HPSI1213i-nekd_1

General

Cell Line

hPSCreg name WTSIi098-A
Cite as:
WTSIi098-A (RRID:CVCL_AI19)
Alternative name(s)
HPSI1213i-nekd_1
Cell line type Human induced pluripotent stem cell (hiPSC)
Similar lines No similar lines found.
Last update 22nd May 2019
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Provider

Generator Wellcome Sanger Institute (WTSI)
Distributors
Derivation country United Kingdom

External Databases

BioSamples SAMEA2445783
HipSci HPSI1213i-nekd_1
Cellosaurus CVCL_AI19
EBiSC WTSIi098-A
Wikidata Q54891720

General Information

Publications
Projects
* Is the cell line readily obtainable for third parties?
Yes
Research use: allowed
Clinical use: not allowed
Commercial use: not allowed

Donor Information

General Donor Information

Sex male
Age of donor (at collection) 60-64
Ethnicity White - White British

Phenotype and Disease related information (Donor)

Diseases No disease was diagnosed.

External Databases (Donor)

BioSamples SAMEA2398565
HipSci HPSI-nekd

Ethics

Has informed consent been obtained from the donor of the embryo/tissue from which the pluripotent stem cells have been derived? Yes
Was the consent voluntarily given? Yes
Has the donor been informed that participation will not directly influence their personal treatment? Yes
Can you provide us with a copy of the Donor Information Sheet provided to the donor? Yes
Please provide contact information of the holder of the original Donor Information Sheet.
Do you (Depositor/Provider) hold the original Donor Consent Form? No
If you do not hold the Donor Consent Form, do you know who does? Yes
Please provide the contact information HipSci (http://www.hipsci.org/)
Alternatives to consent
Alternative consent approval number
Is there other documentation provided to the donor for consenting purposes? Yes
Has the donor agreed to be re-contacted? No
Has the donor been informed about how her/his data will be protected? Yes
Please indicate whether the data associated with the donated material has been pseudonymised or anonymised. pseudonymised
Does consent explicitly allow the derivation of pluripotent stem cells? Yes
Does consent expressly prevent the derivation of pluripotent stem cells? No
Does consent pertain to a specific research project? No
Details on restriction to research project
Does consent permit unforeseen future research, without further consent? Yes
Does the consent permit uses of donated embryo/tissue or derived cell line intended for clinical treatment or human applications? No
Does consent expressly prevent development of commercial products? No
Does consent expressly prevent financial gain from any use of the donated embryo/tissue, including any product made from it? No
Does consent expressly permit storage of donated embryo/tissue for an unlimited time? Yes
Does consent prevent the DONATED BIOSAMPLE from being made available to researchers anywhere in the world? No
Does consent prevent CELLS DERIVED FROM THE DONATED BIOSAMPLE from being made available to researchers anywhere in the world? No

Does consent permit research by

an academic institution? Yes
a public organisation? Yes
a non-profit company? Yes
a for-profit corporation? Yes
Does consent expressly permit collection of genetic information? Yes
Has the donor been informed that their donated biosample or derived cells may be tested for the presence of microbiological agents / pathogens? Yes
How may genetic information associated with the cell line be accessed? Open Access
Will the donor expect to receive financial benefit, beyond reasonable expenses, in return for donating the biosample? No
Does the consent permit the donor, upon withdrawal of consent, to stop the use of the derived cell line(s) that have already been created from donated samples? No
Does the consent permit the donor, upon withdrawal of consent, to stop delivery or use of information and data about the donor? No
Does consent permit access to medical records of the donor? Yes
Please describe how access is provided:
Does consent permit access to any other source of information about the clinical treatment or health of the donor? No
Contact data, institution, or website: Cambridge BioResource
Has a favourable opinion been obtained from a research ethics committee, or other ethics review panel, in relation to the Research Protocol including the consent provisions? Yes
Name of accrediting authority involved? NRES Committee Yorkshire & The Humber - Leeds West
Approval number 15/YH/0391
Has a favourable opinion been obtained from a research ethics committee, or other ethics review panel, in relation to the PROPOSED PROJECT, involving use of donated embryo/tissue or derived cells? Yes
Name of accrediting authority involved? NRES Committee Yorkshire & The Humber - Leeds West
Approval number 15/YH/0391
Do you have obligations to third parties in regard to the use of the cell line? No
Please describe:
Are you aware of any further constraints on the use of the donated embryo/tissue or derived cells? No
Further constraints on use
For generation of the cell line, who was the supplier of any recombined DNA vectors or commercial kits used?
Constraints for use or distribution

hIPSC Derivation

General

Source cell type
A connective tissue cell which secretes an extracellular matrix rich in collagen and other macromolecules. Flattened and irregular in outline with branching processes; appear fusiform or spindle-shaped.; These cells may be vimentin-positive, fibronectin-positive, fsp1-positive, MMP-1-positive, collagen I-positive, collagen III-positive, and alpha-SMA-negative.
Source cell origin
Any portion of the organ that covers that body and consists of a layer of epidermis and a layer of dermis.
Synonyms
  • portion of skin
  • region of skin
  • skin
  • skin region
  • skin zone
show more synonyms
Age of donor (at collection) 60-64
Collected in 2014
Source cell line vendor Cambridge BioResource

Reprogramming method

Vector type Non-integrating
Vector Sendai virus
Genes
Notes on reprogramming vector detection CytoTune 1

Vector free reprogramming

Other

Selection criteria for clones Morphology
Derived under xeno-free conditions
No
Derived under GMP?
No
Available as clinical grade?
No

Culture Conditions

Surface coating Gelatin
Feeder cells Mouse embryo fibroblast (MEF) feeder cells
Passage method Enzymatically
Collagenase and Dispase
CO2 Concentration 5 %
Medium Other medium:
Base medium:
Main protein source: Knock-out serum replacement

Characterisation

Analysis of Undifferentiated Cells
Marker Expressed Immunostaining RT-PCR Flow Cytometry Enzymatic Assay Expression Profiles
POU5F1 (OCT-4)
Yes
SOX2
Yes
NANOG
Yes
Pluripotency Score Novelty Score Link to microarray data
75.288 1.191 http://www.ebi.ac.uk/arrayexpress/experiments/E-MTAB-4057/

Certificate of Analysis

Is there a certificate of analysis available?
Yes
Passage: 26

Genotyping

Karyotyping (Cell Line)

Has the cell line karyotype been analysed?
No

Other Genotyping (Cell Line)

Is there genome-wide genotyping or functional data available?
Yes
cnv
http://www.hipsci.org/lines/#/lines/HPSI1213i-nekd_1
Number of regions different from primary tissue: 1; Length of differences from primary tissue: 4
Genotyping array
http://www.ebi.ac.uk/ena/data/view/ERZ127441
Imputed and phased genotypes
RNA-seq
http://www.ebi.ac.uk/ena/data/view/ERZ123073
Splice-aware STAR alignment
Whole genome sequencing
http://www.ebi.ac.uk/ena/data/view/ERR1861057
Raw sequencing reads
Whole genome sequencing
http://www.ebi.ac.uk/ena/data/view/ERR1861153
Raw sequencing reads
Whole genome sequencing
http://www.ebi.ac.uk/ena/data/view/ERR1860769
Raw sequencing reads
Whole genome sequencing
http://www.ebi.ac.uk/ena/data/view/ERR1860865
Raw sequencing reads
Whole genome sequencing
http://www.ebi.ac.uk/ena/data/view/ERR1860961
Raw sequencing reads
RNA-seq
http://www.ebi.ac.uk/ena/data/view/ERZ267037
Abundances of transcripts
Genotyping array
http://www.ebi.ac.uk/ena/data/view/ERZ127676
Genotyping array calls
Whole genome sequencing
http://www.ebi.ac.uk/ena/data/view/ERR1860001
Raw sequencing reads
Whole genome sequencing
http://www.ebi.ac.uk/ena/data/view/ERR1860385
Raw sequencing reads
Whole genome sequencing
http://www.ebi.ac.uk/ena/data/view/ERR1860481
Raw sequencing reads
Whole genome sequencing
http://www.ebi.ac.uk/ena/data/view/ERR1861249
Raw sequencing reads
Whole genome sequencing
http://www.ebi.ac.uk/ena/data/view/ERZ448098
GATK haplotype calls
Exome sequencing
http://www.ebi.ac.uk/ena/data/view/ERZ123006
Imputed and phased genotypes
Exome sequencing
http://www.ebi.ac.uk/ena/data/view/ERZ122940
mpileup variant calls
Exome sequencing
http://www.ebi.ac.uk/ena/data/view/ERR947020
Raw sequencing reads
RNA-seq
http://www.ebi.ac.uk/ena/data/view/ERR946973
Raw sequencing reads
Exome sequencing
http://www.ebi.ac.uk/ena/data/view/ERR947024
Raw sequencing reads
RNA-seq
http://www.ebi.ac.uk/ena/data/view/ERR946998
Raw sequencing reads
Methylation profiling
http://www.ebi.ac.uk/arrayexpress/experiments/E-MTAB-4059/
Text file with probe intensities
Whole genome sequencing
http://www.ebi.ac.uk/ena/data/view/ERR1860673
Raw sequencing reads
Whole genome sequencing
http://www.ebi.ac.uk/ena/data/view/ERR1859905
Raw sequencing reads
Whole genome sequencing
http://www.ebi.ac.uk/ena/data/view/ERR1860577
Raw sequencing reads