Multiplexing - OmicsDI

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Unknown (1958)
Genomics (676)
Transcriptomics (557)
Proteomics (282)
Other (16)
Methylation profiling (4)
Metabolomics (4)
Models (1)
Multiomics (1)

Organisms

Homo sapiens (325)
Mus musculus (227)
Drosophila melanogaster (29)
Arabidopsis thaliana (26)
Saccharomyces cerevisiae (17)
Schizosaccharomyces pombe (12)
Chlorocebus sabaeus (12)
Triticum aestivum (8)
Danio rerio (8)
Gallus gallus (8)
Caenorhabditis elegans (7)
Rattus norvegicus (7)
Herbaspirillum seropedicae SmR1 (4)
Oryza sativa Japonica Group (4)
Amphimedon queenslandica (3)
Strongylocentrotus purpuratus (3)
Zea mays subsp. mays (3)
Canis lupus familiaris (3)
Caenorhabditis remanei (2)
Shewanella oneidensis MR-1 (2)
Lolium perenne (2)
Zea mays (2)
Mycobacterium tuberculosis (2)
Mesocricetus auratus (2)
Hordeum vulgare subsp. vulgare (2)
Solanum lycopersicum (2)
Pseudomonas aeruginosa (2)
Sus scrofa (2)
Rattus (1)
Hypsibius dujardini (1)

Organisms

Homo sapiens (136)
Mus musculus (117)
Salmonella enterica subsp. enterica serovar Typhi (8)
Drosophila melanogaster (7)
Rattus norvegicus (6)
Arabidopsis thaliana (4)
soil metagenome (4)
Pleurodeles waltl (3)
Caenorhabditis elegans (3)
Ciona robusta (2)
Danio rerio (2)
Sus scrofa (2)
Macaca mulatta (2)
Saccharomyces cerevisiae (2)
Severe acute respiratory syndrome coronavirus 2 (2)
Oncorhynchus clarkii lewisi (1)
Thermococcus paralvinellae (1)
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Psychotria rubra (1)
Psychotria manillensis (1)
Psychotria serpens (1)
Psychotria boninensis (1)
1766826 (1)
Psychotria homalosperma (1)
Synthetic plasmid (1)
pollen metagenome (1)
Escherichia coli O25b:H4-ST131 (1)
Meleagris gallopavo (1)
Porphyromonas gingivalis (1)
Bubalus bubalis (1)

Repository

biostudies-arrayexpress (568)
ENA (519)
pride (224)
geo (146)
MassIVE (34)
EGA (19)
PeptideAtlas (10)
PanoramaPublic (6)
iProX (4)
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Tissue

Cell culture (49)
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Disease

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Disease free (5)
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Myotonic dystrophy type 1 (2)
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Melanoma (2)
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Not Available (1)
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Progressive supranuclear palsy (1)
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Psoriasis (1)
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Hypertrophic cardiomyopathy (1)
Obesity (1)
Prostate adenocarcinoma (1)
Pancreatic ductal adenocarcinoma (1)
Neuroblastoma (1)
Cardiovascular system disease (1)
Colorectal cancer (1)
Brain cancer (1)
Influenza (1)

Technology Type

Mass Spectrometry (224)
Shotgun proteomics (142)
Bottom-up proteomics (47)
Data-dependent acquisition (20)
Data-independent acquisition (19)
Top-down proteomics (10)
SRM/MRM (7)
Affinity purification coupled with mass spectrometry proteomics (7)
SWATH MS (6)
Gel-based experiment (5)
All-ion fragmentation (3)
ILLUMINA, Illumina HiSeq 2000 (1)
Illumina HiSeq 2000 (1)
Illumina MiSeq (1)
Mass spectrometry (1)
PAcIFIC (1)
HDMSE (1)

Instrument Platform

Illumina NovaSeq 6000 (72)
NextSeq 500 (55)
Illumina HiSeq 2000 (40)
Illumina HiSeq 2500 (39)
Illumina HiSeq 4000 (36)
Illumina NovaSeq X (10)
NextSeq 550 (8)
NextSeq 2000 (7)
Illumina Genome Analyzer II (6)
Illumina MiSeq (6)
AB SOLiD 4 System (4)
NextSeq 1000 (4)
BD Rhapsody (3)
Illumina NextSeq 500 (3)
BD Influx sorter (2)
Agilent Bravo NGS workstation, Microlab STAR automated liquid handler (Hamilton Robotics), PCR machine (MJ Research Peltier Thermal Cycler) (2)
Standard molecular biology equipment (per Lexogen SENSE mRNA-seq kit protocol) (2)
NanoDrop ND-1000 spectrophotometer; Agilent 2100 Bioanalyzer (2)
IEO HPC (2)
AB SOLiD 3 Plus System (2)
None (2)
NA (2)
Illumina HiSeq X (2)
N/A (2)
DNBSEQ-G400 (2)
MinION (2)
Illumina HiSeq 1500 (2)
Illumina NOVAseq 6000 (1)
Centrifuge (4 °C); ice/cold block (1)
Tissue Homogenizer (required to process mucosal tissue for the miRNeasy kit). Refrigerated Centrifuge (4 °C) (required for the miRNeasy protocol). (1)

Publication Date

2015 (99)
2025 (95)
2026 (83)
2014 (77)
2024 (75)
2023 (74)
2016 (74)
2021 (71)
2013 (69)
2022 (61)
2020 (58)
2019 (46)
2018 (45)
2012 (34)
2017 (22)
2010 (7)
2011 (5)
2008 (2)
2005 (1)

UNIPROT ID/AC

Q0DSC3_ORYSJ (2)
A0A024FLK4_ORYSJ (2)
A0A0P0W9W2_ORYSJ (2)
Q9SXV0_ORYSJ (2)
FDH1_ORYSJ (2)
Q84TA1_ORYSJ (2)
RK27_ORYSJ (2)
Q6K241_ORYSJ (2)
ALFC1_ORYSJ (2)
Q10LV9_ORYSJ (2)
A0A0P0XWA7_ORYSJ (2)
6PGL4_ORYSJ (2)
GSTF2_ORYSJ (2)
Q5JK31_ORYSJ (2)
Q7XQN5_ORYSJ (2)
Q53Q89_ORYSJ (2)
ALFC3_ORYSJ (2)
RS3A_ORYSJ (2)
Q5QMK7_ORYSJ (2)
BGL27_ORYSJ (2)
Q94LR9_ORYSJ (2)
Q2QX49_ORYSJ (2)
ARGC_ORYSJ (2)
Q9ZWR5_ORYSJ (2)
Q7X8A1_ORYSJ (2)
Q2QXL3_ORYSJ (2)
Q6Z0P6_ORYSJ (2)
CLPC2_ORYSJ (2)
Q8H590_ORYSJ (2)
Q6Z3X5_ORYSJ (2)

ENSEMBL ID

ENSG00000229353 (10)
ENSG00000170477 (10)

CHEBI ID

CHEBI:189460 (1)
CHEBI:20386 (1)
CHEBI:145239 (1)
CHEBI:77343 (1)
CHEBI:25520 (1)
CHEBI:67245 (1)
CHEBI:67244 (1)
CHEBI:21484 (1)
CHEBI:175113 (1)
CHEBI:24168 (1)
CHEBI:80656 (1)
CHEBI:38747 (1)
CHEBI:65004 (1)
CHEBI:28586 (1)
CHEBI:19274 (1)
CHEBI:271436 (1)
CHEBI:74968 (1)
CHEBI:47772 (1)
CHEBI:132991 (1)
CHEBI:79162 (1)
CHEBI:50202 (1)
CHEBI:32817 (1)
CHEBI:23053 (1)
CHEBI:61572 (1)
CHEBI:33277 (1)
CHEBI:33270 (1)
CHEBI:165873 (1)
CHEBI:58527 (1)
CHEBI:18083 (1)
CHEBI:9299 (1)

Metabolite Name

Lariciresinol 4-O-glucoside (1)
Beta-tyrosine (1)
Dehydrophytosphingosine* (1)
Sesamin (1)
Linolenoyl ethanolamide (1)
Valine betaine (1)
1-oleoyl-2-linoleoyl-GPI (18:1/18:2)* (1)
Feruloylputrescine (1)
1-eicosenoyl-GPC (20:1)* (1)
Nicotianamine (1)
Pinoresinol (1)
Lariciresinol (1)
Hydroxymethylpyrimidine (1)
Indoleacetylaspartate (1)
P-coumaroylserotonin (1)
Digalactosylglycerol* (1)
Galactosylglycerol (1)
4-oxo-retinoic acid (1)
Oleanolate (1)
1-aminocyclopropanecarboxylic acid (1)
Dihydroquercetin (1)
Secoisolariciresinol (1)
Verbascose (1)
Pheophytin A (1)
Dihydrokaempferol (1)
Deoxymugineic acid (1)
Pheophorbide A (1)
Coniferyl aldehyde (1)
4-hydroxycinnamate (1)
Vanillate (1)

First Public Date

2024 (85)
2025 (83)
2026 (77)
2023 (41)
2021 (39)
2022 (37)
2018 (32)
2019 (31)
2020 (18)
2015 (18)
2013 (18)
2017 (15)
2016 (13)
2014 (10)
2012 (1)
2011 (1)

Modelling Approach

Ordinary differential equation model (1)

Lab affiliation

Cellzome (6)
Department of Cell Biology, Harvard Medical School, USA (4)
1VIB-UGent Center for Medical Biotechnology, VIB, 9052 Ghent, Belgium 2Department of Biomolecular Medicine, Ghent University, 9052 Ghent, Belgium (4)
Department of Laboratory Medicine and Pathology, Mayo Clinic (3)
Harvard medical school (3)
State Key Laboratory of Genetic Engineering, Department of Biochemistry and Biophysics, School of Life Sciences, Fudan University, Shanghai 200438, China (3)
Department of Cell Biology Harvard Medical School Boston, MA 02115 (3)
Department of Cell Biology, Harvard Medical School, Boston, MA, USA (3)
Harvard Medical School Department of Cell Biology Harvard Medical School Boston, MA, USA (2)
VIB-UGent Center for Medical Biotechnology UGent Department of Biomolecular Medicine Technologiepark-Zwijnaarde 75 B9052 Gent Belgium (2)
Department of Biochemistry and Microbiology, Ghent University, Belgium (2)
Universitätsklinikum Frankfurt am Main, Institut für Biochemie II (2)
Department of Biological Chemistry, University of California Los Angeles, Los Angeles, California (2)
Department of Cell Biology Harvard Medical School Boston, MA, USA (2)
The University of Sydney (2)
University of Manchester (2)
Department of Cell Biology, Harvard Medical School (2)
Princeton University (2)
Max Planck Institute of Biochemistry (2)
Laboratoire de Spectrométrie de Masse BioOrganique, Analytical Science department, IPHC, CNRS, Strasbourg University, UMR7178, Strasbourg, France (2)
Harvard Medical School (2)
Harvard Medical School, Boston, MA, USA (1)
Professor Department of Laboratory Medicine and Pathology Mayo Clinic 200 First St SW, Rochester, MN – 55905, USA (1)
V. L. Talrose Institute for Energy Problems of Chemical Physics, N. N. Semenov Federal Research Center for Chemical Physics, Russian Academy of Sciences, 119334 Moscow, Russia (1)
Associate Professor, Department of Chemistry, Vanderbilt University (1)
Prof. Dr. Albert Sickmann President Leibniz-Institut für Analytische Wissenschaften – ISAS – e.V. Otto-Hahn-Straße 6b 44227 Dortmund, Germany P: +49 (0)2 31.13 92-100 F: +49 (0)2 31.13 92-200 albert.sickmann@isas.de www.isas.de twitter.com/isas_Leibniz (1)
Parallel Squared Technology Institute, Watertown, Massachusetts 02472, USA Department of Bioengineering, Northeastern University, Boston, MA 02115, USA (1)
Department of Chemistry, University of California, Riverside, CA 92502, USA (1)
Novo Nordisk Foundation Center for Protein Research, Proteomics Program, University of Copenhagen, Denmark (1)
Center for Medical Genetics, Ghent University and University Hospital, Ghent, Belgium (1)

IsPrivate

False (1)

Classification

bacteria (13)
viruses (2)

Modification

N6 (1)
4x(15)N labeled L-arginine (1)
N6-dimethyl-L-lysine (1)

Study type

RNA-seq of coding RNA (263)
RNA-seq of coding RNA from single cells (78)
ChIP-seq (69)
Methylation profiling by high throughput sequencing (24)
Other (23)
RNA-seq of non coding RNA (23)
DNA-seq (14)
RNA-seq of total RNA (12)
Ribo-seq (10)
Transcription profiling by array (7)
Cell line - High-throughput sequencing (5)
ATAC-seq (5)
Human - High-throughput sequencing (4)
Animal - High-throughput sequencing (4)
High-throughput sequencing (3)
MicroRNA profiling by high throughput sequencing (3)
Single nucleus RNA sequencing (3)
Translation profiling (2)
Transcription profiling by tiling array (2)
CLIP-seq (2)
Unknown experiment type (1)
RNA-seq of non coding RNA from single cells (1)
MeDIP-seq (1)
Animal - Single-cell sequencing (1)
Human - Single-cell sequencing (1)
Plant - High-throughput sequencing (1)
Trajectory (1)
Spatial transcriptomics by high-throughput sequencing (1)
Bisulfite-seq (1)
4C (1)

Release Date

2025 (281)
2023 (252)
2024 (227)
2022 (218)
2021 (194)
2020 (183)
2015 (155)
2019 (153)
2018 (152)
2016 (140)
2014 (130)
2013 (111)
2017 (108)
2026 (78)
2012 (63)
2011 (24)
2010 (16)
2009 (16)
2007 (9)
2008 (5)
2004 (4)
2006 (3)
2001 (2)
2003 (1)
1998 (1)

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Sample multiplexing for retinal single-cell RNA-sequencing

PRJNA1071096 | ENA

Data-independent acquisition protease-multiplexing enables increased proteome sequence coverage across multiple fragmentation modes

The use of multiple proteases has been shown to increase protein sequence coverage in proteomics experiments, but due to the additional sample preparation and analysis time required, it has not been widely adapted in routine proteomic workflows. While data-independent acquisition (DIA) has been prim...

ORGANISM(S): Homo sapiens (Human)

2022-03-18 | PXD027242 | Pride

Enhanced sample multiplexing-based targeted proteomics with intelligent data acquisition

Targeted proteomics has been playing an increasingly important role in hypothesis-driven protein research and clinical bi-omarker discovery. We have previously created a workflow, Tomahto, to enable real-time targeted pathway proteomics assays using two-dimensional multiplexing technology. Coupled w...

ORGANISM(S): Homo Sapiens (ncbitaxon:9606)

2024-08-14 | MSV000095604 | MassIVE

CellTag Indexing: genetic barcode-based sample multiplexing for single-cell genomics

PRJNA533780 | ENA

Large scale multiplexing of SARS-CoV-2 genomes using nanopore sequencing

PRJEB38723 | ENA

Label-free single-cell RNA Multiplexing leveraging genetic variability [scRNA-seq]

PRJNA1040191 | ENA

Simple oligonucleotide-based multiplexing of single-cell chromatin accessibility

PRJNA683040 | ENA

Label-free single-cell RNA Multiplexing leveraging genetic variability [bulk RNA-seq]

PRJNA1040192 | ENA

An optimized approach for multiplexing single-cell ATAC-seq using oligonucleotide conjugated antibodies

PRJNA945448 | ENA

CellTag Indexing: genetic barcode-based sample multiplexing for single-cell genomics

High-throughput single-cell assays increasingly require special consideration in experimental design, sample multiplexing, batch effect removal, and data interpretation. Here, we describe a lentiviral barcode-based multiplexing approach, CellTag Indexing, which uses predefined genetic barcodes that ...

ORGANISM(S): Mus musculus Homo sapiens

2019-04-20 | GSE130065 | GEO

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3498 Results

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