Is MS1 utilized in DIA-MS? During a DIA-MS experiment, MS1 scans are usually acquired. For the TOF-based DIA-MS experiments, MS1 scans are usually of moderate resolution. For example, the original SWATH-MS paper (PMID: 22261725) by Gilet et al used 250-ms to finish a DDA-MS1 scan while 100-ms to finish a SWATH-MS1 on a TOF-MS system. Considering that each scan, regardless of MS1 or MS2 in SWATH, takes 0.1 s, SWATH-MS1 takes around 3.3% of the cycle time. The authors did, however, additionally de…read more
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A COVID-19 paper in retrospect
We submitted a COVID-19-related paper recently, reporting a longitudinal proteomic investigation of diverse serological patterns in COVID-19 (link to the paper: medRxiv). It is not a paper with fancy analysis nor sophisticated modeling per se, yet the journey of shaping up the research work is quite interesting. Briefly, during COVID-19, we found that some patients did not secret serum IgG or IgM (seronegative) whereas others secreted drastically high levels of serum IgM. We thus used clinical i…read more
COVID-19-related clinical trials that use proteomics
8162 trials related to COVID-19 were registered in clinicaltrials.gov as of August 24, 2022. I am curious how many of them are related to proteomics. The following content records results of my interest. I searched on ClinicalTrials.gov using keywords “COVID-19” and “Proteomics”, which returned 39 results. In them, 4 are not yet recruiting, 20 are recruiting, 6 are active yet not recruiting, and 3 are completed. The rest are suspended, terminated, or in an unknown status.…read more
How did John Fenn continue his career?
This special issue launched by CNHUPO (HUPO in China) reviews the major advances in proteomics from 2001 (HUPO initiation) to 2021 (the 20th anniversary of HUPO). Jiaqi Zhang wrote the draft. I reviewed the scientific content. Permission to reproduce and modify the issue was granted. The original version (Chinese) could be referenced here. You could use the Language Switch icon at the top right of this page for assisted reading. The Original Title: John Fenn 躬身入局|生物大分子分析领域的变革 1迷茫 | 对科研失去兴趣 拥有坚固家…read more
How did John Fenn start his career?
This special issue launched by CNHUPO (HUPO in China) reviews the major advances in proteomics from 2001 (HUPO initiation) to 2021 (the 20th anniversary of HUPO). Jiaqi Zhang wrote the draft. I reviewed the scientific content. Permission to reproduce and modify the issue was granted. The original version (Chinese) could be referenced here. You could use the Language Switch icon at the top right of this page for assisted reading. The Original Title: 诺奖得主John Fenn | 科研之路起航 在生命运作的微观场景中，核酸是细胞生命…read more
Overview of Proteomics Standards Initiative, Part Two
This special issue launched by CNHUPO (HUPO in China) reviews the major advances in proteomics from 2001 (HUPO initiation) to 2021 (the 20th anniversary of HUPO). Jiaqi Zhang wrote the draft. Shanjun Chen, Junhong Xiao reviewed the language. I reviewed the scientific content. Permission to reproduce and modify the issue was granted. The original version (Chinese) could be referenced here. You could use the Language Switch icon at the top right of this page for assisted reading. The original…read more
