Transcriptional profiling of macrophages derived from monocytes and iPS cells identifies a conserved response to LPS and novel alternative transcription Article Swipe
Kaur Alasoo
,
Fernando O. Martínez
,
Christine Hale
,
Siamon Gordon
,
Fiona Powrie
,
Gordon Dougan
,
Subhankar Mukhopadhyay
,
Daniel J. Gaffney
·
YOU?
·
· 2015
· Open Access
·
· DOI: https://doi.org/10.1038/srep12524
YOU?
·
· 2015
· Open Access
·
· DOI: https://doi.org/10.1038/srep12524
Macrophages differentiated from human induced pluripotent stem cells (IPSDMs) are a potentially valuable new tool for linking genotype to phenotype in functional studies. However, at a genome-wide level these cells have remained largely uncharacterised. Here, we compared the transcriptomes of naïve and lipopolysaccharide (LPS) stimulated monocyte-derived macrophages (MDMs) and IPSDMs using RNA-Seq. The IPSDM and MDM transcriptomes were broadly similar and exhibited a highly conserved response to LPS. However, there were also significant differences in the expression of genes associated with antigen presentation and tissue remodelling. Furthermore, genes coding for multiple chemokines involved in neutrophil recruitment were more highly expressed in IPSDMs upon LPS stimulation. Additionally, analysing individual transcript expression identified hundreds of genes undergoing alternative promoter and 3′ untranslated region usage following LPS treatment representing a previously under-appreciated level of regulation in the LPS response.
Related Topics
Concepts
Transcriptome
Biology
Chemokine
Gene
Gene expression profiling
Gene expression
Monocyte
Lipopolysaccharide
Induced pluripotent stem cell
Cell biology
Phenotype
Untranslated region
Transcription (linguistics)
RNA
Molecular biology
Genetics
Immunology
Immune system
Embryonic stem cell
Philosophy
Linguistics
Metadata
- Type
- article
- Language
- en
- Landing Page
- https://doi.org/10.1038/srep12524
- https://www.nature.com/articles/srep12524.pdf
- OA Status
- gold
- Cited By
- 100
- References
- 54
- Related Works
- 10
- OpenAlex ID
- https://openalex.org/W2952814417
All OpenAlex metadata
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- OpenAlex ID
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https://openalex.org/W2952814417Canonical identifier for this work in OpenAlex
- DOI
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https://doi.org/10.1038/srep12524Digital Object Identifier
- Title
-
Transcriptional profiling of macrophages derived from monocytes and iPS cells identifies a conserved response to LPS and novel alternative transcriptionWork title
- Type
-
articleOpenAlex work type
- Language
-
enPrimary language
- Publication year
-
2015Year of publication
- Publication date
-
2015-07-30Full publication date if available
- Authors
-
Kaur Alasoo, Fernando O. Martínez, Christine Hale, Siamon Gordon, Fiona Powrie, Gordon Dougan, Subhankar Mukhopadhyay, Daniel J. GaffneyList of authors in order
- Landing page
-
https://doi.org/10.1038/srep12524Publisher landing page
- PDF URL
-
https://www.nature.com/articles/srep12524.pdfDirect link to full text PDF
- Open access
-
YesWhether a free full text is available
- OA status
-
goldOpen access status per OpenAlex
- OA URL
-
https://www.nature.com/articles/srep12524.pdfDirect OA link when available
- Concepts
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Transcriptome, Biology, Chemokine, Gene, Gene expression profiling, Gene expression, Monocyte, Lipopolysaccharide, Induced pluripotent stem cell, Cell biology, Phenotype, Untranslated region, Transcription (linguistics), RNA, Molecular biology, Genetics, Immunology, Immune system, Embryonic stem cell, Philosophy, LinguisticsTop concepts (fields/topics) attached by OpenAlex
- Cited by
-
100Total citation count in OpenAlex
- Citations by year (recent)
-
2025: 8, 2024: 8, 2023: 7, 2022: 13, 2021: 9Per-year citation counts (last 5 years)
- References (count)
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54Number of works referenced by this work
- Related works (count)
-
10Other works algorithmically related by OpenAlex
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| abstract_inverted_index.a | 11, 26, 63, 127 |
| abstract_inverted_index.at | 25 |
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| abstract_inverted_index.LPS | 104, 124, 135 |
| abstract_inverted_index.MDM | 56 |
| abstract_inverted_index.The | 53 |
| abstract_inverted_index.and | 42, 49, 55, 61, 84, 118 |
| abstract_inverted_index.are | 10 |
| abstract_inverted_index.for | 16, 90 |
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| abstract_inverted_index.the | 38, 76, 134 |
| abstract_inverted_index.3′ | 119 |
| abstract_inverted_index.LPS. | 68 |
| abstract_inverted_index.also | 72 |
| abstract_inverted_index.from | 3 |
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| abstract_inverted_index.more | 98 |
| abstract_inverted_index.stem | 7 |
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| abstract_inverted_index.were | 58, 71, 97 |
| abstract_inverted_index.with | 81 |
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| abstract_inverted_index.IPSDM | 54 |
| abstract_inverted_index.cells | 8, 30 |
| abstract_inverted_index.genes | 79, 88, 114 |
| abstract_inverted_index.human | 4 |
| abstract_inverted_index.level | 28, 130 |
| abstract_inverted_index.there | 70 |
| abstract_inverted_index.these | 29 |
| abstract_inverted_index.usage | 122 |
| abstract_inverted_index.using | 51 |
| abstract_inverted_index.(MDMs) | 48 |
| abstract_inverted_index.IPSDMs | 50, 102 |
| abstract_inverted_index.coding | 89 |
| abstract_inverted_index.highly | 64, 99 |
| abstract_inverted_index.naïve | 41 |
| abstract_inverted_index.region | 121 |
| abstract_inverted_index.tissue | 85 |
| abstract_inverted_index.antigen | 82 |
| abstract_inverted_index.broadly | 59 |
| abstract_inverted_index.induced | 5 |
| abstract_inverted_index.largely | 33 |
| abstract_inverted_index.linking | 17 |
| abstract_inverted_index.similar | 60 |
| abstract_inverted_index.(IPSDMs) | 9 |
| abstract_inverted_index.Abstract | 0 |
| abstract_inverted_index.However, | 24, 69 |
| abstract_inverted_index.RNA-Seq. | 52 |
| abstract_inverted_index.compared | 37 |
| abstract_inverted_index.genotype | 18 |
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| abstract_inverted_index.involved | 93 |
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| abstract_inverted_index.exhibited | 62 |
| abstract_inverted_index.expressed | 100 |
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| abstract_inverted_index.phenotype | 20 |
| abstract_inverted_index.response. | 136 |
| abstract_inverted_index.treatment | 125 |
| abstract_inverted_index.associated | 80 |
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| abstract_inverted_index.expression | 77, 110 |
| abstract_inverted_index.functional | 22 |
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| abstract_inverted_index.individual | 108 |
| abstract_inverted_index.neutrophil | 95 |
| abstract_inverted_index.previously | 128 |
| abstract_inverted_index.regulation | 132 |
| abstract_inverted_index.stimulated | 45 |
| abstract_inverted_index.transcript | 109 |
| abstract_inverted_index.undergoing | 115 |
| abstract_inverted_index.Macrophages | 1 |
| abstract_inverted_index.alternative | 116 |
| abstract_inverted_index.differences | 74 |
| abstract_inverted_index.genome-wide | 27 |
| abstract_inverted_index.macrophages | 47 |
| abstract_inverted_index.pluripotent | 6 |
| abstract_inverted_index.potentially | 12 |
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| abstract_inverted_index.significant | 73 |
| abstract_inverted_index.Furthermore, | 87 |
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| abstract_inverted_index.differentiated | 2 |
| abstract_inverted_index.transcriptomes | 39, 57 |
| abstract_inverted_index.monocyte-derived | 46 |
| abstract_inverted_index.uncharacterised. | 34 |
| abstract_inverted_index.under-appreciated | 129 |
| abstract_inverted_index.lipopolysaccharide | 43 |
| cited_by_percentile_year.max | 100 |
| cited_by_percentile_year.min | 97 |
| countries_distinct_count | 1 |
| institutions_distinct_count | 8 |
| citation_normalized_percentile.value | 0.94265654 |
| citation_normalized_percentile.is_in_top_1_percent | False |
| citation_normalized_percentile.is_in_top_10_percent | True |