20131011 KashiwaR#9
Transcript of 20131011 KashiwaR#9
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変態に R を与えた結果がこれだよ… 6 R でフローサイトメトリー (FCM/FACS) を解析する
20131011Kashiwa.R#9 @ 東京大学駒場キャンパス 16 号館 126 ・ 127 教室
YF@Med_KU
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Flow cytometry
© 2011 DBCLS Licensed under CC 表示 2.1 日本
Ag-Ab reaction
Beam
Detection and Quantification
Analysis and Classification
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Flow cytometry
© 2011 DBCLS Licensed under CC 表示 2.1 日本
Ag-Ab reaction
Beam
Detection and Quantification
Analysis and Classification
実験は一切しないので R での解析についてのみFCM といいつつ話はクラスタリング( そもそも機械からどうデータ引っこ抜くのか知らない )
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Bioconductor {flowCore}
7 種の抗体
1 細胞あたり 7 つの定量データが 10000 細胞分
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実数軸 vs 対数軸
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ヒストグラム
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Gating
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Gating
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Gating
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Gating: problem
Gate の設定があまりにも適当すぎる。
統計学的に細胞を分類 / 集団を特定したい。
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Clustering距離が近いデータをまとめる
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Clustering距離が近いデータをまとめる
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Clustering距離が近いデータをまとめる
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Clustering距離が近いデータをまとめる
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kmeansクラスターの中心点があるとして仲間分け
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Local outlier factor (LOF)近傍点集合からの離れ具合を定量化
Proceedings of the 2000 ACM SIGMOD international conference on Management of data. SIGMOD '00: 93–104
近傍点 3 つからの距離
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Cyto Spanning tree Progression of Density normalized Events (SPADE)表面抗原発現パターンから分化系統樹作成
Nat Biotechnol. 2011 Oct 2;29(10):886-91Science. 2011 May 6;332(6030):687-96