-
1
-
-
84943785470
-
Recent advances in understanding the genetic architecture of type 2 diabetes
-
Mohlke KL, Boehnke M (2015) Recent advances in understanding the genetic architecture of type 2 diabetes. Hum Mol Genet 24(R1):R85-R92.
-
(2015)
Hum Mol Genet
, vol.24
, Issue.R1
, pp. R85-R92
-
-
Mohlke, K.L.1
Boehnke, M.2
-
2
-
-
84887072795
-
Chromatin stretch enhancer states drive cell-specific gene regulation and harbor human disease risk variants
-
NISC Comparative Sequencing Program; National Institutes of Health Intramural Sequencing Center Comparative Sequencing Program Authors; NISC Comparative Sequencing Program Authors
-
Parker SCJ, et al.; NISC Comparative Sequencing Program; National Institutes of Health Intramural Sequencing Center Comparative Sequencing Program Authors; NISC Comparative Sequencing Program Authors (2013) Chromatin stretch enhancer states drive cell-specific gene regulation and harbor human disease risk variants. Proc Natl Acad Sci USA 110(44):17921-17926.
-
(2013)
Proc Natl Acad Sci USA
, vol.110
, Issue.44
, pp. 17921-17926
-
-
Parker, S.C.J.1
-
3
-
-
84895806401
-
Pancreatic islet enhancer clusters enriched in type 2 diabetes risk-associated variants
-
Pasquali L, et al. (2014) Pancreatic islet enhancer clusters enriched in type 2 diabetes risk-associated variants. Nat Genet 46(2):136-143.
-
(2014)
Nat Genet
, vol.46
, Issue.2
, pp. 136-143
-
-
Pasquali, L.1
-
4
-
-
84873086126
-
Chromatin marks identify critical cell types for fine mapping complex trait variants
-
Trynka G, et al. (2013) Chromatin marks identify critical cell types for fine mapping complex trait variants. Nat Genet 45(2):124-130.
-
(2013)
Nat Genet
, vol.45
, Issue.2
, pp. 124-130
-
-
Trynka, G.1
-
5
-
-
84907222786
-
Global genomic and transcriptomic analysis of human pancreatic islets reveals novel genes influencing glucose metabolism
-
Fadista J, et al. (2014) Global genomic and transcriptomic analysis of human pancreatic islets reveals novel genes influencing glucose metabolism. Proc Natl Acad Sci USA 111(38):13924-13929.
-
(2014)
Proc Natl Acad Sci USA
, vol.111
, Issue.38
, pp. 13924-13929
-
-
Fadista, J.1
-
6
-
-
84953234597
-
Transcript expression data from human islets links regulatory signals from genome-wide association studies for type 2 diabetes and glycemic traits to their downstream effectors
-
van de Bunt M, et al. (2015) Transcript expression data from human islets links regulatory signals from genome-wide association studies for type 2 diabetes and glycemic traits to their downstream effectors. PLoS Genet 11(12):e1005694.
-
(2015)
PLoS Genet
, vol.11
, Issue.12
-
-
Van De Bunt, M.1
-
7
-
-
84976612077
-
The genetic regulatory signature of type 2 diabetes in human skeletal muscle
-
Scott LJ, et al. (2016) The genetic regulatory signature of type 2 diabetes in human skeletal muscle. Nat Commun 7:11764.
-
(2016)
Nat Commun
, vol.7
, pp. 11764
-
-
Scott, L.J.1
-
8
-
-
84923362619
-
Integrative analysis of 111 reference human epigenomes
-
Kundaje A, et al.; Roadmap Epigenomics Consortium (2015) Integrative analysis of 111 reference human epigenomes. Nature 518(7539):317-330.
-
(2015)
Nature
, vol.518
, Issue.7539
, pp. 317-330
-
-
Kundaje, A.1
-
9
-
-
79955583542
-
Mapping and analysis of chromatin state dynamics in nine human cell types
-
Ernst J, et al. (2011) Mapping and analysis of chromatin state dynamics in nine human cell types. Nature 473(7345):43-49.
-
(2011)
Nature
, vol.473
, Issue.7345
, pp. 43-49
-
-
Ernst, J.1
-
10
-
-
77957220857
-
Comparative epigenomic analysis of murine and human adipogenesis
-
Mikkelsen TS, et al. (2010) Comparative epigenomic analysis of murine and human adipogenesis. Cell 143(1):156-169.
-
(2010)
Cell
, vol.143
, Issue.1
, pp. 156-169
-
-
Mikkelsen, T.S.1
-
11
-
-
84888877924
-
Transposition of native chromatin for fast and sensitive epigenomic profiling of open chromatin, DNA-binding proteins and nucleosome position
-
Buenrostro JD, Giresi PG, Zaba LC, Chang HY, Greenleaf WJ (2013) Transposition of native chromatin for fast and sensitive epigenomic profiling of open chromatin, DNA-binding proteins and nucleosome position. Nat Methods 10(12):1213-1218.
-
(2013)
Nat Methods
, vol.10
, Issue.12
, pp. 1213-1218
-
-
Buenrostro, J.D.1
Giresi, P.G.2
Zaba, L.C.3
Chang, H.Y.4
Greenleaf, W.J.5
-
12
-
-
79952266465
-
Accurate inference of transcription factor binding from DNA sequence and chromatin accessibility data
-
Pique-Regi R, et al. (2011) Accurate inference of transcription factor binding from DNA sequence and chromatin accessibility data. Genome Res 21(3):447-455.
-
(2011)
Genome Res
, vol.21
, Issue.3
, pp. 447-455
-
-
Pique-Regi, R.1
-
13
-
-
84961966439
-
Type 2 diabetes-associated K+ channel TALK-1 modulates β-cell electrical excitability, second-phase insulin secretion, and glucose homeostasis
-
Vierra NC, et al. (2015) Type 2 diabetes-associated K+ channel TALK-1 modulates β-cell electrical excitability, second-phase insulin secretion, and glucose homeostasis. Diabetes 64(11):3818-3828.
-
(2015)
Diabetes
, vol.64
, Issue.11
, pp. 3818-3828
-
-
Vierra, N.C.1
-
14
-
-
84937033679
-
Motif signatures in stretch enhancers are enriched for disease-associated genetic variants
-
Quang DX, Erdos MR, Parker SCJ, Collins FS (2015) Motif signatures in stretch enhancers are enriched for disease-associated genetic variants. Epigenetics Chromatin 8(1):23.
-
(2015)
Epigenetics Chromatin
, vol.8
, Issue.1
, pp. 23
-
-
Quang, D.X.1
Erdos, M.R.2
Parker, S.C.J.3
Collins, F.S.4
-
15
-
-
84939517308
-
GREGOR: Evaluating global enrichment of trait-associated variants in epigenomic features using a systematic, data-driven approach
-
Schmidt EM, et al. (2015) GREGOR: Evaluating global enrichment of trait-associated variants in epigenomic features using a systematic, data-driven approach. Bioinformatics 31(16):2601-2606.
-
(2015)
Bioinformatics
, vol.31
, Issue.16
, pp. 2601-2606
-
-
Schmidt, E.M.1
-
16
-
-
84960349182
-
Models of human core transcriptional regulatory circuitries
-
Saint-André V, et al. (2016) Models of human core transcriptional regulatory circuitries. Genome Res 26(3):385-396.
-
(2016)
Genome Res
, vol.26
, Issue.3
, pp. 385-396
-
-
Saint-André, V.1
-
17
-
-
84931274676
-
Characterization of functional methylomes by next-generation capture sequencing identifies novel disease-associated variants
-
Allum F, et al.; Multiple Tissue Human Expression Resource Consortium (2015) Characterization of functional methylomes by next-generation capture sequencing identifies novel disease-associated variants. Nat Commun 6:7211.
-
(2015)
Nat Commun
, vol.6
, pp. 7211
-
-
Allum, F.1
-
18
-
-
84959924150
-
Which genetics variants in DNase-Seq footprints are more likely to alter binding?
-
Moyerbrailean GA, et al. (2016) Which genetics variants in DNase-Seq footprints are more likely to alter binding? PLoS Genet 12(2):e1005875.
-
(2016)
PLoS Genet
, vol.12
, Issue.2
-
-
Moyerbrailean, G.A.1
-
19
-
-
84949091882
-
Large-scale identification of sequence variants influencing human transcription factor occupancy in vivo
-
Maurano MT, et al. (2015) Large-scale identification of sequence variants influencing human transcription factor occupancy in vivo. Nat Genet 47(12):1393-1401.
-
(2015)
Nat Genet
, vol.47
, Issue.12
, pp. 1393-1401
-
-
Maurano, M.T.1
-
20
-
-
51649112751
-
Identification and characterization of novel human tissue-specific RFX transcription factors
-
Aftab S, Semenec L, Chu JS-C, Chen N (2008) Identification and characterization of novel human tissue-specific RFX transcription factors. BMC Evol Biol 8(1):226.
-
(2008)
BMC Evol Biol
, vol.8
, Issue.1
, pp. 226
-
-
Aftab, S.1
Semenec, L.2
Chu, J.S.-C.3
Chen, N.4
-
21
-
-
84948984088
-
Genetic fine mapping and genomic annotation defines causal mechanisms at type 2 diabetes susceptibility loci
-
Gaulton KJ, et al.; DIAbetes Genetics Replication And Meta-analysis (DIAGRAM) Consortium (2015) Genetic fine mapping and genomic annotation defines causal mechanisms at type 2 diabetes susceptibility loci. Nat Genet 47(12):1415-1425.
-
(2015)
Nat Genet
, vol.47
, Issue.12
, pp. 1415-1425
-
-
Gaulton, K.J.1
-
22
-
-
84923326765
-
Genetic and epigenetic fine mapping of causal autoimmune disease variants
-
Farh KK-H, et al. (2015) Genetic and epigenetic fine mapping of causal autoimmune disease variants. Nature 518(7539):337-343.
-
(2015)
Nature
, vol.518
, Issue.7539
, pp. 337-343
-
-
Farh, K.K.-H.1
-
23
-
-
0034811143
-
Genomic and functional characteristics of novel human pancreatic 2P domain K(+) channels
-
Girard C, et al. (2001) Genomic and functional characteristics of novel human pancreatic 2P domain K(+) channels. Biochem Biophys Res Commun 282(1):249-256.
-
(2001)
Biochem Biophys Res Commun
, vol.282
, Issue.1
, pp. 249-256
-
-
Girard, C.1
-
24
-
-
34548363326
-
Biophysical, pharmacological, and functional characteristics of cloned and native mammalian two-pore domain K+ channels
-
Lotshaw DP (2007) Biophysical, pharmacological, and functional characteristics of cloned and native mammalian two-pore domain K+ channels. Cell Biochem Biophys 47(2):209-256.
-
(2007)
Cell Biochem Biophys
, vol.47
, Issue.2
, pp. 209-256
-
-
Lotshaw, D.P.1
-
25
-
-
84954489007
-
Mapping mammalian cell-type-specific transcriptional regulatory networks using KD-CAGE and ChIP-seq data in the TC-YIK cell line
-
Lizio M, et al.; FANTOM consortium (2015) Mapping mammalian cell-type-specific transcriptional regulatory networks using KD-CAGE and ChIP-seq data in the TC-YIK cell line. Front Genet 6:331.
-
(2015)
Front Genet
, vol.6
, pp. 331
-
-
Lizio, M.1
-
26
-
-
84891697734
-
Combinatorial effects of multiple enhancer variants in linkage disequilibrium dictate levels of gene expression to confer susceptibility to common traits
-
Corradin O, et al. (2014) Combinatorial effects of multiple enhancer variants in linkage disequilibrium dictate levels of gene expression to confer susceptibility to common traits. Genome Res 24(1):1-13.
-
(2014)
Genome Res
, vol.24
, Issue.1
, pp. 1-13
-
-
Corradin, O.1
-
27
-
-
84938835765
-
Coordinated regulatory variation associated with gestational hyperglycaemia regulates expression of the novel hexokinase HKDC1
-
Guo C, et al. (2015) Coordinated regulatory variation associated with gestational hyperglycaemia regulates expression of the novel hexokinase HKDC1. Nat Commun 6:6069.
-
(2015)
Nat Commun
, vol.6
, pp. 6069
-
-
Guo, C.1
-
28
-
-
84964576014
-
Genome editing of lineage determinants in human pluripotent stem cells reveals mechanisms of pancreatic development and diabetes
-
Zhu Z, et al. (2016) Genome editing of lineage determinants in human pluripotent stem cells reveals mechanisms of pancreatic development and diabetes. Cell Stem Cell 18(6):755-768.
-
(2016)
Cell Stem Cell
, vol.18
, Issue.6
, pp. 755-768
-
-
Zhu, Z.1
-
29
-
-
76749108047
-
Rfx6 directs islet formation and insulin production in mice and humans
-
Smith SB, et al. (2010) Rfx6 directs islet formation and insulin production in mice and humans. Nature 463(7282):775-780.
-
(2010)
Nature
, vol.463
, Issue.7282
, pp. 775-780
-
-
Smith, S.B.1
-
30
-
-
73649093422
-
Rfx6 is an Ngn3-dependent winged helix transcription factor required for pancreatic islet cell development
-
Soyer J, et al. (2010) Rfx6 is an Ngn3-dependent winged helix transcription factor required for pancreatic islet cell development. Development 137(2):203-212.
-
(2010)
Development
, vol.137
, Issue.2
, pp. 203-212
-
-
Soyer, J.1
-
31
-
-
84919846858
-
Rfx6 maintains the functional identity of adult pancreatic β cells
-
Piccand J, et al. (2014) Rfx6 maintains the functional identity of adult pancreatic β cells. Cell Reports 9(6):2219-2232.
-
(2014)
Cell Reports
, vol.9
, Issue.6
, pp. 2219-2232
-
-
Piccand, J.1
-
32
-
-
84919846983
-
RFX6 regulates insulin secretion by modulating Ca2+ homeostasis in human β cells
-
Chandra V, et al. (2014) RFX6 regulates insulin secretion by modulating Ca2+ homeostasis in human β cells. Cell Reports 9(6):2206-2218.
-
(2014)
Cell Reports
, vol.9
, Issue.6
, pp. 2206-2218
-
-
Chandra, V.1
-
33
-
-
84984692559
-
Clinical, genetic, and biochemical characteristics of early-onset diabetes in the Finnish population
-
Huopio H, et al. (2016) Clinical, genetic, and biochemical characteristics of early-onset diabetes in the Finnish population. J Clin Endocrinol Metab 101(8):3018-3026.
-
(2016)
J Clin Endocrinol Metab
, vol.101
, Issue.8
, pp. 3018-3026
-
-
Huopio, H.1
-
34
-
-
11144315998
-
Epithelial-to-mesenchymal transition generates proliferative human islet precursor cells
-
Gershengorn MC, et al. (2004) Epithelial-to-mesenchymal transition generates proliferative human islet precursor cells. Science 306(5705):2261-2264.
-
(2004)
Science
, vol.306
, Issue.5705
, pp. 2261-2264
-
-
Gershengorn, M.C.1
-
35
-
-
78149265272
-
Robust relationship inference in genome-wide association studies
-
Manichaikul A, et al. (2010) Robust relationship inference in genome-wide association studies. Bioinformatics 26(22):2867-2873.
-
(2010)
Bioinformatics
, vol.26
, Issue.22
, pp. 2867-2873
-
-
Manichaikul, A.1
-
36
-
-
84871809302
-
STAR: Ultrafast universal RNA-seq aligner
-
Dobin A, et al. (2013) STAR: Ultrafast universal RNA-seq aligner. Bioinformatics 29(1):15-21.
-
(2013)
Bioinformatics
, vol.29
, Issue.1
, pp. 15-21
-
-
Dobin, A.1
-
37
-
-
84937110093
-
QoRTs: A comprehensive toolset for quality control and data processing of RNA-Seq experiments
-
Hartley SW, Mullikin JC (2015) QoRTs: A comprehensive toolset for quality control and data processing of RNA-Seq experiments. BMC Bioinformatics 16(1):224.
-
(2015)
BMC Bioinformatics
, vol.16
, Issue.1
, pp. 224
-
-
Hartley, S.W.1
Mullikin, J.C.2
-
38
-
-
84868490540
-
Detecting and estimating contamination of human DNA samples in sequencing and array-based genotype data
-
Jun G, et al. (2012) Detecting and estimating contamination of human DNA samples in sequencing and array-based genotype data. Am J Hum Genet 91(5):839-848.
-
(2012)
Am J Hum Genet
, vol.91
, Issue.5
, pp. 839-848
-
-
Jun, G.1
-
39
-
-
84928987900
-
HTSeq - A Python framework to work with high-throughput sequencing data
-
Anders S, Pyl PT, Huber W (2015) HTSeq - a Python framework to work with high-throughput sequencing data. Bioinformatics 31(2):166-169.
-
(2015)
Bioinformatics
, vol.31
, Issue.2
, pp. 166-169
-
-
Anders, S.1
Pyl, P.T.2
Huber, W.3
-
40
-
-
84864417548
-
Fast and accurate genotype imputation in genome-wide association studies through pre-phasing
-
Howie B, Fuchsberger C, Stephens M, Marchini J, Abecasis GR (2012) Fast and accurate genotype imputation in genome-wide association studies through pre-phasing. Nat Genet 44(8):955-959.
-
(2012)
Nat Genet
, vol.44
, Issue.8
, pp. 955-959
-
-
Howie, B.1
Fuchsberger, C.2
Stephens, M.3
Marchini, J.4
Abecasis, G.R.5
-
41
-
-
84943171338
-
A global reference for human genetic variation
-
Auton A, et al.; 1000 Genomes Project Consortium (2015) A global reference for human genetic variation. Nature 526(7571):68-74.
-
(2015)
Nature
, vol.526
, Issue.7571
, pp. 68-74
-
-
Auton, A.1
-
42
-
-
84871952176
-
Improved whole-chromosome phasing for disease and population genetic studies
-
Delaneau O, Zagury J-F, Marchini J (2013) Improved whole-chromosome phasing for disease and population genetic studies. Nat Methods 10(1):5-6.
-
(2013)
Nat Methods
, vol.10
, Issue.1
, pp. 5-6
-
-
Delaneau, O.1
Zagury, J.-F.2
Marchini, J.3
-
44
-
-
84861153094
-
Matrix eQTL: Ultra fast eQTL analysis via large matrix operations
-
Shabalin AA (2012) Matrix eQTL: Ultra fast eQTL analysis via large matrix operations. Bioinformatics 28(10):1353-1358.
-
(2012)
Bioinformatics
, vol.28
, Issue.10
, pp. 1353-1358
-
-
Shabalin, A.A.1
-
45
-
-
77955505742
-
A Bayesian framework to account for complex non-genetic factors in gene expression levels greatly increases power in eQTL studies
-
Stegle O, Parts L, Durbin R, Winn J (2010) A Bayesian framework to account for complex non-genetic factors in gene expression levels greatly increases power in eQTL studies. PLOS Comput Biol 6(5):e1000770.
-
(2010)
PLOS Comput Biol
, vol.6
, Issue.5
-
-
Stegle, O.1
Parts, L.2
Durbin, R.3
Winn, J.4
-
46
-
-
84861734626
-
Using probabilistic estimation of expression residuals (PEER) to obtain increased power and interpretability of gene expression analyses
-
Stegle O, Parts L, Piipari M, Winn J, Durbin R (2012) Using probabilistic estimation of expression residuals (PEER) to obtain increased power and interpretability of gene expression analyses. Nat Protoc 7(3):500-507.
-
(2012)
Nat Protoc
, vol.7
, Issue.3
, pp. 500-507
-
-
Stegle, O.1
Parts, L.2
Piipari, M.3
Winn, J.4
Durbin, R.5
-
47
-
-
0042424602
-
Statistical significance for genomewide studies
-
Storey JD, Tibshirani R (2003) Statistical significance for genomewide studies. Proc Natl Acad Sci USA 100(16):9440-9445.
-
(2003)
Proc Natl Acad Sci USA
, vol.100
, Issue.16
, pp. 9440-9445
-
-
Storey, J.D.1
Tibshirani, R.2
-
48
-
-
77955894071
-
METAL: Fast and efficient meta-analysis of genomewide association scans
-
Willer CJ, Li Y, Abecasis GR (2010) METAL: Fast and efficient meta-analysis of genomewide association scans. Bioinformatics 26(17):2190-2191.
-
(2010)
Bioinformatics
, vol.26
, Issue.17
, pp. 2190-2191
-
-
Willer, C.J.1
Li, Y.2
Abecasis, G.R.3
-
49
-
-
84891790401
-
The NHGRI GWAS Catalog, a curated resource of SNP-trait associations
-
Welter D, et al. (2014) The NHGRI GWAS Catalog, a curated resource of SNP-trait associations. Nucleic Acids Res 42(Database issue):D1001-D1006.
-
(2014)
Nucleic Acids Res
, vol.42
, Issue.DATABASE ISSUE
, pp. D1001-D1006
-
-
Welter, D.1
-
50
-
-
0025281303
-
Establishment of a pancreatic β cell line that retains glucose-inducible insulin secretion: Special reference to expression of glucose transporter isoforms
-
Miyazaki J, et al. (1990) Establishment of a pancreatic β cell line that retains glucose-inducible insulin secretion: Special reference to expression of glucose transporter isoforms. Endocrinology 127(1):126-132.
-
(1990)
Endocrinology
, vol.127
, Issue.1
, pp. 126-132
-
-
Miyazaki, J.1
-
51
-
-
84893763903
-
A common functional regulatory variant at a type 2 diabetes locus upregulates ARAP1 expression in the pancreatic beta cell
-
Kulzer JR, et al. (2014) A common functional regulatory variant at a type 2 diabetes locus upregulates ARAP1 expression in the pancreatic beta cell. Am J Hum Genet 94(2):186-197.
-
(2014)
Am J Hum Genet
, vol.94
, Issue.2
, pp. 186-197
-
-
Kulzer, J.R.1
-
52
-
-
78650747491
-
Discovery and characterization of chromatin states for systematic annotation of the human genome
-
Ernst J, Kellis M (2010) Discovery and characterization of chromatin states for systematic annotation of the human genome. Nat Biotechnol 28(8):817-825.
-
(2010)
Nat Biotechnol
, vol.28
, Issue.8
, pp. 817-825
-
-
Ernst, J.1
Kellis, M.2
-
53
-
-
84857707318
-
ChromHMM: Automating chromatin-state discovery and characterization
-
Ernst J, Kellis M (2012) ChromHMM: Automating chromatin-state discovery and characterization. Nat Methods 9(3):215-216.
-
(2012)
Nat Methods
, vol.9
, Issue.3
, pp. 215-216
-
-
Ernst, J.1
Kellis, M.2
-
54
-
-
80051489977
-
AlleleSeq: Analysis of allele-specific expression and binding in a network framework
-
Rozowsky J, et al. (2011) AlleleSeq: Analysis of allele-specific expression and binding in a network framework. Mol Syst Biol 7(1):522.
-
(2011)
Mol Syst Biol
, vol.7
, Issue.1
, pp. 522
-
-
Rozowsky, J.1
-
55
-
-
84946481204
-
WASP: Allele-specific software for robust molecular quantitative trait locus discovery
-
van de Geijn B, McVicker G, Gilad Y, Pritchard JK (2015) WASP: Allele-specific software for robust molecular quantitative trait locus discovery. Nat Methods 12(11):1061-1063.
-
(2015)
Nat Methods
, vol.12
, Issue.11
, pp. 1061-1063
-
-
Van De Geijn, B.1
McVicker, G.2
Gilad, Y.3
Pritchard, J.K.4
-
56
-
-
34447506667
-
Quantifying similarity between motifs
-
Gupta S, Stamatoyannopoulos JA, Bailey TL, Noble WS (2007) Quantifying similarity between motifs. Genome Biol 8(2):R24.
-
(2007)
Genome Biol
, vol.8
, Issue.2
, pp. R24
-
-
Gupta, S.1
Stamatoyannopoulos, J.A.2
Bailey, T.L.3
Noble, W.S.4
|