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TranscriptomicsRNA-seq alignment to individualized genomes
The source of most errors in RNA sequencing (RNA-seq) read alignment is in the repetitive structure of the genome and not with the alignment algorithm. Genetic variation away from the reference sequence exacerbates this problem causing reads to be assigned to the wrong location. We developed a metho...
ORGANISM(S): Mus musculus 
2014-06-10 | E-GEOD-45684 | biostudies-arrayexpress
UnknownImpact of centre volume, surgeon volume, surgeon experience and geographic location on reoperation after intramedullary nailing of tibial shaft fractures
Not available
S-EPMC8410470 | biostudies-literature
TranscriptomicsTranscriptomes of isolated rice gametes characterized by deep sequencing: Evidence for distinct sex-dependent chromatin and epigenetic states before fertilization
The formation of a zygote by the fusion of egg and sperm involves the two gametic transcriptomes. In flowering plants, the embryo sac embedded within the ovule contains the egg cell, while the pollen grain contains two sperm cells inside a supporting vegetative cell. The difficulties of collecting ...
ORGANISM(S): Oryza sativa Japonica Group 
2013-10-31 | E-GEOD-50777 | biostudies-arrayexpress
TranscriptomicsSublytic concentrations of Staphylococcus aureus Panton-Valentine leukocidin alter human polymorphonuclear leukocyte gene expression and enhance bactericidal capacity.
Community-associated methicillin-resistant Staphylococcus aureus (CA-MRSA) infections are often caused by strains encoding Panton-Valentine leukocidin (PVL). PVL can cause lysis of polymorphonuclear leukocytes (PMNs) and other myeloid cells in vitro, a function considered widely as the primary means...
ORGANISM(S): Homo sapiens 
2012-09-06 | E-GEOD-33939 | biostudies-arrayexpress
TranscriptomicsInteractome analysis of longitudinal pharyngeal infection of cynomolgus macaques by group A Streptococcus
Relatively little is understood about the dynamics of global host–pathogen transcriptome changes that occur during bacterial infection of mucosal surfaces. To test the hypothesis that group A Streptococcus (GAS) infection of the oropharynx provokes a host transcriptome response, we performed genom...
ORGANISM(S): Macaca fascicularis 
2010-03-18 | E-GEOD-20262 | biostudies-arrayexpress
TranscriptomicsGlobal changes in Staphylococcus aureus gene expression in human blood provide insight into mechanisms of immune evasion and virulence
Staphylococcus aureus is a leading cause of bloodstream infections worldwide. In the United States, many of these infections are caused by a strain known as USA300. Although progress has been made, our understanding of the S. aureus molecules that promote bacteremia and survival in human blood is ...
ORGANISM(S): Staphylococcus aureus 
2011-08-25 | E-GEOD-25454 | biostudies-arrayexpress
GenomicsGenomic Sequencing of Medulloblastoma

Medulloblastomas are the most common malignant brain tumors in children. Identifying and understanding the genetic events that drive these tumors is critical for the development of more effective diagnostic, prognostic and therapeutic strategies. Recently, our group and others described distinct ...

phs000504.v1.p1 | EGA
UnknownComparison of optical coherence tomography assessments in the comparison of age-related macular degeneration treatments trials.
Not available
S-EPMC4515372 | biostudies-literature
Genomicsena-DATASET-BGI-31-12-2014-03:23:33:590-567 - samples
Gastric Cancer (GC) is a highly heterogeneous disease. To identify potential clinically actionable therapeutic targets that may inform individualized treatment strategies, we performed whole-exome sequencing on 78 GCs of differing histologies and anatomic locations, as well as whole-genome sequencin...
EGAD00001001118 | EGA
GenomicsWGS and WES of 78 pairs Chinese gastric cancer
Gastric Cancer (GC) is a highly heterogeneous disease. To identify potential clinically actionable therapeutic targets that may inform individualized treatment strategies, we performed whole-exome sequencing on 78 GCs of differing histologies and anatomic locations, as well as whole-genome sequencin...
EGAS00001001056 | EGA
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