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Paper · 30643263

Reference-based analysis of lung single-cell sequencing reveals a transitional profibrotic macrophage.

Aran D and 11 others. Nat Immunol, 2019. Cited by 3,906 papers, by iCite.

11 sourcespapers-2026-11-12-0.1.0

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ConductScience Library. Reference-based analysis of lung single-cell sequencing reveals a transitional profibrotic macrophage. Papers, record 30643263. Release papers-2026-11-12-0.1.0, 12 Nov 2026. https://conductscience.org/library/papers/30643263

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Paper

PubMed's record of the paper, with iCite's citation figures. No abstract is shown.

Title
Reference-based analysis of lung single-cell sequencing reveals a transitional profibrotic macrophage.
PubMed
Journal
Nat Immunol
PubMed
Year
2019
PubMed
Publication types
Journal Article, Research Support, N.I.H., Extramural, Research Support, Non-U.S. Gov't
PubMed
Citations, by iCite
3,906
iCite
Relative citation ratio, by iCite
141
iCite
Revised in PubMed
2021-12-04
PubMed

Authors12

The authors in the order PubMed's record lists them, with the ORCID iDs it states.

OrderAuthorForenameKindORCID iD
1Aran DDvirhttps://orcid.org/0000-0001-6334-5039
2Looney APAgnieszka P
3Liu LLeqian
4Wu EEsther
5Fong VValerie
6Hsu AAustin
7Chak SSuzanna
8Naikawadi RPRam P
9Wolters PJPaul J
10Abate ARAdam R

1 to 10 of 12Source PubMed

See all 12 authors

Topics19

NLM's MeSH indexing of the paper, its major topics first.

MeSH termMajor
Idiopathic Pulmonary FibrosisMajor topic
LungMajor topic
Macrophage ActivationMajor topic
Macrophages, AlveolarMajor topic
Animals
Antigens, Differentiation, Myelomonocytic
Bleomycin
CX3C Chemokine Receptor 1
Cells, Cultured
Disease Models, Animal
Female
Gene Expression Profiling
Humans
Male
Mice
Sequence Analysis, RNA
Sialic Acid Binding Immunoglobulin-like Lectins
Single-Cell Analysis
Up-Regulation

Source PubMed

Grants4

Each grant PubMed's record writes, matched to the NIH project NIH's grant and paper links name for this paper, and each of those links the record does not write.

Grant, as the record writes itAgencyCountryNIH projectStated bySource
HHSN272201200028CNIAID NIH HHSUnited StatesPubMedPubMed
L30 HL110167NHLBI NIH HHSUnited StatesL30HL110167PubMed and NIHNIH RePORTER
R01 HL131560NHLBI NIH HHSUnited StatesR01HL131560PubMed and NIHNIH RePORTER
R01 HL139897NHLBI NIH HHSUnited StatesR01HL139897PubMed and NIHNIH RePORTER

Trials0

The trials whose ClinicalTrials.gov record lists the paper, and the trial numbers the paper's PubMed record names.

None in this release.

Comments and corrections0

PubMed's comments and corrections, NLM's own indexing: retractions first, then expressions of concern, errata and updates, and comments last.

None in this release.

References54

The papers the reference list in PubMed's record names, those in our copy of PubMed, in the list's order.

OrderPMIDTitleJournalYearIn PapersSource
126,084,029GM-CSF Mouse Bone Marrow Cultures Comprise a Heterogeneous Population of CD11c(+)MHCII(+) Macrophages and Dendritic Cells.Immunity2015https://conductscience.org/library/papers/26084029PubMed
224,586,061Digital cell quantification identifies global immune cell dynamics during influenza infection.Mol Syst Biol2014https://conductscience.org/library/papers/24586061PubMed
321,680,953Ly6Chi monocytes direct alternatively activated profibrotic macrophage regulation of lung fibrosis.Am J Respir Crit Care Med2011https://conductscience.org/library/papers/21680953PubMed
428,002,407Identification of an atypical monocyte and committed progenitor involved in fibrosis.Nature2017https://conductscience.org/library/papers/28002407PubMed
529,500,179Growth of Mycobacterium tuberculosis in vivo segregates with host macrophage metabolism and ontogeny.J Exp Med2018https://conductscience.org/library/papers/29500179PubMed
624,160,862Future directions in idiopathic pulmonary fibrosis research. An NHLBI workshop report.Am J Respir Crit Care Med2014https://conductscience.org/library/papers/24160862PubMed
721,471,066An official ATS/ERS/JRS/ALAT statement: idiopathic pulmonary fibrosis: evidence-based guidelines for diagnosis and management.Am J Respir Crit Care Med2011https://conductscience.org/library/papers/21471066PubMed
821,716,259Platelet-derived growth factor receptor signaling activates pericyte-myofibroblast transition in obstructive and post-ischemic kidney fibrosis.Kidney Int2011https://conductscience.org/library/papers/21716259PubMed
929,141,660xCell: digitally portraying the tissue cellular heterogeneity landscape.Genome Biol2017https://conductscience.org/library/papers/29141660PubMed
1026,639,755PDGFRα plays a crucial role in connective tissue remodeling.Sci Rep2015https://conductscience.org/library/papers/26639755PubMed

1 to 10 of 54

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Cited by3,243

The papers in our copy of PubMed whose reference list names this one, newest first. iCite, which reads more sources, counts 3,906 citations.

PMIDTitleJournalYearIn PapersSource
42,988,870Integration and annotation of spatial multi-omic data with DIRAC.Nat Methods2026https://conductscience.org/library/papers/42988870PubMed
42,984,670Integrated manufacturing platform for cortical organoids reveals early phosphatase and prefoldin dysregulation in MAPT V337M neurons.NPJ Dement2026https://conductscience.org/library/papers/42984670PubMed
42,983,723Loss of FCN3 links cirrhotic matrix stiffness to YAP activation in HCC.J Transl Med2026https://conductscience.org/library/papers/42983723PubMed
42,983,084Venousization enables angiogenesis in the absence of VEGFR signalling.Nature2026https://conductscience.org/library/papers/42983084PubMed
42,982,889Longitudinal single-cell profiling of breast tumors highlights immune and epigenetic mechanisms associated with sensitivity to aromatase inhibitors.Nat Genet2026https://conductscience.org/library/papers/42982889PubMed
42,982,866Olaparib plus tremelimumab in women with recurrent ovarian cancer and a germline BRCA1 or BRCA2 mutation: a phase I/II study.Nat Commun2026https://conductscience.org/library/papers/42982866PubMed
42,981,403Independent origin of genomic imprinting in placental fish.Sci Adv2026https://conductscience.org/library/papers/42981403PubMed
42,972,334scRNA-Seq reveals the potential roles of transposable elements in bovine mastitis.BMC Vet Res2026https://conductscience.org/library/papers/42972334PubMed
42,968,160Qi-Blood Harmony Formula mediates post-MI cardioprotection via FTO-driven dual modulation of energy metabolism and fibrosis: a multi-omics validation.Chin Med2026https://conductscience.org/library/papers/42968160PubMed
42,967,922Single-cell profiling uncovers a rare mesenchymal-like urothelial state associated with sarcomatoid bladder cancer.Cell Death Dis2026https://conductscience.org/library/papers/42967922PubMed

1 to 10 of 3,243

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Genes20

The genes the Gene search release ties to the paper: Swiss-Prot's references first, then PubTator's text mining.

GeneNCBI Gene IDLinked byIn GenesSource
CX3CR11,524PubTator's text mininghttps://conductscience.org/library/genes/1524NCBI Gene
HLA-DMA3,108PubTator's text mininghttps://conductscience.org/library/genes/3108NCBI Gene
HLA-DMB3,109PubTator's text mininghttps://conductscience.org/library/genes/3109NCBI Gene
HLA-DOA3,111PubTator's text mininghttps://conductscience.org/library/genes/3111NCBI Gene
HLA-DOB3,112PubTator's text mininghttps://conductscience.org/library/genes/3112NCBI Gene
HLA-DPA13,113PubTator's text mininghttps://conductscience.org/library/genes/3113NCBI Gene
HLA-DPB13,115PubTator's text mininghttps://conductscience.org/library/genes/3115NCBI Gene
HLA-DPB23,116PubTator's text mininghttps://conductscience.org/library/genes/3116NCBI Gene
HLA-DQA13,117PubTator's text mininghttps://conductscience.org/library/genes/3117NCBI Gene
HLA-DQA23,118PubTator's text mininghttps://conductscience.org/library/genes/3118NCBI Gene

1 to 10 of 20

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Drugs0

The drugs whose trials, in the Pipelines release, list the paper.

None in this release.

Data0

The data bank entries PubMed's record names. Trial numbers are under Trials.

None in this release.

Data dates

The date of each source this release read.

PubMed
2026-11-06
PubMed
iCite
2026-11-05
iCite
PMC's ID file
2026-11-05
PMC's ID file
NIH RePORTER's grant and paper links
2026-11-01
NIH RePORTER's grant and paper links
Trials
2026-11-12
Gene search
2026-11-11
Pipelines
2026-09-18

Sources 11

  • ChEMBL, through Open TargetsCC BY-SA 3.0
  • ClinicalTrials.govNo license stated
  • HGNCCC0
  • iCiteCC BY 4.0
  • NCBI GenePublic domain (US government)
  • NIH RePORTER's grant and paper linksPublic domain
  • Open TargetsCC0 1.0
  • PMC's ID filePublic domain (US government)
  • PubMedNLM's terms
  • PubTator 3Public domain
  • UniProtCC BY 4.0
Each source's terms
  • ChEMBL, through Open TargetsCC BY-SA 3.0, for the parts from ChEMBL. Read on 8 Nov 2026 at https://platform-docs.opentargets.org/licence
  • ClinicalTrials.govnone stated
  • HGNCCC0: https://www.genenames.org/about/license/
  • iCiteCC BY 4.0
  • NCBI GeneNone named for the file. NCBI says information created by or for the US government on its site is in the public domain, and asks that NLM be acknowledged: https://www.ncbi.nlm.nih.gov/home/about/policies/
  • NIH RePORTER's grant and paper linksPublic domain (NIH RePORTER)
  • Open TargetsCC0 1.0. Open Targets asks that users cite its latest paper: Buniello et al. 2025, Open Targets Platform: facilitating therapeutic hypotheses building in drug discovery, Nucleic Acids Research 53(D1):D1467, PMID 39657122. Read on 8 Nov 2026 at https://platform-docs.opentargets.org/licence
  • PMC's ID fileNone named for the file. NCBI says information created by or for the US government on its site is in the public domain, and asks that NLM be acknowledged: https://www.ncbi.nlm.nih.gov/home/about/policies/
  • PubMedNLM's terms
  • PubTator 3Public domain
  • UniProtCC BY 4.0. UniProt's licence file: "All databases and documents in the UniProt FTP directory may be copied and redistributed freely, without advance permission, provided that this copyright statement is reproduced with each copy." UniProt asks that users cite its latest paper: The UniProt Consortium, UniProt: the Universal Protein Knowledgebase in 2025, Nucleic Acids Research 53:D609-D617, https://doi.org/10.1093/nar/gkae1010. Read on 9 Nov 2026 at https://www.uniprot.org/help/license

ClinicalTrials.gov's data carry an international copyright outside the United States: https://clinicaltrials.gov/about-site/terms-conditions.

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