Aibin He
YOU?
Author Swipe
View article: Capturing trophectoderm-like stem cells enables step-wisely remodeling of placental development
Capturing trophectoderm-like stem cells enables step-wisely remodeling of placental development Open
The trophectoderm produced from totipotent blastomeres initiates trophoblast development, while placental deficiencies can cause pregnancy disorders. Yet, a culture system that fully recapitulates the entire placenta development is still l…
View article: Engineering TME-activated CD47-specific CAR macrophage via Arg1 promoter for safe and effective solid tumor immunotherapy
Engineering TME-activated CD47-specific CAR macrophage via Arg1 promoter for safe and effective solid tumor immunotherapy Open
Background Chimeric antigen receptor macrophage (CAR-Mφ) therapy has promising therapeutic potential in solid tumors, yet challenges remain in target compatibility and systemic toxicity. Methods In this study, we screened the CD47-scFv seq…
View article: VO: The Vaccine Ontology
VO: The Vaccine Ontology Open
With the widespread use of vaccines in research and clinical settings, there is an urgent need to standardize vaccine representation, integrate information across diverse vaccine types, and support computer-assisted reasoning. Accordingly,…
View article: NuMA promotes constitutive heterochromatin compaction by stabilizing linker histone H1 on chromatin
NuMA promotes constitutive heterochromatin compaction by stabilizing linker histone H1 on chromatin Open
Heterochromatin has been widely recognized to exert pivotal functions of silencing specific genes and maintenance of genome stability. However, the mechanisms underlying heterochromatin formation and maintenance remain to be fully elucidat…
View article: Genetically encoded tension heterogeneity sculpts cardiac trabeculation
Genetically encoded tension heterogeneity sculpts cardiac trabeculation Open
The myocardial wall arises from a single layer of cardiomyocytes, some delaminate to create trabeculae while others remain in the compact layer. However, the mechanisms governing cardiomyocyte fate decisions remain unclear. Using single-ce…
View article: Genome-coverage single-cell histone modifications for embryo lineage tracing
Genome-coverage single-cell histone modifications for embryo lineage tracing Open
Substantial epigenetic resetting during early embryo development from fertilization to blastocyst formation ensures zygotic genome activation and leads to progressive cellular heterogeneities1-3. Mapping single-cell epigenomic profiles of …
View article: Single-cell multiomics: a new frontier in drug research and development
Single-cell multiomics: a new frontier in drug research and development Open
Single-cell multiomics (sc-multiomics) is a burgeoning field that simultaneously integrates multiple layers of molecular information, enabling the characterization of dynamic cell states and activities in development and disease as well as…
View article: Single-cell profiling of small molecule-genomic interactions and epigenetic states
Single-cell profiling of small molecule-genomic interactions and epigenetic states Open
We present scEpiChem, a unique method to jointly measure the genomic interactions of small molecules and epigenetic states, such as histone modifications and chromatin accessibility, within single cells. scEpiChem utilizes split-pool barco…
View article: Single-cell joint profiling of multiple epigenetic proteins and gene transcription
Single-cell joint profiling of multiple epigenetic proteins and gene transcription Open
Sculpting the epigenome with a combination of histone modifications and transcription factor occupancy determines gene transcription and cell fate specification. Here, we first develop uCoTarget, utilizing a split-pool barcoding strategy f…
View article: Genetic reporter for live tracing fluid flow forces during cell fate segregation in mouse blastocyst development
Genetic reporter for live tracing fluid flow forces during cell fate segregation in mouse blastocyst development Open
Mechanical forces are known to be important in mammalian blastocyst formation; however, due to limited tools, specific force inputs and how they relay to first cell fate control of inner cell mass (ICM) and/or trophectoderm (TE) remain elu…
View article: Massively parallel single-cell profiling of transcriptome and multiple epigenetic proteins in cell fate regulation
Massively parallel single-cell profiling of transcriptome and multiple epigenetic proteins in cell fate regulation Open
Sculpting the epigenome with a combination of histone modifications and transcription factor (TF) occupancy determines gene transcription and cell fate specification. Here we first develop uCoTarget, utilizing a split-pool barcoding strate…
View article: Single-cell protein-DNA interactomics and multiomics tools for deciphering genome regulation
Single-cell protein-DNA interactomics and multiomics tools for deciphering genome regulation Open
\nThe emergence of single-cell genomic and transcriptomic sequencing accelerates the development of single-cell epigenomic technologies, providing an unprecedented opportunity for decoding cell fate decisions largely encoded in the epigeno…
View article: The translatome of Glioblastoma multiforme
The translatome of Glioblastoma multiforme Open
Glioblastoma Multiforme (GBM) is the most common and aggressive brain tumor, containing intrinsic resistance to current therapies leading to poor clinical outcomes. Therefore, understanding the underlying mechanisms of GBM is an urgent med…
View article: GATA4 Regulates Developing Endocardium Through Interaction With ETS1
GATA4 Regulates Developing Endocardium Through Interaction With ETS1 Open
Background: The pioneer transcription factor (TF) GATA4 (GATA Binding Protein 4) is expressed in multiple cardiovascular lineages and is essential for heart development. GATA4 lineage-specific occupancy in the developing heart underlies it…
View article: The translatome of Glioblastoma multiforme
The translatome of Glioblastoma multiforme Open
Background Glioblastoma Multiforme (GBM) is the most common and aggressive brain tumor, containing intrinsic resistance to current therapies leading to poor clinical outcomes. Therefore, understanding the underlying mechanisms of GBM is an…
View article: Loss of sphingosine kinase 2 promotes the expansion of hematopoietic stem cells by improving their metabolic fitness
Loss of sphingosine kinase 2 promotes the expansion of hematopoietic stem cells by improving their metabolic fitness Open
Hematopoietic stem cells (HSCs) have reduced capacities to properly maintain and replenish the hematopoietic system during myelosuppressive injury or aging. Expanding and rejuvenating HSCs for therapeutic purposes has been a long-sought go…
View article: Enhancement in Seed Priming-Induced Starch Degradation of Rice Seed Under Chilling Stress via GA-Mediated α-Amylase Expression
Enhancement in Seed Priming-Induced Starch Degradation of Rice Seed Under Chilling Stress via GA-Mediated α-Amylase Expression Open
Chilling stress is the major abiotic stress that severely limited the seedling establishment of direct-seeded rice in temperate and sub-tropical rice production regions. While seed priming is an efficient pre-sowing seed treatment in enhan…
View article: Pre-configuring chromatin architecture with histone modifications guides hematopoietic stem cell formation in mouse embryos
Pre-configuring chromatin architecture with histone modifications guides hematopoietic stem cell formation in mouse embryos Open
The gene activity underlying cell differentiation is regulated by a diverse set of transcription factors (TFs), histone modifications, chromatin structures and more. Although definitive hematopoietic stem cells (HSCs) are known to emerge v…
View article: Single-cell epigenomic tracing of lifelong endothelial cell plasticity across mouse organs
Single-cell epigenomic tracing of lifelong endothelial cell plasticity across mouse organs Open
Endothelial cells (ECs) across ages and tissues are highly heterogeneous in developmental origins, structures, functions, and cellular plasticity. Here, we applied CoBATCH for single-cell epigenomic tracing of dynamic EC lineage histories …
View article: CoTECH for single-cell joint detection of transcriptome and chromatin occupancy
CoTECH for single-cell joint detection of transcriptome and chromatin occupancy Open
Here we present CoTECH, a high-throughput co-aasay that measures chromatin occupancy and transcriptome in single cells. The CoTECH method adopts a combinatorial indexing strategy to enrich chromatin fragments of interest as reported in CoB…
View article: Generation and validation of versatile inducible CRISPRi embryonic stem cell and mouse model
Generation and validation of versatile inducible CRISPRi embryonic stem cell and mouse model Open
Clustered regularly interspaced short palindromic repeat (CRISPR)-CRISPR-associated (Cas) 9 has been widely used far beyond genome editing. Fusions of deactivated Cas9 (dCas9) to transcription effectors enable interrogation of the epigenom…
View article: miR-155 Inhibits Expression of the MEF2A Protein to Repress Skeletal Muscle Differentiation
miR-155 Inhibits Expression of the MEF2A Protein to Repress Skeletal Muscle Differentiation Open
microRNAs (miRNAs) are 21–23-nucleotide non-coding RNAs. It has become more and more evident that this class of small RNAs plays critical roles in the regulation of gene expression at the post-transcriptional level. MEF2A is a member of th…
View article: Nuclear peripheral chromatin-lamin B1 interaction is required for global integrity of chromatin architecture and dynamics in human cells
Nuclear peripheral chromatin-lamin B1 interaction is required for global integrity of chromatin architecture and dynamics in human cells Open
The eukaryotic genome is folded into higher-order conformation accompanied with constrained dynamics for coordinated genome functions. However, the molecular machinery underlying these hierarchically organized three-dimensional (3D) chroma…
View article: Single-cell joint detection of chromatin occupancy and transcriptome enables higher-dimensional epigenomic reconstructions
Single-cell joint detection of chromatin occupancy and transcriptome enables higher-dimensional epigenomic reconstructions Open
SUMMARY Deciphering mechanisms in cell fate decisions requires single-cell holistic reconstructions of multi-dimensional epigenome in transcriptional regulation. Here we develop CoTECH, a combinatorial barcoding method allowing for high-th…