, 60 s. The raw data were converted to MGF files via Proteome Discoverer 1.4 (Thermo Fisher Scientific) and searched against the NCBInr_20160401 database (selected for Proteobac teria, 2,956,7748 entries) via Mascot Server 2.5.1 (Matrix Science).

    Article Title: Spermidine supplementation and protein restriction protect from organismal and brain aging independently.
    Article Snippet: Furthermore, a 10 % (v/v) NH4OH solution was placed in front of the ESI source for charge state reduction [81]. iTRAQ data analysis and interpretation All iTRAQ raw data were processed simultaneously using the MudPIT option with Proteome Discoverer 1.4 (Thermo Fisher Scientific, Germany) and searched against the Drosophila melanogaster proteome UniprotKB/TrEMBL (UP000000803) database with 22,009 target entries, downloaded on November 25, 2016, using Mascot (Matrix Science).

    Article Title: Massive intein content in Anaeramoeba reveals new aspects of intein mobility in eukaryotes
    Article Snippet: Database searches were performed using the Sequest algorithm, embedded in Proteome Discoverer 1.4 (Thermo Fisher Scientific) against a database consisting of E. coli BL21 (DE3) (CP001509.3 and ACF32405.1) and the cRAP database (https://www.thegpm.org/crap/) with individual target sequences included.

    Article Title: S100A9 floxed mice were then crossed with DKO* mice with inducible double epidermal deletion of c-Jun and JunB [2] to generate inducible epidermal deletion of S100A9 (TKO*) in DKO* mice. Matings to generate experimental animals with TKO* and DKO* littermates were set up with breeders homozygote for the c-jun and junb floxed alleles and heterozygote for the s100a9 floxed allele, with one parent hemizygous for the K5CreERT allele. Deletion of the floxed alleles in experimental cohorts was achieved by consecutive daily intraperitoneal injections
    Article Snippet: Peptide spectral matching and protein identification were achieved by database search using Sequest HT algorithms in a Proteome Discoverer 1.4 (Thermo doi: 10.1136/annrheumdis-2022-222229–1408.

    Article Title: Title Pending 17305
    Article Snippet: The objective of this study was to identify proteins and biochemical pathways associated with beef color and tenderness from Angus steers fed graded levels of sorghum-based finisher diets.. Nine 8-month-old (230 ± 28 kg average initial weight) Angus steers were individually housed in pens and randomly allocated to one of the 3 dietary treatments (n= 3) for 90 d of feeding.. The pellet diets were formulated by replacing white maize in the basal diet with either 0 (control, SGD-0), 200 (SGD-200), or 400 (SGD-400) g/kg dry matter of sorghum grain.

    Article Title: Mechanisms of electroacupuncture-induced neuroprotection in acute stroke rats: the role of astrocyte-mediated mitochondrial transfer.
    Article Snippet: Mass spectrometry data were processed and quantified using Mascot 2.2 and Proteome Discoverer 1.4 software (Thermo Scientific, USA).

    Data-independent acquisition:

    Article Title: SIRT5-modified human umbilical cord mesenchymal stem cells loaded with antioxidant polydopamine nanozyme enhance parpi resistance in ovarian cancer via fatty acid metabolism reprogramming.
    Article Snippet: All MS and MS/MS raw spectra were processed using Proteome Discoverer 1.4 (PD1.4, Thermo Fisher Scientific, USA).

    Article Title: Electron flow in hydrogenotrophic methanogens under nickel limitation.
    Article Snippet: Software and code Policy information about availability of computer code Data collection EPU (Thermo Fisher Scientific) Data analysis SEQUEST HT embedded in Proteome Discoverer 1.4, DIA-NN 1.8, CryoSPARC Live, cryoSPARC v3.2 and 4.1; Relion 4.0; Relion 5.0; CTFFind4.1; Pyem; Phenix 4487; Coot 0.9; ChimeraX; Q-Score; Model Angelo For manuscripts utilizing custom algorithms or software that are central to the research but not yet described in published literature, software must be made available to editors and reviewers.

    Article Title: Regulatory mechanism for host-cell contact-dependent T3SS gene expression in Vibrio parahaemolyticus .
    Article Snippet: The mass spectrometric conditions were as follows: ion spray voltage, 1.9 kV; HCD collision energy, 35%; mass range, m/z 350-1500; and dynamic exclusion, 60 s. The raw data were converted to MGF files via Proteome Discoverer 1.4 (Thermo Fisher Scientific) and searched against the NCBInr_20160401 database (selected for Proteobac teria, 2,956,7748 entries) via Mascot Server 2.5.1 (Matrix Science).

    Article Title: Spermidine supplementation and protein restriction protect from organismal and brain aging independently.
    Article Snippet: Furthermore, a 10 % (v/v) NH4OH solution was placed in front of the ESI source for charge state reduction [81]. iTRAQ data analysis and interpretation All iTRAQ raw data were processed simultaneously using the MudPIT option with Proteome Discoverer 1.4 (Thermo Fisher Scientific, Germany) and searched against the Drosophila melanogaster proteome UniprotKB/TrEMBL (UP000000803) database with 22,009 target entries, downloaded on November 25, 2016, using Mascot (Matrix Science).

    Article Title: Massive intein content in Anaeramoeba reveals new aspects of intein mobility in eukaryotes
    Article Snippet: Database searches were performed using the Sequest algorithm, embedded in Proteome Discoverer 1.4 (Thermo Fisher Scientific) against a database consisting of E. coli BL21 (DE3) (CP001509.3 and ACF32405.1) and the cRAP database (https://www.thegpm.org/crap/) with individual target sequences included.

    Article Title: S100A9 floxed mice were then crossed with DKO* mice with inducible double epidermal deletion of c-Jun and JunB [2] to generate inducible epidermal deletion of S100A9 (TKO*) in DKO* mice. Matings to generate experimental animals with TKO* and DKO* littermates were set up with breeders homozygote for the c-jun and junb floxed alleles and heterozygote for the s100a9 floxed allele, with one parent hemizygous for the K5CreERT allele. Deletion of the floxed alleles in experimental cohorts was achieved by consecutive daily intraperitoneal injections
    Article Snippet: Peptide spectral matching and protein identification were achieved by database search using Sequest HT algorithms in a Proteome Discoverer 1.4 (Thermo doi: 10.1136/annrheumdis-2022-222229–1408.

    Article Title: Title Pending 17305
    Article Snippet: The objective of this study was to identify proteins and biochemical pathways associated with beef color and tenderness from Angus steers fed graded levels of sorghum-based finisher diets.. Nine 8-month-old (230 ± 28 kg average initial weight) Angus steers were individually housed in pens and randomly allocated to one of the 3 dietary treatments (n= 3) for 90 d of feeding.. The pellet diets were formulated by replacing white maize in the basal diet with either 0 (control, SGD-0), 200 (SGD-200), or 400 (SGD-400) g/kg dry matter of sorghum grain.

    Article Title: Mechanisms of electroacupuncture-induced neuroprotection in acute stroke rats: the role of astrocyte-mediated mitochondrial transfer.
    Article Snippet: Mass spectrometry data were processed and quantified using Mascot 2.2 and Proteome Discoverer 1.4 software (Thermo Scientific, USA).

    Mass Spectrometry:

    Article Title: SIRT5-modified human umbilical cord mesenchymal stem cells loaded with antioxidant polydopamine nanozyme enhance parpi resistance in ovarian cancer via fatty acid metabolism reprogramming.
    Article Snippet: All MS and MS/MS raw spectra were processed using Proteome Discoverer 1.4 (PD1.4, Thermo Fisher Scientific, USA).

    Article Title: Electron flow in hydrogenotrophic methanogens under nickel limitation.
    Article Snippet: Software and code Policy information about availability of computer code Data collection EPU (Thermo Fisher Scientific) Data analysis SEQUEST HT embedded in Proteome Discoverer 1.4, DIA-NN 1.8, CryoSPARC Live, cryoSPARC v3.2 and 4.1; Relion 4.0; Relion 5.0; CTFFind4.1; Pyem; Phenix 4487; Coot 0.9; ChimeraX; Q-Score; Model Angelo For manuscripts utilizing custom algorithms or software that are central to the research but not yet described in published literature, software must be made available to editors and reviewers.

    Article Title: Regulatory mechanism for host-cell contact-dependent T3SS gene expression in Vibrio parahaemolyticus .
    Article Snippet: The mass spectrometric conditions were as follows: ion spray voltage, 1.9 kV; HCD collision energy, 35%; mass range, m/z 350-1500; and dynamic exclusion, 60 s. The raw data were converted to MGF files via Proteome Discoverer 1.4 (Thermo Fisher Scientific) and searched against the NCBInr_20160401 database (selected for Proteobac teria, 2,956,7748 entries) via Mascot Server 2.5.1 (Matrix Science).

    Article Title: Spermidine supplementation and protein restriction protect from organismal and brain aging independently.
    Article Snippet: Furthermore, a 10 % (v/v) NH4OH solution was placed in front of the ESI source for charge state reduction [81]. iTRAQ data analysis and interpretation All iTRAQ raw data were processed simultaneously using the MudPIT option with Proteome Discoverer 1.4 (Thermo Fisher Scientific, Germany) and searched against the Drosophila melanogaster proteome UniprotKB/TrEMBL (UP000000803) database with 22,009 target entries, downloaded on November 25, 2016, using Mascot (Matrix Science).

    Article Title: Massive intein content in Anaeramoeba reveals new aspects of intein mobility in eukaryotes
    Article Snippet: Database searches were performed using the Sequest algorithm, embedded in Proteome Discoverer 1.4 (Thermo Fisher Scientific) against a database consisting of E. coli BL21 (DE3) (CP001509.3 and ACF32405.1) and the cRAP database (https://www.thegpm.org/crap/) with individual target sequences included.

    Article Title: S100A9 floxed mice were then crossed with DKO* mice with inducible double epidermal deletion of c-Jun and JunB [2] to generate inducible epidermal deletion of S100A9 (TKO*) in DKO* mice. Matings to generate experimental animals with TKO* and DKO* littermates were set up with breeders homozygote for the c-jun and junb floxed alleles and heterozygote for the s100a9 floxed allele, with one parent hemizygous for the K5CreERT allele. Deletion of the floxed alleles in experimental cohorts was achieved by consecutive daily intraperitoneal injections
    Article Snippet: Peptide spectral matching and protein identification were achieved by database search using Sequest HT algorithms in a Proteome Discoverer 1.4 (Thermo doi: 10.1136/annrheumdis-2022-222229–1408.

    Article Title: Title Pending 17305
    Article Snippet: The objective of this study was to identify proteins and biochemical pathways associated with beef color and tenderness from Angus steers fed graded levels of sorghum-based finisher diets.. Nine 8-month-old (230 ± 28 kg average initial weight) Angus steers were individually housed in pens and randomly allocated to one of the 3 dietary treatments (n= 3) for 90 d of feeding.. The pellet diets were formulated by replacing white maize in the basal diet with either 0 (control, SGD-0), 200 (SGD-200), or 400 (SGD-400) g/kg dry matter of sorghum grain.

    Article Title: Mechanisms of electroacupuncture-induced neuroprotection in acute stroke rats: the role of astrocyte-mediated mitochondrial transfer.
    Article Snippet: Mass spectrometry data were processed and quantified using Mascot 2.2 and Proteome Discoverer 1.4 software (Thermo Scientific, USA).



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