Additional file 1: of A proteomic analysis of serum-derived exosomes in rheumatoid arthritis

Hirotaka Tsuno (4228282)
Mitsumi Arito (6011528)
Naoya Suematsu (6011531)
Toshiyuki Sato (1867738)
Atsushi Hashimoto (290186)
Toshihiro Matsui (1917)
Kazuki Omoteyama (6011534)
Masaaki Sato (735435)
Kazuki Okamoto (6011537)
Shigeto Tohma (290204)
Manae Kurokawa (6011540)
Tomohiro Kato (1919)

Publication date

November 2018

DOI

10.6084/m9.figshare.7386695.v1

Abstract

Figure S1. Location of differently enriched protein spots. Table S1. Averages of spot intensities of each group. (DOCX 101 kb

Extracted data

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Additional file 1: of A proteomic analysis of serum-derived exosomes in rheumatoid arthritis

Hirotaka Tsuno (4228282)
Mitsumi Arito (6011528)
Naoya Suematsu (6011531)
Toshiyuki Sato (1867738)
Atsushi Hashimoto (290186)
Toshihiro Matsui (1917)
Kazuki Omoteyama (6011534)
Masaaki Sato (735435)
Kazuki Okamoto (6011537)
Shigeto Tohma (290204)
Manae Kurokawa (6011540)
Tomohiro Kato (1919)

Open link

Publication date

November 2018

DOI

10.6084/m9.figshare.7386695.v1

Abstract

Figure S1. Location of differently enriched protein spots. Table S1. Averages of spot intensities of each group. (DOCX 101 kb

Extracted data

Mohamed Abdouh (181282)
Dana Hamam (3400181)
Zu-Hua Gao (329479)
Vincenzo Arena (3400187)
Manuel Arena (3400178)
Goffredo Arena (3400184)

August 2017

List of top 100 proteins that are often identified in exosomes (ExoCarta). (PDF 158 kb

Additional file 2: of Proteomics analysis identifies new markers associated with capillary cerebral amyloid angiopathy in Alzheimerâs disease

David Hondius (5332583)
Kristel Eigenhuis (5332589)
Tjado Morrema (3491993)
Roel van der Schors (5332592)
Pim van Nierop (518817)
Marianna Bugiani (490560)
Ka Li (399537)
Jeroen Hoozemans (3417251)
August Smit (5332586)
Annemieke Rozemuller (3417257)

June 2018

Figure S2. Total protein fluorescent signal from blots used for immunoblot analysis. Total protein l...

Additional file 2: of New insights into the protein aggregation pathology in myotilinopathy by combined proteomic and immunolocalization analyses

A. Maerkens (3530789)
M. OlivĂŠ (3530813)
A. Schreiner (3530801)
S. Feldkirchner (3530804)
J. Schessl (3530759)
J. Uszkoreit (3530771)
K. Barkovits (3530777)
A. GĂźttsches (3530807)
V. Theis (3530765)
M. Eisenacher (3530753)
M. Tegenthoff (3530768)
L. Goldfarb (3530750)
R. SchrĂśder (3530816)
B. Schoser (3530795)
P. van der Ven (3530774)
D. FĂźrst (3530810)
M. Vorgerd (3530798)
K. Marcus (3530762)
R. Kley (3530780)

February 2016

Table S2.Â Accession number (Swiss-Prot) and names of genes coding for proteins identified as over-r...

Additional file 1. of A proteomic profile of synoviocyte lesions microdissected from formalin-fixed paraffin-embedded synovial tissues of rheumatoid arthritis

Junji Hayashi (3415481)
Makoto Kihara (213177)
Harubumi Kato (59180)
Toshihide Nishimura (213194)

August 2015

In the Supplemental Material Section presented are the total laser-microdissection (LMD) areas (Supp...

Additional file 2: of Differential protein expression in human knee articular cartilage and medial meniscus using two different proteomic methods: a pilot analysis

Elin Folkesson (2549188)
Aleksandra Turkiewicz (3712609)
Martin Englund (325535)
Patrik Ănnerfjord (6031772)

November 2018

Proteins identified with DDA. Table containing all proteins with at least two unique peptides per pr...

Additional file 1: of Identification of baseline gene expression signatures predicting therapeutic responses to three biologic agents in rheumatoid arthritis: a retrospective observational study

Seiji Nakamura (126240)
Katsuya Suzuki (1786093)
Hiroshi Iijima (3399872)
Yuko Hata (428188)
Chun Lim (3399875)
Yohei Ishizawa (3399869)
Hideto Kameda (3399878)
Koichi Amano (2543410)
Kenichi Matsubara (22850)
Ryo Matoba (1609)
Tsutomu Takeuchi (163145)

July 2016

Illustration of the distribution of patients in this observational study. (PDF 223 kb

Additional file 2: of Serum metabolomic profiling predicts synovial gene expression in rheumatoid arthritis

Rekha Narasimhan (5594711)
Roxana Coras (5594714)
Sara Rosenthal (5594717)
Shannon Sweeney (5594720)
Alessia Lodi (256296)
Stefano Tiziani (256302)
David Boyle (221745)
Arthur Kavanaugh (2683)
Monica Guma (814502)

August 2018

Figure S1. Correlation between synovial markers and serum metabolites. (TIFF 14826 kb

Additional file 1: Table S1. of Discovery of new candidate genes for rheumatoid arthritis through integration of genetic association data with expression pathway analysis

Klementy Shchetynsky (3710995)
Lina-Marcella Diaz-Gallo (3710998)
Lasse Folkersen (109487)
Aase Hensvold (3505412)
Anca Catrina (246690)
Louise Berg (54461)
Lars Klareskog (4149)
Leonid Padyukov (39206)

February 2017

Clinical features of studied groups of patients with RA and healthy controls. Table S2 The expressio...

Additional file 1: Table S1. of Long noncoding RNA expression profile in fibroblast-like synoviocytes from patients with rheumatoid arthritis

Yu Zhang (12946)
Yu-Zhong Xu (3456524)
Ning Sun (162468)
Jian-Hong Liu (2486098)
Fang-Fang Chen (112186)
Xiao-Long Guan (3456533)
Ang Li (110963)
Fei Wang (19534)
Qin-Fei Zhao (3456527)
Hai-Yong Wang (3456518)
Shu-Sheng Song (3456521)
Wei Yu (43094)
Jian-Ning Zhao (3456530)
Xiao-Jun Li (1718128)

October 2016

Clinical characteristic of patients with rheumatoid arthritis (RA) and trauma. (DOC 45 kb

Additional file 1: of Quantitative proteomics of acutely-isolated mouse microglia identifies novel immune Alzheimerâs disease-related proteins

Srikant Rangaraju (4174204)
Eric Dammer (4174213)
Syed Ali Raza (4905754)
Tianwen Gao (262800)
Hailian Xiao (36120)
Ranjita Betarbet (4174207)
Duc Duong (4174198)
James Webster (3633883)
Chadwick Hales (3491627)
James Lah (3504050)
Allan Levey (3504062)
Nicholas Seyfried (3504065)

June 2018

Table S1. Log2 transformed protein abundance data and differential expression analyses. (XLSX 1522 k...

Additional file 1: Table S1. of Discordant inflammation and pain in early and established rheumatoid arthritis: Latent Class Analysis of Early Rheumatoid Arthritis Network and British Society for Rheumatology Biologics Register data

Daniel McWilliams (3410672)
Eamonn Ferguson (407495)
Adam Young (498861)
Patrick Kiely (3412427)
David Walsh (84863)

December 2016

Baseline characteristics of each latent class (including data from TableÂ 4). (DOCX 18 kb

Additional file 1: of Gene expression analysis of vascular pathophysiology related to anti-TNF treatment in rheumatoid arthritis

Szilárd Póliska (3165450)
Timea Besenyei (6590546)
Edit Végh (6590549)
Attila Hamar (6590552)
Anita Pusztai (6590555)
Andrea Váncsa (6590558)
Nóra Bodnár (6590561)
Szilvia Szamosi (4799160)
Mária Csumita (6590564)
György Kerekes (6590570)
Zoltán Szabó (211818)
Zoltán Nagy (2668840)
Gabriella Szűcs (6590573)
Sándor Szántó (38675)
Gábor Zahuczky (215986)
László Nagy (2717482)
Zoltán Szekanecz (38677)

April 2019

Table S1. Association of gene expression profiles with vascular pathophysiology in biologic-naïve RA...

Additional file 1: of Affinity proteomic profiling of plasma for proteins associated to area-based mammographic breast density

Sanna Bystrรถm (4855555)
Martin Eklund (91839)
Mun-Gwan Hong (271202)
Claudia Fredolini (266362)
Mikael Eriksson (534708)
Kamila Czene (77258)
Per Hall (23544)
Jochen Schwenk (3551516)
Marike Gabrielson (230894)

February 2018

Tables S1-S2 Complete list of antibodies included in serum bead array (SBA) 1 and 2 (sheet 1 and 2)....

Additional file 1: of Standardisation of synovial biopsy analyses in rheumatic diseases: a consensus of the EULAR Synovitis and OMERACT Synovial Tissue Biopsy Groups

Aurélie Najm (6039701)
Benoît Le Goff (6039704)
Carl Orr (4898683)
Rogier Thurlings (246696)
Juan D. Cañete (368929)
Frances Humby (84694)
Stefano Alivernini (204814)
Antonio Manzo (84696)
Soeren Just (6039707)
Vasco Romão (6039710)
Veit Krenn (18995)
Ulf Müller-Ladner (752)
Olga Addimanda (6039713)
Sander Tas (6039716)
Maria Stoenoiu (6039719)
Laurent Meric de Bellefon (6039722)
Patrick Durez (11540)
Vibeke Strand (410780)
Mihir Wechalekar (5167394)
Joao Fonseca (6039725)
Bernard Lauwerys (3462587)
Ursula Fearon (8519)
Douglas Veale (424543)

December 2018

Table S1. First round questionnaire for “Part 1 - Clinical practice”. (DOCX 85 kb

Additional file 4: Table S4. of Exosomes isolated from cancer patientsâ sera transfer malignant traits and confer the same phenotype of primary tumors to oncosuppressor-mutated cells

Mohamed Abdouh (181282)
Dana Hamam (3400181)
Zu-Hua Gao (329479)
Vincenzo Arena (3400187)
Manuel Arena (3400178)
Goffredo Arena (3400184)

August 2017

List of top 100 proteins that are often identified in exosomes (ExoCarta). (PDF 158 kb

Additional file 2: of Proteomics analysis identifies new markers associated with capillary cerebral amyloid angiopathy in Alzheimerâs disease

David Hondius (5332583)
Kristel Eigenhuis (5332589)
Tjado Morrema (3491993)
Roel van der Schors (5332592)
Pim van Nierop (518817)
Marianna Bugiani (490560)
Ka Li (399537)
Jeroen Hoozemans (3417251)
August Smit (5332586)
Annemieke Rozemuller (3417257)

June 2018

Figure S2. Total protein fluorescent signal from blots used for immunoblot analysis. Total protein l...

Additional file 2: of New insights into the protein aggregation pathology in myotilinopathy by combined proteomic and immunolocalization analyses

A. Maerkens (3530789)
M. OlivĂŠ (3530813)
A. Schreiner (3530801)
S. Feldkirchner (3530804)
J. Schessl (3530759)
J. Uszkoreit (3530771)
K. Barkovits (3530777)
A. GĂźttsches (3530807)
V. Theis (3530765)
M. Eisenacher (3530753)
M. Tegenthoff (3530768)
L. Goldfarb (3530750)
R. SchrĂśder (3530816)
B. Schoser (3530795)
P. van der Ven (3530774)
D. FĂźrst (3530810)
M. Vorgerd (3530798)
K. Marcus (3530762)
R. Kley (3530780)

February 2016

Table S2.Â Accession number (Swiss-Prot) and names of genes coding for proteins identified as over-r...

Additional file 1: of Identification of baseline gene expression signatures predicting therapeutic responses to three biologic agents in rheumatoid arthritis: a retrospective observational study

Seiji Nakamura (126240)
Katsuya Suzuki (1786093)
Hiroshi Iijima (3399872)
Yuko Hata (428188)
Chun Lim (3399875)
Yohei Ishizawa (3399869)
Hideto Kameda (3399878)
Koichi Amano (2543410)
Kenichi Matsubara (22850)
Ryo Matoba (1609)
Tsutomu Takeuchi (163145)

July 2016

Illustration of the distribution of patients in this observational study. (PDF 223 kb

Additional file 2: of Serum metabolomic profiling predicts synovial gene expression in rheumatoid arthritis

Rekha Narasimhan (5594711)
Roxana Coras (5594714)
Sara Rosenthal (5594717)
Shannon Sweeney (5594720)
Alessia Lodi (256296)
Stefano Tiziani (256302)
David Boyle (221745)
Arthur Kavanaugh (2683)
Monica Guma (814502)

August 2018

Figure S1. Correlation between synovial markers and serum metabolites. (TIFF 14826 kb

Additional file 1: Table S1. of Discovery of new candidate genes for rheumatoid arthritis through integration of genetic association data with expression pathway analysis

Klementy Shchetynsky (3710995)
Lina-Marcella Diaz-Gallo (3710998)
Lasse Folkersen (109487)
Aase Hensvold (3505412)
Anca Catrina (246690)
Louise Berg (54461)
Lars Klareskog (4149)
Leonid Padyukov (39206)

February 2017

Clinical features of studied groups of patients with RA and healthy controls. Table S2 The expressio...

Additional file 1: Table S1. of Long noncoding RNA expression profile in fibroblast-like synoviocytes from patients with rheumatoid arthritis

Yu Zhang (12946)
Yu-Zhong Xu (3456524)
Ning Sun (162468)
Jian-Hong Liu (2486098)
Fang-Fang Chen (112186)
Xiao-Long Guan (3456533)
Ang Li (110963)
Fei Wang (19534)
Qin-Fei Zhao (3456527)
Hai-Yong Wang (3456518)
Shu-Sheng Song (3456521)
Wei Yu (43094)
Jian-Ning Zhao (3456530)
Xiao-Jun Li (1718128)

October 2016

Clinical characteristic of patients with rheumatoid arthritis (RA) and trauma. (DOC 45 kb

Additional file 1: of Quantitative proteomics of acutely-isolated mouse microglia identifies novel immune Alzheimerâs disease-related proteins

Srikant Rangaraju (4174204)
Eric Dammer (4174213)
Syed Ali Raza (4905754)
Tianwen Gao (262800)
Hailian Xiao (36120)
Ranjita Betarbet (4174207)
Duc Duong (4174198)
James Webster (3633883)
Chadwick Hales (3491627)
James Lah (3504050)
Allan Levey (3504062)
Nicholas Seyfried (3504065)

June 2018

Table S1. Log2 transformed protein abundance data and differential expression analyses. (XLSX 1522 k...

Daniel McWilliams (3410672)
Eamonn Ferguson (407495)
Adam Young (498861)
Patrick Kiely (3412427)
David Walsh (84863)

December 2016

Baseline characteristics of each latent class (including data from TableÂ 4). (DOCX 18 kb

Additional file 1: of Gene expression analysis of vascular pathophysiology related to anti-TNF treatment in rheumatoid arthritis

Szilárd Póliska (3165450)
Timea Besenyei (6590546)
Edit Végh (6590549)
Attila Hamar (6590552)
Anita Pusztai (6590555)
Andrea Váncsa (6590558)
Nóra Bodnár (6590561)
Szilvia Szamosi (4799160)
Mária Csumita (6590564)
György Kerekes (6590570)
Zoltán Szabó (211818)
Zoltán Nagy (2668840)
Gabriella Szűcs (6590573)
Sándor Szántó (38675)
Gábor Zahuczky (215986)
László Nagy (2717482)
Zoltán Szekanecz (38677)

April 2019

Table S1. Association of gene expression profiles with vascular pathophysiology in biologic-naïve RA...

Additional file 1: of Affinity proteomic profiling of plasma for proteins associated to area-based mammographic breast density

Sanna Bystrรถm (4855555)
Martin Eklund (91839)
Mun-Gwan Hong (271202)
Claudia Fredolini (266362)
Mikael Eriksson (534708)
Kamila Czene (77258)
Per Hall (23544)
Jochen Schwenk (3551516)
Marike Gabrielson (230894)

February 2018

Tables S1-S2 Complete list of antibodies included in serum bead array (SBA) 1 and 2 (sheet 1 and 2)....

Additional file 1: of Standardisation of synovial biopsy analyses in rheumatic diseases: a consensus of the EULAR Synovitis and OMERACT Synovial Tissue Biopsy Groups

Aurélie Najm (6039701)
Benoît Le Goff (6039704)
Carl Orr (4898683)
Rogier Thurlings (246696)
Juan D. Cañete (368929)
Frances Humby (84694)
Stefano Alivernini (204814)
Antonio Manzo (84696)
Soeren Just (6039707)
Vasco Romão (6039710)
Veit Krenn (18995)
Ulf Müller-Ladner (752)
Olga Addimanda (6039713)
Sander Tas (6039716)
Maria Stoenoiu (6039719)
Laurent Meric de Bellefon (6039722)
Patrick Durez (11540)
Vibeke Strand (410780)
Mihir Wechalekar (5167394)
Joao Fonseca (6039725)
Bernard Lauwerys (3462587)
Ursula Fearon (8519)
Douglas Veale (424543)

December 2018

Table S1. First round questionnaire for “Part 1 - Clinical practice”. (DOCX 85 kb

Additional file 4: Table S4. of Exosomes isolated from cancer patientsâ sera transfer malignant traits and confer the same phenotype of primary tumors to oncosuppressor-mutated cells

Mohamed Abdouh (181282)
Dana Hamam (3400181)
Zu-Hua Gao (329479)
Vincenzo Arena (3400187)
Manuel Arena (3400178)
Goffredo Arena (3400184)

August 2017

List of top 100 proteins that are often identified in exosomes (ExoCarta). (PDF 158 kb

Additional file 2: of Proteomics analysis identifies new markers associated with capillary cerebral amyloid angiopathy in Alzheimerâs disease

David Hondius (5332583)
Kristel Eigenhuis (5332589)
Tjado Morrema (3491993)
Roel van der Schors (5332592)
Pim van Nierop (518817)
Marianna Bugiani (490560)
Ka Li (399537)
Jeroen Hoozemans (3417251)
August Smit (5332586)
Annemieke Rozemuller (3417257)

June 2018

Figure S2. Total protein fluorescent signal from blots used for immunoblot analysis. Total protein l...

Additional file 2: of New insights into the protein aggregation pathology in myotilinopathy by combined proteomic and immunolocalization analyses

A. Maerkens (3530789)
M. OlivĂŠ (3530813)
A. Schreiner (3530801)
S. Feldkirchner (3530804)
J. Schessl (3530759)
J. Uszkoreit (3530771)
K. Barkovits (3530777)
A. GĂźttsches (3530807)
V. Theis (3530765)
M. Eisenacher (3530753)
M. Tegenthoff (3530768)
L. Goldfarb (3530750)
R. SchrĂśder (3530816)
B. Schoser (3530795)
P. van der Ven (3530774)
D. FĂźrst (3530810)
M. Vorgerd (3530798)
K. Marcus (3530762)
R. Kley (3530780)

February 2016

Table S2.Â Accession number (Swiss-Prot) and names of genes coding for proteins identified as over-r...

Additional file 1: of A proteomic analysis of serum-derived exosomes in rheumatoid arthritis

Abstract

Extracted data

Additional file 1: of A proteomic analysis of serum-derived exosomes in rheumatoid arthritis

Abstract

Extracted data

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