Tommaso Biancalani - Publications, H-index & Citations

Tommaso Biancalani

Genentech

17H指数

50论文数

3.8K被引数

收录论文 13

发表时间

Scoring gene importance by interpreting single-cell foundation models 通过解释单细胞基础模型对基因重要性进行评分

Nature Biotechnology

IF41.7

2026-05-27

OAAI

Maxwell P. Gold; Miguel Reyes; Nathaniel Diamant; Tony Kuo; Ehsan Hajiramezanali; Jane W. Newburger; Mary Beth F. Son; Pui Y. Lee; Gabriele Scalia; Aicha BenTaieb; Sharookh B. Kapadia; Anupriya Tripathi; Héctor Corrada Bravo; Graham Heimberg; Tommaso Biancalani

Decoding sequence determinants of gene expression in diverse cellular and disease states 解码基因表达在不同细胞和疾病状态中的序列决定因素

Nature Methods

IF32.1

2026-05-25

PREAI

Avantika Lal; Alexander Karollus; Laura Gunsalus; David Garfield; Surag Nair; Alex M. Tseng; M. Grace Gordon; John Blischak; Bryce Van De Geijn; Tushar Bhangale; Jenna L. Collier; Nathaniel Diamant; Tommaso Biancalani; Hector Corrada Bravo; Gabriele Scalia; Gokcen Eraslan

Learning multi-cellular representations of single-cell transcriptomics data enables characterization of patient-level disease states 学习单细胞转录组数据的细胞群表征能够实现患者层面疾病状态的表征

Cell Systems

IF7.7

2026-03-31

OAAI

Tianyu Liu; Edward De Brouwer; Archit Verma; Alsu Missarova; Tony Kuo; Nathaniel Diamant; Hanchen Wang; Minsheng Hao; Tommaso Biancalani; Hector Corrada Bravo; Gabriele Scalia; Aviv Regev; Graham Heimberg

Fibroblastic FLT3L supports lymph node dendritic cells in the interfollicular niche 成纤维细胞FLT3L支持滤泡间小生境中的淋巴结树突状细胞

Nature Immunology

IF27.6

2025-11-17

PREAI

Sunny Z. Wu; Ryan S. Lane; Christopher Davidson; Ashley Byrne; Giulia Protti; Ines Marin; Endi K. Santosa; Alberto Guanieri; Brandon D. Kayser; Hejin Huang; Katherine Williams; Matthew Fernandez; Jian Jiang; Juan Zhang; Raymond Asuncion; Apple Cortez Vollmers; Jérémie Decalf; Merone Roose-Girma; Wyne P. Lee; Lisa McGinnis; Varun N. Kapoor; Soren Warming; William Stephenson; Sandra Rost; Christine Moussion; Tommaso Biancalani; Sören Müller; Shannon J. Turley

Publisher Correction: Deep-learning-based virtual screening of antibacterial compounds 出版商更正: 基于深度学习的抗菌化合物虚拟筛选

Nature Biotechnology

IF41.7

2025-11-07

OAAI

Gabriele Scalia; Steven T. Rutherford; Ziqing Lu; Kerry R. Buchholz; Nicholas Skelton; Kangway Chuang; Nathaniel Diamant; Jan-Christian Hütter; Jerome-Maxim Luescher; Anh Miu; Jeff Blaney; Leo Gendelev; Elizabeth Skippington; Greg Zynda; Nia Dickson; Michał Koziarski; Yoshua Bengio; Aviv Regev; Man-Wah Tan; Tommaso Biancalani

Deep-learning-based virtual screening of antibacterial compounds 基于深度学习的抗菌化合物虚拟筛选

Nature Biotechnology

IF41.7

2025-10-24

PREAI

Gabriele Scalia; Steven T. Rutherford; Ziqing Lu; Kerry R. Buchholz; Nicholas Skelton; Kangway Chuang; Nathaniel Diamant; Jan-Christian Hütter; Jerome-Maxim Luescher; Anh Miu; Jeff Blaney; Leo Gendelev; Elizabeth Skippington; Greg Zynda; Nia Dickson; Micha Koziarski; Yoshua Bengio; Aviv Regev; Man-Wah Tan; Tommaso Biancalani

gReLU: a comprehensive framework for DNA sequence modeling and design gReLU: 一个用于DNA序列建模和设计的综合框架

Nature Methods

IF32.1

2025-10-15

OAAI

Avantika Lal; Laura Gunsalus; Surag Nair; Tommaso Biancalani; Gokcen Eraslan

Gut Microbial Species and Endotypes Associate with Remission in Ulcerative Colitis Patients Treated with Anti-TNF or Anti-integrin Therapy

JOURNAL OF CROHNS & COLITIS

IF8.7

2024-06-05

OAAI

Tamburini, Fiona B.; Tripathi, Anupriya; Gold, Maxwell P.; Yang, Julianne C.; Biancalani, Tommaso; McBride, Jacqueline M.; Keir, Mary E.; ARDENIA Study Grp

Prediction of single-cell RNA expression profiles in live cells by Raman microscopy with Raman2RNA 用Raman2RNA通过拉曼显微镜预测活细胞中的单细胞RNA表达谱

NATURE BIOTECHNOLOGY

IF41.7

2024-01-10

OAAI

Kobayashi-Kirschvink, Koseki J.; Comiter, Charles S.; Gaddam, Shreya; Joren, Taylor; Grody, Emanuelle I.; Ounadjela, Johain R.; Zhang, Ke; Ge, Baoliang; Kang, Jeon Woong; Xavier, Ramnik J.; So, Peter T. C.; Biancalani, Tommaso; Shu, Jian; Regev, Aviv

Genetic vulnerability to Crohn's disease reveals a spatially resolved epithelial restitution program 克罗恩病的遗传脆弱性揭示了空间分辨的上皮恢复计划

SCIENCE TRANSLATIONAL MEDICINE

IF14.6

2023-10-25

OAAI

Nakata, Toru; Li, Chenhao; Mayassi, Toufic; Lin, Helen; Ghosh, Koushik; Segerstolpe, Asa; Diamond, Emma L.; Herbst, Paula; Biancalani, Tommaso; Gaddam, Shreya; Parkar, Saurabh; Lu, Ziqing; Jaiswal, Alok; Li, Bihua; Creasey, Elizabeth A.; Lefkovith, Ariel; Daly, Mark J.; Graham, Daniel B.; Xavier, Ramnik J.

Reference-based cell type matching of in situ image-based spatial transcriptomics data on primary visual cortex of mouse brain

SCIENTIFIC REPORTS

IF3.9

2023-06-13

OAAI

Zhang, Yun; Miller, Jeremy A.; Park, Jeongbin; Lelieveldt, Boudewijn P.; Long, Brian; Abdelaal, Tamim; Aevermann, Brian D.; Biancalani, Tommaso; Comiter, Charles; Dzyubachyk, Oleh; Eggermont, Jeroen; Langseth, Christoffer Mattsson; Petukhov, Viktor; Scalia, Gabriele; Vaishnav, Eeshit Dhaval; Zhao, Yilin; Lein, Ed S.; Scheuermann, Richard H.

Deep learning and alignment of spatially resolved single-cell transcriptomes with Tangram 深度学习和空间分辨的单细胞转录组与七巧板的比对

NATURE METHODS

IF32.1

2021-10-28

289

OAAI

Biancalani, Tommaso; Scalia, Gabriele; Buffoni, Lorenzo; Avasthi, Raghav; Lu, Ziqing; Sanger, Aman; Tokcan, Neriman; Vanderburg, Charles R.; Segerstolpe, Asa; Zhang, Meng; Avraham-Davidi, Inbal; Vickovic, Sanja; Nitzan, Mor; Ma, Sai; Subramanian, Ayshwarya; Lipinski, Michal; Buenrostro, Jason; Brown, Nik Bear; Fanelli, Duccio; Zhuang, Xiaowei; Macosko, Evan Z.; Regev, Aviv

Epigenetic encoding, heritability and plasticity of glioma transcriptional cell states

NATURE GENETICS

IF31.8

2021-09-30

128

OAAI

Chaligne, Ronan; Gaiti, Federico; Silverbush, Dana; Schiffman, Joshua S.; Weisman, Hannah R.; Kluegel, Lloyd; Gritsch, Simon; Deochand, Sunil D.; Castro, L. Nicolas Gonzalez; Richman, Alyssa R.; Klughammer, Johanna; Biancalani, Tommaso; Muus, Christoph; Sheridan, Caroline; Alonso, Alicia; Izzo, Franco; Park, Jane; Rozenblatt-Rosen, Orit; Regev, Aviv; Suva, Mario L.; Landau, Dan A.

研究方向