Bioinformatic tools for removing bacterial contamination from Human SmallRNA sequencing data

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Why porous membrane breaks during drying?

Hi, I am preparing a porous Carboxymethyl cellulose membrane by adding DMF as non solvant. After addition of DMF into CMC, I stirred it at 70 degree for 4 hours and then put into glass petri dish...

23 June 2024 3,080 2 View

Since many centuries human has researched on advancing weapons of destruction, why not researched on ways to bring advancement for peace in the world?

The mankind is on the edge of resistance to peace. If you view news you will find that every day there are portions of the world where wars are happening and many innocent people are being killed....

26 May 2024 4,633 3 View

How to calculate HKL values without JCPDS card?

I am working on HKL values calculations for Pna21 space type BFO. is there anyone who can recommend a reliable method for the calculations of HKL values without accessing JCPDS cards....?...

13 March 2024 4,942 2 View

Wht to do if 4 items of one factor loaded in 2 different columns ?

There are 4 items in one variable and in EFA , items loaded in 2 different columns of other variable

06 March 2024 2,161 1 View

I want to write patent, suggest some fields in the area of control systems, mechanical engineering?

Hi, I am going to graduate soon InshaaALLAH. I have a plan to write a patent, I am currently working in the control and design laboratory and my Prof. expertise is also in control systems. I...

28 February 2024 8,573 1 View

Overview of Machine Learning. What are the opportunities it brings to developers? What threats does it pose to society?

I need a referenced cites on the above

17 February 2024 7,991 2 View

Does my PI + MPC (feedforward controller) configuration make sense?

Hi, I have designed a feedforward controller to improve the tracking performance of a device. That work has been done already my purpose is to first evaluate my controller on the same work and...

05 February 2024 7,795 0 View

How input disturbance augmented matrices alter for measured output disturbance?

I have a known disturbance at the output of my plant i.e. step disturbance I am designing an observer for state estimation, and then I will feed it to the Model Predictive Controller. I have...

31 January 2024 4,893 2 View

Does open loop response of Piezoelectric actuator contains Hysteresis affect and creep affects?

Dear Community, Happy New Year. I have obtained the open loop response of my plant which is an Atomic Force Microscopy Piezoelectric Actuator and cantilever (PZT/PTS). My experimental...

04 January 2024 5,449 0 View

Copy right of my Paper?

in January 2018 i publish my article paper but some one else with same name add my paper in his account. please check and verify it. and remove from that person account with same name. Umair...

18 December 2023 8,167 2 View

Is there a problem with my RNA pellet?

Hello, I am currently having problems with RNA extraction. I am using mouse liver (C57BL6J), and I have extracted RNA from mouse liver before. Before this experiment, my final RNA pellets were...

11 August 2024 7,082 3 View

Can I base on reverse DNA sequences to perform alignment, convert to amino acids and GenBank submission?

I have reverse sequences (AB1 format), can I base on reverse DNA sequences to perform nucleotide alignment, convert nucleotides to amino acids and deposit the sequence in GenBank database?

11 August 2024 5,138 1 View

Strugglling with m6A dot blot any suugesstion ?

I have been doing the m6A dot blot for a while with no improvement, I am extracting the RNA, and I can see the dots although the three biological replicas give a different reading on the memberan...

10 August 2024 8,539 5 View

Could it be a cell culture contamination?

Hello everyone! I observed in my culture (htert-RPE1 cells) an orange- red particle at the bottom of the dish. It is visible to the naked eye as a very very small red dot. Could it be a...

09 August 2024 2,824 3 View

How to confirm the site-directed mutagenesis result without performing NGS?

I'm cloning a fragment of 3200 nts into plasmid. The cloning was successful, however, 02 amino acids were mutated. Now I want to fix these 02 aa by site-directed mutagenesis technique using...

08 August 2024 4,645 2 View

RNA Extraction Using Hot Borate Method No Longer Working?

I've been performing RNA extraction on cotton petiole tissue for a few months now using the method described in the following paper, a derivative of the typical hot borate method...

08 August 2024 9,882 2 View

Does Anyone have expertise in in vitro transcription and RNA pull down assay?

I am currently working on LncRNA; to know the lncRNA-protein interactions I want to do RNA pull down assay, so I need to design primers with T7 promoter. I need assistance in this regard.

07 August 2024 6,622 1 View

E.coli contamination in human RNA seq data ?

Recently, we observed that 99% of the sequences in our RNA-seq data corresponded to the E. coli genome. Despite multiple DNAse treatments after RNA extraction and ribosomal depletion, we were...

06 August 2024 807 3 View

RNA later for the preservation of RNA in fecal samples at room temperature for one day (37°C)?

I am planning to collect human fecal samples for metatranscriptomic analysis using MGI. These samples are from indigenous people living in a region with high temperatures. I will have access to a...

06 August 2024 1,367 3 View

Do you have good tips for seaweed tissue preservation in the field for post RNA extraction?

I will be with my students collecting seaweed samples in a marine farm and later we will process this tissue for RNA isolation and further sequencing. Does anyone have tips on how to collect the...

04 August 2024 501 2 View

Rajesh Pal

You can use FASTQ-Screen for identification.

and for filtering, you can either go for BBDUK, SortmeRNA or SeqMonk

Rune Andreassen

Is it something you need to do? If you are e.g. doing expression analysis of miRNAs then you would use a reference miRNAom. These will count the miRNAs in your sample and any other reads would not interfere with this analysis.