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by Abbott, B. P and Abbott, R and Abbott, T. D and Acernese, F and Ackley, K and Adams, C and Adams, T and Addesso, P and Adhikari, R. X and Adya, V. B and Affeldt, C and Afrough, M and Agarwal, B and Agathos, M and Agatsuma, K and Aggarwal, N and Aguiar, O. D and Aiello, L and Ain, A and Ajith, P and Allen, B and Allen, G and Allocca, A and Altin, P. A and Amato, A and Ananyeva, A and Anderson, S. B and Anderson, W. G and Angelova, S. V and Antier, S and Appert, S and Arai, K and Araya, M. C and Areeda, J. S and Arnaud, N and Arun, K. G and Ascenzi, S and Ashton, G and Ast, M and Aston, S. M and Astone, P and Atallah, D. V and Aufmuth, P and Aulbert, C and AultONeal, K and Austin, C and Avila-Alvarez, A and Babak, S and Bacon, P and Bader, M. K. M and Bae, S and Baker, P. T and Baldaccini, F and Ballardin, G and Ballmer, S. W and Banagiri, S and Barayoga, J. C and Barclay, S. E and Barish, B. C and Barker, D and Barkett, K and Barone, F and Barr, B and Barsotti, L and Barsuglia, M and Barta, D and Barthelmy, S. D and Bartlett, J and Bartos, I and Bassiri, R and Basti, A and Batch, J. C and Bawaj, M and Bayley, J. C and Bazzan, M and Becsy, B and Beer, C and Bejger, M and Belahcene, I and Bell, A. S and Berger, B. K and Bergmann, G and Bero, J. J and Berry, C. P. L and Bersanetti, D and Bertolini, A and Betzwieser, J and Bhagwat, S and Bhandare, R and Bilenko, I. A and Billingsley, G and Billman, C. R and Birch, J and Birney, R and Birnholtz, O and Biscans, S and Biscoveanu, S and Bisht, A and Bitossi, M and Biwer, C and ... and Institutionen för fysik och astronomi and Teknisk-naturvetenskapliga vetenskapsområdet and Högenergifysik and Uppsala universitet and Fysiska sektionen
Astrophysical Journal Letters, ISSN 2041-8205, 10/2017, Volume 848, Issue 2
Journal Article
by Litaudon, X and Abduallev, S and Abhangi, M and Abreu, P and Afzal, M and Aggarwal, K.M and Ahlgren, T and Ahn, J.H and Aho-Mantila, L and Aiba, N and Airila, M and Albanese, R and Aldred, V and Alegre, D and Alessi, E and Aleynikov, P and Alfier, A and Alkseev, A and Allinson, M and Alper, B and Alves, E and Ambrosino, G and Ambrosino, R and Amicucci, L and Amosov, V and Andersson Sundén, E and Angelone, M and Anghel, M and Angioni, C and Appel, L and Appelbee, C and Arena, P and Ariola, M and Arnichand, H and Arshad, S and Ash, A and Ashikawa, N and Aslanyan, V and Asunta, O and Auriemma, F and Austin, Y and Avotina, L and Axton, M.D and Ayres, C and Bacharis, M and Baciero, A and Baiáo, D and Bailey, S and Baker, A and Balboa, I and Balden, M and Balshaw, N and Bament, R and Banks, J.W and Baranov, Y.F and Barnard, M.A and Barnes, D and Barnes, M and Barnsley, R and Baron Wiechec, A and Barrera Orte, L and Baruzzo, M and Basiuk, V and Bassan, M and Bastow, R and Batista, A and Batistoni, P and Baughan, R and Bauvir, B and Baylor, L and Bazylev, B and Beal, J and Beaumont, P.S and Beckers, M and Beckett, B and Becoulet, A and Bekris, N and Beldishevski, M and Bell, K and Belli, F and Bellinger, M and Belonohy, É and Ben Ayed, N and Benterman, N.A and Bergsåker, H and Bernardo, J and Bernert, M and Berry, M and Bertalot, L and Besliu, C and Beurskens, M and Bieg, B and Bielecki, J and Biewer, T and Bigi, M and Bílková, P and Binda, F and Bisoffi, A and Bizarro, J.P.S and Björkas, C and ... and Jet Contributors and JET Contributors and Princeton Plasma Physics Lab. (PPPL), Princeton, NJ (United States) and Fusionsplasmafysik and Skolan för elektro- och systemteknik (EES) and KTH
Nuclear Fusion, ISSN 0029-5515, 06/2017, Volume 57, Issue 10, p. 102001
Journal Article
by Thorsson, Vésteinn and Gibbs, David L and Brown, Scott D and Wolf, Denise and Bortone, Dante S and Ou Yang, Tai-Hsien and Porta-Pardo, Eduard and Gao, Galen F and Plaisier, Christopher L and Eddy, James A and Ziv, Elad and Culhane, Aedin C and Paull, Evan O and Sivakumar, I.K. Ashok and Gentles, Andrew J and Malhotra, Raunaq and Farshidfar, Farshad and Colaprico, Antonio and Parker, Joel S and Mose, Lisle E and Vo, Nam Sy and Liu, Jianfang and Liu, Yuexin and Rader, Janet and Dhankani, Varsha and Reynolds, Sheila M and Bowlby, Reanne and Califano, Andrea and Cherniack, Andrew D and Anastassiou, Dimitris and Bedognetti, Davide and Mokrab, Younes and Newman, Aaron M and Rao, Arvind and Chen, Ken and Krasnitz, Alexander and Hu, Hai and Malta, Tathiane M and Noushmehr, Houtan and Pedamallu, Chandra Sekhar and Bullman, Susan and Ojesina, Akinyemi I and Lamb, Andrew and Zhou, Wanding and Shen, Hui and Choueiri, Toni K and Weinstein, John N and Guinney, Justin and Saltz, Joel and Holt, Robert A and Rabkin, Charles S and Caesar-Johnson, Samantha J and Demchok, John A and Felau, Ina and Kasapi, Melpomeni and Ferguson, Martin L and Hutter, Carolyn M and Sofia, Heidi J and Tarnuzzer, Roy and Wang, Zhining and Yang, Liming and Zenklusen, Jean C and Zhang, Jiashan (Julia) and Chudamani, Sudha and Liu, Jia and Lolla, Laxmi and Naresh, Rashi and Pihl, Todd and Sun, Qiang and Wan, Yunhu and Wu, Ye and Cho, Juok and DeFreitas, Timothy and Frazer, Scott and Gehlenborg, Nils and Getz, Gad and Heiman, David I and Kim, Jaegil and Lawrence, Michael S and Lin, Pei and Meier, Sam and Noble, Michael S and Saksena, Gordon and Voet, Doug and Zhang, Hailei and Bernard, Brady and Chambwe, Nyasha and Dhankani, Varsha and Knijnenburg, Theo and Kramer, Roger and Leinonen, Kalle and Liu, Yuexin and Miller, Michael and Reynolds, Sheila and Shmulevich, Ilya and Thorsson, Vesteinn and Zhang, Wei and Akbani, Rehan and Broom, Bradley M and Hegde, Apurva M and ... and The Cancer Genome Atlas Research Network and Canc Genome Atlas Res Network and Cancer Genome Atlas Research Network
Immunity, ISSN 1074-7613, 04/2018, Volume 48, Issue 4, pp. 812 - 830.e14
We performed an extensive immunogenomic analysis of more than 10,000 tumors comprising 33 diverse cancer types by utilizing data compiled by TCGA. Across... 
tumor immunology | immunotherapy | cancer genomics | integrative network analysis | immuno-oncology | tumor microenvironment | immune subtypes | immunomodulatory | Immunology | Infectious Diseases | Immunology and Allergy | GENOMIC ANALYSES | INFORMATION | T-CELL-RECEPTOR | REGULATORY NETWORK | CLASSIFICATION | IMMUNOLOGY | SEQUENCING DATA | SOMATIC MUTATIONS | COMPREHENSIVE ANALYSIS | PREDICTION | REVEALS | Transforming Growth Factor beta - immunology | Prognosis | Humans | Middle Aged | Th1-Th2 Balance - physiology | Male | Neoplasms - classification | Wound Healing - immunology | Young Adult | Transforming Growth Factor beta - genetics | Neoplasms - genetics | Neoplasms - immunology | Interferon-gamma - immunology | Adolescent | Aged, 80 and over | Adult | Female | Aged | Interferon-gamma - genetics | Wound Healing - genetics | Genomics - methods | Child | Macrophages - immunology | Cell proliferation | Cluster analysis | Transcription | Copy number | p53 Protein | Lung cancer | Genomics | Aneuploidy | Lymphocytes T | Genomes | Cell interactions | Macrophages | Immunotherapy | DNA methylation | miRNA | Deoxyribonucleic acid--DNA | Immune system | Medical research | Wound healing | Immunomodulation | Stockholders | Inflammation | T cell receptors | Communications networks | Gene expression | White blood cells | Inventors | Medical prognosis | γ-Interferon | Mutation | Cancer | Tumors | Immune Subtypes | Integrative Network Analysis | Cancer Genomics | Immuno-oncology | Tumor immunology
Journal Article
by Ricketts, Christopher J and De Cubas, Aguirre A and Fan, Huihui and Smith, Christof C and Lang, Martin and Reznik, Ed and Bowlby, Reanne and Gibb, Ewan A and Akbani, Rehan and Beroukhim, Rameen and Bottaro, Donald P and Choueiri, Toni K and Gibbs, Richard A and Godwin, Andrew K and Haake, Scott and Hakimi, A. Ari and Henske, Elizabeth P and Hsieh, James J and Ho, Thai H and Kanchi, Rupa S and Krishnan, Bhavani and Kwiatkowski, David J and Lui, Wembin and Merino, Maria J and Mills, Gordon B and Myers, Jerome and Nickerson, Michael L and Reuter, Victor E and Schmidt, Laura S and Shelley, C. Simon and Shen, Hui and Shuch, Brian and Signoretti, Sabina and Srinivasan, Ramaprasad and Tamboli, Pheroze and Thomas, George and Vincent, Benjamin G and Vocke, Cathy D and Wheeler, David A and Yang, Lixing and Kim, William Y and Robertson, A. Gordon and Caesar-Johnson, Samantha J and Demchok, John A and Felau, Ina and Kasapi, Melpomeni and Ferguson, Martin L and Hutter, Carolyn M and Sofia, Heidi J and Tarnuzzer, Roy and Wang, Zhining and Yang, Liming and Zenklusen, Jean C and Zhang, Jiashan (Julia) and Chudamani, Sudha and Liu, Jia and Lolla, Laxmi and Naresh, Rashi and Pihl, Todd and Sun, Qiang and Wan, Yunhu and Wu, Ye and Cho, Juok and DeFreitas, Timothy and Frazer, Scott and Gehlenborg, Nils and Getz, Gad and Heiman, David I and Kim, Jaegil and Lawrence, Michael S and Lin, Pei and Meier, Sam and Noble, Michael S and Saksena, Gordon and Voet, Doug and Zhang, Hailei and Bernard, Brady and Chambwe, Nyasha and Dhankani, Varsha and Knijnenburg, Theo and Kramer, Roger and Leinonen, Kalle and Liu, Yuexin and Miller, Michael and Reynolds, Sheila and Shmulevich, Ilya and Thorsson, Vesteinn and Zhang, Wei and Akbani, Rehan and Broom, Bradley M and Hegde, Apurva M and Ju, Zhenlin and Kanchi, Rupa S and Korkut, Anil and Li, Jun and Liang, Han and Ling, Shiyun and Liu, Wenbin and Lu, Yiling and Mills, Gordon B and ... and The Cancer Genome Atlas Research Network and Canc Genome Atlas Res Network and Cancer Genome Atlas Research Network
Cell Reports, ISSN 2211-1247, 04/2018, Volume 23, Issue 1, pp. 313 - 326.e5
Journal Article
by Saltz, Joel and Gupta, Rajarsi and Hou, Le and Kurc, Tahsin and Singh, Pankaj and Nguyen, Vu and Samaras, Dimitris and Shroyer, Kenneth R and Zhao, Tianhao and Batiste, Rebecca and Van Arnam, John and Caesar-Johnson, Samantha J and Demchok, John A and Felau, Ina and Kasapi, Melpomeni and Ferguson, Martin L and Hutter, Carolyn M and Sofia, Heidi J and Tarnuzzer, Roy and Wang, Zhining and Yang, Liming and Zenklusen, Jean C and Zhang, Jiashan (Julia) and Chudamani, Sudha and Liu, Jia and Lolla, Laxmi and Naresh, Rashi and Pihl, Todd and Sun, Qiang and Wan, Yunhu and Wu, Ye and Cho, Juok and DeFreitas, Timothy and Frazer, Scott and Gehlenborg, Nils and Getz, Gad and Heiman, David I and Kim, Jaegil and Lawrence, Michael S and Lin, Pei and Meier, Sam and Noble, Michael S and Saksena, Gordon and Voet, Doug and Zhang, Hailei and Bernard, Brady and Chambwe, Nyasha and Dhankani, Varsha and Knijnenburg, Theo and Kramer, Roger and Leinonen, Kalle and Liu, Yuexin and Miller, Michael and Reynolds, Sheila and Shmulevich, Ilya and Thorsson, Vesteinn and Zhang, Wei and Akbani, Rehan and Broom, Bradley M and Hegde, Apurva M and Ju, Zhenlin and Kanchi, Rupa S and Korkut, Anil and Li, Jun and Liang, Han and Ling, Shiyun and Liu, Wenbin and Lu, Yiling and Mills, Gordon B and Ng, Kwok-Shing and Rao, Arvind and Ryan, Michael and Wang, Jing and Weinstein, John N and Zhang, Jiexin and Abeshouse, Adam and Armenia, Joshua and Chakravarty, Debyani and Chatila, Walid K and de Bruijn, Ino and Gao, Jianjiong and Gross, Benjamin E and Heins, Zachary J and Kundra, Ritika and La, Konnor and Ladanyi, Marc and Luna, Augustin and Nissan, Moriah G and Ochoa, Angelica and Phillips, Sarah M and Reznik, Ed and Sanchez-Vega, Francisco and Sander, Chris and Schultz, Nikolaus and Sheridan, Robert and Sumer, S. Onur and Sun, Yichao and Taylor, Barry S and Wang, Jioajiao and Zhang, Hongxin and ... and The Cancer Genome Atlas Research Network and Canc Genome Atlas Res Network and Cancer Genome Atlas Research Network
Cell Reports, ISSN 2211-1247, 04/2018, Volume 23, Issue 1, pp. 181 - 193.e7
Beyond sample curation and basic pathologic characterization, the digitized H&E-stained images of TCGA samples remain underutilized. To highlight this... 
deep learning | lymphocytes | digital pathology | bioinformatics | computer vision | tumor-infiltrating lymphocytes | immuno-oncology | tumor microenvironment | machine learning | artificial intelligence | MELANOMA | IMMUNE CONTEXTURE | GENOMIC ANALYSES | SOLID TUMORS | SUBTYPES | SQUAMOUS-CELL CARCINOMA | PROPOSAL | CANCER | STANDARDIZED METHOD | BREAST | CELL BIOLOGY
Journal Article