PUBLICATIONS

2019 | Cancer cell evolution through the ages. Maley, CC, Shibata, D. Science. 365 (6452): 440-441. doi: 10.1126/science.aay2859. PubMed PMID: 31371596.

2019 | scRNABatchQC: Multi-samples quality control for single cell RNA-seq data. Liu, Q, Sheng, Q, Ping, J, Ramirez, MA, Lau, KS, Coffey, R, Shyr, Y. Bioinformatics. 2019 Aug 2; pii: btz601. doi: 10.1093/bioinformatics/btz601. PubMed PMID: 31373345.

2019 | An update on the CNS manifestations of neurofibromatosis type 2. Coy, S, Rashid, R, Stemmer-Rachamimov, A, Santagata, S. Acta Neuropathol. 2019 Jun 4. doi: 10.1007/s00401-019-02029-5. PubMed PMID: 31161239.

2019 | The immune contexture associates with the genomic landscape in lung adenomatous premalignancy. Krysan K, Tran LM, Grimes BS, Fishbein GA, Seki A, Gardner BK, Walser TC, Salehi-Rad R, Yanagawa J, Lee JM, Sharma S, Aberle D, Spira AE, Elashoff DA, Wallace WD, Fishbein MC, Dubinett SM. Cancer Res. Epub 2019 May 29. 2019 Oct 1;79(19):5022-5033. doi: 10.1158/0008-5472.CAN-19-0153. PubMed PMID: 31142513.

2019 | SCRABBLE: single-cell RNA-seq imputation constrained by bulk RNA-seq data. Peng T, Zhu Q, Yin P, Tan K. Genome Biol. 2019 May 6; 20(1):88. doi: 10.1186/s13059-019-1681-8. PubMed PMID: 31060596. PubMed Central PMCID: PMC6501316.

2019 | Transforming Growth Factor-β Signaling in Immunity and Cancer. Batlle, E, Massagué, J. Immunity. 50 (4): 924-940. doi: 10.1016/j.immuni.2019.03.024. PubMed PMID: 30995507.

2019 | The Pediatric Cell Atlas: Defining the Growth Phase of Human Development at Single-Cell Resolution. Taylor DM, Aronow BJ, Tan K, Bernt K, Salomonis N, Greene CS, Frolova A, Henrickson SE, Wells A, Pei L, Jaiswal JK, Whitsett J, Hamilton KE, MacParland SA, Kelsen J, Heuckeroth RO, Potter SS, Vella LA, Terry NA, Ghanem LR, Kennedy BC, Helbig I, Sullivan KE, Castelo-Soccio L, Kreigstein A, Herse F, Nawijn MC, Koppelman GH, Haendel M, Harris NL, Rokita JL, Zhang Y, Regev A, Rozenblatt-Rosen O, Rood JE, Tickle TL, Vento-Tormo R, Alimohamed S, Lek M, Mar JC, Loomes KM, Barrett DM, Uapinyoying P, Beggs AH, Agrawal PB, Chen YW, Muir AB, Garmire LX, Snapper SB, Nazarian J, Seeholzer SH, Fazelinia H, Singh LN, Faryabi RB, Raman P, Dawany N, Xie HM, Devkota B, Diskin SJ, Anderson SA, Rappaport EF, Peranteau W, Wikenheiser-Brokamp KA, Teichmann S, Wallace D, Peng T, Ding YY, Kim MS, Xing Y, Kong SW, Bönnemann CG, Mandl KD, White PS. Dev Cell. 2019 Apr 8; 49(1):10-29. doi: 10.1016/j.devcel.2019.03.001. PubMed PMID: 30930166. PubMed Central PMCID: PMC6616346.

2019 | Robust Cell Detection and Segmentation for Image Cytometry Reveal Th17 Cell Heterogeneity. Tsujikawa T, Thibault G, Azimi V, Sivagnanam S, Banik G, Means C, Kawashima R, Clayburgh DR, Gray JW, Coussens LM, Chang YH. Cytometry A. 2019 Apr; 95(4):389-398. doi: 10.1002/cyto.a.23726. PubMed PMID: 30714674. PubMed Central PMCID: PMC6461524.

2019 | Therapeutic Clues from an Integrated Omic Assessment of East Asian Triple Negative Breast Cancers. Heiser LM, Mills GB, Gray JW. Cancer Cell. 2019 Mar 18; 35(3):341-343. doi: 10.1016/j.ccell.2019.02.012. PubMed PMID: 30889376. PubMed Central PMCID: PMC6499473.

2018 | pyNVR: Investigating factors affecting feature selection from scRNA-seq data for lineage reconstruction. Chen B, Herring CA, Lau KS. Bioinformatics. 2018 Nov 16; pii: 5184958. doi: 10.1093/bioinformatics/bty950. PubMed PMID: 30445607. PubMed Central PMCID: PMC6596893.

2018 | A Cancer Cell Program Promotes T Cell Exclusion and Resistance to Checkpoint Blockade. Jerby-Arnon L, Shah P, Cuoco MS, Rodman C, Su MJ, Melms JC, Leeson R, Kanodia A, Mei S, Lin JR, Wang S, Rabasha B, Liu D, Zhang G, Margolais C, Ashenberg O, Ott PA, Buchbinder EI, Haq R, Hodi FS, Boland GM, Sullivan RJ, Frederick DT, Miao B, Moll T, Flaherty KT, Herlyn M, Jenkins RW, Thummalapalli R, Kowalczyk MS, Cañadas I, Schilling B, Cartwright ANR, Luoma AM, Malu S, Hwu P, Bernatchez C, Forget MA, Barbie DA, Shalek AK, Tirosh I, Sorger PK, Wucherpfennig K, Van Allen EM, Schadendorf D, Johnson BE, Rotem A, Rozenblatt-Rosen O, Garraway LA, Yoon CH, Izar B, Regev A. Cell. 2018 Nov 1; 175(4):984-997.e24. doi: 10.1016/j.cell.2018.09.006. PubMed PMID: 30388455. PubMed Central PMCID: PMC6410377.

2018 | Quantitative assessment of cell population diversity in single-cell landscapes. Liu Q, Herring CA, Sheng Q, Ping J, Simmons AJ, Chen B, Banerjee A, Li W, Gu G, Coffey RJ, Shyr Y, Lau KS. PLoS Biol. 2018 Oct 22; 16(10):e2006687. doi: 10.1371/journal.pbio.2006687. PubMed PMID: 30346945. PubMed Central PMCID: PMC6211764.

2018 | The PreCancer Atlas (PCA). Srivastava S, Ghosh S, Kagan J, Mazurchuk R. Trends Cancer. 2018 Aug; 4(8):513-514. doi: 10.1016/j.trecan.2018.06.003. PubMed PMID: 30064657.

2018 | The Making of a PreCancer Atlas: Promises, Challenges, and Opportunities. Srivastava S, Ghosh S, Kagan J, Mazurchuk R. Trends Cancer. 2018 Aug;4(8):523-536. doi: 10.1016/j.trecan.2018.06.007. PubMed PMID: 30064661.