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IPSC-HDF proteome

ABSTRACT: We analyzed iPSC (201B7) and HDF (HDF1388) by global whole proteome analysis. iTRAQ was used for relative quantification between the two cell types. We did biological triplicate analyses with technical triplicate analyses.

ORGANISM(S): Homo Sapiens (human)

SUBMITTER: Mio Iwasaki

PROVIDER: PXD012368 | JPOST Repository | Tue May 14 00:00:00 BST 2019

REPOSITORIES: jPOST

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Dataset's files

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			Action	DRS
	170128mi-26-201B7-HDF1388-W3-114-117-GL6-IS5M-DA.group	Other
	170128mi-26-201B7-HDF1388-W3-114-117-GL6-IS5M-DA.wiff	Wiff
	170128mi-26-201B7-HDF1388-W3-114-117-GL6-IS5M-DA.wiff.scan	Wiff
	170128mi-29-201B7-HDF1388-W3-114-117-GL6-IS5H-DA.group	Other
	170128mi-29-201B7-HDF1388-W3-114-117-GL6-IS5H-DA.wiff	Wiff

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Publications

Removal of Interference MS/MS Spectra for Accurate Quantification in Isobaric Tag-Based Proteomics.

Iwasaki Mio M Tabata Tsuyoshi T Kawahara Yuka Y Ishihama Yasushi Y Nakagawa Masato M

Journal of proteome research 20190506 6

Rapid progress in mass spectrometry (MS) has made comprehensive analyses of the proteome possible, but accurate quantification remains challenging. Isobaric tags for relative and absolute quantification (iTRAQ) is widely used as a tool to quantify proteins expressed in different cell types and various cellular conditions. The quantification precision of iTRAQ is quite high, but the accuracy dramatically decreases in the presence of interference peptides that are coeluted and coisolated with the ...[more]

PMID: 31039306

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iPSC-HDF phosphoproteome

Project description:We analyzed iPSC (201B7) and HDF (HDF1388) by global whole phosphoproteome analysis. iTRAQ was used for relative quantification between the two cell types. We did biological triplicate analyses.

2019-05-14 | PXD012367 | JPOST Repository

Gene expression profiles of familial Alzheimer's disease with presenilin 2 mutation patient-specific induced pluripotent stem cells

Project description:We established two clones of induced pluripotent stem cells (iPSC) with the presenilin 2 mutation, N141 (PS2-1 iPSC and PS2-2 iPSC) by retroviral transduction of primary human fibroblasts. To show the similarity among 201B7 iPSC, PD01-25 iPSC(Sporadic Parkinson's disease patient derived iPSC), PS2-1 iPSC, PS2-2 iPSC, this experiment was designed. Undifferentiated 201B7 iPSC, PD01-25 iPSC, PS2-1 iPSC and PS2-2 iPSC were collected. Then, they were applied in this experiment.

2011-09-09 | E-GEOD-28379 | biostudies-arrayexpress

Gene expression profiles of induced pluripotent stem cells from centenarians

Project description:We established induced pluripotent stem cells (iPSC) from centrenarians by retroviral transduction of primary human fibroblasts. To show the similarity between 201B7 iPSC and 100-1 #16 iPSC (induced pluripotent stem cells from centenarian), this experiment was designed. Undifferentiated 201B7 iPSC, and 100-1 #16 iPSCs were collected. Then, they were applied in this experiment.

2012-09-01 | E-GEOD-36667 | biostudies-arrayexpress

Robust production of human neural cells by establishing neuroepithelial-like stem cells from peripheral blood mononuclear cell-derived feeder-free iPSCs under xeno-free conditions

Project description:We performed a microarray experiment to analyze the transcriptional profile of human fetal tissue derived neural stem/progenitor cells, human iPSCs, or human iPSC-derived neural stem/progenitor cells generated using xenogenic or xeno-free reagents. Gene expression patterns were compared among human fetal tissue derived neural stem/progenitor cells, human iPSCs, or human iPSC-derived neural stem/progenitor cells generated using xenogenic or xeno-free reagents. Samples with a title including "Xf" (201B7-lt-NES (Xf)-1, 201B7-lt-NES (Xf)-2, 1210B2-lt-NES (Xf)-1,1210B2-lt-NES (Xf)-2, 1231A3-lt-NES (Xf)-1, 1231A3-lt-NES (Xf)-2) correspond to human iPSC-derived neural stem/progenitor cells generated using xeno-free reagents, whereas samples with a title including "Con" (201B7-lt-NES (Con)-1, 201B7-lt-NES (Con)-2) correspond to those generated using xenogenic reagents.

2016-08-22 | E-GEOD-76900 | biostudies-arrayexpress

Gene expression profiles of induced pluripotent stem cells from centenarians

2012-09-01 | GSE36667 | GEO

Gene expression profiles of familial Alzheimer's disease with presenilin 2 mutation patient-specific induced pluripotent stem cells

2011-09-10 | GSE28379 | GEO

Human Astrocytes Model Derived from Induced Pluripotent Stem Cells

Project description:Protocol to differentiate iPSC control lines into astrocytes. We performed the RNA sequencing of cells at different time point: embryoid bodies ; neurospheres at passage 1 ; neurospheres at passage 2 and differentiated astrocytes (iPast) for the 201B7 iPSC and iPast stage for WD39.

2020-12-16 | GSE161024 | GEO

Expression data from human iTS-L cells: induced tissue-specific stem cells from liver

Project description:We performed a microarray analysis to compare the global gene-expression profiles of human iPSCs (201B7), iTS-L cells (No. 33), and hepatocytes from two different donors. Unsupervised hierarchical clustering of gene expression profiles of iPSCs (201B7), iTS-L cells (No. 33), and hepatocytes showed that iTS-L cells markedly differed from iPSCs and hepatocytes and that iTS-L cells (No. 33) clustered more closely with iPSCs (201B7) than hepatocytes from two different donors.

2022-08-20 | GSE211436 | GEO

sibling aHDF-iPSC clones derived from the same fibroblasts

Project description:Hepatocytes generated from human induced pluripotent stem cells (hiPSCs) are unprecedented resources for pharmaceuticals and cell therapy. However, little attention has so far been paid to variations among hiPSC lines in terms of their hepatic differentiation. We developed an improved hepatic differentiation protocol and compared multiple hiPSC lines. This comparison indicated that the hepatic differentiation propensity varies among sibling hiPSC clones derived from the same adult human dermal fibroblasts (aHDFs). In addition, hiPSC clones derived from peripheral blood cells (PB-iPSCs) consistently showed good hepatic differentiation efficiency, whereas many hiPSC clones from adult dermal fibroblasts (aHDF-iPSCs) showed poor hepatic differentiation. However, when we compared hiPSCs from blood and dermal fibroblasts from the same individuals, we found that variations in hepatic differentiation were largely attributable to donor differences, rather than to the types of the original cells. In order to understand the molecular mechanisms underlying the observed variations in hepatic differentiation, we performed microarray analyses of sibling aHDF-iPSC clones, and aHDF- and PB-iPSC clones from the same individuals. sibling aHDF-iPSC clones (201B6 and 201B7; derived from the same aHDFs) (1) undifferentiated state (n=4, biological replicate #1-#4) (2) CXCR4-positive cell populations sorted by flowcytometry after 7 days of endodermal differentiation (n=4, biological replicate #1-#4) (3) CXCR4-negative cell populations sorted by flowcytometry after 7 days of endodermal differentiation (n=4, biological replicate #1-#4)

2012-07-15 | E-GEOD-38152 | biostudies-arrayexpress

Human induced pluripotent stem cell culture on a non-coated dish using medium supplemented with milk fat globule epidermal growth factor 8

Project description:201B7 cells were cultured on iMatrix-511 for 4 days after cell seeding in Stem Fit AK03 medium or CTS Essential 8 medium (2 samples each), and separately, different 201B7 cells (2 samples each) were cultured in Stem Fit AK03 medium or gelatin solution (10%) + MFGE 8 (2 µg/mL) in CTS Essential 8 medium for 4 days from cell seeding. A hierarchical cluster analysis of the 10 cell types is shown (Figure 2A). The 5,919 probes with variable expression are shown in a heatmap. Comparisons between samples based on 'human ES cell' were made using a hierarchical cluster analysis, and 4,825 probes with variable expression in each of the four comparisons are shown in the heatmap (Figure 2B). Comparisons between samples based on 'human iPSC N116213' were performed using a hierarchical cluster analysis, and 4,886 probes with variable expression in each of the four comparisons are also shown in a heatmap (Figure 2C).

2023-04-20 | GSE230084 | GEO

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