Summary of Study ST001861

This data is available at the NIH Common Fund's National Metabolomics Data Repository (NMDR) website, the Metabolomics Workbench,, where it has been assigned Project ID PR001174. The data can be accessed directly via it's Project DOI: 10.21228/M8Z98Q This work is supported by NIH grant, U2C- DK119886.


This study contains a large results data set and is not available in the mwTab file. It is only available for download via FTP as data file(s) here.

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Study IDST001861
Study TitleParallelized multidimensional analytic framework, PAMAF, applied to mammalian cells uncovers novel regulatory principles in EMT
Study SummaryPainting a holistic picture of disease etiology will require longitudinal systems-scale reconstruction of the multitiered architecture of eukaryotic signaling. As opposed to ‘one omic at a time’, which provides an incomplete view on disease mechanisms, here we developed an experimental and analytics framework, PAMAF, to simultaneously acquire and analyze twelve omic modalities from the same set of samples, i.e., protein abundance from whole-cells, nucleus, exosomes, secretome and membrane; peptidome; N-glycosylation, phosphorylation; metabolites; mRNA, miRNA; and, in parallel, single-cell transcriptomes. We applied PAMAF in a well-studied in vitro model of TGFβ-induced EMT to generate the EMT-ExMap dataset, cataloguing >61,000 expression profiles (>10,000 differential) over 12 days. PAMAF revealed that EMT is more complex than currently understood and identified numerous stage-specific mechanisms and vulnerabilities not captured in literature. Broad application of PAMAF will provide unprecedented insights into multifaceted biological processes relevant to human health and disease.
Boston University
Last NamePaul
First NameIndranil
Address71 East Concord St
Submit Date2021-06-22
Raw Data AvailableYes
Raw Data File Type(s)mzML
Analysis Type DetailLC-MS
Release Date2022-11-11
Release Version1
Indranil Paul Indranil Paul application/zip

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Subject type: Cultured cells; Subject species: Homo sapiens (Factor headings shown in green)

mb_sample_id local_sample_id Replicate Treatment Treatment
SA17434520190525_Indranil_pos_spme_meta1_11 Control 0_day
SA17434620190525_Indranil_pos_spme_meta10_11 TGFbeta 12_day
SA17434720190525_Indranil_pos_spme_meta3_11 TGFbeta 1_day
SA17434820190525_Indranil_pos_spme_meta4_11 TGFbeta 2_day
SA17434920190525_Indranil_pos_spme_meta5_11 TGFbeta 3_day
SA17435020190525_Indranil_pos_spme_meta6_11 TGFbeta 4_day
SA17435120190525_Indranil_pos_spme_meta2_11 TGFbeta 4_hours
SA17435220190525_Indranil_pos_spme_meta7_11 TGFbeta 5_day
SA17435320190525_Indranil_pos_spme_meta8_11 TGFbeta 6_day
SA17435420190525_Indranil_pos_spme_meta9_11 TGFbeta 8_day
SA17435520190525_Indranil_pos_spme_meta1_22 Control 0_day
SA17435620190525_Indranil_pos_spme_meta10_22 TGFbeta 12_day
SA17435720190525_Indranil_pos_spme_meta3_22 TGFbeta 1_day
SA17435820190525_Indranil_pos_spme_meta4_22 TGFbeta 2_day
SA17435920190525_Indranil_pos_spme_meta5_22 TGFbeta 3_day
SA17436020190525_Indranil_pos_spme_meta6_22 TGFbeta 4_day
SA17436120190525_Indranil_pos_spme_meta2_22 TGFbeta 4_hours
SA17436220190525_Indranil_pos_spme_meta7_22 TGFbeta 5_day
SA17436320190525_Indranil_pos_spme_meta8_22 TGFbeta 6_day
SA17436420190525_Indranil_pos_spme_meta9_22 TGFbeta 8_day
SA17436520190525_Indranil_pos_spme_meta1_33 Control 0_day
SA17436620190525_Indranil_pos_spme_meta10_33 TGFbeta 12_day
SA17436720190525_Indranil_pos_spme_meta3_33 TGFbeta 1_day
SA17436820190525_Indranil_pos_spme_meta4_33 TGFbeta 2_day
SA17436920190525_Indranil_pos_spme_meta5_33 TGFbeta 3_day
SA17437020190525_Indranil_pos_spme_meta6_33 TGFbeta 4_day
SA17437120190525_Indranil_pos_spme_meta2_33 TGFbeta 4_hours
SA17437220190525_Indranil_pos_spme_meta7_33 TGFbeta 5_day
SA17437320190525_Indranil_pos_spme_meta8_33 TGFbeta 6_day
SA17437420190525_Indranil_pos_spme_meta9_33 TGFbeta 8_day
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