Shahina Akter

19 Questions 31 Answers 0 Followers

Questions related from Shahina Akter

How can in silico designs for edible vaccines be translated into practical Agrobacterium tumefaciens constructs for wet lab experimentation?

Hi Dear Scientists I am currently working on an exciting project involving edible vaccines, and I wanted to seek your guidance regarding the next steps in my research. To begin with, I have...

20 July 2023 420 4 View

What are the open access no APC journals?

Dear Researchers I have completed two manuscripts on SARS-CoV-2. Unfortunately, I do not have any grant or any other source of funds that can pay the APC. In this circumstance, I want to submit...

20 March 2022 3,636 5 View

Can anyone give the basic pipeline for analyses of Human Whole Genome sequence data using NGS?

Dear scientists Our team sequenced the human whole-genomes for breast cancer genes analysis. We could manage to generate up to the VCF files. Now we want to annotate the data and do the KEGG...

03 March 2022 1,306 3 View

How can I analyse Human whole genome sequence data generated using NGS?

I have performed human whole-genome sequencing using NovaSeq6000 and analyzed the data using Basespace. Now I got some results for breast cancer 28 genes list which has been assembled in an excel...

15 December 2021 2,529 1 View

How I can convert my fastq data into FASTA?

I have sequenced my Bacteria using NGS and got fastq data. For analysis now I need to convert this data into FASTA. How can I do that easily? Should I use galaxy or recommend any other good tool?...

05 December 2021 6,043 7 View

Can anybody provide me the protocol for Ti plasmid construction?

I want to do plant genetic transformation with my gene of interest. For that reason, I need to construct the vector Ti plasmid so that can go for Agrobacterium-mediated plant genetic...

01 December 2021 8,120 2 View

Does anyone have the experience of plant genome sequencing?

I have some experience in Human, SARS-CoV-2, Dengue and whole Genome Sequencing, and bacterial metagenomics. Now I want to do some work on plant genomics. Can anyone share some knowledge regarding...

14 September 2021 1,458 7 View

How to find out unique mutation of SARS-CoV-2 sequence in GISAID database?

We have sequenced SARS-CoV-2 and submitted it to the GISAID. From there how I can find out the unique mutations? There are thousands of mutations showing in the table, from there how I understand...

01 August 2021 5,957 3 View

What is the good tool for making Phylogenetic tree?

We have sequenced over 600 SARS-CoV-2 whole genomes of Bangladeshi Patients. Now for analyses need to make the phylogenetic tree. Before we did it using Nexstrain, this tool is not suitable as it...

25 April 2021 4,734 5 View

How to analyse SNPs either significant or not using Covid 19 data ?

Hello Researchers, I would like to annotate my FASTA sequence of COVID19 of many samples. I aligned the data using MegaX and analyse spike protein using Swiss-model. I could not interpret...

25 March 2021 670 4 View

How can I super impose my 3D structure protein with wild?

Hi I got a 3D protein structures in my research and want to superimpose it with the wild. I am working with SARS-CoV2 and found a deletion that I want to compare with that of Wuhan as a wild. I...

17 December 2020 4,030 5 View

How can I convert my amino acid sequence in PDB formate?

I have some sequences of Spike protein of some Covid 19 samples that have been sequenced in my laboratory using NGS. For analyses of those, I need to convert those sequences into PDB format. I am...

02 December 2020 799 3 View

How could I explain the result of Multiple sequence alignment using CLUSTAL Omega??

After doing alignment of some protein sequences using Clustal Omega, I got the result that I have been attached herewith. I am seeking exparts opinion so that can find a good explanation of the...

24 November 2020 1,771 6 View

How do I separate the portion of spike protein from the whole genome sequence of SARS-CoV2?

I have sequenced many covid 19 samples and now I want to separate only the spike protein portions from the samples of covid 19 positive patients so that I can do a model of the protein. Thanking...

04 November 2020 2,688 4 View

Why I get this type of band after doing PCR?

After doing a PCR with my specific primer I got multiple bands instead of getting a unique band. I am totally astonished after getting this. Can anyone guessed what happened why I get this band...

27 October 2020 3,842 17 View

How I can identify the significant mutation using GISAID database ?

Hi We have sequenced more then 50 samples of Covid-19 patients and submitted to GISAID. There I got some unique mutations which are absent in mutation statistics of GISAID CoVsurver. The mutations...

23 June 2020 1,870 7 View

Why I failed to get good band after plasmid isolation?

I tried to isolate plasmid DNA from Agrobacterium tumefaciens using both manually and using kit and performed the electrophoresis on 0.5%, 0.8% and 1.0% agarose gel. The ladder showed the...

29 September 2019 6,543 2 View

What is your valuable opinion taking Vaccine against SARS-CoV-2?

Dear Researchers Nowadays we people of this world are now in a very hard time as SARS-CoV-2 affects us a lot. Some vaccines we know already have released even those that are not accurately...

01 January 1970 152 20 View

Can you recommend a good Scopus journal with no APC?

Hi Dear Scientists I have completed work and prepared a manuscript on immunoinformatics. As I do not have such funds to pay the APC, and as I am from a least-developed country, I am searching for...

01 January 1970 7,505 2 View