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Changes in epithelial proportions and transcriptional state underlie major premenopausal breast cancer risks

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What this work says

Outgoing claims: the papers this work cites, builds on, or argues with.

inferredcites →https://doi.org/10.1001/jamaoncol.2018.1771openalex-snapshot

Association of Body Mass Index and Age With Subsequent Breast Cancer Risk in Premenopausal Women

inferredcites →https://doi.org/10.1002/j.1460-2075.1990.tb08280.xopenalex-snapshot

Two distinct estrogen‐regulated promoters generate transcripts encoding the two functionally different human progesterone receptor forms A and B.

inferredcites →https://doi.org/10.1002/path.4345openalex-snapshot

Identification of cellular and genetic drivers of breast cancer heterogeneity in genetically engineered mouse tumour models

inferredcites →https://doi.org/10.1007/bf00338066openalex-snapshot

Changes in the extracellular matrix of the normal human breast during the menstrual cycle

inferredcites →https://doi.org/10.1007/bf01831479openalex-snapshot

Secretion of breast gross cystic disease fluid proteins by T47D breast cancer cells in culture — modulation by steroid hormones

inferredcites →https://doi.org/10.1007/bf01833517openalex-snapshot

Influence of age and parity on the development of the human breast

inferredcites →https://doi.org/10.1007/s10549-014-3049-9openalex-snapshot

RANKL expression in normal and malignant breast tissue responds to progesterone and is up-regulated during the luteal phase

inferredcites →https://doi.org/10.1007/s10911-007-9039-3openalex-snapshot

Microenvironment of the Involuting Mammary Gland Mediates Mammary Cancer Progression

inferredcites →https://doi.org/10.1007/s10911-009-9120-1openalex-snapshot

A Mouse Mammary Gland Involution mRNA Signature Identifies Biological Pathways Potentially Associated with Breast Cancer Metastasis

inferredcites →https://doi.org/10.1007/s10911-020-09446-3openalex-snapshot

Inter-Individual Variation in Response to Estrogen in Human Breast Explants

inferredcites →https://doi.org/10.1016/j.cell.2019.05.006openalex-snapshot

Single-Cell Multi-omic Integration Compares and Contrasts Features of Brain Cell Identity

inferredcites →https://doi.org/10.1016/j.cell.2019.05.031openalex-snapshot

Comprehensive Integration of Single-Cell Data

inferredcites →https://doi.org/10.1016/j.cels.2015.12.004openalex-snapshot

The Molecular Signatures Database Hallmark Gene Set Collection

inferredcites →https://doi.org/10.1016/j.cels.2019.03.003openalex-snapshot

DoubletFinder: Doublet Detection in Single-Cell RNA Sequencing Data Using Artificial Nearest Neighbors

inferredcites →https://doi.org/10.1016/j.stem.2010.07.010openalex-snapshot

BRCA1 Basal-like Breast Cancers Originate from Luminal Epithelial Progenitors and Not from Basal Stem Cells

inferredcites →https://doi.org/10.1016/j.stem.2010.12.007openalex-snapshot

Genetic Predisposition Directs Breast Cancer Phenotype by Dictating Progenitor Cell Fate

inferredcites →https://doi.org/10.1016/j.stemcr.2015.05.012openalex-snapshot

RANK Signaling Amplifies WNT-Responsive Mammary Progenitors through R-SPONDIN1

inferredcites →https://doi.org/10.1016/j.tig.2018.07.003openalex-snapshot

Enter the Matrix: Factorization Uncovers Knowledge from Omics

inferredcites →https://doi.org/10.1016/s0092-8674(03)00934-6openalex-snapshot

Estrogen Receptor-α Directs Ordered, Cyclical, and Combinatorial Recruitment of Cofactors on a Natural Target Promoter

inferredcites →https://doi.org/10.1016/s1470-2045(12)70425-4openalex-snapshot

Menarche, menopause, and breast cancer risk: individual participant meta-analysis, including 118 964 women with breast cancer from 117 epidemiological studies

inferredcites →https://doi.org/10.1038/bjc.1982.213openalex-snapshot

Cell turnover in the “resting” human breast: influence of parity, contraceptive pill, age and laterality

inferredcites →https://doi.org/10.1038/bjc.1992.122openalex-snapshot

Influence of menstrual cycle, parity and oral contraceptive use on steroid hormone receptors in normal breast

inferredcites →https://doi.org/10.1038/cdd.2015.82openalex-snapshot

Mammary epithelial cell phagocytosis downstream of TGF-β3 is characterized by adherens junction reorganization

inferredcites →https://doi.org/10.1038/nature14669openalex-snapshot

PIK3CAH1047R induces multipotency and multi-lineage mammary tumours

inferredcites →https://doi.org/10.1038/nature16937openalex-snapshot

Visualization of a short-range Wnt gradient in the intestinal stem-cell niche

inferredcites →https://doi.org/10.1038/nature24489openalex-snapshot

A single-cell survey of the small intestinal epithelium

inferredcites →https://doi.org/10.1038/nbt.4096openalex-snapshot

Integrating single-cell transcriptomic data across different conditions, technologies, and species

inferredcites →https://doi.org/10.1038/nm.2416openalex-snapshot

Postpartum mammary gland involution drives progression of ductal carcinoma in situ through collagen and COX-2

inferredcites →https://doi.org/10.1038/nmeth.1442openalex-snapshot

Identifying single-cell molecular programs by stochastic profiling

inferredcites →https://doi.org/10.1038/nn.2207openalex-snapshot

Functional organization of the transcriptome in human brain

inferredcites →https://doi.org/10.1038/s41467-018-04334-1openalex-snapshot

Profiling human breast epithelial cells using single cell RNA sequencing identifies cell diversity

inferredcites →https://doi.org/10.1038/s41592-019-0433-8openalex-snapshot

MULTI-seq: sample multiplexing for single-cell RNA sequencing using lipid-tagged indices

inferredcites →https://doi.org/10.1038/s41592-019-0466-zopenalex-snapshot

Joint analysis of heterogeneous single-cell RNA-seq dataset collections

inferredcites →https://doi.org/10.1038/s41592-020-0820-1openalex-snapshot

Souporcell: robust clustering of single-cell RNA-seq data by genotype without reference genotypes

inferredcites →https://doi.org/10.1038/srep13526openalex-snapshot

Ethnicity-Dependent and -Independent Heterogeneity in Healthy Normal Breast Hierarchy Impacts Tumor Characterization

inferredcites →https://doi.org/10.1056/nejm199407073310102openalex-snapshot

Transient Increase in the Risk of Breast Cancer after Giving Birth

inferredcites →https://doi.org/10.1073/pnas.1017626108openalex-snapshot

Defining the cellular precursors to human breast cancer

inferredcites →https://doi.org/10.1073/pnas.1311647111openalex-snapshot

Parameterizing cell-to-cell regulatory heterogeneities via stochastic transcriptional profiles

inferredcites →https://doi.org/10.1074/jbc.m110090200openalex-snapshot

Differential Gene Regulation by the Two Progesterone Receptor Isoforms in Human Breast Cancer Cells

inferredcites →https://doi.org/10.1083/jcb.201802144openalex-snapshot

Myoepithelial cells are a dynamic barrier to epithelial dissemination

inferredcites →https://doi.org/10.1093/aje/152.6.514openalex-snapshot

Pooled Analysis of Prospective Cohort Studies on Height, Weight, and Breast Cancer Risk

inferredcites →https://doi.org/10.1093/bioinformatics/btv544openalex-snapshot

A non-negative matrix factorization method for detecting modules in heterogeneous omics multi-modal data

inferredcites →https://doi.org/10.1093/bioinformatics/btw413openalex-snapshot

MorphoLibJ: integrated library and plugins for mathematical morphology with ImageJ

inferredcites →https://doi.org/10.1095/biolreprod.107.065045openalex-snapshot

Epithelial Cells Remove Apoptotic Epithelial Cells During Post-Lactation Involution of the Mouse Mammary Gland1

inferredcites →https://doi.org/10.1097/00001648-199509000-00015openalex-snapshot

Application of a Method for Estimating Day of Ovulation Using Urinary Estrogen and Progesterone Metabolites

inferredcites →https://doi.org/10.1097/01.mp.0000039566.20817.46openalex-snapshot

Morphological Changes in Breast Tissue with Menstrual Cycle

inferredcites →https://doi.org/10.1101/060012openalex-snapshot

Fast gene set enrichment analysis

inferredcites →https://doi.org/10.1111/j.2517-6161.1995.tb02031.xopenalex-snapshot

Controlling the False Discovery Rate: A Practical and Powerful Approach to Multiple Testing

inferredcites →https://doi.org/10.1126/scitranslmed.3005654openalex-snapshot

Progesterone/RANKL Is a Major Regulatory Axis in the Human Breast

inferredcites →https://doi.org/10.1136/bmj.39367.495995.aeopenalex-snapshot

Cancer incidence and mortality in relation to body mass index in the Million Women Study: cohort study

inferredcites →https://doi.org/10.1186/1471-2164-6-1openalex-snapshot

Bioinformatic mapping of AlkB homology domains in viruses

inferredcites →https://doi.org/10.1186/1471-2164-6-37openalex-snapshot

Gene expression signature of estrogen receptor α status in breast cancer

inferredcites →https://doi.org/10.1186/1477-7827-8-35openalex-snapshot

The expression of syndecan-1, syndecan-4 and decorin in healthy human breast tissue during the menstrual cycle

inferredcites →https://doi.org/10.1186/1755-8794-5-46openalex-snapshot

Defining the genomic signature of the parous breast

inferredcites →https://doi.org/10.1186/bcr1732openalex-snapshot

Molecular response to aromatase inhibitor treatment in primary breast cancer

inferredcites →https://doi.org/10.1186/bcr2560openalex-snapshot

Transcriptome analyses of mouse and human mammary cell subpopulations reveal multiple conserved genes and pathways

inferredcites →https://doi.org/10.1186/bcr2611openalex-snapshot

Changes in expression of oestrogen regulated and proliferation genes with neoadjuvant treatment highlight heterogeneity of clinical resistance to the aromatase inhibitor, letrozole

inferredcites →https://doi.org/10.1186/bcr3621openalex-snapshot

Trastuzumab emtansine: mechanisms of action and drug resistance

inferredcites →https://doi.org/10.1186/bcr3626openalex-snapshot

Early but not late pregnancy induces lifelong reductions in the proportion of mammary progesterone sensing cells and epithelial Wnt signaling

inferredcites →https://doi.org/10.1186/bcr3627openalex-snapshot

Next-generation transcriptome sequencing of the premenopausal breast epithelium using specimens from a normal human breast tissue bank

inferredcites →https://doi.org/10.1186/bcr753openalex-snapshot

Involution of the mouse mammary gland is associated with an immune cascade and an acute-phase response, involving LBP, CD14 and STAT3

inferredcites →https://doi.org/10.1186/bcr754openalex-snapshot

Gene expression profiling of mammary gland development reveals putative roles for death receptors and immune mediators in post-lactational regression

inferredcites →https://doi.org/10.1186/s12859-019-3211-9openalex-snapshot

scDC: single cell differential composition analysis

inferredcites →https://doi.org/10.1186/s13058-019-1119-yopenalex-snapshot

Parity, breastfeeding, and breast cancer risk by hormone receptor status and molecular phenotype: results from the Nurses’ Health Studies

inferredcites →https://doi.org/10.1186/s13058-019-1128-xopenalex-snapshot

Genomic signature of parity in the breast of premenopausal women

inferredcites →https://doi.org/10.1186/s13058-019-1190-4openalex-snapshot

Adjuvant chemotherapy and survival among patients 70 years of age and younger with node-negative breast cancer and the 21-gene recurrence score of 26–30

inferredcites →https://doi.org/10.1186/s13059-014-0550-8openalex-snapshot

Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2

inferredcites →https://doi.org/10.1186/s13059-019-1874-1openalex-snapshot

Normalization and variance stabilization of single-cell RNA-seq data using regularized negative binomial regression

inferredcites →https://doi.org/10.1200/jco.2009.23.9616openalex-snapshot

Relationship Between Plasma Estradiol Levels and Estrogen-Responsive Gene Expression in Estrogen Receptor–Positive Breast Cancer in Postmenopausal Women

inferredcites →https://doi.org/10.1210/en.2009-0070openalex-snapshot

Obesity and Breast Cancer: The Estrogen Connection

inferredcites →https://doi.org/10.1210/jc.2002-021584openalex-snapshot

Variability of Vascular Endothelial Growth Factor in Normal Human Breast Tissue in Vivo during the Menstrual Cycle

inferredcites →https://doi.org/10.1210/jc.2010-1541openalex-snapshot

Effects of Medroxyprogesterone Acetate on Gene Expression in Myometrial Explants from Pregnant Women

inferredcites →https://doi.org/10.1210/me.14.7.972openalex-snapshot

Sp1 Binding Sites and An Estrogen Response Element Half-Site Are Involved in Regulation of the Human Progesterone Receptor A Promoter

inferredcites →https://doi.org/10.1210/mend-3-4-681openalex-snapshot

Progestin Increases Gene Transcription and Messenger Ribonucleic Acid Stability of Fatty Acid Synthetase in Breast Cancer Cells

inferredcites →https://doi.org/10.15252/embj.201490434openalex-snapshot

Progesterone and Wnt4 control mammary stem cells via myoepithelial crosstalk

inferredcites →https://doi.org/10.1677/erc-07-0137openalex-snapshot

Pregnancy and the risk of breast cancer

inferredcites →https://doi.org/10.18632/oncotarget.16023openalex-snapshot

Pregnancy at early age is associated with a reduction of progesterone-responsive cells and epithelial Wnt signaling in human breast tissue

inferredcites →https://doi.org/10.21105/joss.00765openalex-snapshot

Philentropy: Information Theory and Distance Quantification with R

inferredcites →https://doi.org/10.2353/ajpath.2010.090735openalex-snapshot

Alternatively Activated Macrophages and Collagen Remodeling Characterize the Postpartum Involuting Mammary Gland across Species

inferredcites →https://doi.org/10.7554/elife.38949openalex-snapshot

TIAM-1/GEF can shape somatosensory dendrites independently of its GEF activity by regulating F-actin localization

inferredcites →https://doi.org/10.7554/elife.43803openalex-snapshot

Identifying gene expression programs of cell-type identity and cellular activity with single-cell RNA-Seq

What points at this work

Incoming claims: where this work appears in other papers’ reference lists and arguments.

inferred← citeshttps://doi.org/10.1016/j.devcel.2022.05.003openalex-snapshot

A human breast atlas integrating single-cell proteomics and transcriptomics

inferred← citeshttps://doi.org/10.1038/s41467-020-18794-xopenalex-snapshot

Concepts of extracellular matrix remodelling in tumour progression and metastasis

inferred← citeshttps://doi.org/10.1038/s41467-021-27895-0openalex-snapshot

Transcriptional changes in the mammary gland during lactation revealed by single cell sequencing of cells from human milk

inferred← citeshttps://doi.org/10.1038/s41523-021-00375-wopenalex-snapshot

Stem-like breast cancer cells in the activated state resist genetic stress via TGFBI-ZEB1

inferred← citeshttps://doi.org/10.1038/s41551-020-0576-zopenalex-snapshot

Three-dimensional single-cell imaging for the analysis of RNA and protein expression in intact tumour biopsies

inferred← citeshttps://doi.org/10.1073/pnas.2115308119openalex-snapshot

Bisphenol A replacement chemicals, BPF and BPS, induce protumorigenic changes in human mammary gland organoid morphology and proteome

inferred← citeshttps://doi.org/10.1073/pnas.2121720119openalex-snapshot

Cellular and transcriptional diversity over the course of human lactation

inferred← citeshttps://doi.org/10.1097/cej.0000000000000763openalex-snapshot

Recombinant human chorionic gonadotropin induces signaling pathways towards cancer prevention in the breast of BRCA1/2 mutation carriers

inferred← citeshttps://doi.org/10.1101/2021.02.11.430721openalex-snapshot

A strategy to address dissociation-induced compositional and transcriptional bias for single-cell analysis of the human mammary gland

inferred← citeshttps://doi.org/10.3389/fonc.2024.1354094openalex-snapshot

Associations of reproductive breast cancer risk factors with expression of stem cell markers in benign breast tissue

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