Abstract:
:Breast cancer transcriptome acquires a myriad of regulation changes, and splicing is critical for the cell to "tailor-make" specific functional transcripts. We systematically revealed splicing signatures of the three most common types of breast tumors using RNA sequencing: TNBC, non-TNBC and HER2-positive breast cancer. We discovered subtype specific differentially spliced genes and splice isoforms not previously recognized in human transcriptome. Further, we showed that exon skip and intron retention are predominant splice events in breast cancer. In addition, we found that differential expression of primary transcripts and promoter switching are significantly deregulated in breast cancer compared to normal breast. We validated the presence of novel hybrid isoforms of critical molecules like CDK4, LARP1, ADD3, and PHLPP2. Our study provides the first comprehensive portrait of transcriptional and splicing signatures specific to breast cancer sub-types, as well as previously unknown transcripts that prompt the need for complete annotation of tissue and disease specific transcriptome.
journal_name
Sci Repjournal_title
Scientific reportsauthors
Eswaran J,Horvath A,Godbole S,Reddy SD,Mudvari P,Ohshiro K,Cyanam D,Nair S,Fuqua SA,Polyak K,Florea LD,Kumar Rdoi
10.1038/srep01689subject
Has Abstractpub_date
2013-01-01 00:00:00pages
1689issn
2045-2322pii
srep01689journal_volume
3pub_type
杂志文章abstract::Spinal cord injury (SCI) is frequently accompanied by a degree of spontaneous functional recovery. The underlying mechanisms through which such recovery is generated remain elusive. In this study, we observed a significant spontaneous motor function recovery 14 to 28 days after spinal cord transection (SCT) in rats. U...
journal_title:Scientific reports
pub_type: 杂志文章
doi:10.1038/srep16911
更新日期:2015-11-23 00:00:00
abstract::The prevalence of a macrophage phenotype in atherosclerotic plaque may drive its progression and/or instability. Macrophages from coronary plaques are not available, and monocyte-derived macrophages (MDMs) are usually considered as a surrogate. We compared the MDM profile obtained from coronary artery disease (CAD) pa...
journal_title:Scientific reports
pub_type: 杂志文章
doi:10.1038/s41598-019-44847-3
更新日期:2019-06-18 00:00:00
abstract::Allergic asthma and obesity are major public health problems in the world. Recent Meta-analysis studies implicated a positive relationship between serum leptin, which is elevated in obese individuals, and the risk of asthma. However, it is not well understood how obesity-associated elevation of leptin increases the ri...
journal_title:Scientific reports
pub_type: 杂志文章
doi:10.1038/s41598-018-27278-4
更新日期:2018-06-11 00:00:00
abstract::Given that the biological processes governing the oncogenesis of pancreatic cancers could present useful therapeutic targets, there is a pressing need to molecularly distinguish between different clinically relevant pancreatic cancer subtypes. To address this challenge, we used targeted proteomics and other molecular ...
journal_title:Scientific reports
pub_type: 杂志文章
doi:10.1038/s41598-020-58290-2
更新日期:2020-01-27 00:00:00
abstract::The first instar larva of a species of the Australian endemic genus Aenigmetopia Malloch is described for the first time, along with the first instar larvae of three other Australian species representing the genera Amobia Robineau-Desvoidy and Protomiltogramma Townsend. Larval morphology was analysed using a combinati...
journal_title:Scientific reports
pub_type: 杂志文章
doi:10.1038/s41598-020-80139-x
更新日期:2021-01-29 00:00:00
abstract::Clostridial neurotoxins (CNTs), which include botulinum neurotoxins (BoNTs) and tetanus neurotoxin (TeNT), are the most potent toxins known to science and are the causative agents of botulism and tetanus, respectively. The evolutionary origins of CNTs and their relationships to other proteins remains an intriguing que...
journal_title:Scientific reports
pub_type: 杂志文章
doi:10.1038/s41598-018-37647-8
更新日期:2019-02-07 00:00:00
abstract::Climatic changes can induce geographic expansion and altitudinal shifts in the distribution of invasive species by offering more thermally suitable habitats. At the remote sub-Antarctic Kerguelen Islands, the predatory insect Merizodus soledadinus (Coleoptera: Carabidae), introduced in 1913, rapidly invaded coastal ha...
journal_title:Scientific reports
pub_type: 杂志文章
doi:10.1038/s41598-020-57868-0
更新日期:2020-01-27 00:00:00
abstract::Optical polarizing devices exploiting graphene embedded in waveguides have been demonstrated in the literature recently and both the TE- and TM-pass behaviors were reported. The determination of the passing polarization is usually attributed to graphene's Fermi level (and, therefore, doping level), with, however, no d...
journal_title:Scientific reports
pub_type: 杂志文章
doi:10.1038/srep16949
更新日期:2015-11-19 00:00:00
abstract::Sludge bulking is a major problem that restricts the development of the activated sludge process. The microbial community responsible for sludge bulking varies depending on water quality and operational conditions. This study analysed the microbial community of bulking sludge in oxidation ditch with ultra-low sludge l...
journal_title:Scientific reports
pub_type: 杂志文章
doi:10.1038/s41598-019-50086-3
更新日期:2019-09-23 00:00:00
abstract::Cassava is one of the most important root crops as a reliable source of food and carbohydrates. Carbohydrate metabolism and starch accumulation in cassava storage root is a cascade process that includes large amounts of proteins and cofactors. Here, comparative proteomics were conducted in cassava root at nine develop...
journal_title:Scientific reports
pub_type: 杂志文章
doi:10.1038/srep19643
更新日期:2016-01-21 00:00:00
abstract::This study aimed to determine ANGPTL3 serum levels in healthy young lean and obese non-diabetic men during an oral glucose tolerance test (OGTT) and correlate them with anthropometric, biochemical and hormonal parameters. A case-control study was carried out and 30 young obese non-diabetic (23.90 ± 3.84 years and BMI ...
journal_title:Scientific reports
pub_type: 杂志文章
doi:10.1038/s41598-020-77961-8
更新日期:2020-12-03 00:00:00
abstract::An amendment to this paper has been published and can be accessed via a link at the top of the paper. ...
journal_title:Scientific reports
pub_type: 已发布勘误
doi:10.1038/s41598-020-58429-1
更新日期:2020-01-27 00:00:00
abstract::Although cochlear venous insufficiency has been considered to cause sudden sensorineural hearing loss (SSHL), there is insufficient clinical evidence to support this hypothesis. We sought to determine whether there is a correlation between draining patterns of the dural venous sinuses and the side of the affected ear ...
journal_title:Scientific reports
pub_type: 杂志文章
doi:10.1038/s41598-020-62946-4
更新日期:2020-04-07 00:00:00
abstract::Macrophage infiltration and recruitment in breast tumors has been correlated with poor prognosis in breast cancer patients and has been linked to tumor cell dissemination. Much of our understanding comes from animal models in which macrophages are labeled by expression of an extrinsic fluorophore. However, conventiona...
journal_title:Scientific reports
pub_type: 杂志文章
doi:10.1038/srep25086
更新日期:2016-05-25 00:00:00
abstract::We show that H-bonded host-guest systems associate in ionic liquids (ILs), pure salts with melting point below room temperature, in which dipole-dipole electrostatic interactions should be negligible in comparison with dipole-charge interactions. Binding constants (Ka) obtained from titrations of four H-bonded host-gu...
journal_title:Scientific reports
pub_type: 杂志文章
doi:10.1038/s41598-020-71803-3
更新日期:2020-09-22 00:00:00
abstract::Surface soil moisture plays a crucial role on the terrestrial water, energy, and carbon cycles. Characterizing its variability in space and time is critical to increase our capability to forecast extreme weather events, manage water resources, and optimize agricultural practices. Global estimates of surface soil moist...
journal_title:Scientific reports
pub_type: 杂志文章
doi:10.1038/s41598-019-52650-3
更新日期:2019-11-06 00:00:00
abstract::Severe sepsis or septic shock is one of the rising causes for mortality worldwide representing nearly 10% of intensive care unit admissions. Susceptibility to sepsis is identified to be mediated by innate pattern recognition receptors and responsive signaling pathways of the host. The c-Jun N-terminal Kinase (JNK)-med...
journal_title:Scientific reports
pub_type: 杂志文章
doi:10.1038/srep07214
更新日期:2014-11-27 00:00:00
abstract::The increasing performance of optical lattice clocks has made them attractive for scientific applications in space and thus has pushed the development of their components including the interrogation lasers of the clock transitions towards being suitable for space, which amongst others requires making them more power e...
journal_title:Scientific reports
pub_type: 杂志文章
doi:10.1038/srep33973
更新日期:2016-09-26 00:00:00
abstract::We study the S = 1/2 Kondo lattice model which is widely used to describe heavy fermion behavior. In conventional treatments of the model the Kondo interaction is decoupled in favour of a hybridization of conduction and localized f electrons. However, such an approximation breaks the local gauge symmetry and implicate...
journal_title:Scientific reports
pub_type: 杂志文章
doi:10.1038/srep02691
更新日期:2013-01-01 00:00:00
abstract::The phosphatidylinositol (PI) cycle is central to eukaryotic cell signaling. Its complexity, due to the number of reactions and lipid and inositol phosphate intermediates involved makes it difficult to analyze experimentally. Computational modelling approaches are seen as a way forward to elucidate complex biological ...
journal_title:Scientific reports
pub_type: 杂志文章
doi:10.1038/s41598-020-70215-7
更新日期:2020-08-06 00:00:00
abstract::In this study, the toxic effects of phenoxyethanol (Phy-Et), which is widely used in cosmetic industry, has been investigated with Allium test by means of physiological, cytogenetic, anatomical and biochemical parameters. To determine the changes in physiological reactions weight gain, relative injury rate, germinatio...
journal_title:Scientific reports
pub_type: 杂志文章
doi:10.1038/s41598-020-58170-9
更新日期:2020-01-27 00:00:00
abstract::Within the last fifteen years, network theory has been successfully applied both to natural sciences and to socioeconomic disciplines. In particular, bipartite networks have been recognized to provide a particularly insightful representation of many systems, ranging from mutualistic networks in ecology to trade networ...
journal_title:Scientific reports
pub_type: 杂志文章
doi:10.1038/srep10595
更新日期:2015-06-01 00:00:00
abstract::Epigenetic mechanisms are known to exert control over gene expression and determine cell fate. Genetic mutations in epigenetic regulators are responsible for several neurologic disorders. Mutations of the chromatin remodeling protein Lsh/HELLS can cause the human Immunodeficiency, Centromere instability and Facial ano...
journal_title:Scientific reports
pub_type: 杂志文章
doi:10.1038/s41598-017-00804-6
更新日期:2017-04-25 00:00:00
abstract::Clinical practice guides recommend delayed clamping of the umbilical cord. If this is not possible, some authors suggest milking as an alternative. The objective of this study was to determine the variability in professional practice in the management of umbilical cord clamping and milking and to identify factors or c...
journal_title:Scientific reports
pub_type: 杂志文章
doi:10.1038/s41598-020-58641-z
更新日期:2020-02-03 00:00:00
abstract::Using a free boundary approach based on an analogy with ice melting models, we propose a deterministic PDE framework to describe the dynamics of fitness distributions in the presence of beneficial mutations with non-epistatic effects on fitness. Contrarily to most approaches based on deterministic models, our framewor...
journal_title:Scientific reports
pub_type: 杂志文章
doi:10.1038/s41598-017-17212-5
更新日期:2017-12-19 00:00:00
abstract::Honokiol, derived from Magnolia officinalis, has various pharmacological properties. Platelet activation plays a critical role in cardiovascular diseases. Honokiol has been reported to inhibit collagen-stimulated rabbit platelet aggregation. However, detailed further studies on the characteristics and functional activ...
journal_title:Scientific reports
pub_type: 杂志文章
doi:10.1038/srep40002
更新日期:2017-01-05 00:00:00
abstract::The role of marginal populations for the long-term maintenance of species' genetic diversity and evolutionary potential is particularly timely in view of the range shifts caused by climate change. The Centre-Periphery hypothesis predicts that marginal populations should bear reduced genetic diversity and have low evol...
journal_title:Scientific reports
pub_type: 杂志文章
doi:10.1038/srep42416
更新日期:2017-02-10 00:00:00
abstract::The androgen receptor (AR) regulates male sexual development. We have now investigated AR homodimerization, hormone-dependent monomerization and nuclear translocation in PC-3 and COS-1 cells, by utilizing mutations associated with the androgen insensitivity syndrome: Pro767Ala, Phe765Leu, Met743Val and Trp742Arg. AR w...
journal_title:Scientific reports
pub_type: 杂志文章
doi:10.1038/s41598-019-53139-9
更新日期:2019-11-13 00:00:00
abstract::Proton pump inhibitors (PPIs) belong to the most common medication in geriatric medicine. They are known to reduce osteoclast activity and to delay fracture healing in young adult mice. Because differentiation and proliferation in fracture healing as well as pharmacologic actions of drugs markedly differ in the elderl...
journal_title:Scientific reports
pub_type: 杂志文章
doi:10.1038/s41598-020-79605-3
更新日期:2020-12-23 00:00:00
abstract::Fiber shaped supercapacitors are promising candidates for wearable electronics because they are flexible and light-weight. However, a critical challenge of the widespread application of these energy storage devices is their low cell voltages and low energy densities, resulting in limited run-time of the electronics. H...
journal_title:Scientific reports
pub_type: 杂志文章
doi:10.1038/srep26890
更新日期:2016-06-01 00:00:00