Formalin-fixed - OmicsDI

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Exiqon 7th generation miRCURY LNA microRNA microarray system (1)
Nanostring cancer pathway, Nanostring Cancer Immune, ILLUMINA, Affymetrix GeneChipÂ® Human Transcriptome Array 2.0, Illumina HiSeq 4000 (1)
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Instrument Platform

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Leica microtome, 1 mm biopsy punch (1)
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See Description (1)
See Desciption (1)
Manual labeling (1)
Manual extraction (1)
Clinical procedure using endoscopic equimpent (1)
N.A. (1)
Histocore Arcadia H (Leica Biosystems); Microtome RM2255 (Leica Biosystems) (1)

Publication Date

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2014 (92)
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2018 (62)
2019 (56)
2017 (51)
2009 (35)
2008 (19)
2005 (14)
2006 (13)
2007 (8)
2004 (1)

UNIPROT ID/AC

A0A5F5XHX1_FELCA (1)
M3W9B3_FELCA (1)
M3W1Z4_FELCA (1)
9685.ENSFCAP00000022402 (1)
M3WAY7_FELCA (1)
M3W043_FELCA (1)
A0A337SJG3_FELCA (1)
9685.ENSFCAP00000021550 (1)
M3WLU0_FELCA (1)
9685.ENSFCAP00000011761 (1)
A0A337S9V5_FELCA (1)
A0A5F5Y535_FELCA (1)
A0A2I2UFE0_FELCA (1)
A0A337SAT1_FELCA (1)
A0A337SQG9_FELCA (1)
A0A337RW04_FELCA (1)
A0A2I2U0Y6_FELCA (1)
A0A337SF79_FELCA (1)
M3VWP9_FELCA (1)
M3W262_FELCA (1)
9685.ENSFCAP00000020231 (1)
9685.ENSFCAP00000022411 (1)
M3XE20_FELCA (1)
A0A5F5XD94_FELCA (1)
M3X2X9_FELCA (1)
M3WLD5_FELCA (1)
M3WGK0_FELCA (1)
A8WA76_FELCA (1)
9685.ENSFCAP00000022890 (1)
M3WN59_FELCA (1)

CHEBI ID

CHEBI:32816 (3)
CHEBI:17033 (2)
CHEBI:17431 (2)
CHEBI:15956 (2)
CHEBI:18012 (2)
CHEBI:16761 (2)
CHEBI:16750 (2)
CHEBI:16027 (2)
CHEBI:16238 (2)
CHEBI:15428 (2)
CHEBI:16449 (2)
CHEBI:15741 (2)
CHEBI:30915 (2)
CHEBI:18237 (2)
CHEBI:17234 (2)
CHEBI:25094 (2)
CHEBI:131496 (1)
CHEBI:194800 (1)
CHEBI:166335 (1)
CHEBI:159214 (1)
CHEBI:164026 (1)
CHEBI:163134 (1)
CHEBI:72345 (1)
CHEBI:163336 (1)
CHEBI:46860 (1)
CHEBI:48267 (1)
CHEBI:73915 (1)
CHEBI:81392 (1)
CHEBI:141452 (1)
CHEBI:173666 (1)

Metabolite Name

Sphingosine (4)
Petroselinic acid (3)
Oxandrolone (3)
Betaine (3)
4-Hydroxybenzaldehyde (3)
Farnesyl acetone (3)
Sphinganine (3)
Cytosine (3)
L-Isoleucine (3)
3,5,7-Trimethyl-2E,4E,6E,8E-decatetraene (2)
3,7-Dimethyl-9-(2,6,6-trimethylcyclohexen-1-yl)nona-2,4,6,8-tetraenamide (2)
2,6-Dihydroxynaphthalene (2)
Quinoline-4,8-diol (2)
(2S,3R)-2-Amino-4-octadecene-3-ol (2)
Spirolide B (2)
(2xi,4xi)-2,4-Nonadien-1-ol (2)
5,7-Diethyl-9-methyl-3E,5E,7E,9E-tridecatetraene (2)
4,6-Dihydroxy-2-mercaptopyrimidine (2)
Spirolide E (2)
PG(i-12:0/a-17:0) (2)
DG(9D5/9D3/0:0) (2)
Pectachol (2)
Lucidenolactone (2)
Sphingosine 1-phosphate (d19:1-P) (2)
2-Pentadecylfuran (2)
2-Cyclotetradecen-1-one (2)
2-Undecen-1-ol (2)
1-Octene (2)
2-Heptadecylfuran (2)
N-Oleoyl Histidine (2)

First Public Date

2014 (223)
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2022 (93)
2019 (72)
2018 (64)
2020 (62)
2015 (54)
2017 (46)
2016 (34)
2013 (26)
2011 (1)

Classification

viruses (2)

Modification

N6 (2)
30.010565 (1)
0.984016 (1)
79.966331 (1)
15.994915 (1)
57.021464 (1)

Study status

Recruiting (4)
Withdrawn (1)
Active, not recruiting (1)
Not provided (1)
Completed (1)

Study type

Transcription profiling by array (317)
Comparative genomic hybridization by array (77)
RNA-seq of coding RNA (50)
ChIP-seq (45)
Methylation profiling by array (41)
Genotyping by array (14)
DNA-seq (10)
ChIP-chip by array (9)
Other (9)
MicroRNA profiling by array (9)
RNA-seq of non coding RNA (8)
Unknown experiment type (7)
Spatial transcriptomics by high-throughput sequencing (7)
Human - High-throughput sequencing (6)
Transcription profiling by RT-PCR (6)
Methylation profiling by high throughput sequencing (6)
Human - Methylation microarray (3)
ChIP-chip by tiling array (2)
Human - One-color microarray (2)
Hi-C (2)
Exome sequencing (2)
Genotyping by high throughput sequencing (2)
RAN-seq of total RNA from single cells (1)
Cell line - Methylation microarray (1)
Human - Two-color microarray (1)
Animal - One-color microarray (1)
MicroRNA profiling by high-throughput sequencing (1)
One-color microarray (1)
MicroRNA profiling by high throughput sequencing (1)
Bisulfite-seq (1)

Release Date

2021 (434)
2022 (430)
2020 (388)
2023 (365)
2025 (359)
2016 (348)
2024 (296)
2018 (296)
2019 (292)
2015 (260)
2017 (249)
2014 (212)
2013 (176)
2012 (149)
2011 (128)
2010 (114)
2009 (53)
2026 (37)
2008 (34)
2006 (23)
2007 (22)
2005 (21)
2003 (12)
2002 (8)
2004 (7)
2001 (7)
2000 (4)
1999 (4)
1998 (3)

Lab affiliation

Canada's Michael Smith Genome Sciences Centre, BC Cancer Agency, Vancouver V5Z 1L3, Canada. (4)
UHN (3)
ProCan®, Children’s Medical Research Institute, Faculty of Medicine and Health, The University of Sydney, Westmead, NSW, Australia. (3)
Washington University in St. Louis (3)
International Centre for Cancer Vaccine Science, University of Gdansk, Kladki 24, Gdansk, Poland (2)
Clinical Protein Science & Imaging, Dept. of Measurement Technology and Industrial Electrical Engineering, Lund University, Lund, Sweden (2)
Department of Oncology-Pathology, SciLifeLab, Karolinska Institutet (2)
Research Centre for Genetic Engineering and Biotechnology “Georgi D Efremov”, Macedonian Academy of Sciences and Arts, Skopje, Krste Misirkov 2, 1000 Skopje, Republic of North Macedonia (2)
Proteomics and Signal Transduction, Max Planck Institute of Biochemistry, Martinsried, Germany (2)
Insitute for Molecular Medicine and Cell Research, University of Freiburg, Germany (2)
Memorial Sloan Kettering Cancer Center (2)
Section of Mass Spectrometric Proteomics, University Medical Center Hamburg eppendorf (2)
Division of Nephrology, University Hospitals Namur | Place Louise Godin 15, B-5000 Namur, Belgium (2)
Department of Convergence Medicine, Convergence Medicine Research Center/Biomedical Research Center, Asan Medical Center, Asan Institute for Life Sciences, University of Ulsan College of Medicine, 88 Olympic-ro 43-gil, Songpa-gu, Seoul 05505, Republic of Korea. (2)
Proteomics core facility, Biomedical Research Institute, Seoul National University Hospital (2)
Canada's Michael Smith Genome Sciences Centre at BC Cancer, Vancouver V5Z 1L3, Canada (1)
Westlake Laboratory of Life Sciences and Biomedicine, Key Laboratory of Structural Biology of Zhejiang Province, School of Life Sciences, Westlake University, Hangzhou, Zhejiang, China. (1)
Institute of Molecular Medicine and Cell Research, University of Freiburg, Germany (1)
Department of Pediatrics, Childhood Asthma Atopy Center, Environmental Health Center, Asan Medical Center, University of Ulsan College of Medicine, Seoul 05505, Republic of Korea (1)
Department of Nephrology, Children's Hospital of Fudan University, National Pediatric Medical Center of China, Shanghai, China. (1)
1. Novo Nordisk Foundation Center for Protein Research, University of Copenhagen, Copenhagen, Denmark; 2. Proteomics and Singal Transduction, Max Planck Institute of Biochemistry, Martinsried, Germany (1)
Division of Cell Matrix Biology and Regenerative Medicine, School of Biological Sciences, Faculty of Biology, Medicine and Health, University of Manchester, Manchester Academic Health Science Centre, Manchester, M13 9PL, UK. (1)
Department of Rehabilitation Medicine, The Second Affiliated Hospital, School of Medicine, South China University of Technology, Guangzhou 510180, China (1)
Mayo Clinic, Rochester, MN (1)
CANCER MOLECULAR PATHOLOGY AND THERAPEUTIC TARGETS. HOSPITAL LA PAZ INSTITUTE FOR HEALTH RESEARCH. MADRID. SPAIN. (1)
Neurosurgical Oncology Unit Neurosurgery Department Shaare Zedek Medical Center (1)
Proteomics Unit (UCCTs), Instituto de Salud Carlos III, Majadahonda, 28220 Madrid, Spain (1)
Department of Pathology, The First Affiliated Hospital, Sun Yat-sen University (1)
Stress- and Immunoproteomics Group, Molecular and Applied Microbiology Department, Leibniz Institute for Natural Product Research and Infection Biology - Hans Knöll Institute Jena (1)
Drug Metablism and Pharmackinetics, Abbvie Bioresearch Center (1)

Location

Japan (2)
New Zealand (1)
Greece (1)
Australia (1)
Italy (1)
France (1)
United States (1)

Keyword

Intestinal NET (1)
Somatostatin analogues (1)
Tryptophan hydroxylase inhibitor (1)
Gene panel (1)
BESPOKE (1)
KRAS gene mutation (1)
NRAS gene mutation (1)
BRAF gene mutation (1)
Translational research (1)
Circulating tumor DNA (1)
Lanreotide (1)
Colon (1)

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Clinical relevance of DNA microarray analyses using archival formalin-fixed paraffin-embedded breast cancer specimens

This SuperSeries is composed of the following subset Series: GSE23384: Gene profiling using archival formalin-fixed paraffin-embedded breast cancer specimens can generate informative microarray data: A comparison with matched fresh fine needle aspiration biopsy samples (FFPE samples) GSE23385: Gene ...

ORGANISM(S): Homo sapiens

2011-06-22 | E-GEOD-23386 | biostudies-arrayexpress

Phosphoproteome Analysis of Formalin-Fixed and Paraffin-Embedded Tissue Sections Mounted on Microscope Slides

Formalin-fixed and paraffin-embedded (FFPE) sections mounted on microscope slides are one of the largest available resources for retrospective research on various diseases, but quantitative phosphoproteome analysis of FFPE sections has never been achieved because of the extreme difficulty of procuri...

ORGANISM(S): Mus Musculus (mouse)

2016-07-20 | PXD004604 | JPOST Repository

RNAseq Analysis of Formalin-Fixed Paraffin-Embedded Prostate Cancer Tissues

In an effort to identify biomarkers of recurrence, we have performed global RNA-sequencing on 106 formalin-fixed, paraffin-embedded (FFPE) prostatectomy samples from 100 patients at three independent sites, and identified a new set of biomarkers of biochemical recurrence composed of a 24-gene panel....

ORGANISM(S): Homo sapiens

2014-04-11 | E-GEOD-54460 | biostudies-arrayexpress

Automated array-CGH optimized for archival formalin-fixed, paraffin-embedded tumor material

BACKGROUND: Array Comparative Genomic Hybridization (aCGH) is a rapidly evolving technology that still lacks complete standardization. Yet, it is of great importance to obtain robust and reproducible data to enable meaningful multiple hybridization comparisons. Special difficulties arise when aCGH i...

ORGANISM(S): Homo sapiens

2010-06-12 | E-GEOD-7122 | biostudies-arrayexpress

Gene profiling using archival formalin-fixed paraffin-embedded breast cancer specimens can generate informative microarray data: A comparison with matched fresh fine needle aspiration biopsy samples (FFPE samples)

The Formalin-Fixed Paraffin-Embedded (FFPE) samples on selected breast cancer subtypes (ER+/Her2-, ER+/Her2+, ER-/Her2+, and ER-/Her2-) and their paired fresh fine needle aspirated biopsies (FNA) were investigated. The cases represented different subtypes of breast cancers based on their clinical re...

ORGANISM(S): Homo sapiens

2011-06-22 | E-GEOD-23384 | biostudies-arrayexpress

Expression Profiling of Formalin-Fixed Parafin-Embedded Primary Breast Tumors

This SuperSeries is composed of the following subset Series: GSE25231: Expression Profiling of Formalin-Fixed Parafin-Embedded Primary Breast Tumors DASL Cancer Panel GSE25233: Expression Profiling of Formalin-Fixed Parafin-Embedded Primary Breast Tumors Whole Genome DASL Refer to individual Series

ORGANISM(S): Homo sapiens

2010-12-20 | E-GEOD-25234 | biostudies-arrayexpress

Raw N-glycan MALDI mass spectrometry imaging data on formalin-fixed mouse kidney

The N-glycome was mapped and visualised on formalin-fixed mouse kidney tissue using an ultrafleXtreme MALDI-ToF/ToF MS instrument (Bruker Daltonics).

ORGANISM(S): Mus musculus (Mouse)

2018-11-02 | PXD009808 | Pride

An array based analysis of miRNA expression comparing matched frozen and FFPE human tissue samples

MicroRNAs (miRNAs) are small non-coding RNAs that repress gene expression at the post transcriptional level via an antisense RNA-RNA interaction. Generally, miRNAs derived from snap frozen or fresh samples are used for array based profiling. Since tissues in most pathology departments are available ...

ORGANISM(S): Homo sapiens

2010-05-17 | E-GEOD-12458 | biostudies-arrayexpress

ORGANISM(S): Homo sapiens

2011-06-22 | E-GEOD-23385 | biostudies-arrayexpress

Gene-expression profiles of formalin-fixed, paraffin-embedded human hepatocellular carcinoma

Gene-expression profiles of formalin-fixed, paraffin-embedded human hepatocellular carcinoma tissues obtained at the time of surgical resection. Gene-expression profiling was performed using formalin-fixed, paraffin-embedded hepatocellular carcinoma tissues obtained at the time of surgical resection...

ORGANISM(S): Homo sapiens

2011-02-17 | E-GEOD-19977 | biostudies-arrayexpress

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