(Q30834511)

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:24985915%20AND%20SRC:MED&resulttype=core&format=json

21 March 2020

title

Comparative validation of the D. melanogaster modENCODE transcriptome annotation (English)

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:24985915%20AND%20SRC:MED&resulttype=core&format=json

21 March 2020

0 references

34

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:24985915%20AND%20SRC:MED&resulttype=core&format=json

21 March 2020

Brenton R. Graveley

56

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:24985915%20AND%20SRC:MED&resulttype=core&format=json

21 March 2020

Zhen-Xia Chen

1

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:24985915%20AND%20SRC:MED&resulttype=core&format=json

21 March 2020

David Sturgill

2

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:24985915%20AND%20SRC:MED&resulttype=core&format=json

21 March 2020

Abhijit Dasgupta

17

1 reference

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21 March 2020

Kim C Worley

43

1 reference

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21 March 2020

Michael B. Eisen

48

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:24985915%20AND%20SRC:MED&resulttype=core&format=json

21 March 2020

Piero Carninci

60

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:24985915%20AND%20SRC:MED&resulttype=core&format=json

21 March 2020

9

David C Plachetzki

1 reference

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21 March 2020

61

Susan E Celniker

1 reference

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21 March 2020

47

Manolis Kellis

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:24985915%20AND%20SRC:MED&resulttype=core&format=json

21 March 2020

23

Christie L Kovar

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:24985915%20AND%20SRC:MED&resulttype=core&format=json

21 March 2020

31

Donna M Muzny

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:24985915%20AND%20SRC:MED&resulttype=core&format=json

21 March 2020

53

Asher D Cutter

1 reference

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21 March 2020

58

Peter J Bickel

1 reference

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21 March 2020

7

Ana Maria Suzuki

1 reference

21 March 2020

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:24985915%20AND%20SRC:MED&resulttype=core&format=json

57

Richard A Gibbs

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:24985915%20AND%20SRC:MED&resulttype=core&format=json

21 March 2020

author name string

Jiaxin Qu

3

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:24985915%20AND%20SRC:MED&resulttype=core&format=json

21 March 2020

Huaiyang Jiang

4

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:24985915%20AND%20SRC:MED&resulttype=core&format=json

21 March 2020

Soo Park

5

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:24985915%20AND%20SRC:MED&resulttype=core&format=json

21 March 2020

Nathan Boley

6

1 reference

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21 March 2020

Anthony R Fletcher

8

1 reference

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21 March 2020

Peter C FitzGerald

10

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:24985915%20AND%20SRC:MED&resulttype=core&format=json

21 March 2020

Carlo G Artieri

11

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:24985915%20AND%20SRC:MED&resulttype=core&format=json

21 March 2020

Joel Atallah

12

1 reference

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21 March 2020

Olga Barmina

13

1 reference

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21 March 2020

James B Brown

14

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:24985915%20AND%20SRC:MED&resulttype=core&format=json

21 March 2020

Kerstin P Blankenburg

15

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:24985915%20AND%20SRC:MED&resulttype=core&format=json

21 March 2020

Emily Clough

16

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:24985915%20AND%20SRC:MED&resulttype=core&format=json

21 March 2020

Sai Gubbala

18

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:24985915%20AND%20SRC:MED&resulttype=core&format=json

21 March 2020

Yi Han

19

1 reference

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21 March 2020

Joy C Jayaseelan

20

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:24985915%20AND%20SRC:MED&resulttype=core&format=json

21 March 2020

Divya Kalra

21

1 reference

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21 March 2020

Yoo-Ah Kim

22

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:24985915%20AND%20SRC:MED&resulttype=core&format=json

21 March 2020

Sandra L Lee

24

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:24985915%20AND%20SRC:MED&resulttype=core&format=json

21 March 2020

Mingmei Li

25

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:24985915%20AND%20SRC:MED&resulttype=core&format=json

21 March 2020

James D Malley

26

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:24985915%20AND%20SRC:MED&resulttype=core&format=json

21 March 2020

John H Malone

27

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:24985915%20AND%20SRC:MED&resulttype=core&format=json

21 March 2020

Tittu Mathew

28

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:24985915%20AND%20SRC:MED&resulttype=core&format=json

21 March 2020

Nicolas R Mattiuzzo

29

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:24985915%20AND%20SRC:MED&resulttype=core&format=json

21 March 2020

Mala Munidasa

30

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:24985915%20AND%20SRC:MED&resulttype=core&format=json

21 March 2020

Fiona Ongeri

32

1 reference

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21 March 2020

Lora Perales

33

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:24985915%20AND%20SRC:MED&resulttype=core&format=json

21 March 2020

Ling-Ling Pu

35

1 reference

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21 March 2020

Garrett Robinson

36

1 reference

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21 March 2020

Rebecca L Thornton

37

1 reference

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21 March 2020

Nehad Saada

38

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:24985915%20AND%20SRC:MED&resulttype=core&format=json

21 March 2020

Steven E Scherer

39

1 reference

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21 March 2020

Harold E Smith

40

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:24985915%20AND%20SRC:MED&resulttype=core&format=json

21 March 2020

Charles Vinson

41

1 reference

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21 March 2020

Crystal B Warner

42

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:24985915%20AND%20SRC:MED&resulttype=core&format=json

21 March 2020

Yuan-Qing Wu

44

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:24985915%20AND%20SRC:MED&resulttype=core&format=json

21 March 2020

Xiaoyan Zou

45

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:24985915%20AND%20SRC:MED&resulttype=core&format=json

21 March 2020

Peter Cherbas

46

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:24985915%20AND%20SRC:MED&resulttype=core&format=json

21 March 2020

Fabio Piano

49

1 reference

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21 March 2020

Karin Kionte

50

1 reference

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21 March 2020

David H Fitch

51

1 reference

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21 March 2020

Paul W Sternberg

52

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:24985915%20AND%20SRC:MED&resulttype=core&format=json

21 March 2020

Michael O Duff

54

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:24985915%20AND%20SRC:MED&resulttype=core&format=json

21 March 2020

Roger A Hoskins

55

1 reference

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21 March 2020

Artyom Kopp

59

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:24985915%20AND%20SRC:MED&resulttype=core&format=json

21 March 2020

Brian Oliver

62

1 reference

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21 March 2020

Stephen Richards

63

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:24985915%20AND%20SRC:MED&resulttype=core&format=json

21 March 2020

publication date

1 July 2014

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:24985915%20AND%20SRC:MED&resulttype=core&format=json

21 March 2020

number of pages

15

1 reference

based on heuristic

inferred from page(s)

published in

Genome Research

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:24985915%20AND%20SRC:MED&resulttype=core&format=json

21 March 2020

volume

24

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:24985915%20AND%20SRC:MED&resulttype=core&format=json

21 March 2020

issue

7

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:24985915%20AND%20SRC:MED&resulttype=core&format=json

21 March 2020

page(s)

1209-1223

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:24985915%20AND%20SRC:MED&resulttype=core&format=json

Design of RNA splicing analysis null models for post hoc filtering of Drosophila head RNA-Seq data with the splicing analysis kit (Spanki)

21 March 2020

cites work

1 reference

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Is junk DNA bunk? A critique of ENCODE

21 June 2018

1 reference

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On the immortality of television sets: "function" in the human genome according to the evolution-free gospel of ENCODE

21 June 2018

1 reference

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Strong mutational bias toward deletions in the Drosophila melanogaster genome is compensated by selection

21 June 2018

1 reference

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Can ENCODE tell us how much junk DNA we carry in our genome?

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4079975

Evolutionary dynamics of gene and isoform regulation in Mammalian tissues.

21 June 2018

1 reference

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OrthoDB: a hierarchical catalog of animal, fungal and bacterial orthologs

21 June 2018

1 reference

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The C-value paradox, junk DNA and ENCODE.

21 June 2018

1 reference

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An integrated encyclopedia of DNA elements in the human genome

21 June 2018

1 reference

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Noncoding transcription at enhancers: general principles and functional models

21 June 2018

1 reference

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Transformation of a transposon into a derived prolactin promoter with function during human pregnancy

21 June 2018

1 reference

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Estimating divergence dates and substitution rates in the Drosophila phylogeny

21 June 2018

1 reference

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Dark Matter RNA: Existence, Function, and Controversy

21 June 2018

1 reference

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High levels of RNA-editing site conservation amongst 15 laboratory mouse strains

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4079975

Active human retrotransposons: variation and disease

21 June 2018

1 reference

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Differential gene and transcript expression analysis of RNA-seq experiments with TopHat and Cufflinks

21 June 2018

1 reference

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5' end-centered expression profiling using cap-analysis gene expression and next-generation sequencing

21 June 2018

1 reference

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MrBayes 3.2: Efficient Bayesian Phylogenetic Inference and Model Choice Across a Large Model Space

21 June 2018

1 reference

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FlyBase 101--the basics of navigating FlyBase

21 June 2018

1 reference

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A high-resolution map of human evolutionary constraint using 29 mammals

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4079975

Probability machines: consistent probability estimation using nonparametric learning machines

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4079975

Widespread RNA and DNA sequence differences in the human transcriptome.

21 June 2018

1 reference

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Unamplified cap analysis of gene expression on a single-molecule sequencer.

21 June 2018

1 reference

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A cis-regulatory map of the Drosophila genome.

21 June 2018

1 reference

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The developmental transcriptome of Drosophila melanogaster

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4079975

The transcriptional diversity of 25 Drosophila cell lines

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4079975

Genome-wide analysis of promoter architecture in Drosophila melanogaster.

21 June 2018

1 reference

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The Drosophila melanogaster transcriptome by paired-end RNA sequencing

21 June 2018

1 reference

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Computational methods for ab initio and comparative gene finding

21 June 2018

1 reference

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Evolutionary dynamics of U12-type spliceosomal introns

21 June 2018

1 reference

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Promoting developmental transcription

21 June 2018

1 reference

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Unlocking the secrets of the genome

21 June 2018

1 reference

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The Sequence Alignment/Map format and SAMtools

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4079975

Origins and evolution of ADAR-mediated RNA editing

21 June 2018

1 reference

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Constraint and turnover in sex-biased gene expression in the genus Drosophila

21 June 2018

1 reference

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Discovery of functional elements in 12 Drosophila genomes using evolutionary signatures

21 June 2018

1 reference

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Evolution of genes and genomes on the Drosophila phylogeny

21 June 2018

1 reference

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Pseudogenes in the ENCODE regions: consensus annotation, analysis of transcription, and evolution

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4079975

Transcriptional noise and the fidelity of initiation by RNA polymerase II.

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4079975

Identification of core promoter modules in Drosophila and their application in accurate transcription start site prediction

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4079975

Comprehensive splice-site analysis using comparative genomics

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4079975

Detecting the limits of regulatory element conservation and divergence estimation using pairwise and multiple alignments

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4079975

Comparative genomics of Drosophila and human core promoters

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4079975

Alternative splicing and RNA selection pressure--evolutionary consequences for eukaryotic genomes

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4079975

Comparative genome sequencing of Drosophila pseudoobscura: chromosomal, gene, and cis-element evolution

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4079975

Core promoter sequences contribute to ovo-B regulation in the Drosophila melanogaster germline

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4079975

An integrated gene annotation and transcriptional profiling approach towards the full gene content of the Drosophila genome

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4079975

Pseudogenes: Are They “Junk” or Functional DNA?

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4079975

The human genome browser at UCSC

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4079975

An element in intron 1 of the CFTR gene augments intestinal expression in vivo

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4079975

Human GC-AG alternative intron isoforms with weak donor sites show enhanced consensus at acceptor exon positions

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4079975

Gene discovery using computational and microarray analysis of transcription in the Drosophila melanogaster testis

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4079975

The genome sequence of Drosophila melanogaster

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4079975

High intrinsic rate of DNA loss in Drosophila

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4079975

The role of RNA polymerase in transcriptional fidelity

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4079975

The difficult calls in RNA editing. Interviewed by H Craig Mak.

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4079975

A gene expression map for the euchromatic genome of Drosophila melanogaster.

25 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4079975

Testis-specific TAF homologs collaborate to control a tissue-specific transcription program.

25 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4079975

High Intron Sequence Conservation Across Three Mammalian Orders Suggests Functional Constraints

25 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4079975

Rapid evolution of cis-regulatory sequences via local point mutations

25 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4079975

Drosophila OVO regulates ovarian tumor transcription by binding unusually near the transcription start site.

25 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4079975

A lymphocyte-specific cellular enhancer is located downstream of the joining region in immunoglobulin heavy chain genes

25 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4079975

25 November 2018

Identifiers

DOI

10.1101/GR.159384.113

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:24985915%20AND%20SRC:MED&resulttype=core&format=json

21 March 2020

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:24985915%20AND%20SRC:MED&resulttype=core&format=json

21 March 2020

PubMed publication ID

24985915

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:24985915%20AND%20SRC:MED&resulttype=core&format=json