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ProteomicsMirror-image trypsin digestion and sequencing of D-proteins
The development of mirror-image biology systems and related applications is hindered by the lack of effective methods to sequence mirror-image (D-) proteins. Although natural-chirality (L-) proteins can be sequenced by bottom–up liquid chromatography–tandem mass spectrometry (LC–MS/MS), the sequenci...
ORGANISM(S): Escherichia coli 
2024-01-19 | PXD046228 | Pride
Total chemical synthesis D-trypsin D-protein sequencing Mirror-image biology Lc-ms/ms 
UnknownSalivaricin D, a novel intrinsically trypsin-resistant lantibiotic from Streptococcus salivarius 5M6c isolated from a healthy infant.
Not available
S-EPMC3255740 | biostudies-literature
TranscriptomicsDifferential effects of TNFalpha and IL1beta on FLS global gene expression profile
TNFalpha and IL1beta play a pathogenic role in rheumatoid arthritis. Both cytokines are known to activate cytokine and metalloproteinase secretion by synovial fibroblasts. In the present study, we wanted to investigate whether TNFalpha and IL1beta displayed differential effects on cultured Fibroblas...
ORGANISM(S): Homo sapiens 
2009-04-15 | E-GEOD-15615 | biostudies-arrayexpress
Transcriptomics22RV1 prostate cancer cell line transfected with SPINK1 siRNA vs control siRNA
ETS gene fusions have been characterized in a majority of prostate cancers, however key molecular alterations in ETS negative cancers are unclear. Here we used an outlier meta-analysis (meta-COPA) to identify SPINK1 outlier-expression exclusively in a subset of ETS rearrangement negative cancers (~...
ORGANISM(S): Homo sapiens 
2008-06-10 | E-GEOD-11132 | biostudies-arrayexpress
TranscriptomicsEffects of microcystis on Daphnia pulex
Although cyanobacteria produce a wide range of natural toxins that impact aquatic organisms, food webs and water quality, the mechanisms of toxicity are still insufficiently understood. Here, we implemented a whole-genome expression microarray to identify pathways, gene networks and paralogous gene ...
ORGANISM(S): Daphnia pulex 
2012-07-26 | E-GEOD-36635 | biostudies-arrayexpress
TranscriptomicsAnalysis of gene expression levels in BBF2H7-/- chondrocytes
BBF2H7 (BBF2 human homolog on chromosome 7), an ER-resident basic leucine zipper transcription factor, is activated in response to ER stress and abundantly expresses in chondrocytes. While BBF2H7 is widely expressed in many tissues and organs, the most intense signals were detected in the proliferat...
ORGANISM(S): Mus musculus 
2010-05-05 | E-GEOD-18052 | biostudies-arrayexpress
OtherLysargiNase mirrors trypsin for protein C-terminal and methylation-site identification.
Data from ProteomeXchange: PXD ID: PXD001114. Experiment: LysargiNase, silac, file: LR_Ulilysin_PMA_A1_121126.mzml. Published as part of . From the Abstract: {{i}} To improve proteome coverage and protein C-terminal identification, we characterized the Methanosarcina acetivorans thermophilic protei...
ORGANISM(S): Homo_sapiens_viruses, Human_female 
GPM32310005457 | GPMDB
Resource Reanalysis 
ProteomicsIdentification of phosphorylation sites of BAG3
HEK293 cells were cultured in two 10-cm dishes and transfected with BAG3-FLAG as well as Myc vector, CaMKIIβ(D-S)-Myc, and CaMKIIδ(D-S)-MYC, respectively. After the cells were transfected for 24 h, they were treated with the indicated regent. The cells were lysed with NP-40 alternative cell lysis bu...
ORGANISM(S): Homo sapiens (Human) 
2024-08-20 | PXD054722 | Pride
Phosphorylation sites Bag3 Human 
ProteomicsQuantitative proteomic analysis of trypsin-treated extracellular vesicles to evaluate non-vesicular contaminants and surface vesicular proteins.
Extracellular vesicles (EVs) are lipid bilayered vesicles released into extracellular milieu by most of cells. Currently, various purification methods of EVs have been established but most of studies use ultracentrifugation-based purification of EVs. However, these methods have the problem of co-pur...
ORGANISM(S): Homo sapiens (Human) 
2021-08-30 | PXD001355 | Pride
Non-vesicular contaminants Quantitative proteomics Extracellular vesicles Trypsin treatment 
ProteomicsIn gel trypsin digested 1 D resolved bands of freeze-dried camel milk
Demand for camel milk (CM) is increasing worldwide, due to its high nutritious value and health benefits. In this study, whole CM powders were produced by spray drying (SD) at six inlet temperatures (190°C - 250°C) and by freeze drying (FD). Physicochemical and functional properties of CM powder pro...
ORGANISM(S): Camelus dromedarius (Dromedary) (Arabian camel) 
2021-02-25 | PXD023290 | Pride
Soluble camel milk protein fraction of lyophilized camel milk 1 d gel bands in reducing condition of camel milk powder 
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