Proteeome Discoverer, missing protein?

More Frédérique Leonie Van Holthoon's questions See All

Does anyone have any experience with the Motic EasyScan Pro Slide Scanner?

I am interested in purchasing a slide scanner for histology and was presented with the Motic EasyScan Pro but I have never heard of the company, nor know of anyone who has used the system. Can...

11 February 2021 2,416 2 View

Explain plasmid description?

Hello everyone, I got a plasmid containing E. coli, and its description on the tube is Bacterial stab (DH5a)_HlZ31_cr_Amp_, I know that Bacterial stab refer to LB medium, DH5a is the name of E....

14 January 2021 6,326 2 View

Is there a generalized method to derive current-mode model of any DC-DC converters?

Hi all, As new DC-DC converters are being proposed, associated control method should be proposed and based on the small-model signal analysis of the DC-DC converters. Using average space state...

06 January 2021 7,247 3 View

Most appropriate fit of a standard curve in an enzym-linked lectin assay?

Dear all, I have a question regarding the most appropriate fit of a standard curve in an enzyme-linked lectin assay set-up to quantify the amount of mucin secretion in conjunctival explant...

03 January 2021 1,010 6 View

Can I do gene expression with partial cds (not the complete one)?

Hello everyone, I got a partial cds, and I want to express it in yeast, does it work with partial cds or I need a complete one? If partial cds is possible, can you please suggest me some articles...

27 December 2020 3,688 3 View

Which Universities are virtual?

Many Universities have employees located across the world.

22 December 2020 6,380 3 View

How to get rid of tailing peaks?

I have been making a method to determine chlorhexidine using an LC-MSMS (ESI+ modus). My solutions are made in acetonitril/water (65/35) and 0,2% formic acid is added to ionize the compound. My...

14 December 2020 3,855 6 View

Sample size fixed effect regression ?

Is it true that only a very large sample is suitable for a panel data fixed effects estimation, or do the ols criteria apply?

26 November 2020 9,127 4 View

What are different ways of assesing school leadership education through school leaders?

Hello all, Early next year I'm planning to evaluate a training for school principals. I will collect data from school principals with experience (what that entails is to be defined, but they...

13 November 2020 2,226 4 View

How do I structure my panel data in an event study?

Hey, I am conducting an event study with a short event window (lets say 3 or 5 days). I have a lot of variables, but most of them are fixed over that short period of time (GDP per capita, GDP...

11 November 2020 3,582 6 View

Can I use FLEXBAR to detect and remove barcodes out of my short reads without demultiplexing ?

Hello, I have demultiplexed my short reads and I have removed the Illumina adapter left in the sequences and now I need to remove the barcodes used by the sequencing centre from my reads. I have...

22 February 2021 9,873 3 View

How can I retrieve FASTA sequence from gene ID or UID of a Gene ? I have GeneBank IDs ?

I treid to use Entrez Batch, but it redirects me to NCBI site. Is there any script of Linux or Python through which I can download Fasta sequence of list of gene ID ?

21 February 2021 7,783 12 View

MS/MS protein analysis?

Hi Everyone: I want to quantify the relative amount of a protein in 2 samples. I will first digest the sample with trypsin, and subject the resulting peptides to LC-MS/MS analysis. I will then...

25 January 2021 8,333 3 View

Which is best tool for alignment of large bacterial sequence?

Hi! I need to align big fasta files (bacterial 16S) . I have tried to align them in some web-servers and freeware, but my files are too big to be run in there. I will be very glad if you could...

16 January 2021 1,266 4 View

Infected plant protein lysate washing out purified GST-tagged protein on agarose resin?

Hi, I am trying to screen infected plant proteomes for targets of a secreted pathogen protein. I have purified the pathogen protein using a GST-tag on an agarose resin. I am using the Pierce...

23 November 2020 7,009 3 View

How to interpret data in .arp file?

Hey, I am working in population genetics. I used DNAsp to convert fasta into .arp file for input in Arlequin. Can anyone help to interpret the data in the .arp file? As in which column represents...

12 October 2020 8,443 9 View

How do you differentiate your different populations in your FASTA file in R ?

I need to identify my populations from my FASTA file in R so that R can then run all my stats. However, I do not know how to tell R how to group my data into 4 populations! This is the warning...

09 September 2020 8,875 2 View

How to perform contigs alignment to an homologous chloroplast reference?

I recovered an N amount of putative chloroplast contigs (fasta format). I need to align them to a reference genome and there is no reference genome of my species. Fortunately, there is a reference...

20 August 2020 1,162 3 View

How to view a .FASTA_ALI extension file in MEGA-X software?

FASTA files can be opened in MEGA-X but I have .FASTA_ALI extension file which is only opening as a text file in MEGA-X. I want to see the alignment file in the protein alignment tool of MEGA-X....

20 July 2020 7,998 1 View

Is there a database of human-like proteins only, which is downloadable in FASTA form (i.e. like Ref Seq but also including immunoglobulins)?

Dear specialists in proteomics, I was wondering if there exists a database of human-like proteins only, which is downloadable in FASTA form (i.e. like Ref Seq but also containing...

19 July 2020 8,647 1 View

Fred R. Opperdoes

My suggestion is to check whether the fasta format of the missing protein in your input file is correct. Does it have the ">" sign at the beginning of the the first line?

Frédérique Leonie Van Holthoon

Yes, it is correct, we checked to make sure, and for another sample it also returns only two, but two different ones from the original question above.