セミナー等最近の発表
2023-2024 Peer-Review Publications on Clinical Proteogenomics by Board
Directors
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Matsumoto M, Ogawa N, Fukuda T, Bando Y, Nishimura
T,
Usuda J.
Protein interaction networks characterizing the A549 cells Klotho transfected are associated with activated pro-apoptotic Bim and suppressed
Wnt/β-catenin signaling pathway
Sci Rep. 2024 Jan
25;14(1):2130.
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PMID: 38267588
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PMCID: PMC10808115
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DOI: 10.1038/s41598-024-52616-0
2020-2022 Peer-Review Publications on Clinical Proteogenomics by Board
Directors
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Nishimura T, Takadate T, Maeda S, Suzuki T, Minowa T, Fukuda T, Bando Y, Unno
M. Disease-related protein co-expression networks are associated with the prognosis of resectable
node-positive pancreatic ductal adenocarcinoma. Sci Rep. 2022 Aug 29;12(1):14709.
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PMID: 36038612
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PMCID: PMC9424258
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DOI: 10.1038/s41598-022-19182-9
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Kaibori M, Sakai K, Matsushima H, Kosaka H, Matsui K,
De Velasco MA, Sekimoto M, Nishio K. Patients with polyclonal hepatocellular carcinoma are at a high risk of early recurrence and
have a poor recurrence-free survival period. Hepatol Int.
2022 Feb;16(1):135-147. PMCID: PMC8843910 DOI: 10.1007/s12072-021-10278-4
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Tanizaki J, Yonemori K, Akiyoshi K, Minami H, Ueda H, Takiguchi Y, Miura Y, Segawa Y, Takahashi S, Iwamoto Y,
Kidera Y, Fukuoka K, Ito A, Chiba Y, Sakai K, Nishio K, Nakagawa K, Hayashi H. Open-label phase II study of
the efficacy of nivolumab for cancer of unknown primary. Ann Oncol. 2022 Feb;33(2):216-226.
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DOI: 10.1016/j.annonc.2021.11.009
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Sakai K, Sakurai T, De Velasco MA, Nagai T, Chikugo T, Ueshima K, Kura Y, Takahama T, Hayashi
H, Nakagawa K, Kudo M, Nishio K. Intestinal
Microbiota and Gene Expression Reveal Similarity and Dissimilarity Between Immune-Mediated Colitis and Ulcerative Colitis. Front Oncol. 2021 Oct 27;
11:763468.
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PMCID: PMC8578892
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DOI: 10.3389/fonc.2021.763468
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Betancourt LH, Gil J, Sanchez A, Doma V, Kuras M, Murillo JR, Velasquez E, Çakır U, Kim Y,
Sugihara Y, Parada IP, Szeitz B, Appelqvist R, Wieslander E, Welinder C, de Almeida NP, Woldmar N, Marko-Varga M, Eriksson J, Pawłowski K, Baldetorp B, Ingvar C, Olsson H, Lundgren L,
Lindberg H, Oskolas H, Lee B, Berge E, Sjögren M, Eriksson C, Kim D, Kwon HJ, Knudsen B, Rezeli M, Malm J, Hong R, Horvath P, Szász AM, Tímár J, Kárpáti S, Horvatovich P, Miliotis T,
Nishimura T, Kato H, Steinfelder E, Oppermann M, Miller K, Florindi F, Zhou Q, Domont GB, Pizzatti L, Nogueira FCS, Szadai L, Németh IB, Ekedahl H, Fenyö D, Marko-Varga
G. The Human Melanoma Proteome Atlas-Complementing the melanoma transcriptome. Clin Transl Med. 2021 Jul;11(7): e451.
PMCID: PMC8299047 DOI: 10.1002/ctm2.451
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Betancourt LH, Gil J, Kim Y, Doma V, Çakır U, Sanchez A, Murillo JR, Kuras
M, Parada IP, Sugihara Y, Appelqvist R, Wieslander E, Welinder C, Velasquez E, de Almeida NP, Woldmar N, Marko-Varga M, Pawłowski K, Eriksson J, Szeitz B, Baldetorp B, Ingvar C, Olsson H,
Lundgren L, Lindberg H, Oskolas H, Lee B, Berge E, Sjögren M, Eriksson C, Kim D, Kwon HJ, Knudsen B, Rezeli M, Hong R, Horvatovich P, Miliotis T, Nishimura T, Kato H,
Steinfelder E, Oppermann M, Miller K, Florindi F, Zhou Q, Domont GB, Pizzatti L, Nogueira FCS, Horvath P, Szadai L, Tímár J, Kárpáti S, Szász AM, Malm J, Fenyö D, Ekedahl H, Németh IB,
Marko-Varga G. The human melanoma proteome atlas-Defining the molecular pathology. Clin Transl Med. 2021 Jul;11(7):
e473. PMCID: PMC8255060 DOI: 10.1002/ctm2.473
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Takeda M, Takahama T, Sakai K, Shimizu S, Watanabe S, Kawakami H, Tanaka K, Sato C, Hayashi
H, Nonagase Y, Yonesaka K, Takegawa N, Okuno T, Yoshida T, Fumita S, Suzuki S, Haratani K, Saigoh K, Ito A, Mitsudomi T, Handa H, Fukuoka K, Nakagawa K, Nishio
K. Clinical Application of the FoundationOne CDx Assay to Therapeutic Decision-Making for Patients with Advanced Solid Tumors. Oncologist. 2021 Apr;26(4):
e588-e596.
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PMCID: PMC8018334
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DOI: 10.1002/onco.13639
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Nishio K, Seto T, Nishio M, Reck M, Garon EB, Sakai K, Goto K,
Kato T, Nakanishi Y, Takahashi T, Yamamoto N, Kiura K, Ohe Y, Tamura T, Visseren-Grul C, Frimodt-Moller B, Hozak RR, Wijayawardana SR, Zimmermann A, Homma G, Enatsu S, Nakagawa
K. Ramucirumab Plus Erlotinib Versus Placebo Plus Erlotinib in Patients With Untreated Metastatic EGFR-Mutated NSCLC: RELAY Japanese
Subset. JTO Clin Res Rep. 2021 Apr 16;2(6):100171.
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Yamada K, Nishimura T, Wakiya M, Satoh E, Fukuda T, Amaya K, Bando
Y, Hirano H, Ishikawa T. Protein co-expression networks identified from HOT lesions of ER+HER2-Ki-67high luminal breast carcinomas.
Sci Rep. 2021 Jan 18;11(1):1705. PMCID: PMC7814020 DOI: 10.1038/s41598-021-81509-9
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Sakai K,
Takahama T, Shimokawa M, Azuma K, Takeda M, Kato T, Daga H, Okamoto I, Akamatsu H, Teraoka S, Ono A, Ohira T, Yokoyama T, Yamamoto N, Nakagawa K, Nishio
K. Predicting osimertinib-treatment
outcomes through EGFR mutant-fraction monitoring in the circulating tumor DNA of EGFR T790M-positive patients with non-small cell lung cancer (WJOG8815L). Mol Oncol. 2021 Jan;15(1):126-137.
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PMCID: PMC7782093
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DOI: 10.1002/1878-0261.12841
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Nishimura T, Fujii K, Nakamura H, Naruki S, Sakai H, Kimura H, Miyazawa T,
Takagi M, Furuya N, Marko-Varga G, Kato H, Saji H. Protein co-expression network-based profiles revealed from laser-microdissected
cancerous cells of lung squamous-cell carcinomas. Sci Rep. 2021 Oct 12;11(1):20209. PMCID: PMC8511190 DOI: 10.1038/s41598-021-99695-x
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Fujinami-Yokokawa Y, Ninomiya H, Liu X, Yang L, Pontikos N, Yoshitake K,
Iwata T, Sato Y, Hashimoto T, Tsunoda K, Miyata H, Fujinami K; Japan Eye Genetics Study (JEGC) Group. Japan Eye Genetics Study (JEGC) Group: Takeshi Iwata, Kazushige Tsunoda, Kaoru Fujinami,
Shinji Ueno, Kazuki Kuniyoshi, Takaaki Hayashi, Mineo Kondo, Atsushi Mizota, Nobuhisa Naoi, Kei Shinoda, Shuhei Kameya, Hiroyuki Kondo, Taro Kominami, Hiroko Terasaki, Hiroyuki Sakuramoto,
Satoshi Katagiri, Kei Mizobuchi, Natsuko Nakamura, Go Mawatari, Toshihide Kurihara, Kazuo Tsubota, Yozo Miyake, Kazutoshi Yoshitake, Toshihide Nishimura, Yoshihide Hayashizaki,
Nobuhiro Shimozawa, Masayuki Horiguchi, Shuichi Yamamoto, Manami Kuze, Shigeki Machida, Yoshiaki Shimada, Makoto Nakamura, Takashi Fujikado, Yoshihiro Hotta, Masayo Takahashi, Kiyofumi
Mochizuki, Akira Murakami, Hiroyuki Kondo, Susumu Ishida, Mitsuru Nakazawa, Tetsuhisa Hatase, Tatsuo Matsunaga, Akiko Maeda, Kosuke Noda, Atsuhiro Tanikawa, Syuji Yamamoto, Hiroyuki Yamamoto,
Makoto Araie, Makoto Aihara, Toru Nakazawa, Tetsuju Sekiryu, Kenji Kashiwagi, Kenjiro Kosaki, Carninci Piero, Takeo Fukuchi, Atsushi Hayashi, Katsuhiro Hosono, Keisuke Mori, Kouji Tanaka,
Koichi Furuya, Keiichirou Suzuki, Ryo Kohata, Yasuo Yanagi, Yuriko Minegishi, Daisuke Iejima, Akiko Suga, Brian P Rossmiller, Yang Pan, Tomoko Oshima, Mao Nakayama, Megumi Yamamoto, Naoko
Minematsu, Daisuke Mori, Yusuke Kijima, Kentaro Kurata, Norihiro Yamada, Masayoshi Itoh, Hideya Kawaji, Yasuhiro Murakawa, Ryo Ando, Wataru Saito, Yusuke Murakami, Hiroaki Miyata, Lizhu Yang,
Yu Fujinami-Yokokawa, Xiao Liu, Gavin Arno, Nikolas Pontikos, Mihori Kita, Hiroshi Hirose, Katsuyuki Sakai, Yasumasa Otori, Kazuki Yamazawa, Satomi Inoue, Takayuki
Kinoshita. Prediction of causative genes in inherited retinal disorder from fundus photography and autofluorescence imaging using deep
learning techniques. Br J Ophthalmol. 2021 Sep;105(9):1272-1279. PMCID: PMC8380883 DOI: 10.1136/bjophthalmol-2020-318544
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Hayashi H, Takiguchi Y, Minami H, Akiyoshi K, Segawa Y, Ueda H, Iwamoto Y, Kondoh C, Matsumoto K, Takahashi S, Yasui H, Sawa T, Onozawa Y, Chiba Y, Togashi Y,
Fujita Y, Sakai K, Tomida S, Nishio K, Nakagawa K. Site-Specific and Targeted Therapy Based on Molecular Profiling by Next-Generation Sequencing for Cancer of Unknown
Primary Site: A Nonrandomized Phase 2 Clinical Trial. JAMA Oncol. 2020 Dec 1;6(12):1931-1938.
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PMCID: PMC7563669
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DOI: 10.1001/jamaoncol.2020.4643
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Nishimura T, Végvári Á, Nakamura H, Kato H, Saji H. Mutant Proteomics of Lung
Adenocarcinomas Harboring Different EGFR Mutations. Front
Oncol. 2020;
10:1494.
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PMCID: PMC7477350
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DOI
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: 10.3389/fonc.2020.0149
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Nishimura T, Nakamura H, Tan KT, Zhuo DW, Fujii K, Koizumi H, Naruki S, Takagi M, Furuya N, Kato Y, Chen SJ, Kato H, Saji
H. A proteogenomic profile of early lung adenocarcinomas by protein co-expression network and genomic alteration
analysis. Sci
Rep.
2020;10(1):13604. PMCID: PMC7423934
- DOI: 10.1038/s41598-020-70578-x
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Nishimura T, Nakamura H, Yachie A, Hase T, Fujii K, Koizumi H, Naruki S, Takagi M, Matsuoka Y, Furuya N, Kato H, Saji H.
Disease-related cellular protein networks differentially affected under different EGFR mutations in lung adenocarcinoma. Sci
Rep. 2020 Jul 2;10(1):10881.
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PMCID: PMC7331587
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DOI: 10.1038/s41598-020-67894-7
Recent Review Articles
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Nishimura T, Nakamura H, Végvári Á, Marko-Varga G, Furuya N, Saji H. Current status
of clinical proteogenomics in lung cancer. Expert
Rev Proteomics.
2019;16(9):761-772. DOI: 10.1080/14789450.2019.1654861
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Fujii K, Nakamura H, Nishimura T. Recent mass spectrometry-based proteomics for biomarker discovery in lung cancer,
COPD, and asthma. Expert
Rev Proteomics.
2017;14(4):373-386. DOI: 10.1080/14789450.2017.1304215
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Nishimura T, Nakamura H. Developments for Personalized Medicine of Lung Cancer Subtypes: Mass Spectrometry-Based
Clinical Proteogenomic Analysis of Oncogenic Mutations. Adv
Exp Med Biol.
2016; 926:115-137. DOI: 10.1007/978-3-319-42316-6_8