PXD064335

PXD064335 is an original dataset announced via ProteomeXchange.

Title	Systematic evaluation of morphological and molecular changes in SH-SY5Y cells induced by common differentiation protocols with a particular focus on the abundance of neuronal subtypes
Description	The SH-SY5Y cell line is a triple-cloned subline of SK-N-SH cells that were originally isolated in the early 1970s from a bone marrow biopsy of a four-year-old female patient suffering from neuroblastoma. Since then, this cell line has been used as one of the major cell culture models in neuroscience and to study neurodegeneration, as it comprises many of the biochemical and functional properties of neuronal cells. Differentiation of neuronal precursor cells into a more mature phenotype represents one of the key steps and directed differentiation utilising various reagents is thought to provoke a defined neuronal subtype. Unfortunately, until now there is no consensus, which differentiation protocol shall be utilised to reach a specific neuronal subtype. Thus, the aim of the present work was to evaluate four commonly followed standard protocols for the differentiation of SH-SY5Y cells and to investigate the respective influences of varying parameters of these differentiation strategies. For this purpose, morphological analyses, mass spectrometry-based identification and quantification of specific marker proteins, time course protein expression profiling and global proteomic characterisation were conducted. On the level of morphology a low serum concentration favoured the abundance of mature neuronal cells containing long and branched neurites. Further low serum levels support the differentiation of neuroblastic cells favour the expression of dopaminergic marker proteins, in particular DDC, especially in a combined treatment utilising retinoic acid as differentiation agent. Our study clearly shows that an a priori characterisation of SH-SY5Y cells is indispensable to assess the abundance of neuronal subtypes and by that to ensure that the utilised differentiation approach is appropriately aligned with the specific research question.
HostingRepository	PRIDE
AnnounceDate	2025-11-24
AnnouncementXML	Submission_2025-11-23_18:27:00.679.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Britta Eggers
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: NEWT:9606;
ModificationList	monohydroxylated residue; iodoacetamide derivatized residue
Instrument	Orbitrap Exploris 480

Revision	Datetime	Status	ChangeLog Entry
0	2025-05-27 08:16:45	ID requested
⏵ 1	2025-11-23 18:27:03	announced

Prisacar M, Esser S, Hausherr M, Karacora B, Vyushkova Y, Eisenacher M, Grugel R, Marcus K, Eggers B, Systematic Analysis of SH-SY5Y Differentiation Protocols and Neuronal Subtype Abundance. Cell Mol Neurobiol, 45(1):104(2025) [pubmed]

10.1007/s10571-025-01627-0;

submitter keyword: SH-SY5Y, proteomics, mass spectrometry, differentiation, neuronal subtype

Katrin Marcus
contact affiliation	Medizinisches Proteom-Center, Medical Faculty, Ruhr-University Bochum, 44801 Bochum, Germany
contact email	katrin.marcus@rub.de
lab head
Britta Eggers
contact affiliation	Ruhr University Bochum
contact email	britta.eggers@rub.de
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD064335
     1. Label: PRIDE project
     2. Name: Systematic evaluation of morphological and molecular changes in SH-SY5Y cells induced by common differentiation protocols with a particular focus on the abundance of neuronal subtypes