Cellular transformation

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Transcriptomics (25743)
Unknown (4147)
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Genomic (2)

Organisms

Homo sapiens (11940)
Mus musculus (7490)
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Caenorhabditis elegans (384)
Danio rerio (248)
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Canis lupus familiaris (75)
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Escherichia coli str. K-12 substr. MG1655 (50)
Xenopus laevis (49)
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Bacillus subtilis (37)
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Vitis vinifera (34)
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Macaca fascicularis (28)

Organisms

Homo sapiens (362)
Mus musculus (212)
Rattus norvegicus (23)
Drosophila melanogaster (6)
Gallus gallus (4)
Arabidopsis thaliana (3)
Saccharomyces cerevisiae (3)
human gammaherpesvirus 4 (2)
Caenorhabditis elegans (2)
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synthetic construct (2)
Saccharomyces cerevisiae CEN.PK113-7D (1)
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Monodelphis domestica (1)
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Amphiprion ocellaris (1)
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Schmidtea mediterranea (1)
Oncorhynchus mykiss (1)
Vibrio cholerae (1)
Equus caballus (1)
Saccharomyces cerevisiae BY4741 (1)

Repository

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Cell culture (63)
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B-cell lymphoma (2)
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Unknown (2)

Technology Type

Mass Spectrometry (247)
Shotgun proteomics (121)
Mass spectrometry (90)
Bottom-up proteomics (66)
Data-dependent acquisition (38)
Affinity purification coupled with mass spectrometry proteomics (30)
NMR spectroscopy (25)
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NMR spectroscopy assay (2)
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Illumina HiSeq 2500, ILLUMINA (1)
ILLUMINA, Illumina HiSeq 2500, Illumina HiSeq 2000 (1)
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Illumina HiSeq 2500 (1)
Affymetrix_SNP6_raw, Illumina HT 12, Agilent ncRNA 60k (1)
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Metaproteomics (1)
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MSE (1)
DiaPASEF (1)
HDMSE (1)
SRM/MRM (1)

Instrument Platform

Illumina NovaSeq 6000 (332)
Illumina HiSeq 2500 (194)
NextSeq 500 (186)
Illumina HiSeq 2000 (160)
Illumina HiSeq 4000 (152)
Illumina MiSeq (43)
NextSeq 550 (39)
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Illumina HiSeq 1500 (25)
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418 [Affymetrix] (17)
GenePix 4000B [Axon Instruments] (15)
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Element AVITI (11)
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ScanArray Express HT [PerkinElmer] (10)
NA (10)
N/A (10)
Affymetrix GeneChip Scanner 3000 7G (9)
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DNBSEQ-G400 (8)
Ion Torrent Proton (7)
Agilent G2505B scanner (6)
Axon- GenePix4000B (6)
Axon GenePix 4000B scanning hardware (6)
G2565BA DNA microarray scanner [Agilent] (5)
NextSeq 1000 (5)
None (5)

Publication Date

2013 (3933)
2014 (3684)
2010 (3588)
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2012 (3043)
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2009 (1149)
2008 (1110)
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2018 (215)
2006 (213)
2023 (203)
2004 (147)
2003 (21)
2002 (5)
2001 (2)
2027 (1)

UNIPROT ID/AC

P27361 (7)
P15056 (7)
P01112 (7)
P01133 (7)
P00533 (7)
P60484 (7)
P31749 (7)
P04049 (7)
Q02750 (7)
P28482 (7)
Q07889 (7)
Q05655 (6)
O14640 (6)
O15169 (6)
Q13905 (6)
P25054 (6)
P67775 (6)
Q15418 (6)
P01024 (6)
P30086 (6)
Q9UJU2 (6)
P35222 (6)
P62834 (6)
P49841 (6)
P47736 (6)
P62070 (6)
P20936 (6)
P05121 (1)
Q969D9 (1)
P13501 (1)

CHEBI ID

CHEBI:30769 (30)
CHEBI:15428 (29)
CHEBI:15741 (28)
CHEBI:15891 (27)
CHEBI:16919 (27)
CHEBI:18186 (26)
CHEBI:16449 (26)
CHEBI:28044 (25)
CHEBI:25017 (23)
CHEBI:6650 (23)
CHEBI:27266 (23)
CHEBI:32816 (23)
CHEBI:16737 (22)
CHEBI:17191 (22)
CHEBI:17368 (22)
CHEBI:16811 (21)
CHEBI:16335 (21)
CHEBI:17596 (21)
CHEBI:28300 (20)
CHEBI:24898 (20)
CHEBI:17568 (20)
CHEBI:16704 (20)
CHEBI:18012 (20)
CHEBI:78320 (20)
CHEBI:15354 (20)
CHEBI:26271 (19)
CHEBI:25094 (19)
CHEBI:0016618 (6)
CHEBI:0018348 (6)
CHEBI:30413 (1)

Metabolite Name

Taurine (24)
Creatine (22)
Creatinine (21)
Uridine (20)
Inosine (20)
Glycine (19)
Guanosine (19)
L-Phenylalanine (19)
Hypoxanthine (19)
Xanthine (18)
L-Tyrosine (18)
Leucine (16)
Citrulline (15)
Glutathione (15)
Adenosine (15)
Cytidine (15)
Uracil (14)
Betaine (14)
Ornithine (14)
L-Threonine (14)
Tyrosine (14)
Alanine (14)
Isoleucine (14)
L-Isoleucine (14)
Valine (13)
Choline (13)
Citric acid (13)
Guanine (13)
Cytosine (13)
Phenylalanine (13)

First Public Date

2014 (144)
2025 (110)
2026 (75)
2024 (72)
2022 (56)
2019 (45)
2021 (43)
2023 (42)
2020 (38)
2018 (35)
2017 (29)
2015 (24)
2016 (23)
2013 (9)

Modelling Approach

Ordinary differential equation model (6)
Boolean model (1)

Lab affiliation

Distinguished Professor Associate Chair for Undergraduate Affairs (4)
Department of Biology, University of Konstanz, Universitätsstraße 10, 78457 Konstanz, Germany (3)
Department of Glycobiology, Institute of Chemistry, Slovak Academy of Sciences (3)
University of Vienna, Faculty of Chemistry, Department of Analytical Chemistry (3)
Department of Molecular and Cellular Biology, University of Guelph, Guelph, Ontario, Canada (2)
Chemistry Department, University of Minnesota, United States (2)
Paul Scherrer Institute, Center for Radiopharmaceutica Sciences, 5232 Villigen PSI, Switzerland (2)
Institute of Chemistry, Slovak Academy of Sciences (2)
Institute of Virology, University of Cologne Medical Faculty and University Hospital Cologne, Cologne, Germany (2)
Molecular and Cellular Biology, University of Guelph, Canada (2)
Proteomics Core Facility and Research Group Proteomics, CEITEC-MU, Masaryk University, Brno, Czech Republic (2)
Weizmann Institute of Science Department of Biomolecular Sciences Faculty of Biochemistry (1)
Manchester Cell-Matrix Centre, Division of Molecular and Cellular Function, FBMH, University of Manchester (1)
Assistant professor, School of Biological Sciences, Seoul National University. (1)
Izabela Sumara, Institute of Genetics and Molecular and Cellular Biology (IGBMC), Illkirch, France (1)
Hannover Medical School Institute for Clinical Biochemistry (OE 4340) Carl-Neuberg-Strasse 1 Building J03, Level 04, Room 1291 (Office), Room 1250 (Lab) 30625 Hannover (1)
Associate Professor, Department of Neurology, Yale University School of Medicine (1)
MED—Mediterranean Institute for Agriculture, Environment and Development & CHANGE—Global Change and Sustainability Institute, School of Science and Technology, University of Évora, Pólo da Mitra, Ap. 94, 7002-554 Évora, Portugal (1)
Institution of Plant and Microbial Biology, Academia Sinica, Taipei (1)
Center for Diagbostik, Institute of Neuropathology, University Medical Center Hamburg Eppendorf, Germany (1)
Computational and Experimental Biology Group NOVA MEDICAL SCHOOL / FACULDADE DE CIÊNCIAS MÉDICASUNIVERSIDADE NOVA DE LISBOARua Câmara Pestana, 6-6A | 1150-082 Lisboa Portugal E-mail: rune.matthiesen@nms.unl.pt | www.nms.unl.pt (1)
Professor University Research Chair in Integrative Mitochondrial Biology Interdisciplinary School of Health Sciences, Faculty of Health Sciences University of Ottawa RGN building, 451 Smyth Road, Ottawa, ON K1H 8M5 Canada (1)
Division of Physiological Genomics, Biomedical Center, Ludwig-Maximilians-Universität, Planegg-Martinsried, Germany. Institute of Stem Cell Research, Helmholtz Center Munich, Planegg-Martinsried, Germany. (1)
Comprehensive Pneumology Center (CPC), University Hospital, Ludwig-Maximilians University, Helmholtz Zentrum München, Member of the German Center for Lung Research (DZL), Munich, Germany (1)
Intravacc, Antonie van Leeuwenhoeklaan 9, 3721 MA Bilthoven, The Netherlands (1)
Institute of Biodiversity, Animal Health and Comparative Medicine, University of Glasgow, Glasgow G61 1QH (1)
University of Eastern Piedmont Department of Sciences and Technological Innovation, University of Piemonte Orientale, Italy (1)
Laboratory of Organic Mass Spectrometry, Department of Chemical Sciences, University of Catania, Viale A. Doria 6, 95125, Catania, Italy. (1)
Department of Pathology and Molecular Pathology, University Hospital Zürich and University of Zürich, Zürich, Switzerland (1)
Department of Chemisry & Biochemistry at Montanan State University, Bozeman, MT (1)

IsPrivate

False (7)

Submitter Keywords

Not Peer Reviewed (1)

Classification

bacteria (6)
viruses (2)

Study type

Transcription profiling by array (18576)
RNA-seq of coding RNA (2383)
ChIP-seq (1429)
Comparative genomic hybridization by array (798)
Unknown experiment type (722)
Methylation profiling by array (513)
RNA-seq of non coding RNA (387)
ChIP-chip by tiling array (363)
Other (255)
RNA-seq of coding RNA from single cells (245)
Methylation profiling by high throughput sequencing (188)
Genotyping by array (138)
ChIP-chip by array (126)
Transcription profiling by RT-PCR (119)
Transcription profiling by tiling array (106)
Transcription profiling by SAGE (84)
MicroRNA profiling by array (71)
DNA-seq (63)
RNA-seq of total RNA (60)
Proteomic profiling by array (48)
Cell line - High-throughput sequencing (35)
RNAi profiling by array (35)
Animal - High-throughput sequencing (34)
High-throughput sequencing (25)
Animal - One-color microarray (24)
ATAC-seq (21)
Spatial transcriptomics by high-throughput sequencing (17)
Human - High-throughput sequencing (16)
Human - One-color microarray (16)
Single nucleus RNA sequencing (16)

Release Date

2013 (4053)
2014 (3847)
2010 (3677)
2015 (3415)
2012 (3167)
2011 (2984)
2016 (2091)
2009 (1247)
2008 (1172)
2022 (540)
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2007 (472)
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2020 (457)
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2025 (442)
2019 (424)
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2018 (391)
2005 (285)
2006 (254)
2026 (177)
2004 (162)
2003 (44)
2002 (23)
2000 (17)
1999 (17)
2001 (14)
1998 (12)
1997 (5)

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A metabolic dependency of EBV can be targeted to hinder B cell transformation

Following infection of B cells, Epstein Barr virus (EBV) engages host pathways that mediate cell proliferation and transformation, contributing to the propensity of the virus to drive immune dysregulation and lymphomagenesis. We found that the EBV protein EBNA2 initiates NAD de novo bios...

2024-04-29 | MTBLS2243 | MetaboLights

Microbial transformation of dietary xenobiotics shapes gut microbiome composition

Diet is a major determinant of gut microbiome composition, and variation in diet-microbiome interactions may contribute to variation in their health consequences. Understanding individual differences requires mechanistic understanding of dietary xenobiotics-microbiome interactions. Here, we map i...

2024-08-06 | MTBLS9221 | MetaboLights

Moderate salinity restricts the transformation depth of norfloxacin by halotolerant Chlorella sp. AMC-2: Physiological adaptation and metabolic reprogramming

Despite increasing application of microalgae for antibiotic-contaminated aquaculture wastewater treatment, how salinity regulates antibiotic transformation depth and cellular adaptation remains unclear. This study combined salinity-gradient cultivation, process partitioning, transformation-product p...

2026-10-01 | MTBLS15888 | MetaboLights

Horizontal Transfer of Bacteriocin Biosynthesis Genes Requires Metabolic Adaptation To Improve Compound Production and Cellular Fitness

Biosynthetic gene clusters (BGCs) encoding the production of bacteriocins are widespread among bacterial isolates and are important genetic determinants of competitive fitness within a given habitat. Staphylococci produce a tremendous diversity of compounds, and the corresponding BGCs are frequen...

2022-11-09 | MTBLS5196 | MetaboLights

Multi-Omic Insights into the Cellular Response of Phaeodactylum Tricornutum (Bacillariophyta) Strains under Grazing Pressure

BACKGROUND/AIMS: Phaeodactylum tricornutum, a model organism of diatoms, plays a crucial role in Earth's primary productivity. Investigating its cellular response to grazing pressure is highly significant for the marine ecological environment. Furthermore, the integration of mult...

2023-12-29 | MTBLS8485 | MetaboLights

Identification of transformation-related pathways in a breast epithelial cell model using a ribonomics approach.

Employing MCT-1 oncogene mediated transformation of immortalized breast epithelial MCF10A cells; we characterized the largely reciprocal association of these two RBPs with target mRNAs and their influence on protein expression vis-à-vis cellular transformation. Using a ribonomics approach, we ident...

ORGANISM(S): Homo sapiens

2008-07-29 | E-GEOD-12215 | biostudies-arrayexpress

Dual regulation of Fbw7 function and oncogenic transformation by Usp28

Fbw7, the substrate recognition subunit of SCF(Fbw7) ubiquitin ligase, mediates turnover of multiple proto-oncoproteins and promotes its own degradation. Fbw7-mediated substrate degradation is antagonized by the Usp28 deubiquitinase. We now show, using knockout mice, that Usp28 preferentially deubiq...

ORGANISM(S): Mus musculus

2015-05-01 | E-GEOD-59354 | biostudies-arrayexpress

Genome-wide copy number analyses reveal genomic abnormalities involved in transformation of follicular lymphoma

We studied 277 lymphoma samples (198 FL and 79 transformed FL [tFL]) using a single-nucleotide polymorphism array to identify the secondary chromosomal abnormalities that drive the development of FL and its transformation to diffuse large B-cell lymphoma. Affymetrix 250K NspI SNP arrays were perform...

ORGANISM(S): Homo sapiens

2015-03-30 | E-GEOD-67385 | biostudies-arrayexpress

EMT inducers catalyze malignant transformation of mammary epithelial cells and drive tumorigenesis towards claudin-low tumors

This SuperSeries is composed of the following subset Series: GSE32727: EMT inducers catalyze malignant transformation of mammary epithelial cells and drive tumorigenesis towards claudin-low tumors [human] GSE32904: EMT inducers catalyze malignant transformation of mammary epithelial cells and drive ...

ORGANISM(S): Mus musculus

2012-07-23 | E-GEOD-32905 | biostudies-arrayexpress

EMT inducers catalyze malignant transformation of mammary epithelial cells and drive tumorigenesis towards claudin-low tumors [mouse]

The newly identified claudin-low subtype of cancer is believed to represent the most primitive breast malignancies, having arisen from transformation of an early epithelial precursor with inherent stemness properties and metaplastic features. Challenging this hypothesis, we show both in vitro and in...

ORGANISM(S): Mus musculus

2012-07-23 | E-GEOD-32904 | biostudies-arrayexpress

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