Topic 179

cancer stem cells hematopoietic renewal hematopoiesis cell biology fate lineage renewing resistance differentiated hscs identify hsc clonal self progenitors leukemia signaling marrow perturbations single symmetric clones differentiation systems proliferation renew transcriptional homeostatic bone reveals leukemic driven dynamic states tumor how subpopulation genetic activation ontogeny mutation dn3e therapies turnover cancers phenotypic conditions cellular multipotent proliferate expansion barcoding cycle tp53 fates thymopoiesis thrombopoiesis populations selection adult early asymmetric establishes reveal melanoma population enriched occurs subsets pathways chemotherapies drugs thymocytes non autonomy treatment instability either checkpoint proliferative mechanisms rise coordinate trajectories show whereby megakaryocytes signature independent thymus autonomous multi controls megakaryocyte advantage lymphocytes

36 items. Top items listed below.

Interacting evolutionary pressures drive mutation dynamics and health outcomes in aging blood 179 21 9

Hematopoietic stem cells self-renew symmetrically or gradually proceed to differentiation 179 57 20 3

A Computational Model of Stem Cell Molecular Mechanism to Maintain Tissue Homeostasis 179 20 3

Variability within rare cell states enables multiple paths towards drug resistance 179 9

Resolving fate and transcriptome of hematopoietic stem cell clones 179 57 20 9 3

Hematopoietic lineages diverge within the stem cell compartment 179 57 20 3

Deciphering the Signaling Network Landscape of Breast Cancer Improves Drug Sensitivity Prediction 179 14 9

Multistage feedback driven compartmental dynamics of hematopoiesis 179 57 38 20 3

Single cell transcriptional characterization of human megakaryocyte lineage commitment and maturation 179 57 20 9 3

Universality of clonal dynamics poses fundamental limits to identify stem cell self-renewal strategies 179 57 20

Single cell fitness landscapes induced by genetic and pharmacologic perturbations in cancer 179 14 9

Ontogeny and Vulnerabilities of Lapatinib Drug-Tolerant Persisters in HER2+ Breast Cancer 179 14 10 3

Primed smooth muscle cells acting as first responder cells in disease 179 57 9 3

Self-renewal of double negative 3 (DN3) early thymocytes allows for thymus autonomy but compromises the β-selection checkpoint 179 57 20 3

Loss of Nupr1 promotes engraftment by tuning the quiescence threshold of hematopoietic stem cell repository via regulating p53-checkpoint pathway 179 57 20 3

Intermediate Progenitor cells provide a transition between hematopoietic progenitors and their differentiated descendants 179 20 3

Transit-amplifying cells coordinate changes in intestinal epithelial cell-type composition 179 57 20 3

Loss of Tet2 affects proliferation and drug sensitivity through altered dynamics of cell-state transitions 179 14 3

Rapidly induced drug adaptation mediates escape from BRAF inhibition in single melanoma cells 179 126 14 10 3

Dynamic multi-OMICs of glioblastoma reveal sensitivity to neddylation inhibition dependent on nuclear PTEN and DNA replication pathways 179 126 14 3

Phenotypic distribution of the stem-like melanoma initiating state depends on CDKN2A status 179 142 14 3

Distinct genetic pathways define pre-leukemic and compensatory clonal hematopoiesis in Shwachman-Diamond syndrome 179 142 3

Elephant genomes reveal insights into differences in disease defense mechanisms between species 179 9 5

Epistasis, aneuploidy, and gain-of-function mutations underlie the evolution ofresistance to induced microtubule depolymerization 179 68 21

Widespread non-apoptotic activation of Drosophila Caspase-2/9 limits JNK signaling, macrophage proliferation and growth of wound-like tumors 179 108 14 3

Single-cell analysis reveals mechanisms of plasticity of leukemia initiating cells 179 14 3

Selection-driven tumor evolution involving non-cell growth promotion leads to patterns of clonal expansion consistent with neutrality interpretation 179 21 5

Antitumor immunity in dMMR colorectal cancers requires interferon-induced CCL5 and CXCL10 179 14 10 3

Cell competition, the kinetics of thymopoiesis and thymus cellularity are regulated by double negative 2 to 3 early thymocytes 179 3

Robust frequency-encoded dynamics in a minimal synthetic phytohormone crosstalk 179 16

Evolution of Modularity, Interactome and Functions of GIV/Girdin (CCDC88A) from Invertebrates to Vertebrates 179 3

Aneuploidy-driven genome instability triggers resistance to chemotherapy 179 14 3

A single-cell transcriptional roadmap of the mouse and human lymph node lymphatic vasculature 179 120 9

Generative modeling of single-cell population time series for inferring cell differentiation landscapes 38 4

Single cell characterization of B-lymphoid differentiation and leukemic cell states during chemotherapy in ETV6-RUNX1 positive pediatric leukemia identifies drug-targetable transcription factor activities 9 3

Hematopoietic p53 loss cell-extrinsically defines an immune infiltrated microenvironment in leukemia and pre-leukemia 126 14 10 9 3

A unifying framework disentangles genetic, epigenetic, and stochastic sources of drug-response variability in an in vitro model of tumor heterogeneity 14 9

Circulating immune cell phenotype dynamics reflect the strength of tumor-immune cell interactions in patients during immunotherapy 14 10 9

Macrophage Function is Regulated by NPM1-Mediated 2'-O-Methylation 142 57 20 3

Transcription factor binding dynamics shape noise across biological processes 134 31 9 3

Genome-wide signatures of plastid-nuclear coevolution point to repeated perturbations of plastid proteostasis systems across angiosperms 179 40 21 9 5

Bacterial single-cell genomics enables phylogenetic analysis and reveals population structures from in vitro evolutionary studies 107 52 12 9 5 4

Three-dimensional regulation of HOXA cluster genes by a cis-element in hematopoietic stem cell and leukemia. 192 31 20 3

Global computational alignment of tumor and cell line transcriptional profiles 43 14 9 4

High dimensional single-cell analysis reveals iNKT cell developmental trajectories and effector fate decision 179 88 20 3

Reconstructing the lineage histories and differentiation trajectories of individual cancer cells in JAK2-mutant myeloproliferative neoplasms 57

Integrated decoding hematopoiesis and leukemogenesis at single-cell resolution and its clinical implication 152 57 9

A cell competition-based drug screen identifies a novel compound that induces dual c-Myc depletion and p53 activation 108 14 10 3

Chromosomal instability accelerates the evolution of resistance to anti-cancer therapies 126 14 10 3

Single cell analysis of colorectal cancer identifies mitogen-activated protein kinase as a key driver of tumor cell plasticity 152 148 142 14 9 3

Genetic signatures of evolution of the pluripotency gene regulating network across mammals 9 5 3

The landscape of metabolic pathway dependencies in cancer cell lines 186 9 3

Inferring Telomerase Enzymatic Activity from Expression Data 14 9 4

Transcription factor PU.1 enforces quiescence and limits hematopoietic stem cell expansion during inflammatory stress 150 27 3

Cell-cell communication through FGF4 generates and maintains robust proportions of differentiated cell fates in embryonic stem cells 20 3

Leukemia cell of origin influences apoptotic priming and sensitivity to LSD1 inhibition 108 14 3

Single cell mutational profiling delineates clonal trajectories in myeloid malignancies 142 9

Cathepsin K maintains the number of lymphocytes in vivo 57 20 3

Response to CAR T cell therapy can be explained by ecological cell dynamics and stochastic extinction events 14 10

Sequential CRISPR gene editing in human iPSCs charts the clonal evolution of leukemia 57 33 20 14 9 3

GM-CSF differentiation of human monocytes stabilizes macrophage state via oxidative signaling 27 10 3

A Phylogenetic Approach to Inferring the Order in Which Mutations Arise during Cancer Progression 83 14 4

Functional melanoma cell heterogeneity is regulated by MITF-dependent cell-matrix interactions 108 14 3

IER5, a DNA-damage response gene, is required for Notch-mediated induction of squamous cell differentiation 142 108 14 3

Malignant Schwann cell precursors mediate intratumoral plasticity in human neuroblastoma 152 14 3

Transcriptome analysis of somatic cell populations in the Drosophila testis links metabolism and stemness 120 9 3

Genetic screen to saturate guard cell signaling network reveals a role of GDP-L-fucose metabolism in stomatal closure 179 16 3

GLP-1 Notch - LAG-1 CSL control of the germline stem cell fate is mediated by transcriptional targets lst-1 and sygl-1 20 9 3

Multistability in cellular differentiation enabled by a network of three mutually repressing master regulators 20 3

Quantitative and molecular differences distinguish adult human medullary and extramedullary haematopoietic stem and progenitor cell landscapes 57 20 9 3

Hematopoietic Stem and Progenitor Cell Aging is Initiated at Middle Age Through Decline in Local Insulin-Like Growth Factor 1 (IGF1) 57 10 3

Predictive features of gene expression variation reveal a mechanistic link between expression variation and differential expression 9

NFATC4 Promotes Quiescence and Chemotherapy Resistance in Ovarian Cancer 108 14 3

Selective silencing rather than targeted activation of gene expression underlies fate choice in human hematopoietic stem cells. 31 20 9 3

Single-cell RNA-seq reveals a concomitant delay in differentiation and cell cycle of aged hematopoietic stem cell 57 20 9 3

Chronic Interleukin-1 exposure triggers selective expansion of Cebpa-deficient multipotent hematopoietic progenitors 57 20 3

Joint single cell DNA-Seq and RNA-Seq of gastric cancer reveals subclonal signatures of genomic instability and gene expression 43 9 4

Single-cell analysis of patient-derived PDAC organoids reveals cell state heterogeneity and a conserved developmental hierarchy 152 14 9 3

Characterizing and inferring quantitative cell cycle phase in single-cell RNA-seq data analysis 43 9 4

Nabo - a framework to define leukemia-initiating cells and differentiation in single-cell RNA-sequencing data 175 43 4

Individual cell-based modeling of tumor cell plasticity-induced immune escape after CAR-T therapy 126 14 10 3

Hyperactive end joining repair mediates resistance to DNA damaging therapy in p53-deficient cells 46 14 3

Cycling cancer persister cells arise from lineages with distinct transcriptional and metabolic programs 14 10 3

Comprehensive and Integrated Genomic Characterization of Human Immunome in Cancer 9 3

Repopulating Kupffer Cells Originate Directly from Hematopoietic Stem Cells 57 20 10 3

Low replication stress leads to specific replication timing advances associated to chromatin remodelling in cancer cells 46 31 3

Computational Model of G2-M DNA Damage Checkpoint Regulation in Normal and p53-null Cancer Cells 7 3

Therapy-induced transdifferentiation promotes glioma growth independent of EGFR signaling 108 14 10 3

Ush regulates hemocyte-specific gene expression, fatty acid metabolism and cell cycle progression and cooperates with dNuRD to orchestrate hematopoiesis 20 3

Activation of Notch1 drives the development of radiation-induced thymic lymphoma in p53 wild-type mice 142 108 14 3

Patient-tailored design of AML cell subpopulation-selective drug combinations 112 14 4

Endogenous retroviruses are a source of enhancers with oncogenic potential in acute myeloid leukemia 31 9 3

Comparative study of transcriptomics-based scoring metrics for the epithelial-hybrid-mesenchymal spectrum 98 14 9 4

Three-dimensional mapping identifies distinct vascular niches for myelopoiesis 57 20 3

Discovering the drivers of clonal hematopoiesis 97 9 4

A systematic dissection of human primary osteoblasts in vivo at single-cell resolution 120 43 9 3

A unified simulation model for understanding the diversity of cancer evolution 21 5

Single-cell Characterization of Acute Myeloid Leukemia and its Microenvironment Following PD-1 Blockade Based Therapy 173 88 14 10 3

Parallel RNA and DNA analysis after Deep-sequencing (PRDD-seq) reveals cell type-specific lineage patterns in human brain 133 120 9

A population of stress-like cancer cells in melanoma promotes tumorigenesis and confers drug resistance 142 14 3