Aly A. Khan - Publications, H-index & Citations

Aly A. Khan

biohub

34H指数

121论文数

6.9K被引数

收录论文 43

发表时间

Fifteen challenges for generative AI applications to cell biology 细胞生物学中生成式AI应用的十五大挑战

Cell

IF42.5

2026-08-17

OAAI

Leo Dupire; Aly A. Khan; Theofanis Karaletsos; Shana Kelley; Emma Lundberg; Jian Ma; Evan Paull; Stephen R. Quake; Raul Rabadan; Cassius Rowan; Peter Sims; Sohail Tavazoie; John S. Tsang; Mingxuan Zhang; Andrea Califano

Spatial proximity sequencing maps developmental dynamics in the germinal center 空间邻近测序图谱绘制生发中心的发育动力学

Cell

IF42.5

2026-07-16

PREAI

Huili Wang; Junjie Xia; Peer Mohamed Suhail Mujibur Rahman; Bijentimala Keisham; Abinash Padhi; Yiyu Deng; Yan Li; Luke Vistain; Sarah Kim; Gabriel Mercado-Vásquez; Aly A. Khan; Marcus R. Clark; Savaş Tay

Deep peptide recognition profiling decodes TCR specificity and enables disease-associated antigen discovery 深度肽段识别谱分析解码TCR特异性并实现疾病相关抗原的发现

Nature Biotechnology

IF41.7

2026-05-13

OAAI

Nan Wang; Hugh Yeh; Ben Lai; Jason Perera; Kevin M. Jude; Isabel Risch; Joy Um; Xiaojing Chen; Xinyu Xiang; Chunyu Wang; Liu Daisy Liu; Xinbo Yang; Michael A. Paley; Aly A. Khan; K. Christopher Garcia

Androgens contribute to sex bias of autoimmunity in mice by T cell-intrinsic regulation of Ptpn22 phosphatase expression 雄激素通过T细胞内在调控Ptpn22磷酸酶的表达，对小鼠自身免疫的性别偏倚产生影响。

NATURE COMMUNICATIONS

IF15.7

2024-09-03

PREAI

Lee, Jean; Yurkovetskiy, Leonid A.; Reiman, Derek; Frommer, Lara; Strong, Zoe; Chang, Anthony; Kahaly, George J.; Khan, Aly A.; Chervonsky, Alexander V.

Isotype-aware inference of B cell clonal lineage trees from-cell data

CELL GENOMICS

IF9

2024-09-01

OAAI

Weber, Leah L.; Reiman, Derek; Roddur, Mrinmoy S.; Qi, Yuanyuan; El-Kebir, Mohammed; Khan, Aly A.

A novel method for inferring B cell clonal lineages from single-cell RNA sequencing data

JOURNAL OF IMMUNOLOGY

IF3.4

2024-05-01

PREAI

Weber, Leah; Reiman, Derek; Roddur, Mrinmoy; Qi, Yuanyuan; El-Kebir, Mohammed; Khan, Aly

Gut commensal bacteria enhance pathogenesis of a tumorigenic murine retrovirus

CELL REPORTS

IF6.9

2022-09-01

OAAI

Spring, Jessica; Khan, Aly A.; Lara, Sophie; O'Grady, Kelly; Wilks, Jessica; Gurbuxani, Sandeep; Erickson, Steven; Fischbach, Michael; Jacobson, Amy; Chervonsky, Alexander; Golovkina, Tatyana

Integration of tumor extrinsic and intrinsic features associates with immunotherapy response in non-small cell lung cancer

NATURE COMMUNICATIONS

IF15.7

2022-07-13

OAAI

Lau, Denise; Khare, Sonal; Stein, Michelle M.; Jain, Prerna; Gao, Yinjie; BenTaieb, Aicha; Rand, Tim A.; Salahudeen, Ameen A.; Khan, Aly A.

Privacy preserving validation for multiomic prediction models

BRIEFINGS IN BIOINFORMATICS

IF7.7

2022-04-06

OAAI

Ahmed, Talal; Carty, Mark A.; Wenric, Stephane; Dry, Jonathan R.; Salahudeen, Ameen A.; Khan, Aly A.; Lefkofsky, Eric; Stumpe, Martin C.; Pelossof, Raphael

RAPID DETECTION OF SOMATIC VARIANTS IN HUMAN LEUKOCYTE ANTIGEN CLASS 1 GENES FROM SOLID TUMOR SAMPLES

JOURNAL FOR IMMUNOTHERAPY OF CANCER

IF10.6

2021-11-10

OAAI

Bharanikumar, Ramit; Beutner, Karl; Khan, Aly; Perera, Jason

CHARACTERIZATION OF TUMOR-INFILTRATING T-CELL REPERTOIRE IN HUMAN CANCERS

JOURNAL FOR IMMUNOTHERAPY OF CANCER

IF10.6

2021-11-10

OAAI

Harding, Taylor; Yang, Qidi; Mineo, Brittany; Malinauskas, Jenna; Perera, Jason; Beutner, Karl; Lau, Denise; Khan, Aly

Improved integration of single-cell transcriptome and surface protein expression by LinQ-View

CELL REPORTS METHODS

IF4.5

2021-08-01

OAAI

Li, Lei; Dugan, Haley L.; Stamper, Christopher T.; Lan, Linda Yu-Ling; Asby, Nicholas W.; Knight, Matthew; Stovicek, Olivia; Zheng, Nai-Ying; Madariaga, Maria Lucia; Shanmugarajah, Kumaran; Jansen, Maud O.; Changrob, Siriruk; Utset, Henry A.; Henry, Carole; Nelson, Christopher; Jedrzejczak, Robert P.; Fremont, Daved H.; Joachimiak, Andrzej; Krammer, Florian; Huang, Jun; Khan, Aly A.; Wilson, Patrick C.

Innate-like self-reactive B cells infiltrate human renal allografts during transplant rejection

NATURE COMMUNICATIONS

IF15.7

2021-07-16

OAAI

Asano, Yuta; Daccache, Joe; Jain, Dharmendra; Ko, Kichul; Kinloch, Andrew; Veselits, Margaret; Wolfgeher, Donald; Chang, Anthony; Josephson, Michelle; Cunningham, Patrick; Tambur, Anat; Khan, Aly A.; Pillai, Shiv; Chong, Anita S.; Clark, Marcus R.

Validation of a liquid biopsy assay with molecular and clinical profiling of circulating tumor DNA

NPJ PRECISION ONCOLOGY

IF8

2021-07-02

OAAI

Finkle, Justin D.; Boulos, Hala; Driessen, Terri M.; Lo, Christine; Blidner, Richard A.; Hafez, Ashraf; Khan, Aly A.; Lozac'hmeur, Ariane; McKinnon, Kelly E.; Perera, Jason; Zhu, Wei; Dowlati, Afshin; White, Kevin P.; Tell, Robert; Beaubier, Nike

A pan-cancer organoid platform for precision medicine 用于精准医学的泛癌症类器官平台

CELL REPORTS

IF6.9

2021-07-01

OAAI

Larsen, Brian M.; Kannan, Madhavi; Langer, Lee F.; Leibowitz, Benjamin D.; Bentaieb, Aicha; Cancino, Andrea; Dolgalev, Igor; Drummond, Bridgette E.; Dry, Jonathan R.; Ho, Chi-Sing; Khullar, Gaurav; Krantz, Benjamin A.; Mapes, Brandon; McKinnon, Kelly E.; Metti, Jessica; Perera, Jason F.; Rand, Tim A.; Sanchez-Freire, Veronica; Shaxted, Jenna M.; Stein, Michelle M.; Streit, Michael A.; Tan, Yi-Hung Carol; Zhang, Yilin; Zhao, Ende; Venkataraman, Jagadish; Stumpe, Martin C.; Borgia, Jeffrey A.; Masood, Ashiq; Catenacci, Daniel V. T.; Mathews, Jeremy, V; Gursel, Demirkan B.; Wei, Jian-Jun; Welling, Theodore H.; Simeone, Diane M.; White, Kevin P.; Khan, Aly A.; Igartua, Catherine; Salahudeen, Ameen A.

Human Hepatitis B Viral Infection Outcomes Are Linked to Naturally Occurring Variants of HLA-DOA That Have Altered Function

JOURNAL OF IMMUNOLOGY

IF3.4

2020-08-15

OAAI

Graves, Austin M.; Virdis, Francesca; Morrison, Eliot; Alvaro-Benito, Miguel; Khan, Aly A.; Freund, Christian; Golovkina, Tatyana, V; Denzin, Lisa K.

Polymorphic Immune Mechanisms Regulate Commensal Repertoire

CELL REPORTS

IF6.9

2019-10-01

OAAI

Khan, Aly A.; Yurkovetskiy, Leonid; O'Grady, Kelly; Pickard, Joseph M.; de Pooter, Renee; Antonopoulos, Dionysios A.; Golovkina, Tatyana; Chervonsky, Alexander

Integrated genomic profiling expands clinical options for patients with cancer

NATURE BIOTECHNOLOGY

IF41.7

2019-09-30

108

PREAI

Beaubier, Nike; Bontrager, Martin; Huether, Robert; Igartua, Catherine; Lau, Denise; Tell, Robert; Bobe, Alexandria M.; Bush, Stephen; Chang, Alan L.; Hoskinson, Derick C.; Khan, Aly A.; Kudalkar, Emily; Leibowitz, Benjamin D.; Lozachmeur, Ariane; Michuda, Jackson; Parsons, Jerod; Perera, Jason F.; Salahudeen, Ameen; Shah, Kaanan P.; Taxter, Timothy; Zhu, Wei; White, Kevin P.

RNA Sequencing of the Tumor Microenvironment in Precision Cancer Immunotherapy

TRENDS IN CANCER

IF17.5

2019-03-01

PREAI

Lau, Denise; Bobe, Alexandria M.; Khan, Aly A.

Spec-seq unveils transcriptional subpopulations of antibody-secreting cells following influenza vaccination

JOURNAL OF CLINICAL INVESTIGATION

IF13.6

2018-11-19

OAAI

Neu, Karlynn E.; Guthmiller, Jenna J.; Huang, Min; La, Jennifer; Vieira, Marcos C.; Kim, Kangchon; Zheng, Nai-Ying; Cortese, Mario; Tepora, Micah E.; Hamel, Natalie J.; Rojas, Karla Thatcher; Henry, Carole; Shaw, Dustin; Dulberger, Charles L.; Pulendran, Bali; Cobey, Sarah; Khan, Aly A.; Wilson, Patrick C.

研究方向