Hff - OmicsDI

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Unknown (278)
Genomics (172)
Transcriptomics (156)
Proteomics (71)
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Methylation profiling (1)

Organisms

Homo sapiens (153)
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Toxoplasma gondii (15)
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Human herpesvirus 5 strain Towne (2)
Human alphaherpesvirus 1 strain 17 (2)
Toxoplasma gondii RH (2)
Human herpesvirus 8 strain rKSHV.219 (1)
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cellular organisms (1)

Organisms

Homo sapiens (110)
Toxoplasma gondii (6)
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Repository

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pride (65)
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Tissue

Fibroblast (19)
Cell culture (16)
Foreskin fibroblast (5)
Foreskin fibroblast cell line (5)
Follicular fluid (4)
Primary cell (4)
Embryonic stem cell (2)
Epithelial cell (2)
HFF-1 cell (2)
Skin (2)
Tachyzoite (2)
Blood cell (1)
Cell lysate (1)
Epithelial cell line (1)
Hepatic stellate cell (1)
Monocyte (1)
Neuron (1)
Permanent cell line cell (1)
Pluripotent stem cell (1)
Stem cell (1)

Disease

Toxoplasmosis (8)
Disease free (3)
Normal (1)
Colon cancer (1)
Herpes simplex (1)
Upper respiratory tract disease (1)

Technology Type

Mass Spectrometry (65)
Shotgun proteomics (50)
Affinity purification coupled with mass spectrometry proteomics (12)
Bottom-up proteomics (7)
Mass spectrometry (5)
Gel-based experiment (4)
Data-dependent acquisition (3)
SWATH MS (3)
Affinity proteomics (1)
Chemical cross-linking coupled with mass spectrometry proteomics (1)
Data-independent acquisition (1)

Instrument Platform

Liquid Chromatography MS - negative - reverse phase (4)
Q Exactive Plus (3)
Gas Chromatography MS - positive (3)
Liquid Chromatography MS - positive - reverse phase (3)
Illumina NovaSeq 6000 (2)
SnakePipes 3.4 (1)
NEBNext Ultra II DNA Library Prep Kit (1)
None (1)
Illumina Genome Analyzer II (1)
Illumina HiSeq 2000 (1)
Illumina HiSeq 4000 (1)
NextSeq 500 (1)
Hybrid Quadrupole-Orbitrap high resolution mass spectrometer (Q Exactive Orbitrap; Thermo Scientific) (1)
Liquid Chromatography MS - negative - hilic (1)
4000 Q TRAP (1)

Publication Date

2012 (32)
2023 (22)
2021 (21)
2020 (21)
2014 (21)
2024 (19)
2010 (15)
2015 (13)
2022 (12)
2013 (10)
2018 (9)
2026 (7)
2025 (7)
2017 (7)
2011 (7)
2005 (6)
2016 (5)
2019 (4)
2009 (3)
2008 (3)
2006 (3)
2003 (2)
2007 (1)

CHEBI ID

CHEBI:7916 (4)
CHEBI:141588 (3)
CHEBI:16856 (3)
CHEBI:18237 (3)
CHEBI:17533 (3)
CHEBI:15741 (3)
CHEBI:37024 (3)
CHEBI:16865 (3)
CHEBI:15891 (3)
CHEBI:65294 (2)
CHEBI:65302 (2)
CHEBI:65301 (2)
CHEBI:28846 (2)
CHEBI:15531 (2)
CHEBI:42111 (2)
CHEBI:30831 (2)
CHEBI:24266 (2)
CHEBI:7125 (2)
CHEBI:27997 (2)
CHEBI:64525 (2)
CHEBI:64516 (2)
CHEBI:66848 (2)
CHEBI:65303 (2)
CHEBI:18066 (2)
CHEBI:15468 (2)
CHEBI:16113 (2)
CHEBI:17200 (2)
CHEBI:44215 (2)
CHEBI:33508 (2)
CHEBI:15784 (2)

Metabolite Name

Acetyl-CoA (2)
Beta-Nicotinamide adenine dinucleotide (2)
DCDP (2)
Pantothenate (2)
Pyroglutamic acid (2)
CDP (2)
Acetylcarnitine (2)
D-sedoheptulose-1-phosphate (1)
N-acetyl-glucosamine-6-phosphate (1)
Orotidine-5'-phosphate (1)
Octulose Bisphosphate (1)
Cyclic bis(3'->5') dimeric GMP (1)
Guanosine 5'-diphosphate-3'-diphosphate (1)
Trans,trans-farnesyl diphosphate (1)
Adenosine 5'-phosphosulfate (1)
Sedoheptoluse bisphosphate (1)
Octulose 1-phosphate (1)
Octulose 8-phosphate (1)
Xanthosine-5-phosphate (1)
Thiamine-phosphate (1)
Ribose-phosphate (1)
Methylnicotinamide (1)
Butyryl-CoA (1)
3-hydroxybutyryl-CoA (1)
3-hydroxy-3-methylglutaryl-CoA (1)
5-phosphoribosyl-1-pyrophosphate (1)
Methylmalonyl-CoA (1)
Malonyl-coa (1)
PC 40:6|PC 18:1_22:5 (1)
PC 38:4|PC 18:1_20:3 (1)

First Public Date

2014 (40)
2025 (18)
2020 (14)
2023 (13)
2026 (12)
2019 (12)
2021 (9)
2024 (8)
2022 (7)
2018 (6)
2017 (6)
2015 (6)
2016 (5)
2013 (3)

Classification

protozoa (9)

Modification

15.994915 (1)
57.021464 (1)
Not available (1)

Study type

Transcription profiling by array (44)
Transcription profiling by tiling array (20)
RNA-seq of coding RNA (8)
Comparative genomic hybridization by array (3)
RNA-seq of non coding RNA (2)
Unknown experiment type (1)
Differential (1)
MicroRNA profiling by high throughput sequencing (1)
Other (1)
ChIP-seq (1)
MicroRNA profiling by array (1)
Methylation profiling by array (1)
CUT&RUN (1)
Methylation profiling by high throughput sequencing (1)

Release Date

2020 (36)
2021 (33)
2022 (33)
2023 (30)
2025 (29)
2012 (24)
2024 (24)
2018 (18)
2010 (17)
2015 (16)
2019 (16)
2014 (15)
2013 (15)
2017 (13)
2011 (10)
2016 (9)
2005 (5)
2026 (4)
2009 (4)
2008 (4)
2006 (3)
2004 (2)
2007 (1)
2003 (1)
2002 (1)
1998 (1)

Lab affiliation

Associate Professor, Department of Biology, Massachusetts Institute of Technology and Whitehead Institute of Biomedical Research (4)
Whitehead Institute for Biomedical Research and Massachusetts Institute of Technology (4)
EDyP (3)
Laboratory of Biopolymer Structure, Intercollegiate Faculty of Biotechnology UG-MUG, University of Gdansk, Gdansk, Poland (3)
State Key Laboratory of Veterinary Etiological Biology, Key Laboratory of Veterinary Parasitology of Gansu Province, Lanzhou Veterinary Research Institute, Chinese Academy of Agricultural Sciences, Lanzhou, Gansu Province 730046, PR China (3)
Associate Professor, Department of Biology, Massachusetts Institute of Technology and Whitehead Institute for Biomedical Research (2)
Associate Professor, Whitehead Institute for Biomedical Research and Massachusetts Institute of Technology (2)
Chemistry I, Department of Medical Biochemistry and Biophysics, Karolinska Institutet SE 17177 Stockholm, Sweden. Department of Pharmacological & Technological Chemistry, I.M. Sechenov First Moscow State Medical University, Moscow, 119146, Russia. (2)
Department of Biochemistry, University of Cambridge, UK (2)
Signalling in Apicomplexan Parasites Laboratory, The Francis Crick Institute, London NW1 1AT, UK (2)
Associate Professor, Department of Biology, Massachusetts Institute of Technology (1)
Associate Professor, Department of Biology, Massachusetts Institute of Technology and the Whitehead Institute for Biomedical Research (1)
CIISA - Centro de Investigação Interdisciplinar em Sanidade Animal, Faculdade de Medicina Veterinária, Universidade de Lisboa, Lisboa, Portugal (1)
CNRS UMR 7178 IPHC-DSA-LSMBO (1)
CSIR- Centre for Cellular and Colecular Biology (CCMB), Hyderabad, 500007, India (1)
College of Veterinary Medicine, Gansu Agricultural University (1)
College of Veterinary Medicine, Huazhong Agricultural University, Wuhan 430070, Hubei, PR China (1)
Department of Biochemistry and Biophysics Smilow Center for Translational Research Perelman School of Medicine University of Pennsylvania Room 9-124 (office) 3400 Civic Center Blvd Philadelphia, PA 19104 215-573-9423 (office) (1)
Department of Experimental Parasitology LMU MÃ¼nchen Lena-Christ-Str. 48 82152 Planegg-Martinsried Telefon: +49 (0) 89 2180 - 3622 Fax: +49 (0) 89 2180 - 3623 E-Mail: markus.meissner@lmu.de (1)
Department of Internal Medicine I Division of Infectious Diseases Medical University of Vienna, Austria (1)
Department of Internal Medicine I Division of Infectious Diseases, Medical University of Vienna, Austria (1)
Department of Molecular Biology, Cristea Lab, Princeton University, Princeton, NJ, US (1)
Department of Molecular Biology, Cristea Lab, Princeton University, USA (1)
Department of Molecular Biology, Princeton University, USA (1)
Department of Pathology and Laboratory Medicine, University of Pennsylvania Perelman School of Medicine, Philadelphia, PA USA Division of Cancer Pathobiology, Children's Hospital of Philadelphia, Philadelphia, PA USA (1)
Division of Physiological Chemistry I, Department of Medical Biochemistry and Biophysics, Karolinska Institutet, SE-17 177 Stockholm, Sweden SciLIfeLab, SE-17 177 Stockholm, Sweden Department of Pharmacological & Technological Chemistry, I.M. Sechenov First Moscow State Medical University, Moscow, 119146, Russia (1)
Dr Andreas Pichlmair, Prof. Andreas Pichlmair, Technical University Munich, Faculty of Medicine, Institute of Virology, Viral Immunopathology, Schneckenburger Str. 8, D-81675 Munich, Germany (1)
Epigenetics Program, Department of Biochemistry and Biophysics, Perelman School of Medicine, University of Pennsylvania (1)
Faculty of Biology, Technion – Israel Institute of Technology (1)
Faculty of Life Sciences & Medicine, King’s College London, 150 Stamford Street, London SE1 9NH, United Kingdom. (1)

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The comparison of exosomal miRNAs from ECM or media derived from HFF-CBD-Lamp2b cells, HFF cells, HFF-Lamp2b cells and hUCMSCs

The next-generation sequencing technology was used to investigate the difference of RNAs content among the different types of exosomes from the media of HFF cells, HFF-Lamp2b cells and hUCMSCs, and from the ECM of HFF-CBD-Lamp2b cells

ORGANISM(S): Homo sapiens

2021-10-12 | E-MTAB-10905 | biostudies-arrayexpress

Genome-wide analysis of gene expression response upon infection with Toxoplasma gondii

The in vitro effect of infection with different strains of Toxoplasma gondii was tested 24 hours after infection of Human Foreskin Fibroblasts (HFF) The strains tested include RH, VEG, and transgenic strains of RH overexpressing ROP38 or ROP21 Total RNA of Toxoplasma gondii infected HFF cell was com...

ORGANISM(S): Homo sapiens

2010-07-31 | E-GEOD-22402 | biostudies-arrayexpress

Mock or latently infected KSHV cells (BCBL, SLK and HFF)

[original title] Mock or latently infected KSHV cells (BCBL, SLK and HFF) vs common reference (mixture of RNA from both infected and uninfected cells). Expression profiling of latently infected cells using a custom tiling microarray. SLK and HFF cells were infected and selected for rKSHV.219. Mock ...

ORGANISM(S): Homo sapiens

2010-06-05 | E-GEOD-20443 | biostudies-arrayexpress

The comparison of exosomal miRNAs from ECM or media derived from HFF-CBD-Lamp2b cells, HFF cells, HFF-Lamp2b cells and hUCMSCs

PRJEB48070 | ENA

Differential expression analysis of HFF cells in G0 phase compared to cells in G1 using TileShuffle

This SuperSeries is composed of the following subset Series: GSE36162: Expression analysis of HFF cells in G0 phase [TileShuffle] GSE36163: Expression analysis of HFF cells in G1 phase [TileShuffle] GSE36164: Differential expression analysis of HFF cells in G0 phase compared to cells in G1 [TileShuf...

ORGANISM(S): Homo sapiens

2012-06-05 | E-GEOD-36190 | biostudies-arrayexpress

Differential expression analysis of HFF cells in G0 phase compared to cells in G1 using MAT

This SuperSeries is composed of the following subset Series: GSE36154: Expression analysis of HFF cells in G0 phase [MAT] GSE36155: Expression analysis of HFF cells in G1 phase [MAT] GSE36156: Differential expression analysis of HFF cells in G0 phase compared to cells in G1 [MAT] Refer to individual...

ORGANISM(S): Homo sapiens

2012-06-05 | E-GEOD-36187 | biostudies-arrayexpress

Differential expression analysis of HFF cells in G0 phase compared to cells in G1 [TileShuffle]

Whole transcriptome differential expression analysis of HFF cells on Affymetrix Human Tiling 1.0 array set. Cells were synchronised by serum starvation and transcriptome-wide changes occurring at the transition from G0 phase to G1 phase detected. Expression data and fold changes were processed with ...

ORGANISM(S): Homo sapiens

2012-12-18 | E-GEOD-36164 | biostudies-arrayexpress

Expression analysis of HFF cells in G0 phase [TileShuffle]

Whole transcriptome expression analysis of HFF cells on Affymetrix Human Tiling 1.0 array set. Cells were synchronised by serum starvation and transcriptome-wide expression in G0 phase. Expression data were processed with our new permutation approach TileShuffle. We analyzed one Affymetrix Human Til...

ORGANISM(S): Homo sapiens

2012-12-18 | E-GEOD-36162 | biostudies-arrayexpress

Expression and differential expression analysis of HFF cells in G0 phase compared to cells in G1 using nONCOchip 2.0 array

Expression and differential expression analysis of long non-coding RNAs and protein-coding genes. HFF cells were synchronised by serum starvation and reside in G0 phase or G1 phase of mitotic cell cycle. We analyzed three arrays each for HFF cells in G0 phase and cells in G1 phase

ORGANISM(S): Homo sapiens

2015-01-23 | E-GEOD-61006 | biostudies-arrayexpress

Expression analysis of HFF cells in G1 phase [TileShuffle]

Whole transcriptome expression analysis of HFF cells on Affymetrix Human Tiling 1.0 array set. Cells were synchronised by serum starvation and transcriptome-wide expression in G1 phase. Expression data were processed with our new permutation approach TileShuffle. We analyzed one Affymetrix Human Til...

ORGANISM(S): Homo sapiens

2012-12-18 | E-GEOD-36163 | biostudies-arrayexpress

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