Splicing regulation: from a parts list of regulatory elements to an integrated splicing code
Z Wang, CB Burge - Rna, 2008 - rnajournal.cshlp.org
Alternative splicing of pre-mRNAs is a major contributor to both proteomic diversity and
control of gene expression levels. Splicing is tightly regulated in different tissues and …
control of gene expression levels. Splicing is tightly regulated in different tissues and …
[PDF][PDF] Splicing of precursors to mRNAs by the spliceosomes
CB Burge, T Tuschl, PA Sharp - Cold Spring Harbor Monograph Series, 1999 - Citeseer
… represented using the Pictogram program (CB Burge and PA Sharp, unpubl.). At each
sequence position, the frequencies f1, f2, f3, and f4 of the four DNA nucleotides A, C, G, and T are …
sequence position, the frequencies f1, f2, f3, and f4 of the four DNA nucleotides A, C, G, and T are …
Dinucleotide relative abundance extremes: a genomic signature
S Kariin, C Burge - Trends in genetics, 1995 - cell.com
… context CG or CNG and occasionally at C alone 19. Methylation frequency in maize is high,
estimated at more than 25% of all C bases. The two algae Chlamydomonas reinhardtii and …
estimated at more than 25% of all C bases. The two algae Chlamydomonas reinhardtii and …
Most mammalian mRNAs are conserved targets of microRNAs
RC Friedman, KKH Farh, CB Burge… - Genome research, 2009 - genome.cshlp.org
MicroRNAs (miRNAs) are small endogenous RNAs that pair to sites in mRNAs to direct post-transcriptional
repression. Many sites that match the miRNA seed (nucleotides 2–7), …
repression. Many sites that match the miRNA seed (nucleotides 2–7), …
[HTML][HTML] Conserved seed pairing, often flanked by adenosines, indicates that thousands of human genes are microRNA targets
BP Lewis, CB Burge, DP Bartel - cell, 2005 - cell.com
We predict regulatory targets of vertebrate microRNAs (miRNAs) by identifying mRNAs with
conserved complementarity to the seed (nucleotides 2–7) of the miRNA. An …
conserved complementarity to the seed (nucleotides 2–7) of the miRNA. An …
Alternative isoform regulation in human tissue transcriptomes
… c, Frequency of alternative splicing in the top bin (black bars) and after estimation (as in b,
red bars), considering only events with relative expression of less abundant (minor) splice …
red bars), considering only events with relative expression of less abundant (minor) splice …
[HTML][HTML] Prediction of mammalian microRNA targets
…, I Shih, MW Jones-Rhoades, DP Bartel, CB Burge - Cell, 2003 - cell.com
… An analogous search for near-perfect pairing between the miRNAs and messages of C.
elegans and Drosophila genes did not uncover more hits than would be expected by chance ( …
elegans and Drosophila genes did not uncover more hits than would be expected by chance ( …
A uniform system for microRNA annotation
MicroRNAs (miRNAs) are small noncoding RNA gene products about 22 nt long that are
processed by Dicer from precursors with a characteristic hairpin secondary structure. …
processed by Dicer from precursors with a characteristic hairpin secondary structure. …
[HTML][HTML] Expanded encyclopaedias of DNA elements in the human and mouse genomes
The human and mouse genomes contain instructions that specify RNAs and proteins and
govern the timing, magnitude, and cellular context of their production. To better delineate these …
govern the timing, magnitude, and cellular context of their production. To better delineate these …
[HTML][HTML] Prediction of complete gene structures in human genomic DNA
C Burge, S Karlin - Journal of molecular biology, 1997 - Elsevier
… with codon position c 1 and end with codon position c i such … with codon position c 3 and
begin with codon position c i + 1 , … with codon position c i + 1 and end with codon position c j , …
begin with codon position c i + 1 , … with codon position c i + 1 and end with codon position c j , …