What tool/program do you use for taxonomic assignment of DNA obtained through Nanopore sequencing?

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A paper on a fossil lycopod?

Dear all, Does anybody have a pdf of this paper? Wood, G.R. and Beeston, J.W., 1986. A late Permian lycopod cone Skilliostrobus sp. cf. S. australis Ash 1979 from Queensland. Geological Survey of...

07 August 2024 4,857 2 View

Dear colleagues, Can anybody by chance have pdfs of two books in Chinese: Liu (2003) and Zhang et al. (2004)?

Liu Zhaosheng. 2003. Triassic and Jurassic sporopollen assemblage from the Kuqa Depression，Tarim Basin of Xinjiang，NW China. Palaeontologia Sinica， New Series A，no. 14（Whole no. 190）....

28 July 2024 6,390 1 View

How to apply Kogut-Singh Index to measure cultural distance in intercultural dyads?

In my current study I'm measuring cultural diversity in intercultural coaching dyads by calculating cultural distance (Kogut-Singh Index, 1988) between coach and coachee in each intercultural...

03 June 2024 9,990 1 View

Как найти свой Researcher ID?

30 May 2024 6,369 0 View

How can I prepare electrospun webs for BET analysis?

How should I prepare electrospun fibers for BET analysis? How much (cm x cm) should I cut to obtain reliable results? What about degassing? I have PLA sample, 40 C will be enough? Thank you

23 April 2024 7,364 2 View

A pdf of Coquel & Brousmiche Delcambre (1996)?

Dear colleagues, Does anybody by chance have a pdf of this paper? Coquel, R., & Brousmiche Delcambre, C. (1996). Comparaisons spores in situ-spores dispersées chez quelques Equisétales,...

19 March 2024 8,258 3 View

How to represent qPCR data when a gene is not expressed in a group?

In my experiment, one group didn't have Cq when a use a specific primers to specific gene. But another groups was ok. How can i represent this results on the graph? I need to put Cq = 0 or Cq = 40?

17 March 2024 6,789 0 View

CD markers expression patterns?

Hi everyone, could you recommend any article on CD marker profile changes and their biological significance due to this change? I have been looking for something but can't find anything. In my...

10 March 2024 3,702 0 View

I can't see my purified PCR product in an agarose gel?

I successfully amplified fungal ITS from soil samples, however after running the purified PCR products in an agarose gel they are barely visible and don't look like defined bands but rather...

10 March 2024 8,377 2 View

LFP | Graphite pouch cell. Why is not discharging?

I'm stating to assembly LFP

14 January 2024 7,199 5 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

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

I can't see the ssDNA band after performing asymmetric PCR. Is there any way to do this?

After performing symmetric PCR, PCR purification was performed. Afterwards, asymmetric PCR was performed using the PCR purification product as a template, but no ssDNA band was confirmed in the...

08 August 2024 1,668 3 View

Does crude extraction using NaOH and Tris work well with Fungi?

I'm trying to find a DNA extraction method for fungi that does not require equipment and heating. Is there anyone who can suggest an alternative option? Thank you

08 August 2024 4,733 2 View

Why after performing site directed mutagenesis ,I don't see any colony after transformation?

I want to introduce a point mutation (change in one nucleotide) into my gene of interest (DNA binding domain) I have designed primers as recommended on the Data sheet of the kit : -Both primers...

05 August 2024 9,059 3 View

Does anyone have issues using Prepman Ultra reagent for MicroSeq ID bacterial, fungal and yeast sample preparation?

I have been attempting to extract DNA from Bacterial, Fungal and Yeast banked samples (>1e7 cells) using Prepman Ultra reagent and I seem to be struggling to obtain a sequence. Although the...

01 August 2024 2,079 0 View

Inquiry on Maximum Nucleic Acid Volume for 2.5 mL Liposome Solution?

I am currently working on a project involving liposomes and need to determine the maximum volume of siRNA that can be added to a 2.5 mL liposome solution with a total lipid concentration of 10...

30 July 2024 6,420 1 View

Should the amount of DNA input used for ChIP-seq library preparation be matched between the control and experimental groups?

Hi all. As a beginner in ChIP-seq experiments, I hope you understand that the following questions might be somewhat basic. I am planning to perform ChIP-seq or MeDIP-seq analysis to investigate...

28 July 2024 6,938 1 View

Are the apoptotic cells is positive for γH2AX ?

It has been documented that apoptotic cells themselves can induce phosphorylation of serine 139 on H2AX (γH2AX) due to DNA fragmentation during apoptosis (doi: 10.1074/jbc.275.13.9390). As γH2AX...

28 July 2024 7,983 2 View

Can anyone help me explain my problem?

Hi, Now I am doing a single-base editing by using HiFi Cas 9, guideRNA, single stranded DNA, HDR Enhancer V2 and my tranfection mehtod is lipofection (RNAiMax). Unfortunately, after gene editing,...

26 July 2024 2,136 0 View

Abhijeet Singh

Check out QIIME2

Dhuha A. Athouf

Several tools and pipelines are available for taxonomic assignment of DNA sequences obtained from Nanopore sequencing. Popular options include Kraken/Kraken2, Bracken, MetaMaps, PRONAME, and EPI2ME, especially when dealing with 16S rRNA gene data. For more comprehensive analysis and broader applications, QIIME 2 is also a strong contender.

Katie A S Burnette

You should know exactly how you will store, quality check, organize, and analyze data BEFORE you start collecting any.

Please chat with your advisor.