Paper · 20150413

Prediction of alternative isoforms from exon expression levels in RNA-Seq experiments.

Richard H and 11 others. Nucleic Acids Res, 2010. Cited by 102 papers, by iCite.

11 sourcespapers-2026-11-12-0.1.0

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ConductScience Library. Prediction of alternative isoforms from exon expression levels in RNA-Seq experiments. Papers, record 20150413. Release papers-2026-11-12-0.1.0, 12 Nov 2026. https://conductscience.org/library/papers/20150413

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Paper

PubMed's record of the paper, with iCite's citation figures. No abstract is shown.

Title: Prediction of alternative isoforms from exon expression levels in RNA-Seq experiments.; PubMed
Journal: Nucleic Acids Res; PubMed
Year: 2010; PubMed
Publication types: Journal Article, Research Support, Non-U.S. Gov't, Validation Study; PubMed
PubMed: https://pubmed.ncbi.nlm.nih.gov/20150413/; PubMed
DOI: https://doi.org/10.1093/nar/gkq041; PubMed
PMC: https://pmc.ncbi.nlm.nih.gov/articles/PMC2879520/; PubMed
The journal: https://conductscience.org/library/journal-index/0411011; PubMed
Citations, by iCite: 102; iCite
Relative citation ratio, by iCite: 2.14; iCite
Revised in PubMed: 2021-10-20; PubMed

Authors12

The authors in the order PubMed's record lists them, with the ORCID iDs it states.

Order	Author	Forename
1	Richard H	Hugues
2	Schulz MH	Marcel H
3	Sultan M	Marc
4	Nürnberger A	Asja
5	Schrinner S	Sabine
6	Balzereit D	Daniela
7	Dagand E	Emilie
8	Rasche A	Axel
9	Lehrach H	Hans
10	Vingron M	Martin

1 to 10 of 12Source PubMed

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Topics11

NLM's MeSH indexing of the paper, its major topics first.

MeSH term	Major
Alternative Splicing	Major topic
Gene Expression Profiling	Major topic
Protein Isoforms	Major topic
Sequence Analysis, RNA	Major topic
Cell Line
Computer Simulation
Exons
Expressed Sequence Tags
Humans
Models, Statistical
Oligonucleotide Array Sequence Analysis

Source PubMed

Grants0

Each grant PubMed's record writes, matched to the NIH project NIH's grant and paper links name for this paper, and each of those links the record does not write.

None in this release.

Trials0

The trials whose ClinicalTrials.gov record lists the paper, and the trial numbers the paper's PubMed record names.

None in this release.

Comments and corrections0

PubMed's comments and corrections, NLM's own indexing: retractions first, then expressions of concern, errata and updates, and comments last.

None in this release.

References49

The papers the reference list in PubMed's record names, those in our copy of PubMed, in the list's order.

Order	PMID	Title	Journal	Year	In Papers	Source
1	18,978,789	Deep surveying of alternative splicing complexity in the human transcriptome by high-throughput sequencing.	Nat Genet	2008	https://conductscience.org/library/papers/18978789	PubMed
2	18,245,464	Multiple alternative splicing markers for ovarian cancer.	Cancer Res	2008	https://conductscience.org/library/papers/18245464	PubMed
3	18,660,515	Substantial biases in ultra-short read data sets from high-throughput DNA sequencing.	Nucleic Acids Res	2008	https://conductscience.org/library/papers/18660515	PubMed
4	16,839,875	Alternative splicing: new insights from global analyses.	Cell	2006	https://conductscience.org/library/papers/16839875	PubMed
5	12,925,520	Exploration, normalization, and summaries of high density oligonucleotide array probe level data.	Biostatistics	2003	https://conductscience.org/library/papers/12925520	PubMed
6	18,550,803	RNA-seq: an assessment of technical reproducibility and comparison with gene expression arrays.	Genome Res	2008	https://conductscience.org/library/papers/18550803	PubMed
7	9,331,369	The significance of digital gene expression profiles.	Genome Res	1997	https://conductscience.org/library/papers/9331369	PubMed
8	14,684,825	Genome-wide survey of human alternative pre-mRNA splicing with exon junction microarrays.	Science	2003	https://conductscience.org/library/papers/14684825	PubMed
9	18,329,129	The functional consequences of alternative promoter use in mammalian genomes.	Trends Genet	2008	https://conductscience.org/library/papers/18329129	PubMed
10	11,988,574	Genomewide analysis of mRNA processing in yeast using splicing-specific microarrays.	Science	2002	https://conductscience.org/library/papers/11988574	PubMed

1 to 10 of 49

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Cited by85

The papers in our copy of PubMed whose reference list names this one, newest first. iCite, which reads more sources, counts 102 citations.

PMID	Title	Journal	Year	In Papers	Source
40,804,481	Computational methods for alternative polyadenylation and splicing in post-transcriptional gene regulation.	Exp Mol Med	2025	https://conductscience.org/library/papers/40804481	PubMed
38,935,635	A reliable and quick method for screening alternative splicing variants for low-abundance genes.	PLoS One	2024	https://conductscience.org/library/papers/38935635	PubMed
36,879,899	TiSA: TimeSeriesAnalysis-a pipeline for the analysis of longitudinal transcriptomics data.	NAR Genom Bioinform	2023	https://conductscience.org/library/papers/36879899	PubMed
34,578,451	Towards a Systems Immunology Approach to Understanding Correlates of Protective Immunity against HCV.	Viruses	2021	https://conductscience.org/library/papers/34578451	PubMed
33,718,354	Alternatively Splicing Interactomes Identify Novel Isoform-Specific Partners for NSD2.	Front Cell Dev Biol	2021	https://conductscience.org/library/papers/33718354	PubMed
32,094,185	Intrinsically disordered protein RBM14 plays a role in generation of RNA:DNA hybrids at double-strand break sites.	Proc Natl Acad Sci U S A	2020	https://conductscience.org/library/papers/32094185	PubMed
31,949,819	Cytochrome P450 family proteins as potential biomarkers for ovarian granulosa cell damage in mice with premature ovarian failure.	Int J Clin Exp Pathol	2018	https://conductscience.org/library/papers/31949819	PubMed
31,936,283	Transcriptomic Analysis of Testicular Gene Expression in Normal and Cryptorchid Horses.	Animals (Basel)	2020	https://conductscience.org/library/papers/31936283	PubMed
31,504,297	Optimization of Insect Odorant Receptor Trafficking and Functional Expression Via Transient Transfection in HEK293 Cells.	Chem Senses	2019	https://conductscience.org/library/papers/31504297	PubMed
30,679,697	Temporal dynamics in meta longitudinal RNA-Seq data.	Sci Rep	2019	https://conductscience.org/library/papers/30679697	PubMed

1 to 10 of 85

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Genes7

The genes the Gene search release ties to the paper: Swiss-Prot's references first, then PubTator's text mining.

Gene	NCBI Gene ID	Linked by	In Genes	Source
DUS1L	64,118	PubTator's text mining	https://conductscience.org/library/genes/64118	NCBI Gene
GAPDH	2,597	PubTator's text mining	https://conductscience.org/library/genes/2597	NCBI Gene
MDC1	9,656	PubTator's text mining	https://conductscience.org/library/genes/9656	NCBI Gene
MKI67	4,288	PubTator's text mining	https://conductscience.org/library/genes/4288	NCBI Gene
NONO	4,841	PubTator's text mining	https://conductscience.org/library/genes/4841	NCBI Gene
RCC1	1,104	PubTator's text mining	https://conductscience.org/library/genes/1104	NCBI Gene
TCOF1	6,949	PubTator's text mining	https://conductscience.org/library/genes/6949	NCBI Gene

Drugs0

The drugs whose trials, in the Pipelines release, list the paper.

None in this release.

Data1

The data bank entries PubMed's record names. Trial numbers are under Trials.

Data bank	Accession
GEO	GSE13474

Source GEO

Data dates

The date of each source this release read.

PubMed: 2026-11-06; PubMed
iCite: 2026-11-05; iCite
PMC's ID file: 2026-11-05; PMC's ID file
NIH RePORTER's grant and paper links: 2026-11-01; NIH RePORTER's grant and paper links
Trials: 2026-11-12
Gene search: 2026-11-11
Pipelines: 2026-09-18

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ClinicalTrials.govNo license stated
HGNCCC0
iCiteCC BY 4.0
NCBI GenePublic domain (US government)
NIH RePORTER's grant and paper linksPublic domain
Open TargetsCC0 1.0
PMC's ID filePublic domain (US government)
PubMedNLM's terms
PubTator 3Public domain
UniProtCC BY 4.0

Each source's terms

ChEMBL, through Open TargetsCC BY-SA 3.0, for the parts from ChEMBL. Read on 8 Nov 2026 at https://platform-docs.opentargets.org/licence
ClinicalTrials.govnone stated
HGNCCC0: https://www.genenames.org/about/license/
iCiteCC BY 4.0
NCBI GeneNone named for the file. NCBI says information created by or for the US government on its site is in the public domain, and asks that NLM be acknowledged: https://www.ncbi.nlm.nih.gov/home/about/policies/
NIH RePORTER's grant and paper linksPublic domain (NIH RePORTER)
Open TargetsCC0 1.0. Open Targets asks that users cite its latest paper: Buniello et al. 2025, Open Targets Platform: facilitating therapeutic hypotheses building in drug discovery, Nucleic Acids Research 53(D1):D1467, PMID 39657122. Read on 8 Nov 2026 at https://platform-docs.opentargets.org/licence
PMC's ID fileNone named for the file. NCBI says information created by or for the US government on its site is in the public domain, and asks that NLM be acknowledged: https://www.ncbi.nlm.nih.gov/home/about/policies/
PubMedNLM's terms
PubTator 3Public domain
UniProtCC BY 4.0. UniProt's licence file: "All databases and documents in the UniProt FTP directory may be copied and redistributed freely, without advance permission, provided that this copyright statement is reproduced with each copy." UniProt asks that users cite its latest paper: The UniProt Consortium, UniProt: the Universal Protein Knowledgebase in 2025, Nucleic Acids Research 53:D609-D617, https://doi.org/10.1093/nar/gkae1010. Read on 9 Nov 2026 at https://www.uniprot.org/help/license

ClinicalTrials.gov's data carry an international copyright outside the United States: https://clinicaltrials.gov/about-site/terms-conditions.

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