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Showing 1 to 12 of 30 entries
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Stem cell-derived neurons reflect features of protein networks, neuropathology, and cognitive outcome of their aged human donors.

Neuron

Lagomarsino VN, Pearse RV, Liu L, Hsieh YC, Fernandez MA, Vinton EA, Paull D, Felsky D, Tasaki S, Gaiteri C, Vardarajan B, Lee H, Muratore CR, Benoit CR, Chou V, Fancher SB, He A, Merchant JP, Duong DM, Martinez H, Zhou M, Bah F, Vicent MA, Stricker JMS, Xu J, Dammer EB, Levey AI, Chibnik LB, Menon V, Seyfried NT, De Jager PL, Noggle S, Selkoe DJ, Bennett DA, Young-Pearse TL.
PMID: 34473944
Neuron. 2021 Nov 03;109(21):3402-3420.e9. doi: 10.1016/j.neuron.2021.08.003. Epub 2021 Sep 01.

We have generated a controlled and manipulable resource that captures genetic risk for Alzheimer's disease: iPSC lines from 53 individuals coupled with RNA and proteomic profiling of both iPSC-derived neurons and brain tissue of the same individuals. Data collected...

Integrated Genomic, Transcriptomic and Proteomic Analysis for Identifying Markers of Alzheimer's Disease.

Diagnostics (Basel, Switzerland)

Madrid L, Labrador SC, González-Pérez A, Sáez ME, The Alzheimer's Disease Neuroimaging Initiative Adni.
PMID: 34943540
Diagnostics (Basel). 2021 Dec 08;11(12). doi: 10.3390/diagnostics11122303.

There is an urgent need to identify biomarkers for Alzheimer's disease (AD), but the identification of reliable blood-based biomarkers has proven to be much more difficult than initially expected. The current availability of high-throughput multi-omics data opens new possibilities...

Modeling multifunctionality of genes with secondary gene co-expression networks in human brain provides novel disease insights.

Bioinformatics (Oxford, England)

Sánchez JA, Gil-Martinez AL, Cisterna A, García-Ruíz S, Gómez-Pascual A, Reynolds RH, Nalls M, Hardy J, Ryten M, Botía JA.
PMID: 33734320
Bioinformatics. 2021 Mar 17; doi: 10.1093/bioinformatics/btab175. Epub 2021 Mar 17.

MOTIVATION: Co-expression networks are a powerful gene expression analysis method to study how genes co-express together in clusters with functional coherence that usually resemble specific cell type behaviour for the genes involved. They can be applied to bulk-tissue gene...

Rare variants in the endocytic pathway are associated with Alzheimer's disease, its related phenotypes, and functional consequences.

PLoS genetics

Zhan L, Li J, Jew B, Sul JH.
PMID: 34516545
PLoS Genet. 2021 Sep 13;17(9):e1009772. doi: 10.1371/journal.pgen.1009772. eCollection 2021 Sep.

Late-onset Alzheimer's disease (LOAD) is the most common type of dementia causing irreversible brain damage to the elderly and presents a major public health challenge. Clinical research and genome-wide association studies have suggested a potential contribution of the endocytic...

Analysis of genes (TMEM106B, GRN, ABCC9, KCNMB2, and APOE) implicated in risk for LATE-NC and hippocampal sclerosis provides pathogenetic insights: a retrospective genetic association study.

Acta neuropathologica communications

Dugan AJ, Nelson PT, Katsumata Y, Shade LMP, Boehme KL, Teylan MA, Cykowski MD, Mukherjee S, Kauwe JSK, Hohman TJ, Schneider JA, Fardo DW.
PMID: 34526147
Acta Neuropathol Commun. 2021 Sep 15;9(1):152. doi: 10.1186/s40478-021-01250-2.

Limbic-predominant age-related TDP-43 encephalopathy neuropathologic change (LATE-NC) is the most prevalent subtype of TDP-43 proteinopathy, affecting up to 1/3rd of aged persons. LATE-NC often co-occurs with hippocampal sclerosis (HS) pathology. It is currently unknown why some individuals with LATE-NC...

Integrative-omics for discovery of network-level disease biomarkers: a case study in Alzheimer's disease.

Briefings in bioinformatics

Xie L, He B, Varathan P, Nho K, Risacher SL, Saykin AJ, Salama P, Yan J.
PMID: 33971669
Brief Bioinform. 2021 Nov 05;22(6). doi: 10.1093/bib/bbab121.

A large number of genetic variations have been identified to be associated with Alzheimer's disease (AD) and related quantitative traits. However, majority of existing studies focused on single types of omics data, lacking the power of generating a community...

Molecular subtyping of Alzheimer's disease using RNA sequencing data reveals novel mechanisms and targets.

Science advances

Neff RA, Wang M, Vatansever S, Guo L, Ming C, Wang Q, Wang E, Horgusluoglu-Moloch E, Song WM, Li A, Castranio EL, Tcw J, Ho L, Goate A, Fossati V, Noggle S, Gandy S, Ehrlich ME, Katsel P, Schadt E, Cai D, Brennand KJ, Haroutunian V, Zhang B.
PMID: 33523961
Sci Adv. 2021 Jan 06;7(2). doi: 10.1126/sciadv.abb5398. Print 2021 Jan.

Alzheimer's disease (AD), the most common form of dementia, is recognized as a heterogeneous disease with diverse pathophysiologic mechanisms. In this study, we interrogate the molecular heterogeneity of AD by analyzing 1543 transcriptomes across five brain regions in two...

Molecular subtyping of Alzheimer's disease using RNA sequencing data reveals novel mechanisms and targets.

Science advances

Neff RA, Wang M, Vatansever S, Guo L, Ming C, Wang Q, Wang E, Horgusluoglu-Moloch E, Song WM, Li A, Castranio EL, Tcw J, Ho L, Goate A, Fossati V, Noggle S, Gandy S, Ehrlich ME, Katsel P, Schadt E, Cai D, Brennand KJ, Haroutunian V, Zhang B.
PMID: 33523961
Sci Adv. 2021 Jan 06;7(2). doi: 10.1126/sciadv.abb5398. Print 2021 Jan.

Alzheimer's disease (AD), the most common form of dementia, is recognized as a heterogeneous disease with diverse pathophysiologic mechanisms. In this study, we interrogate the molecular heterogeneity of AD by analyzing 1543 transcriptomes across five brain regions in two...

Identification of cell-type-specific marker genes from co-expression patterns in tissue samples.

Bioinformatics (Oxford, England)

Qiu Y, Wang J, Lei J, Roeder K.
PMID: 33904573
Bioinformatics. 2021 Apr 27; doi: 10.1093/bioinformatics/btab257. Epub 2021 Apr 27.

MOTIVATION: Marker genes, defined as genes that are expressed primarily in a single cell type, can be identified from the single cell transcriptome; however, such data are not always available for the many uses of marker genes, such as...

Dysregulation of the secretory pathway connects Alzheimer's disease genetics to aggregate formation.

Cell systems

Kuo CC, Chiang AWT, Baghdassarian HM, Lewis NE.
PMID: 34171228
Cell Syst. 2021 Sep 22;12(9):873-884.e4. doi: 10.1016/j.cels.2021.06.001. Epub 2021 Jun 24.

Amyloid disorders such as Alzheimer's disease (AD) involve the aggregation of secreted proteins. However, it is largely unclear how secretory-pathway proteins contribute to amyloid formation. We developed a systems biology framework integrating expression data with protein-protein interaction networks to...

Integrative brain transcriptome analysis links complement component 4 and HSPA2 to the APOE ε2 protective effect in Alzheimer disease.

Molecular psychiatry

Panitch R, Hu J, Chung J, Zhu C, Meng G, Xia W, Bennett DA, Lunetta KL, Ikezu T, Au R, Stein TD, Farrer LA, Jun GR.
PMID: 34480088
Mol Psychiatry. 2021 Oct;26(10):6054-6064. doi: 10.1038/s41380-021-01266-z. Epub 2021 Sep 03.

Mechanisms underlying the protective effect of apolipoprotein E (APOE) ε2 against Alzheimer disease (AD) are not well understood. We analyzed gene expression data derived from autopsied brains donated by 982 individuals including 135 APOE ɛ2/ɛ3 carriers. Complement pathway genes...

Association between WWOX/MAF variants and dementia-related neuropathologic endophenotypes.

Neurobiology of aging

Dugan AJ, Nelson PT, Katsumata Y, Shade LMP, Teylan MA, Boehme KL, Mukherjee S, Kauwe JSK, Hohman TJ, Schneider JA, Fardo DW.
PMID: 34852950
Neurobiol Aging. 2022 Mar;111:95-106. doi: 10.1016/j.neurobiolaging.2021.10.011. Epub 2021 Oct 29.

The genetic locus containing the WWOX and MAF genes was implicated as a clinical Alzheimer's disease (AD) risk locus in two recent large meta-analytic genome wide association studies (GWAS). In a prior GWAS, we identified a variant in WWOX...

Showing 1 to 12 of 30 entries