Lysates - OmicsDI

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synthetic construct (5)
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Campylobacter jejuni subsp. jejuni NCTC 11168 = ATCC 700819 (3)
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Macaca fascicularis (3)

Organisms

Homo sapiens (299)
Mus musculus (241)
Caenorhabditis elegans (23)
Saccharomyces cerevisiae (20)
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Rattus norvegicus (13)
Mycobacterium tuberculosis (6)
Arabidopsis thaliana (5)
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Dokdonia sp. Dokd-P16 (2)
Campylobacter jejuni subsp. jejuni NCTC 11168 = ATCC 700819 (2)
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unidentified (2)
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Ehrlichia chaffeensis str. Arkansas (1)
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Prodigiosinella confusarubida (1)
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Tissue

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Disease

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Acute myelomonocytic leukaemia (1)
HIV-Tuberculosis with Immune Reconstitution Inflammatory Syndrome (1)
Choriocarcinoma (1)
Giant Cell Glioblastoma (1)
Locally advanced rectal cancer (1)
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Infected with HBV Xmutant (1)

Technology Type

Mass Spectrometry (6564)
Shotgun proteomics (3213)
Bottom-up proteomics (1391)
Affinity purification coupled with mass spectrometry proteomics (1262)
Data-dependent acquisition (814)
Data-independent acquisition (425)
Gel-based experiment (390)
SWATH MS (199)
Top-down proteomics (147)
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Chemical cross-linking coupled with mass spectrometry proteomics (67)
All-ion fragmentation (45)
Mass spectrometry (44)
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Immunopeptidomics (38)
DiaPASEF (32)
Mass spectrometry (31)
KiNativ (30)
HDMSE (20)
Proteogenomics (13)
Mass spectrometry assay (12)
MSE (9)
Glycoproteomics (7)
Metaproteomics (6)
NMR spectroscopy (5)
RNA mass spectrometry (2)
Shotgun-MS (1)
RPPA (1)
Fluorescence intensity (1)
NMR spectroscopy assay (1)

Instrument Platform

NextSeq 500 (65)
Illumina NovaSeq 6000 (52)
Illumina HiSeq 2000 (51)
Illumina HiSeq 2500 (38)
Illumina HiSeq 4000 (23)
NextSeq 550 (20)
Illumina MiSeq (14)
NextSeq 2000 (11)
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Illumina HiSeq 1500 (7)
Illumina Genome Analyzer IIx (6)
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Racham server on Uppmax, NAISS (3)
FACS Aria-III (3)
Element AVITI (2)
Agilent Microarray Scanner G2505C (2)
Agilent Hybridisation Oven G2545A (2)
Infors HT Multitron shaker (2)
Retsch MM400 (2)
G2565CA DNA microarray scanner (Agilent) for scanning. (2)
Chamber type: SureHyb hybridization chamber (Agilent). (2)
GenePix 4000B [Axon Instruments] (2)
NA (2)
Illumina HiSeq X (2)
HiSeq X Ten (2)
NanoString nCounter (1)
TruSeq stranded Total RNA kit (1)

Publication Date

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2019 (435)
2016 (411)
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2013 (351)
2018 (336)
2017 (243)
2012 (229)
2011 (143)
2010 (142)
2009 (41)
2008 (38)
2007 (11)
2006 (8)
2005 (4)
2004 (3)
2003 (1)
2002 (1)

UNIPROT ID/AC

OL149_MOUSE (1)
A0A1B0GRF0_MOUSE (1)
Q7TRR2_MOUSE (1)
L7N224_MOUSE (1)
Q3TFZ4_MOUSE (1)
P3_MOUSE (1)
F228A_MOUSE (1)
DPPA4_MOUSE (1)
SE1L3_MOUSE (1)
ESRP1_MOUSE (1)
A2CG24_MOUSE (1)
Q3V0I7_MOUSE (1)
Q8VGZ8_MOUSE (1)
MEIOB_MOUSE (1)
NELL1_MOUSE (1)
Q8VG01_MOUSE (1)
CCD42_MOUSE (1)
CLD19_MOUSE (1)
HSF2_MOUSE (1)
FBXL6_MOUSE (1)
HXD10_MOUSE (1)
UTF1_MOUSE (1)
KRA52_MOUSE (1)
PO5F1_MOUSE (1)
ARRD2_MOUSE (1)
Q80ZR9_MOUSE (1)
PHX2B_MOUSE (1)
TICN3_MOUSE (1)
Q9D141_MOUSE (1)
5HT2B_MOUSE (1)

ENSEMBL ID

ENSG00000170477 (2)
ENSG00000247315 (1)

CHEBI ID

CHEBI:32816 (20)
CHEBI:17568 (20)
CHEBI:15428 (19)
CHEBI:16027 (18)
CHEBI:16708 (18)
CHEBI:15741 (18)
CHEBI:17895 (18)
CHEBI:17368 (18)
CHEBI:30769 (18)
CHEBI:18012 (17)
CHEBI:17596 (17)
CHEBI:17754 (16)
CHEBI:16856 (16)
CHEBI:16335 (16)
CHEBI:16015 (16)
CHEBI:16108 (13)
CHEBI:16761 (11)
CHEBI:15978 (10)
CHEBI:16908 (10)
CHEBI:15422 (9)
CHEBI:4170 (7)
CHEBI:4167 (1)
CHEBI:16084 (1)
CHEBI:29052 (1)
CHEBI:28013 (1)
CHEBI:17835 (1)
CHEBI:17794 (1)
CHEBI:16001 (1)
CHEBI:15846 (1)
CHEBI:18021 (1)

Metabolite Name

Glycine (13)
Adenosine (13)
L-Tyrosine (13)
L-Phenylalanine (13)
Xanthine (12)
Uracil (11)
Glutathione (11)
L-Isoleucine (11)
L-Leucine (11)
Hypoxanthine (11)
L-Proline (10)
L-Threonine (10)
Taurine (10)
L-Tryptophan (10)
Adenine (10)
Creatine (10)
L-Methionine (10)
Inosine (10)
Glycerol (9)
L-Alanine (9)
Thymine (9)
L-Lysine (9)
Ornithine (9)
Succinic acid (9)
L-Glutamic acid (9)
Citric acid (9)
Stearic acid (9)
Myo-Inositol (9)
Palmitic acid (9)
Cytidine (9)

First Public Date

2014 (117)
2025 (103)
2024 (90)
2023 (66)
2022 (58)
2020 (55)
2026 (53)
2021 (51)
2018 (42)
2019 (37)
2017 (27)
2016 (23)
2015 (22)
2013 (22)

Modelling Approach

Ordinary differential equation model (1)

Study status

Withdrawn (1)
Not provided (1)

Lab affiliation

Head of the Curie Institute Mass Spectrometry Platform (35)
Amsterdam UMC, Vrije Universiteit Amsterdam, Medical Oncology, Cancer Center Amsterdam, OncoProteomics Laboratory, Amsterdam, Netherlands (20)
University of Oxford (19)
The University of Melbourne (17)
UCSF (16)
University of Vienna, Faculty of Chemistry, Department of Analytical Chemistry (16)
UCSD (15)
Chair of Biochemistry II, Theodor Boveri-Institute, Biocenter, University of Würzburg, Würzburg, Germany (14)
Molecular Genetics, RPTU Kaiserslautern, Germany (14)
CRUK - Beatson Institute for Cancer Research - Switchback Rd, Bearsden, Glasgow G61 1BD - United Kingdom (13)
EDyP (13)
Proteomics program, Novo Nordisk Foundation Center for Protein Research, Faculty of Health and Medical Sciences, University of Copenhagen, Blegdamsvej 3B, 2200 Copenhagen, Denmark (12)
Cornell University (12)
University of Bristol (11)
Institute of Molecular Biology (IMB), Mainz, Germany (11)
University of Edinburgh (11)
School of Biological Sciences, Nanyang Technological University, Singapore (10)
Associate Member, St. Jude Faculty Developmental Neurobiology St. Jude Children's Research Hospital Memphis, TN-38105 (10)
School of Biological Sciences, Nanyang Technological University (10)
The University of Sydney (10)
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 (10)
Professor of Genomic Evolution, School of Medicine, Conway Institute of Biomolecular and Biomedical Research, University College Dublin Belfield Dublin 4 (9)
OncoProteomics Laboratory, Dept of Medical Oncology, VU University Medical Center, Amsterdam, The Netherlands (9)
Department of Biochemistry and Functional Proteomics, Institute of Biology II, Faculty of Biology and BIOSS Centre for Biological Signalling Studies, University of Freiburg, 79104 Freiburg im Breisgau, Germany (9)
Department of Chemistry and Chemical Biology, Harvard University (9)
Weizmann Institute of Science (9)
Department of Microbiology and Immunology, University of Melbourne at the Peter Doherty Institute for Infection and Immunity, Melbourne 3000, Australia (9)
Whitehead Institute for Biomedical Research and Massachusetts Institute of Technology (8)
CRUK Beatson Institute (8)
Department of Neurobiology, Boston Children's Hospital, Harvard Medical School, Boston, MA, USA (8)

Keyword

Tumor Therapeutic Vaccine (1)
Dendritic Cell (1)

IsPrivate

False (1)

Classification

bacteria (23)
viruses (7)
protozoa (2)
helminths (1)

Modification

2x(15)N labeled L-lysine (29)
4x(15)N labeled L-arginine (26)
4-tetrahydrothiazine-3-carboxylic acid (11)
15.994915 (10)
N6-dimethyl-L-lysine (8)
42.010565 (6)
N6 (5)
32.056407 (4)
6.020129 (4)
4 (4)
57.021464 (4)
Not available (4)
-17.026549 (2)
+3amu) (2)
Light form - site K (1)
Heavy form - site K (1)
45.029395 (1)
1x(15)N labeled L-leucine (1)
79.966331 (1)
3x(2)H labeled N6-acetyl-L-lysine (1)
4x(2)H labeled dimethylated residue (1)
58.005479 (1)
57.02146 (1)
0.984 (1)
15.99491 (1)
4x(2)H labeled dimethylated L-lysine (1)

Study type

ChIP-seq (803)
Transcription profiling by array (522)
RNA-seq of coding RNA (322)
Other (73)
ChIP-chip by tiling array (58)
RNA-seq of non coding RNA (41)
Proteomic profiling by array (34)
ChIP-chip by array (21)
RIP-seq (20)
Comparative genomic hybridization by array (15)
Ribo-seq (15)
Methylation profiling by array (14)
RNA-seq of total RNA (14)
Methylation profiling by high throughput sequencing (13)
Cell line - High-throughput sequencing (10)
CLIP-seq (10)
High-throughput sequencing (9)
DNA-seq (8)
Translation profiling (7)
Transcription profiling by tiling array (7)
Transcription profiling by RT-PCR (7)
RNA-seq of coding RNA from single cells (7)
Genotyping by array (6)
Unknown experiment type (5)
Animal - High-throughput sequencing (4)
Animal - Single-cell sequencing (3)
Human - High-throughput sequencing (3)
Proteomic profiling by mass spectrometer (3)
MicroRNA profiling by array (3)
Genotyping by high throughput sequencing (2)

Release Date

2014 (502)
2015 (492)
2013 (450)
2016 (408)
2012 (349)
2021 (336)
2022 (316)
2020 (289)
2023 (278)
2024 (252)
2017 (248)
2010 (246)
2011 (243)
2025 (238)
2019 (237)
2018 (237)
2009 (107)
2008 (102)
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2007 (41)
2006 (38)
2005 (27)
2004 (22)
1999 (22)
2000 (21)
2003 (19)
2002 (19)
2001 (16)
1998 (16)
1997 (7)

Location

United States (1)

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Shotgun lipidomics of HeLa whole-cell lysates and lysosomes following LLOMe treatment

Perturbations in lysosome integrity are tightly linked to neurological disorders and ageing, but the underlying pathogenic mechanisms are incompletely understood. Using an unbiased proteomic approach, we here identified the bridge-like lipid transport protein VPS13C/PARK23 as a key component of a...

2026-07-03 | MTBLS14737 | MetaboLights

Effect of embryo lysates treatment on gene expression.

PRJNA1104627 | ENA

C57Bl6J retina lysates

PRJNA870946 | ENA

Effect of embryo lysates treatment on small RNA expression

PRJNA1104625 | ENA

Analysis of RNA-TAG labeling in HeLa lysates

PRJNA627877 | ENA

Effect of embryo lysates treatment on gene expression.

To systematically evaluate the effect of embryo lysates feeding, we conducted RNA sequencing (RNA-seq) on day 7 N2 worms treated with embryo lysates. Our findings revealed that embryo lysates affected the expression of genes related to fatty acid metabolism, degradation of branched-chain amino acids...

ORGANISM(S): Caenorhabditis elegans

2024-09-07 | GSE265886 | GEO

Effect of embryo lysates treatment on small RNA expression

To systematically evaluate the effect of embryo lysates feeding, we conducted small RNA sequencing on day 7 N2 worms treated with either embryo or day 6 worm lysates. Our findings revealed that embryo lysates affected the 21ur-6059 expression.

ORGANISM(S): Caenorhabditis elegans

2024-09-07 | GSE265889 | GEO

Expression data of Gata4 endothelial cell-subtype specific knockout whole liver lysates

PRJNA591646 | ENA

C57Bl6J retina lysates in oxygen-induced retinopathy

PRJNA666571 | ENA

Transcriptomic responses to iron bioavailability from virus-mediated lysates in marine prokaryotes

PRJNA701426 | ENA

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