(Q35561618)

8 August 2017

title

Re-thinking miRNA-mRNA interactions: intertwining issues confound target discovery (English)

1 reference

8 August 2017

Nicole Cloonan

1

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language of work or name

English

0 references

publication date

12 February 2015

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8 August 2017

1 reference

8 August 2017

volume

37

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8 August 2017

issue

4

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8 August 2017

page(s)

379-388

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Understanding functional miRNA-target interactions in vivo by site-specific genome engineering.

8 August 2017

cites work

1 reference

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Imperfect centered miRNA binding sites are common and can mediate repression of target mRNAs

27 July 2018

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27 July 2018

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27 July 2018

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Extensive divergence of transcription factor binding in Drosophila embryos with highly conserved gene expression

27 July 2018

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Mapping the human miRNA interactome by CLASH reveals frequent noncanonical binding

27 July 2018

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MicroRNA-182-5p targets a network of genes involved in DNA repair

27 July 2018

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Transcriptome-wide miR-155 binding map reveals widespread noncanonical microRNA targeting

27 July 2018

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27 July 2018

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Landscape of transcription in human cells

27 July 2018

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Association of Argonaute proteins and microRNAs can occur after cell lysis

27 July 2018

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DGCR8 HITS-CLIP reveals novel functions for the Microprocessor

27 July 2018

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MicroRNAs in neuronal function and dysfunction

27 July 2018

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Optimal use of conservation and accessibility filters in microRNA target prediction

27 July 2018

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An alternative mode of microRNA target recognition

27 July 2018

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The microcosmos of cancer

27 July 2018

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MicroRNAs and their isomiRs function cooperatively to target common biological pathways

27 July 2018

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Capture of microRNA-bound mRNAs identifies the tumor suppressor miR-34a as a regulator of growth factor signaling

27 July 2018

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MicroRNAs can generate thresholds in target gene expression

27 July 2018

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High-throughput microfluidic single-cell RT-qPCR

27 July 2018

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mRNA isoform diversity can obscure detection of miRNA-mediated control of translation

27 July 2018

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Desperately seeking microRNA targets

27 July 2018

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Efficient use of accessibility in microRNA target prediction

27 July 2018

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Expanding the microRNA targeting code: functional sites with centered pairing

27 July 2018

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Regulation of mRNA translation and stability by microRNAs

27 July 2018

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Transcriptome-wide identification of RNA-binding protein and microRNA target sites by PAR-CLIP

27 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4671252

Concordant regulation of translation and mRNA abundance for hundreds of targets of a human microRNA

27 July 2018

1 reference

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Accurate microRNA target prediction correlates with protein repression levels

27 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4671252

microRNA-mediated messenger RNA deadenylation contributes to translational repression in mammalian cells

27 July 2018

1 reference

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Identification of human embryonic stem cell surface markers by combined membrane-polysome translation state array analysis and immunotranscriptional profiling

27 July 2018

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4671252

Transcriptome-wide prediction of miRNA targets in human and mouse using FASTH.

27 July 2018

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New tricks for animal microRNAS: targeting of amino acid coding regions at conserved and nonconserved sites

27 July 2018

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Construction of Parallel Analysis of RNA Ends (PARE) libraries for the study of cleaved miRNA targets and the RNA degradome

27 July 2018

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Essential and overlapping functions for mammalian Argonautes in microRNA silencing

27 July 2018

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MicroRNAs: target recognition and regulatory functions

27 July 2018

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mirWIP: microRNA target prediction based on microRNA-containing ribonucleoprotein-enriched transcripts

27 July 2018

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Revisiting the principles of microRNA target recognition and mode of action

27 July 2018

1 reference

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Structure of an argonaute silencing complex with a seed-containing guide DNA and target RNA duplex

27 July 2018

1 reference

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Deadenylation is a widespread effect of miRNA regulation

27 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4671252

HITS-CLIP yields genome-wide insights into brain alternative RNA processing

27 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4671252

Most mammalian mRNAs are conserved targets of microRNAs

27 July 2018

1 reference

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IntaRNA: efficient prediction of bacterial sRNA targets incorporating target site accessibility and seed regions

27 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4671252

A search for conserved sequences in coding regions reveals that the let-7 microRNA targets Dicer within its coding sequence

27 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4671252

MicroRNAs to Nanog, Oct4 and Sox2 coding regions modulate embryonic stem cell differentiation

27 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4671252

The miR-17-5p microRNA is a key regulator of the G1/S phase cell cycle transition

27 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4671252

Widespread changes in protein synthesis induced by microRNAs

27 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4671252

The impact of microRNAs on protein output

27 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4671252

MicroRNA-10a binds the 5'UTR of ribosomal protein mRNAs and enhances their translation

27 July 2018

1 reference

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Suppression of immediate-early viral gene expression by herpesvirus-coded microRNAs: implications for latency

27 July 2018

1 reference

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miR-148 targets human DNMT3b protein coding region

27 July 2018

1 reference

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Transcription factors bind thousands of active and inactive regions in the Drosophila blastoderm

27 July 2018

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RNA-binding protein Dnd1 inhibits microRNA access to target mRNA

27 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4671252

The role of site accessibility in microRNA target recognition

27 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4671252

A novel monoclonal antibody against human Argonaute proteins reveals unexpected characteristics of miRNAs in human blood cells

27 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4671252

Molecular basis for target RNA recognition and cleavage by human RISC.

27 July 2018

1 reference

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MicroRNA targeting specificity in mammals: determinants beyond seed pairing

27 July 2018

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Genome-wide mapping of in vivo protein-DNA interactions

27 July 2018

1 reference

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Inference of miRNA targets using evolutionary conservation and pathway analysis

27 July 2018

1 reference

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Human let-7a miRNA blocks protein production on actively translating polyribosomes

27 July 2018

1 reference

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Principles of microRNA regulation of a human cellular signaling network

27 July 2018

1 reference

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Translation repression in human cells by microRNA-induced gene silencing requires RCK/p54

27 July 2018

1 reference

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Zebrafish MiR-430 promotes deadenylation and clearance of maternal mRNAs

27 July 2018

1 reference

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Thermodynamics of RNA-RNA binding

27 July 2018

1 reference

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Animal MicroRNAs confer robustness to gene expression and have a significant impact on 3'UTR evolution

27 July 2018

1 reference

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MicroRNAs control translation initiation by inhibiting eukaryotic initiation factor 4E/cap and poly(A) tail function

27 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4671252

Argonaute2 cleaves the anti-guide strand of siRNA during RISC activation

27 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4671252

Silencing of microRNAs in vivo with 'antagomirs'

27 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4671252

Inhibition of translational initiation by Let-7 MicroRNA in human cells

27 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4671252

A role for eIF4E and eIF4E-transporter in targeting mRNPs to mammalian processing bodies

27 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4671252

Combinatorial microRNA target predictions

27 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4671252

Microarray analysis shows that some microRNAs downregulate large numbers of target mRNAs

27 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4671252

Assessing computational tools for the discovery of transcription factor binding sites

27 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4671252

Evidence for reassociation of RNA-binding proteins after cell lysis: implications for the interpretation of immunoprecipitation analyses

27 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4671252

Human Argonaute2 mediates RNA cleavage targeted by miRNAs and siRNAs

27 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4671252

The C. elegans microRNA let-7 binds to imperfect let-7 complementary sites from the lin-41 3'UTR

27 July 2018

1 reference

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Prediction of mammalian microRNA targets

27 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4671252

Identification of Drosophila MicroRNA targets

27 July 2018

1 reference

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Single-stranded antisense siRNAs guide target RNA cleavage in RNAi

27 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4671252

An RNA-directed nuclease mediates post-transcriptional gene silencing in Drosophila cells

27 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4671252

The lin-4 regulatory RNA controls developmental timing in Caenorhabditis elegans by blocking LIN-14 protein synthesis after the initiation of translation

27 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4671252

Targeted mRNA degradation by double-stranded RNA in vitro

27 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4671252

Posttranscriptional regulation of the heterochronic gene lin-14 by lin-4 mediates temporal pattern formation in C. elegans

27 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4671252

Stimulation of 3T3 cells induces transcription of the c-fos proto-oncogene

27 July 2018

2 references

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4671252

27 July 2018

https://api.crossref.org/works/10.1002%2FBIES.201400191

Expression of a set of growth-related immediate early genes in BALB/c 3T3 cells: coordinate regulation with c-fos or c-myc

21 January 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4671252

Induction of proto-oncogene JUN/AP-1 by serum and TPA.

27 July 2018

1 reference

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Spurious transcription factor binding: non-functional or genetically redundant?

27 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4671252

DNA regions bound at low occupancy by transcription factors do not drive patterned reporter gene expression in Drosophila

26 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4671252

Mammalian microRNAs predominantly act to decrease target mRNA levels

26 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4671252

The code within the code: microRNAs target coding regions

26 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4671252

Transgenic microRNA inhibition with spatiotemporal specificity in intact organisms.

26 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4671252

Argonaute HITS-CLIP decodes microRNA-mRNA interaction maps

26 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4671252

Getting to the root of miRNA-mediated gene silencing

26 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4671252

Isolation of microRNA targets using biotinylated synthetic microRNAs.

26 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4671252

Target mRNAs are repressed as efficiently by microRNA-binding sites in the 5' UTR as in the 3' UTR

26 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4671252

Potent effect of target structure on microRNA function.

26 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4671252

Evidence that microRNAs are associated with translating messenger RNAs in human cells

26 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4671252

MicroRNAs direct rapid deadenylation of mRNA

26 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4671252

Human microRNAs target a functionally distinct population of genes with AT-rich 3' UTRs

26 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4671252

MicroRNA-dependent localization of targeted mRNAs to mammalian P-bodies

26 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4671252

Conserved seed pairing, often flanked by adenosines, indicates that thousands of human genes are microRNA targets

26 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4671252

Induction of c-fos gene and protein by growth factors precedes activation of c-myc

26 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4671252

MicroRNA Inhibition of Translation Initiation in Vitro by Targeting the Cap-Binding Complex eIF4F

26 September 2018

1 reference

Crossref

https://api.crossref.org/works/10.1002%2FBIES.201400191

Platelet-derived growth factor induces rapid but transient expression of the c-fos gene and protein

21 January 2018

1 reference

Crossref

https://api.crossref.org/works/10.1002%2FBIES.201400191

Monitoring MicroRNA Activity and Validating MicroRNA Targets by Reporter-Based Approaches

21 January 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/25683051

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Perfect seed pairing is not a generally reliable predictor for miRNA-target interactions

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/25683051

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1002/BIES.201400191

1 reference

8 August 2017

1 reference

8 August 2017

1 reference