Summary of Study ST003617

This data is available at the NIH Common Fund's National Metabolomics Data Repository (NMDR) website, the Metabolomics Workbench, https://www.metabolomicsworkbench.org, where it has been assigned Project ID PR002236. The data can be accessed directly via it's Project DOI: 10.21228/M8M252 This work is supported by NIH grant, U2C- DK119886.

See: https://www.metabolomicsworkbench.org/about/howtocite.php

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 IDST003617
Study TitleMetabolic adaptations in pancreatic ductal adenocarcinoma-patient derived xenograft models across serial passages
Study SummaryPatient-derived xenograft (PDX) models serve as essential tools for investigating tumor biology and evaluating therapeutic responses. This study systematically characterizes transcriptomic, metabolic, and proteomic changes in PDX models derived from pancreatic ductal adenocarcinoma (PDAC) during serial passaging, offering valuable insights into their potential for advancing tumor biology research and optimizing drug screening applications, and laying a solid foundation for future studies.
Institute
Xiamen University
Last NameGuo
First NamePengfei
AddressZengcuoan street, Xiamen, Fujian, 441000, China
Email451965557@qq.com
Phone18965187376
Submit Date2024-12-06
Raw Data AvailableYes
Raw Data File Type(s)fid
Analysis Type DetailNMR
Release Date2025-09-07
Release Version1
Pengfei Guo Pengfei Guo
https://dx.doi.org/10.21228/M8M252
ftp://www.metabolomicsworkbench.org/Studies/ application/zip

Select appropriate tab below to view additional metadata details:

Project:

Project ID:PR002236
Project DOI:doi: 10.21228/M8M252
Project Title:Metabolic adaptations in pancreatic ductal adenocarcinoma-patient derived xenograft models across serial passages
Project Summary:Patient-derived xenograft (PDX) models serve as essential tools for investigating tumor biology and evaluating therapeutic responses. This study systematically characterizes transcriptomic, metabolic, and proteomic changes in PDX models derived from pancreatic ductal adenocarcinoma (PDAC) during serial passaging, offering valuable insights into their potential for advancing tumor biology research and optimizing drug screening applications, and laying a solid foundation for future studies.
Institute:Xiamen university
Last Name:Guo
First Name:Pengfei
Address:Zengcuoan street, Xiamen, Fujian, 441000, China
Email:451965557@qq.com
Phone:18965187376

Subject:

Subject ID:SU003746
Subject Type:Human
Subject Species:Homo sapiens
Taxonomy ID:9606

Factors:

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

mb_sample_id local_sample_id Gender AJCC stage
SA393014Con24female /
SA393015Con2female /
SA393016Con4female /
SA393017Con8female /
SA393018Con12female /
SA393019Con13female /
SA393020Con14female /
SA393021Con15female /
SA393022Con16female /
SA393023Con18female /
SA393024Con21female /
SA393025Con22female /
SA393026Con35female /
SA393027Con40female /
SA393028Con77female /
SA393029Con70female /
SA393030Con66female /
SA393031Con64female /
SA393032Con55female /
SA393033Con53female /
SA393034Con51female /
SA393035Con49female /
SA393036Con46female /
SA393037Con42female /
SA393038PDAC52female IA
SA393039PDAC45female IA
SA393040PDX38female IA
SA393041PDAC57female IB
SA393042PDX18female IB
SA393043PDX16female IIA
SA393044PDAC1female IIA
SA393045PDAC21female IIB
SA393046PDAC17female IIB
SA393047PDAC82female IIB
SA393048PDAC3female IIB
SA393049PDAC85female IIB
SA393050PDAC43female IIB
SA393051PDX6female IIB
SA393052PDX40female IIB
SA393053PDAC124female IIB
SA393054PDX23female IIB
SA393055PDAC127female IIB
SA393056PDX22female IIB
SA393057PDX2female IIB
SA393058PDX37female IIB
SA393059PDAC16female IIB
SA393060PDAC46female III
SA393061PDAC24female III
SA393062PDAC80female III
SA393063PDX24female III
SA393064PDX21female III
SA393065PDX13female III
SA393066PDX30male -
SA393067Con11male /
SA393068Con69male /
SA393069Con67male /
SA393070Con26male /
SA393071Con1male /
SA393072Con27male /
SA393073Con29male /
SA393074Con30male /
SA393075Con62male /
SA393076Con34male /
SA393077Con36male /
SA393078Con60male /
SA393079Con57male /
SA393080Con3male /
SA393081Con41male /
SA393082Con38male /
SA393083PDX39male IA
SA393084PDAC76male IA
SA393085PDAC54male IB
SA393086PDAC48male IB
SA393087PDAC60male IB
SA393088PDAC19male IB
SA393089PDAC13male IB
SA393090PDAC63male IB
SA393091PDAC78male IB
SA393092PDX36male IB
SA393093PDAC104male IB
SA393094PDAC77male IB
SA393095PDX17male IB
SA393096PDX35male IB
SA393097PDX5male IB
SA393098PDX9male IB
SA393099PDX15male IB
SA393100PDAC75male IB
SA393101PDAC103male IB
SA393102PDX25male IB
SA393103PDAC84male IB
SA393104PDX20male IB
SA393105PDAC49male IIA
SA393106PDX33male IIA
SA393107PDX11male IIA
SA393108PDAC14male IIB
SA393109PDAC126male IIB
SA393110PDAC18male IIB
SA393111PDX28male IIB
SA393112PDAC37male IIB
SA393113PDX19male IIB
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Collection:

Collection ID:CO003739
Collection Summary:In brief, fresh pancreatic tumor tissues were collected and placed in pre-chilled PBS (phosphate-buffered saline) containing 0.05% penicillin-streptomycin to prevent contamination. Tissues were cut into approximately 2×2×3 mm³ fragments
Collection Protocol Filename:NMR_TISSUE_COLLECTION.pdf
Sample Type:Pancreas

Treatment:

Treatment ID:TR003755
Treatment Summary:None

Sample Preparation:

Sampleprep ID:SP003753
Sampleprep Summary:Approximately 300 mg of tissue was homogenized with a mixture of 1.2 mL CH3OH (methanol) and 0.6 mL double distilled water at 4°C using a high-flux grinder. Subsequently, 1.2 mL of chloroform and 1.2 mL of double distilled water were added and the mixture was vortexed for 60 s. After resting on the ice for 15 min, the mixture was centrifuged at 10 000 g at 4°C for 10 min and the supernatant was transferred into a 5-mL EP tube. Nitrogen blowing was subjected to the sample to remove methanol, and the resulting liquid was lyophilized. The freeze-dried powder was stored at -80°C. The freeze-dried tissue powder was dissolved in 550 μL of deuterated phosphate buffer solution (pH=7.4, 150 mM) containing 0.05% TSP and mixed thoroughly using an oscillator for 5 minutes. Following centrifugation at 10 000 g and 4℃ for 10 minutes, 500 μL of the supernatant was transferred into a 5-mm NMR tube (ST500, NORELL, Inc, Morganton, North Carolina) for NMR analysis. Additionally, we recorded conventional tumor markers such as CA199, CA125, CEA, CA242, and CA153 in patients, combined with AJCC staging (American Joint Committee on Cancer is an internationally recognized method for classifying cancer severity based on tumor size, lymph node involvement, and metastasis), to characterize the patients' current clinical status, tumor burden, and disease progression. The blanks are represented by the character "/" for both AJCC staging and data of tumor markers.
Sampleprep Protocol Filename:NMR_SAMPLE_PREP.pdf

Analysis:

Analysis ID:AN005943
Analysis Type:NMR
Num Factors:13
Num Metabolites:60
Units:peak area

NMR:

NMR ID:NM000297
Analysis ID:AN005943
Instrument Name:600 MHz Bruker Avance III
Instrument Type:FT-NMR
NMR Experiment Type:1D-1H
Spectrometer Frequency:600M
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