Additional file 1: of Integrative network analysis of nineteen brain regions identifies molecular signatures and networks underlying selective regional vulnerability to Alzheimerâs disease

Additional file 1: of Inter-network connectivity and amyloid-beta linked to cognitive decline in preclinical Alzheimer’s disease: a longitudinal cohort study

Roy Van Hooren (5696579)
Joost Riphagen (5696582)
Heidi Jacobs (4724577)

November 2018

Table S1. List of participant IDs included in final analyses. Table S2. Peak coordinates of regions ...

Additional file 8: of Deep proteomic network analysis of Alzheimer’s disease brain reveals alterations in RNA binding proteins and RNA splicing associated with disease

Erik Johnson (528214)
Eric Dammer (4174213)
Duc Duong (4174198)
Luming Yin (5821523)
Madhav Thambisetty (133912)
Juan Troncoso (249012)
James Lah (3504050)
Allan Levey (3504062)
Nicholas Seyfried (3504065)

October 2018

Figure S1. SDS-PAGE of Brain Homogenates. Dorsolateral prefrontal cortex (DLPFC) brain tissue homoge...

Additional file 1: of Identification and therapeutic modulation of a pro-inflammatory subset of disease-associated-microglia in Alzheimerâs disease

Srikant Rangaraju (4174204)
Eric Dammer (4174213)
Syed Raza (4174210)
Priyadharshini Rathakrishnan (5245535)
Hailian Xiao (36120)
Tianwen Gao (262800)
Duc Duong (4174198)
Michael Pennington (1343655)
James Lah (3504050)
Nicholas Seyfried (3504065)
Allan Levey (3504062)

May 2018

Table S1. Mouse microglial transcriptomic modules identified by Weighted Correlation Network Analysi...

Additional file 3: Table S17. of Integrative network analysis of nineteen brain regions identifies molecular signatures and networks underlying selective regional vulnerability to Alzheimerâs disease

Minghui Wang (15418)
Panos Roussos (318249)
Andrew McKenzie (522240)
Xianxiao Zhou (3464498)
Yuji Kajiwara (265261)
Kristen Brennand (228552)
Gabriele De Luca (244081)
John Crary (3464492)
Patrizia Casaccia (225204)
Joseph Buxbaum (3464495)
Michelle Ehrlich (3453359)
Sam Gandy (6210)
Alison Goate (48756)
Pavel Katsel (257692)
Eric Schadt (105785)
Vahram Haroutunian (23823)
Bin Zhang (64682)

November 2016

Top 10,000 probesets ranked in association with disease traits across 19 brain regions. (XLSX 6710 k...

Additional file 3: of Condition-specific gene co-expression network mining identifies key pathways and regulators in the brain tissue of Alzheimerâs disease patients

Shunian Xiang (3207645)
Zhi Huang (472377)
Tianfu Wang (733641)
Zhi Han (3490682)
Christina Yu (425912)
Dong Ni (172495)
Kun Huang (136241)
Jie Zhang (64655)

January 2019

Table S2. List of 30âAD-specific modules and 31 normal-specific modules. (XLSX 27 kb

Additional file 1: of Condition-specific gene co-expression network mining identifies key pathways and regulators in the brain tissue of Alzheimerâs disease patients

Shunian Xiang (3207645)
Zhi Huang (472377)
Tianfu Wang (733641)
Zhi Han (3490682)
Christina Yu (425912)
Dong Ni (172495)
Kun Huang (136241)
Jie Zhang (64655)

January 2019

Table S1. Comparison of module genes identified by lmQCM and WGCNA from GSE48350 AD samples. (XLSX 1...

Additional file 2: of Alzheimerâs disease master regulators analysis: search for potential molecular targets and drug repositioning candidates

D. Vargas (3400316)
M. De Bastiani (5444837)
E. Zimmer (5444834)
F. Klamt (5444840)

June 2018

Table S1. Hippocampus transcription factor-centered network nodes and edges information. (XLSX 40 kb

Additional file 4: of Condition-specific gene co-expression network mining identifies key pathways and regulators in the brain tissue of Alzheimerâs disease patients

Shunian Xiang (3207645)
Zhi Huang (472377)
Tianfu Wang (733641)
Zhi Han (3490682)
Christina Yu (425912)
Dong Ni (172495)
Kun Huang (136241)
Jie Zhang (64655)

January 2019

Table S3. Enriched GO terms (p-value<0.01) of all condition-specific modules. Table S4. Enriched KEG...

Additional file 3: Table S2. of Gene expression and functional annotation of human choroid plexus epithelium failure in Alzheimerâs disease

Arthur Bergen (290307)
Sovann Kaing (3577850)
Jacoline ten Brink (3577847)
Theo Gorgels (3577853)
Sarah Janssen (3577856)

November 2015

Contains compilations of lists of (disease) genes previously implicated in relevant disease. The ent...

Additional file 2: of Deep proteomic network analysis of Alzheimer’s disease brain reveals alterations in RNA binding proteins and RNA splicing associated with disease

Erik Johnson (528214)
Eric Dammer (4174213)
Duc Duong (4174198)
Luming Yin (5821523)
Madhav Thambisetty (133912)
Juan Troncoso (249012)
James Lah (3504050)
Allan Levey (3504062)
Nicholas Seyfried (3504065)

October 2018

Table S2. Case Characteristics. Values shown are means ± SD. AD, Alzheimer’s disease; AsymAD, asympt...

Additional file 1: of Integrated proteomics and network analysis identifies protein hubs and network alterations in Alzheimerâs disease

Qi Zhang (28502)
Cheng Ma (298689)
Marla Gearing (1939525)
Peng Wang (34436)
Lih-Shen Chin (62183)
Lian Li (49049)

March 2018

Table S1. Demographic and neuropathological data of human AD patient and control cases. For each cas...

Additional file 5: of Condition-specific gene co-expression network mining identifies key pathways and regulators in the brain tissue of Alzheimerâs disease patients

Shunian Xiang (3207645)
Zhi Huang (472377)
Tianfu Wang (733641)
Zhi Han (3490682)
Christina Yu (425912)
Dong Ni (172495)
Kun Huang (136241)
Jie Zhang (64655)

January 2019

Table S5. Modules with targets of specific differentially expressed TF enriched in certain pathways....

Additional file 1: of Genetic risk for Alzheimerâs disease is concentrated in specific macrophage and microglial transcriptional networks

Katherine Tansey (4889533)
Darren Cameron (4889530)
Matthew Hill (394308)

February 2018

Table S1. Enrichment of AD-risk variants at DHSs from Roadmap Epigenomics Consortium data. (XLSX 36 ...

Additional file 1: of Deep proteomic network analysis of Alzheimer’s disease brain reveals alterations in RNA binding proteins and RNA splicing associated with disease

Erik Johnson (528214)
Eric Dammer (4174213)
Duc Duong (4174198)
Luming Yin (5821523)
Madhav Thambisetty (133912)
Juan Troncoso (249012)
James Lah (3504050)
Allan Levey (3504062)
Nicholas Seyfried (3504065)

October 2018

Table S1. Sample List. AD, Alzheimer’s disease; AS, asymptomatic Alzheimer’s disease; CT, control; M...

Additional file 2: of Genetic risk for Alzheimerâs disease is concentrated in specific macrophage and microglial transcriptional networks

Katherine Tansey (4889533)
Darren Cameron (4889530)
Matthew Hill (394308)

February 2018

Table S2. Enrichment of AD-risk variants at H3K27ac peaks from Roadmap Epigenomics Consortium data. ...

Additional file 1: of Inter-network connectivity and amyloid-beta linked to cognitive decline in preclinical Alzheimer’s disease: a longitudinal cohort study

Roy Van Hooren (5696579)
Joost Riphagen (5696582)
Heidi Jacobs (4724577)

November 2018

Table S1. List of participant IDs included in final analyses. Table S2. Peak coordinates of regions ...

Additional file 8: of Deep proteomic network analysis of Alzheimer’s disease brain reveals alterations in RNA binding proteins and RNA splicing associated with disease

Erik Johnson (528214)
Eric Dammer (4174213)
Duc Duong (4174198)
Luming Yin (5821523)
Madhav Thambisetty (133912)
Juan Troncoso (249012)
James Lah (3504050)
Allan Levey (3504062)
Nicholas Seyfried (3504065)

October 2018

Figure S1. SDS-PAGE of Brain Homogenates. Dorsolateral prefrontal cortex (DLPFC) brain tissue homoge...

Additional file 1: of Identification and therapeutic modulation of a pro-inflammatory subset of disease-associated-microglia in Alzheimerâs disease

Srikant Rangaraju (4174204)
Eric Dammer (4174213)
Syed Raza (4174210)
Priyadharshini Rathakrishnan (5245535)
Hailian Xiao (36120)
Tianwen Gao (262800)
Duc Duong (4174198)
Michael Pennington (1343655)
James Lah (3504050)
Nicholas Seyfried (3504065)
Allan Levey (3504062)

May 2018

Table S1. Mouse microglial transcriptomic modules identified by Weighted Correlation Network Analysi...

Additional file 3: Table S17. of Integrative network analysis of nineteen brain regions identifies molecular signatures and networks underlying selective regional vulnerability to Alzheimerâs disease

Minghui Wang (15418)
Panos Roussos (318249)
Andrew McKenzie (522240)
Xianxiao Zhou (3464498)
Yuji Kajiwara (265261)
Kristen Brennand (228552)
Gabriele De Luca (244081)
John Crary (3464492)
Patrizia Casaccia (225204)
Joseph Buxbaum (3464495)
Michelle Ehrlich (3453359)
Sam Gandy (6210)
Alison Goate (48756)
Pavel Katsel (257692)
Eric Schadt (105785)
Vahram Haroutunian (23823)
Bin Zhang (64682)

November 2016

Top 10,000 probesets ranked in association with disease traits across 19 brain regions. (XLSX 6710 k...

Additional file 3: of Condition-specific gene co-expression network mining identifies key pathways and regulators in the brain tissue of Alzheimerâs disease patients

Shunian Xiang (3207645)
Zhi Huang (472377)
Tianfu Wang (733641)
Zhi Han (3490682)
Christina Yu (425912)
Dong Ni (172495)
Kun Huang (136241)
Jie Zhang (64655)

January 2019

Table S2. List of 30âAD-specific modules and 31 normal-specific modules. (XLSX 27 kb

Additional file 1: of Condition-specific gene co-expression network mining identifies key pathways and regulators in the brain tissue of Alzheimerâs disease patients

Shunian Xiang (3207645)
Zhi Huang (472377)
Tianfu Wang (733641)
Zhi Han (3490682)
Christina Yu (425912)
Dong Ni (172495)
Kun Huang (136241)
Jie Zhang (64655)

January 2019

Table S1. Comparison of module genes identified by lmQCM and WGCNA from GSE48350 AD samples. (XLSX 1...

Additional file 2: of Alzheimerâs disease master regulators analysis: search for potential molecular targets and drug repositioning candidates

D. Vargas (3400316)
M. De Bastiani (5444837)
E. Zimmer (5444834)
F. Klamt (5444840)

June 2018

Table S1. Hippocampus transcription factor-centered network nodes and edges information. (XLSX 40 kb

Additional file 4: of Condition-specific gene co-expression network mining identifies key pathways and regulators in the brain tissue of Alzheimerâs disease patients

Shunian Xiang (3207645)
Zhi Huang (472377)
Tianfu Wang (733641)
Zhi Han (3490682)
Christina Yu (425912)
Dong Ni (172495)
Kun Huang (136241)
Jie Zhang (64655)

January 2019

Table S3. Enriched GO terms (p-value<0.01) of all condition-specific modules. Table S4. Enriched KEG...

Additional file 3: Table S2. of Gene expression and functional annotation of human choroid plexus epithelium failure in Alzheimerâs disease

Arthur Bergen (290307)
Sovann Kaing (3577850)
Jacoline ten Brink (3577847)
Theo Gorgels (3577853)
Sarah Janssen (3577856)

November 2015

Contains compilations of lists of (disease) genes previously implicated in relevant disease. The ent...

Additional file 2: of Deep proteomic network analysis of Alzheimer’s disease brain reveals alterations in RNA binding proteins and RNA splicing associated with disease

Erik Johnson (528214)
Eric Dammer (4174213)
Duc Duong (4174198)
Luming Yin (5821523)
Madhav Thambisetty (133912)
Juan Troncoso (249012)
James Lah (3504050)
Allan Levey (3504062)
Nicholas Seyfried (3504065)

October 2018

Table S2. Case Characteristics. Values shown are means ± SD. AD, Alzheimer’s disease; AsymAD, asympt...

Additional file 1: of Integrated proteomics and network analysis identifies protein hubs and network alterations in Alzheimerâs disease

Qi Zhang (28502)
Cheng Ma (298689)
Marla Gearing (1939525)
Peng Wang (34436)
Lih-Shen Chin (62183)
Lian Li (49049)

March 2018

Table S1. Demographic and neuropathological data of human AD patient and control cases. For each cas...

Additional file 5: of Condition-specific gene co-expression network mining identifies key pathways and regulators in the brain tissue of Alzheimerâs disease patients

Shunian Xiang (3207645)
Zhi Huang (472377)
Tianfu Wang (733641)
Zhi Han (3490682)
Christina Yu (425912)
Dong Ni (172495)
Kun Huang (136241)
Jie Zhang (64655)

January 2019

Table S5. Modules with targets of specific differentially expressed TF enriched in certain pathways....

Additional file 1: of Genetic risk for Alzheimerâs disease is concentrated in specific macrophage and microglial transcriptional networks

Katherine Tansey (4889533)
Darren Cameron (4889530)
Matthew Hill (394308)

February 2018

Table S1. Enrichment of AD-risk variants at DHSs from Roadmap Epigenomics Consortium data. (XLSX 36 ...

Additional file 1: of Deep proteomic network analysis of Alzheimer’s disease brain reveals alterations in RNA binding proteins and RNA splicing associated with disease

Erik Johnson (528214)
Eric Dammer (4174213)
Duc Duong (4174198)
Luming Yin (5821523)
Madhav Thambisetty (133912)
Juan Troncoso (249012)
James Lah (3504050)
Allan Levey (3504062)
Nicholas Seyfried (3504065)

October 2018

Table S1. Sample List. AD, Alzheimer’s disease; AS, asymptomatic Alzheimer’s disease; CT, control; M...

Additional file 2: of Genetic risk for Alzheimerâs disease is concentrated in specific macrophage and microglial transcriptional networks

Katherine Tansey (4889533)
Darren Cameron (4889530)
Matthew Hill (394308)

February 2018

Table S2. Enrichment of AD-risk variants at H3K27ac peaks from Roadmap Epigenomics Consortium data. ...

Additional file 1: of Inter-network connectivity and amyloid-beta linked to cognitive decline in preclinical Alzheimer’s disease: a longitudinal cohort study

Roy Van Hooren (5696579)
Joost Riphagen (5696582)
Heidi Jacobs (4724577)

November 2018

Table S1. List of participant IDs included in final analyses. Table S2. Peak coordinates of regions ...

Additional file 8: of Deep proteomic network analysis of Alzheimer’s disease brain reveals alterations in RNA binding proteins and RNA splicing associated with disease

Erik Johnson (528214)
Eric Dammer (4174213)
Duc Duong (4174198)
Luming Yin (5821523)
Madhav Thambisetty (133912)
Juan Troncoso (249012)
James Lah (3504050)
Allan Levey (3504062)
Nicholas Seyfried (3504065)

October 2018

Figure S1. SDS-PAGE of Brain Homogenates. Dorsolateral prefrontal cortex (DLPFC) brain tissue homoge...

Additional file 1: of Identification and therapeutic modulation of a pro-inflammatory subset of disease-associated-microglia in Alzheimerâs disease

Srikant Rangaraju (4174204)
Eric Dammer (4174213)
Syed Raza (4174210)
Priyadharshini Rathakrishnan (5245535)
Hailian Xiao (36120)
Tianwen Gao (262800)
Duc Duong (4174198)
Michael Pennington (1343655)
James Lah (3504050)
Nicholas Seyfried (3504065)
Allan Levey (3504062)

May 2018

Table S1. Mouse microglial transcriptomic modules identified by Weighted Correlation Network Analysi...

Additional file 1: of Integrative network analysis of nineteen brain regions identifies molecular signatures and networks underlying selective regional vulnerability to Alzheimerâs disease

Abstract

Extracted data

Additional file 1: of Integrative network analysis of nineteen brain regions identifies molecular signatures and networks underlying selective regional vulnerability to Alzheimerâs disease

Abstract

Extracted data

Related items

Related items

Additional file 1: of Integrative network analysis of nineteen brain regions identifies molecular signatures and networks underlying selective regional vulnerability to Alzheimerâs disease

Abstract

Extracted data

Additional file 1: of Integrative network analysis of nineteen brain regions identifies molecular signatures and networks underlying selective regional vulnerability to Alzheimerâs disease

Abstract

Extracted data

Related items

Related items

Additional file 1: of Integrative network analysis of nineteen brain regions identifies molecular signatures and networks underlying selective regional vulnerability to Alzheimerâs disease

Additional file 1: of Integrative network analysis of nineteen brain regions identifies molecular signatures and networks underlying selective regional vulnerability to Alzheimerâs disease