Therapies - OmicsDI

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Unknown (90639)
Genomics (10930)
Transcriptomics (10461)
Proteomics (2600)
Metabolomics (1015)
Other (357)
Clinical (221)
Methylation profiling (141)
Models (122)
Genomic (82)
Multiomics (36)

Organisms

Homo sapiens (9692)
Mus musculus (3524)
Rattus norvegicus (337)
Arabidopsis thaliana (165)
Danio rerio (85)
Drosophila melanogaster (54)
Sus scrofa (54)
Bos taurus (41)
Saccharomyces cerevisiae (40)
Canis lupus familiaris (40)
Gallus gallus (34)
Oryza sativa (27)
Caenorhabditis elegans (24)
Macaca mulatta (24)
Plasmodium falciparum (19)
Zea mays (19)
Candida albicans (19)
Oryza sativa Japonica Group (16)
Glycine max (15)
Solanum lycopersicum (15)
Mycobacterium tuberculosis (14)
Medicago truncatula (12)
Oryctolagus cuniculus (8)
Severe acute respiratory syndrome coronavirus 2 (6)
Chordata (3)
Mus sp. (3)
Bacteria (3)
Vesicular stomatitis virus (2)
Clostridioides difficile (1)
Mammalia (1)

Organisms

Homo sapiens (4078)
Mus musculus (1900)
Rattus norvegicus (84)
Danio rerio (39)
Sus scrofa (25)
Canis lupus familiaris (15)
human gut metagenome (15)
Plasmodium falciparum (12)
Staphylococcus aureus (11)
Macaca mulatta (10)
Drosophila melanogaster (8)
mouse gut metagenome (8)
Escherichia coli (8)
Mus (7)
Macaca fascicularis (6)
unidentified (6)
synthetic construct (5)
Candidozyma auris (5)
Candida albicans (5)
gut metagenome (5)
Saccharomyces cerevisiae (5)
Gallus gallus (5)
Caenorhabditis elegans (5)
Pseudomonas aeruginosa (5)
Felis catus (4)
Ovis aries (4)
Ambystoma mexicanum (4)
Plasmodium (3)
Microcebus murinus (3)
Xenopus laevis (3)

Repository

ENA (7897)
geo (6047)
biostudies-arrayexpress (5953)
EGA (1992)
MetaboLights (1003)
MassIVE (981)
pride (852)
iProX (336)
jPOST (284)
BioModels (101)
PanoramaPublic (84)
dbGaP (82)
LINCS (42)
EVA (30)
Cell Collective (21)
PAXDB (20)
PeptideAtlas (16)
GNPS (12)
GPMDB (4)
ExpressionAtlas (1)

Tissue

Cell culture (248)
Epithelial cell (96)
Lung (43)
Brain (42)
Blood (33)
Blood plasma (32)
Fibroblast (30)
Permanent cell line cell (30)
Blood cell (26)
Skin (24)
B cell (22)
Kidney (22)
Heart (20)
Liver (19)
Colon (18)
Stem cell (17)
T cell (17)
Bone marrow (16)
Cell suspension culture (16)
Primary cell (13)
Melanocyte (10)
Retina (10)
Macrophage (9)
Spleen (9)
Blood serum (8)
Hepatocyte (8)
Female Reproductive System (6)
Others (5)
Ovary (2)
Plasma Non-glyco (1)

Disease

Breast cancer (53)
Normal (18)
Alzheimer's disease (11)
Lymphoma (10)
Prostate cancer (10)
COVID-19 (7)
Neuroblastoma (7)
Cancer (5)
Colorectal cancer (4)
Leukemia (3)
Angiosarcoma (3)
Glioblastoma (3)
Glucocorticoid-remediable aldosteronism (2)
Type 2 diabetes mellitus (2)
Myeloma (2)
Small cell lung cancer (2)
Rheumatoid arthritis (2)
Acute lymphoblastic leukemia (2)
Chronic myelogenous leukemia (2)
Osteoporosis (1)
Paget's disease of bone (1)
Osteoarthritis (1)
Skin cancer (1)
Bacterial infectious disease (1)
Heart disease (1)
Blood coagulation disease (1)
Glioblastoma multiforme (1)
Clostridium difficile colitis (1)
Mock infection (1)
Neuroendocrine tumor (1)

Technology Type

Illumina HiSeq 2000 (71)
Illumina HiSeq 2500, ILLUMINA (17)
Illumina HiSeq 2500 (16)
ILLUMINA, Illumina HiSeq 2000 (15)
Illumina HiSeq 2000, ILLUMINA (15)
ILLUMINA, Illumina HiSeq 2500 (12)
Illumina MiSeq (7)
Illumina HiSeq 2500, Illumina HiSeq 2000 (6)
Illumina MiSeq, ILLUMINA (3)
Illumina Genome Analyzer II (3)
NextSeq 500, ILLUMINA (2)
Aperio (2)
HiSeq X Ten, ILLUMINA (2)
Illumina_450K (2)
Illumina HiSeq 2500, Illumina MiSeq (2)
Illumina HiSeq 2000, NextSeq 500, ILLUMINA (2)
Illumina HiSeq 2000, ILLUMINA, Illumina HiSeq 2500 (2)
Illumina Genome Analyzer IIx, Illumina HiSeq 2000 (2)
Illumina Genome Analyzer IIx (2)
Illumina Genome Analyzer II, Illumina HiSeq 2000 (2)
NextSeq 500 (ILLUMINA), Illumina HiSeq 2500 (ILLUMINA) (1)
Illumina HiSeq 2500, Illumina HiSeq 4000, ILLUMINA (1)
Illumina MiSeq, NextSeq 500, ILLUMINA (1)
NextSeq 500, Illumina HiSeq 2000, ILLUMINA, Illumina HiSeq 2500 (1)
Illumina MiSeq, Illumina HiSeq 2500, ILLUMINA (1)
HiSeq X Ten, Illumina HiSeq 4000, Illumina HiSeq 2500, ILLUMINA (1)
Illumina CytoSNP 12 bead array, nanostring (1)
Illumina CytoSNP, Illumina HumanOmni2.5, ILLUMINA, Illumina 450k, Illumina HiSeq 2000 (1)
Illumina DASL Assay (1)
Illumina Oncoscan Array (1)

Instrument Platform

Illumina NovaSeq 6000 (565)
NextSeq 500 (177)
Illumina HiSeq 4000 (126)
Illumina HiSeq 2500 (115)
Illumina NovaSeq X (109)
Illumina HiSeq 2000 (80)
NextSeq 2000 (75)
NextSeq 550 (58)
Illumina MiSeq (27)
DNBSEQ-G400 (25)
NA (20)
DNBSEQ-T7 (16)
Element AVITI (14)
Illumina HiSeq 1500 (11)
BGISEQ-500 (11)
HiSeq X Ten (10)
Illumina Genome Analyzer IIx (8)
NextSeq 1000 (8)
Dell PowerEdge R750; CPU: 2 × Intel Xeon Gold 6346 (32 Cores / 64 Threads); RAM: 188 GB (7)
Illumina HiSeq X (7)
N/A (7)
NucleoSpin RNA/Protein kit lysis buffer (350 µL per tube; Macherey‑Nagel). (6)
None (6)
Illumina HiSeq 3000 (6)
See manuscript (5)
Illumina HiSeq 1000 (5)
FastPrep‑24 homogenizer (MP Biomedicals) (4)
PromethION (4)
Agilent High resolution C scanner (4)
GenePix 4000B [Axon Instruments] (4)

Publication Date

2025 (2275)
2026 (2005)
2024 (1520)
2023 (977)
2022 (873)
2021 (708)
2015 (693)
2013 (674)
2014 (673)
2010 (646)
2012 (631)
2016 (589)
2020 (581)
2011 (556)
2019 (419)
2017 (391)
2018 (371)
2008 (331)
2009 (291)
2007 (167)
2005 (57)
2006 (54)
2004 (5)
2003 (4)
2027 (2)
2002 (1)

UNIPROT ID/AC

P62136 (2)
P18510 (2)
Q00987 (2)
P01584 (2)
P0CG47 (2)
P49841 (2)
P27361 (2)
Q02750 (2)
P04049 (2)
P01308 (2)
Q13315 (2)
P04637 (2)
P31749 (2)
P05067 (2)
Q14609 (1)
Q9WUN2 (1)
P39429 (1)
Q3U0V2 (1)
P25118 (1)
P70671 (1)
Q80X56 (1)
O09000 (1)
Q62172 (1)
P49117 (1)
Q8CF89 (1)
P70196 (1)
Q62406 (1)
Q99JY1 (1)
P08571 (1)
P22366 (1)

ENSEMBL ID

ENSG00000170477 (11)
ENSG00000229353 (9)
ENSG00000204131 (8)
ENSG00000147251 (6)
ENSG00000247315 (6)

CHEBI ID

CHEBI:16027 (116)
CHEBI:18237 (113)
CHEBI:16449 (111)
CHEBI:18132 (98)
CHEBI:17234 (82)
CHEBI:18183 (73)
CHEBI:16761 (71)
CHEBI:28790 (69)
CHEBI:15422 (64)
CHEBI:16675 (58)
CHEBI:144829 (7)
CHEBI:6801 (4)
CHEBI:506227 (3)
CHEBI:15996 (3)
CHEBI:17552 (3)
CHEBI:30909 (2)
CHEBI:6277 (2)
CHEBI:1582 (2)
CHEBI:27859 (2)
CHEBI:52217 (2)
CHEBI:27956 (2)
CHEBI:16934 (2)
CHEBI:1941 (2)
CHEBI:28061 (2)
CHEBI:17716 (2)
CHEBI:18041 (2)
CHEBI:18086 (2)
CHEBI:16480 (2)
CHEBI:17123 (2)
CHEBI:28096 (2)

Metabolite Name

Creatine (191)
Hypoxanthine (189)
Creatinine (171)
Uracil (170)
Taurine (163)
Adenine (162)
Adenosine (161)
Choline (159)
Uridine (157)
Inosine (153)
Xanthine (152)
L-Phenylalanine (143)
L-Tyrosine (139)
Guanosine (137)
Betaine (132)
L-Histidine (128)
L-Glutamine (125)
L-Proline (124)
Ornithine (123)
Cytosine (123)
Cytidine (121)
Glycine (120)
Guanine (120)
L-Tryptophan (120)
Citrulline (119)
Thymine (116)
Riboflavin (115)
L-Valine (115)
L-Threonine (113)
Indole (109)

First Public Date

2025 (1508)
2026 (1348)
2024 (1110)
2023 (692)
2014 (599)
2022 (557)
2021 (477)
2020 (416)
2019 (328)
2017 (245)
2018 (229)
2015 (176)
2016 (143)
2013 (65)
2012 (3)
2011 (1)

Modelling Approach

Ordinary differential equation model (72)
Constraint-based model (15)
Physiologically based pharmacokinetic model (4)
Computational model (2)
Population model (2)
Dynamical characteristic (1)
Spatial characteristic (1)
Mathematical model (1)
Boolean model (1)
Cellular potts model (1)
Agent-based model (1)
Logical model (1)

Study status

Completed (87)
Recruiting (53)
Terminated (27)
Active, not recruiting (18)
Not provided (18)
Not yet recruiting (7)
Withdrawn (5)
Suspended (3)
Ongoing (2)
Available (1)

Lab affiliation

Department of Microbiology and Immunology, University of Melbourne at the Peter Doherty Institute for infection and immunity, Melbourne, 3000, Australia (10)
Amsterdam UMC, Vrije Universiteit Amsterdam, Medical Oncology, Cancer Center Amsterdam, OncoProteomics Laboratory, Amsterdam, Netherlands (5)
Chair of Proteomics and Bioanalytics, Technische Universität München, Germany (5)
Department of Cancer Biology, Dana-Farber Cancer Institute, Boston, MA 02215, USA., Department of Biological Chemistry and Molecular Pharmacology, Harvard Medical School, Boston, MA 02115, USA (5)
Functional Proteomics, ICR (5)
Department of Chemistry, The Scripps Research Institute, La Jolla, CA, USA (4)
Instituto de Investigaciones Sanitarias de Santiago de Compostela (4)
Memorial Sloan Kettering Cancer Center (4)
Cancer Biology Department, Fox Chase Cancer Center, Philadelphia, PA, USA (3)
Center for Translational Vision Research, Department of Ophthalmology, Gavin Herbert Eye Institute, University of California, Irvine, Irvine, CA, 92697, USA; Department of Physiology and Biophysics, Department of Chemistry, Department of Molecular Biology and Biochemistry; University of California, Irvine, Irvine, CA, 92697, USA (3)
Department of Immunobiology, University of Lausanne, Epalinges, Switzerland (3)
Dept. of Laboratory Medicine, University of California, San Francisco, CA (3)
EPFL (3)
European Institute of Oncology, Milan, Italy (3)
Executive Science Officer, BioFrontiers InstituteDistinguished ProfessorProfessor, Howard Hughes Medical Institute MOLECULAR CELLULAR AND DEVELOPMENTAL BIOLOGY CU DENVER SCHOOL OF MEDICINE (3)
Federal University of Uberlandia (3)
GlycoProteomics Laboratory, Department of Parasitology, Institute of Biomedical Sciences, University of Sao Paulo, Avenida Lineu Prestes 1374, CEP 05508-000, Sao Paulo, Brazil (3)
Moffitt Cancer Center (3)
University of Vienna, Faculty of Chemistry, Department of Analytical Chemistry (3)
1. Department of Microbiology and Immunology, School of Medicine, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA. 2. Department of Epidemiology, Gillings School of Public Health, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA. 3. Lineberger Comprehensive Cancer Center, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA (2)
Cancer Research UK Beatson Institute, Glasgow, UK (2)
Cancer Science Institute of Singapore (CSI), National University of Singapore (NUS) (2)
Cedars-Sinai Medical Center (2)
Chinese Academy of Sciences Shanghai Institute of Materia Medica (2)
Clinical Collaboration Unit Translational Immunology, German Cancer Consortium (DKTK), Department of Internal Medicine, University Hospital Tübingen, Tübingen, Germany (2)
College of Pharmaceutical Sciences, Zhejiang University (2)
Crown Bioscience (2)
Debora Bonenfant, Novartis Institutes for BioMedical Research, Basel, Switzerland (2)
Department of Biochemistry and Molecular Biology and the Biomedicine Discovery Institute; Monash University; Clayton 3800; Victoria; Australia (2)
Department of Biochemistry, Albert Einstein College of Medicine, Bronx, NY 10461, United States (2)

Keyword

Fluorouracil (21)
Cetuximab (19)
Leucovorin (16)
Bevacizumab (14)
Oxaliplatin (14)
Stage IV colon cancer (13)
Recurrent colon cancer (12)
Recurrent rectal cancer (12)
Stage IV rectal cancer (11)
CRC (11)
Pembrolizumab (10)
Irinotecan (10)
Levoleucovorin (10)
Antibodies, Monoclonal (7)
Immunotherapy (7)
Metastatic (7)
Gefitinib (6)
Adenocarcinoma of the colon (6)
Adenocarcinoma of the rectum (6)
Lenalidomide (5)
Stage III colon cancer (5)
Regorafenib (5)
Durvalumab (5)
Nivolumab (5)
Ipilimumab (5)
Antibodies (5)
Capecitabine (5)
Calcium (5)
Atezolizumab (4)
Sorafenib (4)

IsPrivate

False (101)

Model Flag

Non Kinetic (2)
Non Miriam (1)

Submitter Keywords

Immuno-oncology (24)
Not Peer Reviewed (10)
COVID-19 (4)
Ersilia (2)
Machine Learning Model (2)
FROG (2)
FAIR-AIML (1)
Oncology (1)

Classification

bacteria (51)
protozoa (18)
viruses (14)
fungi (14)

Modification

2x(15)N labeled L-lysine (3)
4x(15)N labeled L-arginine (2)
N6 (2)
4-tetrahydrothiazine-3-carboxylic acid (1)
Not available (1)

Study type

Transcription profiling by array (3493)
RNA-seq of coding RNA (1094)
RNA-seq of coding RNA from single cells (208)
ChIP-seq (169)
Comparative genomic hybridization by array (135)
RNA-seq of total RNA (113)
Methylation profiling by array (96)
Unknown experiment type (92)
RNA-seq of non coding RNA (53)
DNA-seq (50)
Genotyping by array (45)
Other (36)
Transcription profiling by RT-PCR (33)
Methylation profiling by high throughput sequencing (32)
MicroRNA profiling by array (29)
ATAC-seq (27)
Proteomic profiling by array (23)
CUT&RUN (19)
Spatial transcriptomics by high-throughput sequencing (16)
Bisulfite-seq (13)
Cell line - High-throughput sequencing (12)
Transcription profiling by tiling array (11)
ChIP-chip by tiling array (10)
Ribo-seq (9)
Animal - One-color microarray (8)
Human - One-color microarray (8)
MicroRNA profiling by high throughput sequencing (8)
Human - High-throughput sequencing (7)
Animal - High-throughput sequencing (7)
Hi-C (7)

Release Date

2025 (11883)
2022 (11427)
2023 (10610)
2021 (10516)
2024 (8573)
2020 (8097)
2019 (5619)
2018 (4763)
2017 (4179)
2016 (3895)
2015 (3412)
2014 (2954)
2013 (2124)
2026 (2047)
2012 (1717)
2011 (1442)
2010 (1271)
2009 (717)
2008 (603)
2007 (302)
2006 (153)
2005 (125)
2003 (37)
2004 (34)
2002 (20)
2001 (14)
2000 (7)
1998 (5)
1997 (3)
1999 (2)

Location

United States (99)
France (34)
Spain (24)
Germany (22)
Italy (22)
South Korea (17)
United Kingdom (17)
China (15)
Canada (15)
Japan (15)
Australia (14)
Belgium (13)
Austria (6)
Taiwan (5)
Poland (5)
Netherlands (5)
Israel (4)
Switzerland (4)
Hong Kong (3)
Denmark (3)
Singapore (3)
Sweden (3)
Turkey (2)
Greece (2)
Chile (2)
Russia (2)
Czechia (2)
Luxembourg (1)
Bangladesh (1)
India (1)

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A practical approach for adoption of a hub and spoke model for cell and gene therapies in low- and middle-income countries: framework and case studies.

Not available

S-EPMC10788266 | biostudies-literature

Human iPSC-Derived Renal Cells Change Their Immunogenic Properties during Maturation: Implications for Regenerative Therapies.

Not available

S-EPMC9032821 | biostudies-literature

Adaptive mutability of colorectal cancer cells in response to targeted therapies

PRJEB28674 | ENA

KMT2A oncoproteins induce epigenetic resistance to targeted therapies.

PRJNA1060315 | ENA

Overcoming senescence to engineer scalable universal T cell therapies

PRJNA1498101 | ENA

Emerging targeted therapies for castration-resistant prostate cancer.

Not available

S-EPMC3364443 | biostudies-literature

Regulated control of gene therapies by drug induced splicing

PRJNA736612 | ENA

Palmer2014 - Effect of IL-1β-Blocking therapies in T2DM - Healthy Condition

Palmer2014 - Effect of IL-1β-Blocking therapies in T2DM - Healthy Condition This is the model with healthy state initial conditions. A few changes were made to the model equations in order to bypass the circular dependencies apparent in SBML. Coupled algebraic eq...

2024-09-02 | BIOMD0000000621 | BioModels

Palmer2014 - Effect of IL-1β-Blocking therapies in T2DM - Disease Condition

Palmer2014 - Effect of IL-1β-Blocking therapies in T2DM - Disease Condition This is the model with disease state initial conditions. A few changes were made to the model equations in order to bypass the circular dependencies apparent in SBML. Coupled algebraic eq...

2024-09-02 | BIOMD0000000620 | BioModels

Proteome analysis for the assessment of drug therapies

This project is to assess the impact of drug therapies on the restoration of ovarian functions

ORGANISM(S): Mus Musculus

2024-11-25 | PXD058216 |

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