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WTSIi098-A

HPSI1213i-nekd_1

iPSC line

No longer available
We are currently making some changes to how EBiSC operates and because of this there is a short period of time where orders cannot be placed.

If you are interested in accessing these cells, please contact EBiSC directly. For more information about the current transition process see here.
The cell line was withdrawn.

General#

Cell Line

hPSCreg name WTSIi098-A
Alternative name(s)
HPSI1213i-nekd_1
Cell line type Human induced pluripotent stem cell (hiPSC)
Similar lines No similar lines found.

Provider

Depositor Wellcome Sanger Institute (WTSI)
Distributors
EBiSC
Derivation country United Kingdom

External Databases

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

General Information

Publications View all related publications on hPSCreg (2)
This EBiSC line can be used for:
Yes
Research use: allowed
Clinical use: no
Commercial use: no

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

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#

The following are the depositor culture conditions, they do not refer to any specific batch.
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/

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
WGS-derived disease associations
3-hydroxyisobutyryl-CoA hydrolase deficiency (HIBCH)
Charcot-Marie-Tooth disease (FIG4, HINT1)
Cohen syndrome (VPS13B)
complex neurodevelopmental disorder (SETBP1)
demyelinating hereditary motor and sensory neuropathy (MTMR2)
Fanconi anemia complementation group A (FANCA)
Huntington disease (HTT)
Leigh syndrome (HIBCH)
long chain acyl-CoA dehydrogenase deficiency (ACADL)
mitochondrial disease (NDUFS6)
monogenic diabetes (PAX4)
myopathy caused by variation in POMT1 (POMT1)
nephronophthisis 4 (NPHP4)
nonsyndromic genetic hearing loss (MYO7A)
PHARC syndrome (ABHD12)
primary ciliary dyskinesia 7 (DNAH11)
PTEN hamartoma tumor syndrome (PTEN)
renal tubular acidosis, distal, 2, with progressive sensorineural hearing loss (ATP6V1B1)
Rothmund-Thomson syndrome (RECQL4)
Schinzel-Giedion syndrome (SETBP1)
Smith-Magenis syndrome (RAI1)
syndromic intellectual disability (KMT2C)
turnpenny-fry syndrome (PCGF2)
Usher syndrome type 1 (MYO7A)
Usher syndrome type 3 (CLRN1)
Other WGS-derived genes
AGL, AMPD1, ATP8B3, ATXN3, AURKC, BMP4, BTN3A2, CASP12, CATSPER2, CHIT1, CHST15, CNOT1, COG2, CYP21A2, CYP2F1, DEFB126, DNAAF1, DSC3, ERCC6L2, FAM151A, FUT2, GALNT3, GDPD4, GLYCTK, GPRIN1, HPSE2, HSD17B13, IL12RB1, ITGB2, KCNJ16, LAMA5, MICA, MROH8, MTTP, NBPF1, NFU1, OAS1, OR1B1, P2RX5, PDE4DIP, PIGN, PITX2, POLDIP2, POLR3B, PON2, PTCHD3, RXFP2, SCAPER, SIGLEC12, SLC37A4, SRA1, SYNE2, TGIF1, TIGD6, TMEM107, TMEM216, TMPRSS6, TMX3, TNRC18, TOR1AIP1, TREH, TRPM1, VDR, WDR37, ZAN, ZNF99