MASCOT analysis - FAQS.TIPS

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How to determine LOD values?

I am performing fluorescence experiments using a ligand to detect metal ions. I want to determine the Lowest Detection Limit (LOD) using the formula LOD = 3σ / K. However, I'm uncertain about...

19 July 2024 1,086 1 View

What sustainable strategies can European luxury brands adopt to effectively expand their market presence in Asia?

I am currently working on my thesis, which focuses on the expansion of European luxury brands into key Asian markets, specifically China, India, South Korea, Thailand, and Japan. The main topic of...

15 July 2024 4,130 0 View

Facing issues when analyzing raw LC-MS/MS data with MS-DIAL?

I am facing a problem with my Waters MSe raw data. I have tried to open my raw data with AIF mode, after converting my file to ABF format for MS-DIAL, but everytime my system crashed. Later I...

14 June 2024 2,492 1 View

For how much time single cell of Xanthomonas oryzae can be alive at room temperature in nutrient deficient condition?

20 May 2024 3,673 1 View

What is the dilution rate? How can it be calculated during semi continuous cultivation?

In a semicontinuous cultivation strategy, how to calculate the dilution rate? Is the dilution rate is same as the renewal rate? What are the parameters required during this cultivation?

17 May 2024 4,291 0 View

Recommended molecular weight of PVP for electrospinning?

Could anyone confirm if Polyvinylpyrrolidone (PVP) K-30 with a molecular weight of 40K is suitable for electrospinning? If not, could you recommend an appropriate molecular weight of PVP for...

05 March 2024 3,066 0 View

Western Blot protocol??

We are running western blot for checking the ag-ab interactions.our proteins are from molecular weight 250 to 7 kda.But we are facing some technical issues with the transfer of proteins(i'm not...

28 November 2023 1,408 2 View

How to stabilize overexpressed Protein?

I have cloned a gene in pET28a vector, and induced it for 5 hrs with 1mM IPTG. The cells were centrifuged from 1 ml culture (Uninduced and induced both), and the pellet was suspended in 200...

25 August 2023 3,448 1 View

Agarose gel electrophoresis?

I did agarose gel electrophoresis with different concentrations of Dna:250ng,500ng and 1 microgram.But the bands were in smear form,from which I concluded that the dna was degraded.But when i...

10 August 2023 6,937 4 View

How to know if my primers are suitable to clone a gene in pET28a vector to get histidine tagged protein?

Is there any online tool available to check, if designed primers are suitable to get overexpression of the histidine-tagged protein, cloned in pET28a vector? How to confirm the suitability of...

07 August 2023 8,252 1 View

Can you connect an HPLC to a Mass Spec only at a certain time point?

Can anyone explain this method? Especially the last statement where it says only at 1.5 to 2.5mins was the MS/MS connected to the UPLC. How is that possible, is it a feature in this specific...

11 August 2024 8,141 3 View

GC-MS retention index prediticon?

Hello experts, Does anyone know any free software about retention index prediction ?

08 August 2024 7,403 2 View

How to calculate CCS for Sodiated adduct ions and Multiply Charged Ions?

I'm currently working on calculating the collision cross section (CCS) for various ions, and I'm facing challenges when dealing with sodiated and multiply charged ions. Most of the resources I’ve...

08 August 2024 8,329 0 View

Where to find a gene list for CRISPRa/i library screening of regulatory factors that affect pathogenic Th17 differentiation in PBMC?

I want to perform a CRISPRa/i library screening for candidate regulatory factors that affect pathogenic Th17 differentiation in PBMC. But I am wondering how to define the size of gene library, so...

31 July 2024 2,150 0 View

Hello dear researchers. I would like to know what is a normalized mass in an EDX analysis?

EDX analisys

31 July 2024 5,947 2 View

Gas chromatography RT detection?

I am working on algal extract to which gas chromatography (Not GC-MS) spectrum I want to discover. My question is can we identify specific compounds using retention time if I compared the RT with...

29 July 2024 8,034 4 View

CAD File of human's & rat's respiratory airways ?

Dear all, I am working on particle deposition in human's & rat's respiratory airways using CFD and I am looking for the 3D CAD file for my simulations (STEP or IGES format). If somone has such...

29 July 2024 1,092 2 View

MAGeCK Plotting Error: Logarithmic Axis Must Have Positive Limits?

I have been running a MAGeCK test command on the terminal for a CRISPR screen to rank sgRNAs and genes based on the read count tables. However, I get only the plot of the top-ranked genes...

28 July 2024 9,811 1 View

How can I get old refernce in geomorphological mapping?

how can I read Waters, R. S. 1958. Morphological mapping. Geography 43 :10-17 from internet? note: not in google or resaearch gate

26 July 2024 7,813 3 View

Screening of EPS producer LAB?

if you have MRS broth already prepared, what is the manner you will follow for preparing hyper-sweet medium for screening of EPS producer LAB? what the concentration of saccharose or glucose you...

26 July 2024 6,606 0 View

Nisha Rathor

Thanks a lot

Achim Treumann

Nisha,

for this question (and similar ones), I can really recommend reading the matrixscience help pages on Mascot and on proteomics:

http://www.matrixscience.com/help_index.html

They are an excellent tutorial on understanding the Mascot output (and on proteomics beyond that).

Best wishes,

Achim