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PopIns specifications

Information


Unique identifier OMICS_08464
Name PopIns
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Computer skills Advanced
Stability Stable
Requirements
SeqAn, bwa, velvet, SAMtools, sickle
Maintained Yes

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Documentation


Maintainer


  • person_outline Birte Kehr <>

Publication for PopIns

PopIns in publications

 (17)
PMCID: 5951847
PMID: 29760455
DOI: 10.1038/s41598-018-25881-z

[…] recently been shown to have good drug-like properties and may be a strategy to target these critical enzymes., the pcoldii his-6-sumo-a3a(e72a) was constructed by first cloning the sumo gene from popins his-6-sumo into pcoldii his-6 vector (takara biosciences) using ndei and kpni restriction sites. human apobec3a coding sequence from pcoldiii gst-a3a(e72a, c171a) was then cloned […]

PMCID: 5927716
PMID: 29677515
DOI: 10.1016/j.cell.2018.03.056

[…] on an amylose column. fusion proteins were subjected to tev protease cleavage and the mbp tag was further removed by size exclusion chromatography., gene encoding tnpo1 protein was cloned into popins vector containing an n-terminal his-sumo tag and a ulp protease cleavage site separating the tag from tnpo1. protein was expressed in e. coli bl21(de3) in an overnight tb autoinduction media […]

PMCID: 5846801
PMID: 29478821
DOI: 10.1016/j.str.2018.01.016

[…] reagents should be directed to and will be fulfilled by the lead contact, tom d. bunney ([email protected])., for protein purification, e. coli c41 (de3) transformed with either the kanr plasmid popins or pj821 and the specr pcdf-duet were plated on tb/kan/spec agar plates. colonies were grown at 37° c in 500 ml tb medium or m9 minimal medium supplemented with 0.1 g/l kanamycin and 0.05 g/l […]

PMCID: 5870608
PMID: 28881988
DOI: 10.1093/bioinformatics/btx254

[…] insertion discovery that can bypass the need for the whole genome de novo assembly. still, most such algorithms rely on high depth of coverage, and to our knowledge there is only one method (popins) that can use multi-sample data to “collectively” obtain a very high coverage dataset to accurately find insertions common in a given population., result: here, we present pamir, a new […]

PMCID: 5142333
PMID: 27927196
DOI: 10.1186/s12915-016-0332-8

[…] incubated with proteinase k (neb) for 1 hour at 37 °c before separation by sds-page followed by western blotting., cdnas corresponding to wild type litaf, δ114–139 and n-helix were cloned into the popins vector before expression of the resulting his6-sumo-tagged protein constructs in c43(de3) bl21 e. coli. bacterial lysates were prepared by cell disruption of the bacterial pellet in lysis […]


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PopIns institution(s)
deCODE genetics/Amgen, Reykjavík, Iceland

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