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List of works by Zhe Ji

Alternative to the soft-agar assay that permits high-throughput drug and genetic screens for cellular transformation

scientific article published on 20 April 2015

Analysis of C. elegans intestinal gene expression and polyadenylation by fluorescence-activated nuclei sorting and 3'-end-seq

scientific article

Analysis of alternative cleavage and polyadenylation by 3' region extraction and deep sequencing.

scientific article published on 16 December 2012

Author Correction: Comprehensive comparative analysis of 5'-end RNA-sequencing methods

scientific article published on 01 December 2018

CD95/Fas protects triple negative breast cancer from anti-tumor activity of NK cells

scientific article published on 29 October 2021

Comprehensive comparative analysis of 5'-end RNA-sequencing methods

scholarly article by Xian Adiconis published in July 2018

Distinct regulation of alternative polyadenylation and gene expression by nuclear poly(A) polymerases.

scientific article published on September 2017

Genome-scale identification of transcription factors that mediate an inflammatory network during breast cellular transformation.

scientific article published on 25 May 2018

Genome-wide identification and differential analysis of translational initiation

scientific article published on 23 November 2017

Inflammatory regulatory network mediated by the joint action of NF-kB, STAT3, and AP-1 factors is involved in many human cancers

scientific article published on 25 March 2019

LINC00520 is induced by Src, STAT3, and PI3K and plays a functional role in breast cancer

scientific article published on 10 September 2016

Many lncRNAs, 5'UTRs, and pseudogenes are translated and some are likely to express functional proteins

scientific article published on 19 December 2015

Mapping 3' mRNA isoforms on a genomic scale.

scientific article

Noncanonical open reading frames encode functional proteins essential for cancer cell survival

scientific article published on 28 January 2021

Phylogenetic analysis of mRNA polyadenylation sites reveals a role of transposable elements in evolution of the 3'-end of genes

scientific article published on 30 August 2008

Progressive lengthening of 3' untranslated regions of mRNAs by alternative polyadenylation during mouse embryonic development.

scholarly article

Regulatory network controlling tumor-promoting inflammation in human cancers

scientific article

Reprogramming of 3' untranslated regions of mRNAs by alternative polyadenylation in generation of pluripotent stem cells from different cell types

scientific article

Rfoot: Transcriptome-Scale Identification of RNA-Protein Complexes from Ribosome Profiling Data

scientific article published on 31 August 2018

RibORF: Identifying Genome-Wide Translated Open Reading Frames Using Ribosome Profiling

scientific article published on 04 September 2018

Selectivity of ORC binding sites and the relation to replication timing, fragile sites, and deletions in cancers

scientific article published on 19 July 2016

Star-PAP control of BIK expression and apoptosis is regulated by nuclear PIPKIα and PKCδ signaling.

scientific article published on January 2012

Systematic profiling of poly(A)+ transcripts modulated by core 3' end processing and splicing factors reveals regulatory rules of alternative cleavage and polyadenylation

scientific article published on 23 April 2015

The Conserved Intronic Cleavage and Polyadenylation Site of CstF-77 Gene Imparts Control of 3′ End Processing Activity through Feedback Autoregulation and by U1 snRNP ⬇️

scientific article published on July 11, 2013

The τCstF-64 polyadenylation protein controls genome expression in testis

scientific article

Transcription termination between polo and snap, two closely spaced tandem genes of D. melanogaster.

scientific article published on July 2012

Transcriptional activity regulates alternative cleavage and polyadenylation

scientific article

Transcriptome-scale RNase-footprinting of RNA-protein complexes

scientific article published on 22 February 2016

Tumor-derived NKG2D ligand sMIC reprograms NK cells to an inflammatory phenotype through CBM signalosome activation

scientific article published on 22 July 2021

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