|
π
|
Single-cell RNA-seq reveals new types of human blood dendritic cells, monocytes, and progenitors
24 auth.
A. Villani,
R. Satija,
G. Reynolds,
Siranush Sarkizova,
K. Shekhar,
J. Fletcher,
M. Griesbeck,
Andrew Butler,
Shiwei Zheng,
S. Lazo,
...
Laura Jardine,
D. Dixon,
Emily Stephenson,
E. Nilsson,
I. Grundberg,
David McDonald,
A. Filby,
Weibo Li,
P. D. De Jager,
O. Rozenblatt-Rosen,
A. Lane,
M. Haniffa,
A. Regev,
N. Hacohen
|
10 |
2017 |
10
π
|
|
π
|
Mass Spectrometry Profiling of HLAβAssociated Peptidomes in Monoβallelic Cells Enables More Accurate Epitope Prediction
15 auth.
Jennifer G. Abelin,
D. Keskin,
Siranush Sarkizova,
Christina R. Hartigan,
Wandi Zhang,
J. Sidney,
Jonathan D. Stevens,
W. Lane,
G. Zhang,
T. Eisenhaure,
...
K. Clauser,
N. Hacohen,
Michael S. Rooney,
S. Carr,
Catherine J. Wu
|
9 |
2017 |
9
π
|
|
π
|
Spatially organized multicellular immune hubs in human colorectal cancer
72 auth.
K. Pelka,
Matan Hofree,
Jonathan H. Chen,
Siranush Sarkizova,
Joshua D. Pirl,
Vjola Jorgji,
Alborz Bejnood,
Danielle Dionne,
William Ge,
Katherine H Xu,
S. Chao,
D. Zollinger,
David J. Lieb,
J. Reeves,
C. Fuhrman,
...
M. Hoang,
T. Delorey,
Lan Nguyen,
Julia Waldman,
M. Klapholz,
Isaac Wakiro,
Ofir Cohen,
Julian J Albers,
C. Smillie,
Michael S. Cuoco,
Jingyi Wu,
Mei-ju Su,
J. Yeung,
B. Vijaykumar,
Angela M. Magnuson,
Natasha Asinovski,
Tabea Moll,
Max N. Goder-Reiser,
Anise S. Applebaum,
L. Brais,
L. Dellostritto,
Sarah L. Denning,
S. Phillips,
Emma K. Hill,
Julia K. Meehan,
Dennie T. Frederick,
T. Sharova,
Abhay Kanodia,
E. Todres,
Judit JanΓ©-Valbuena,
M. Biton,
B. Izar,
C. Lambden,
T. Clancy,
R. Bleday,
N. Melnitchouk,
J. Irani,
H. Kunitake,
D. Berger,
A. Srivastava,
J. Hornick,
S. Ogino,
Asaf Rotem,
S. Vigneau,
B. Johnson,
R. Corcoran,
A. Sharpe,
V. Kuchroo,
K. Ng,
M. Giannakis,
Linda T. Nieman,
G. Boland,
A. Aguirre,
A. Anderson,
O. Rozenblatt-Rosen,
A. Regev,
N. Hacohen
|
8 |
2021 |
8
π
|
|
π¦
|
A large peptidome dataset improves HLA class I epitope prediction across most of the human population
25 auth.
Siranush Sarkizova,
Susan Klaeger,
Phuong M. Le,
Letitia W. Li,
G. Oliveira,
Hasmik Keshishian,
Christina R. Hartigan,
Wandi Zhang,
D. Braun,
K. Ligon,
P. Bachireddy,
I. Zervantonakis,
Jennifer M. Rosenbluth,
Tamara Ouspenskaia,
Travis Law,
...
S. Justesen,
Jonathan D. Stevens,
W. Lane,
T. Eisenhaure,
Guang Lan Zhang,
K. Clauser,
N. Hacohen,
S. Carr,
Catherine J. Wu,
D. Keskin
|
8 |
2019 |
8
π¦
|
|
π
|
Key Parameters of Tumor Epitope Immunogenicity Revealed Through a Consortium Approach Improve Neoantigen Prediction
145 auth.
Daniel K. Wells,
Marit M. van Buuren,
Kristen K. Dang,
Vanessa M Hubbard-Lucey,
K. Sheehan,
Katie M. Campbell,
Andrew Lamb,
J. Ward,
J. Sidney,
A. BlΓ‘zquez,
A. Rech,
J. Zaretsky,
Begonya Comin-Anduix,
Alphonsus H. C. Ng,
W. Chour,
...
Thomas Yu,
H. Rizvi,
J. Chen,
Patrice A Manning,
Gabriela Steiner,
Xengie Doan,
T. Merghoub,
J. Guinney,
A. Kolom,
Cheryl Selinsky,
A. Ribas,
M. Hellmann,
N. Hacohen,
A. Sette,
J. Heath,
N. Bhardwaj,
F. Ramsdell,
R. Schreiber,
T. Schumacher,
P. Kvistborg,
N. Defranoux,
Aly A. Khan,
A. Lugade,
A. Lazic,
Angela Frentzen,
A. Tadmor,
A. Sasson,
A. Rao,
Baikang Pei,
Barbara SchrΓΆrs,
B. Berent-Maoz,
B. Carreno,
Bin Song,
Bjoern Peters,
B. Li,
B. Higgs,
Brian J. Stevenson,
C. Iseli,
Christopher A. Miller,
C. Morehouse,
C. Melief,
Cristina Puig-Saus,
Daphne van Beek,
D. Balli,
D. Gfeller,
D. Haussler,
D. JΓ€ger,
E. Cortes,
Ekaterina Esaulova,
E. Sherafat,
Francisco Arcila,
G. Bartha,
Geng Liu,
G. Coukos,
Guilhem Richard,
Han Chang,
Han Si,
I. ZΓΆrnig,
I. Xenarios,
I. MΔndoiu,
Irsan E. Kooi,
James P. Conway,
J. Kessler,
J. Greenbaum,
Jason F. Perera,
J. Harris,
J. Hundal,
Jennifer M. Shelton,
Jianmin Wang,
Jiaqian Wang,
J. Greshock,
Jonathon Blake,
J. Szustakowski,
Julia Kodysh,
J. Forman,
Lei Wei,
Leo J. Lee,
Lorenzo F. Fanchi,
M. Slagter,
Maren Lang,
Markus Mueller,
Martin Lower,
M. Vormehr,
M. Artyomov,
M. Kuziora,
M. Princiotta,
M. Bassani-Sternberg,
Mignonette H Macabali,
Milica R. Kojicic,
Naibo Yang,
N. Raicevic,
N. Guex,
N. Robine,
N. Halama,
Nikola Skundric,
Ognjen MiliΔeviΔ,
Pascal Gellert,
P. Jongeneel,
P. Charoentong,
P. Srivastava,
Prateek Tanden,
Priyanka Shah,
Q. Hu,
Ravi Gupta,
Richard O. Chen,
R. Petit,
R. Ziman,
R. Hilker,
S. Shukla,
Sahar Al Seesi,
S. Boyle,
S. Qiu,
Siranush Sarkizova,
S. Salama,
Song Liu,
Song Wu,
S. Sridhar,
S. Ketelaars,
S. Jhunjhunwala,
T. Shcheglova,
Thierry Schuepbach,
T. Creasy,
Veliborka Josipovic,
Vladimir B. Kovacevic,
W. Fu,
Willem-Jan Krebber,
Yi-Hsiang Hsu,
Y. Sebastian,
Zeynep Kosaloglu- Yalcin,
Zhiqin Huang
|
8 |
2020 |
8
π
|
|
π
|
Personal neoantigen vaccines induce persistent memory T cell responses and epitope spreading in patients with melanoma
41 auth.
Zhuting Hu,
Donna E. Leet,
R. AllesΓΈe,
G. Oliveira,
Shuqiang Li,
Adrienne M. Luoma,
Jinyan Liu,
J. Forman,
Teddy Huang,
J. Iorgulescu,
Rebecca L. Holden,
Siranush Sarkizova,
S. Gohil,
R. Redd,
Jing Sun,
...
Liudmila Elagina,
A. Giobbie-Hurder,
Wandi Zhang,
Lauren Peter,
Zoe B. Ciantra,
S. Rodig,
Oriol Olive,
K. Shetty,
Jason W Pyrdol,
Mohamed Uduman,
Patrick C. Lee,
P. Bachireddy,
E. Buchbinder,
Charles H. Yoon,
D. Neuberg,
B. Pentelute,
N. Hacohen,
K. Livak,
S. Shukla,
L. Olsen,
D. Barouch,
K. Wucherpfennig,
E. Fritsch,
D. Keskin,
Catherine J. Wu,
P. Ott
|
8 |
2021 |
8
π
|
|
π
|
Aryl Hydrocarbon Receptor Controls Monocyte Differentiation into Dendritic Cells versus Macrophages.
12 auth.
C. Goudot,
Alice Coillard,
A. Villani,
P. Gueguen,
Adeline Cros,
Siranush Sarkizova,
...
T. Tang-Huau,
Mylène Bohec,
S. Baulande,
N. Hacohen,
S. Amigorena,
Γ. Segura
|
8 |
2017 |
8
π
|
|
π
|
Differential pre-malignant programs and microenvironment chart distinct paths to malignancy in human colorectal polyps
52 auth.
Bob Chen,
Cherieβ R. Scurrah,
Eliot T. McKinley,
A. Simmons,
Marisol Ramirez-Solano,
Xiangzhu Zhu,
Nicholas O. Markham,
Cody N. Heiser,
Paige N. Vega,
Andrea Rolong,
Hyeyon Kim,
Quanhu Sheng,
Julia L. Drewes,
Yuan Zhou,
Austin N. Southard-Smith,
...
Yanwen Xu,
James Ro,
Angela L. Jones,
Frank L. Revetta,
L. Berry,
Hiroaki Niitsu,
Mirazul Islam,
K. Pelka,
Matan Hofree,
Jonathan H. Chen,
Siranush Sarkizova,
K. Ng,
M. Giannakis,
G. Boland,
A. Aguirre,
A. Anderson,
O. Rozenblatt-Rosen,
A. Regev,
N. Hacohen,
K. Kawasaki,
Toshiro Sato,
J. Goettel,
W. Grady,
W. Zheng,
M. Washington,
Q. Cai,
C. Sears,
J. Goldenring,
J. Franklin,
Timothy Su,
W. J. Huh,
S. Vandekar,
Joseph T. Roland,
Qi Liu,
R. Coffey,
M. Shrubsole,
K. Lau
|
7 |
2021 |
7
π
|
|
π
|
Unannotated proteins expand the MHC-I-restricted immunopeptidome in cancer
28 auth.
Tamara Ouspenskaia,
Travis Law,
K. Clauser,
Susan Klaeger,
Siranush Sarkizova,
F. Aguet,
Elena Christian,
Binyamin A. Knisbacher,
Phuong M. Le,
Christina R. Hartigan,
Hasmik Keshishian,
Annie Apffel,
G. Oliveira,
Wandi Zhang,
Sarah Chen,
...
Y. Chow,
Zhe Ji,
Irwin Jungreis,
S. Shukla,
S. Justesen,
P. Bachireddy,
M. Kellis,
G. Getz,
N. Hacohen,
D. Keskin,
Steve Carr,
Catherine J. Wu,
A. Regev
|
7 |
2021 |
7
π
|
|
π
|
Cumulus provides cloud-based data analysis for large-scale single-cell and single-nucleus RNA-seq
14 auth.
Bo Li,
Joshua Gould,
Yiming Yang,
Siranush Sarkizova,
M. Tabaka,
Orr Ashenberg,
Yanay Rosen,
M. Slyper,
Monika S. Kowalczyk,
A. Villani,
...
Timothy L. Tickle,
N. Hacohen,
O. Rozenblatt-Rosen,
A. Regev
|
7 |
2020 |
7
π
|
|
π
|
Profiling SARS-CoV-2 HLA-I peptidome reveals T cell epitopes from out-of-frame ORFs
58 auth.
S. Weingarten-Gabbay,
Susan Klaeger,
Siranush Sarkizova,
L. Pearlman,
Da-Yuan Chen,
Kathleen M. E. Gallagher,
Matthew R. Bauer,
Hannah B. Taylor,
W. Dunn,
C. Tarr,
J. Sidney,
Suzanna Rachimi,
Hasahn L. Conway,
Katelin Katsis,
Yuntong Wang,
...
Del Leistritz-Edwards,
Melissa Durkin,
C. Tomkins-Tinch,
Yaara Finkel,
A. Nachshon,
M. Gentili,
Keith D. Rivera,
Isabel Carulli,
Vipheaviny Chea,
A. Chandrashekar,
C. C. Bozkus,
M. Carrington,
Kendall M. Lavin-Parsons,
B. Parry,
Brendan N Lilley,
Carl L. Lodenstein,
Brenna N. Mckaig,
Nicole C. Charland,
Hargun K. Khanna,
J. Margolin,
Anna L. K. Gonye,
Irena Gushterova,
Thomas J. LaSalle,
Nihaarika Sharma,
Brian C. Russo,
Maricarmen Rojas-Lopez,
Moshe Sade-Feldman,
Kasidet Manakongtreecheep,
J. Tantivit,
Molly Fisher Thomas,
N. Bhardwaj,
D. Barouch,
A. Sette,
M. Maus,
C. Rice,
K. Clauser,
D. Keskin,
D. Pregibon,
N. Hacohen,
Steve Carr,
Jennifer G. Abelin,
Mohsan Saeed,
P. Sabeti
|
6 |
2021 |
6
π
|
|
π
|
High-throughput RNA isoform sequencing using programmed cDNA concatenation.
19 auth.
Aziz M Al'Khafaji,
Jonathan T. Smith,
K. Garimella,
M. Babadi,
Victoria Popic,
Moshe Sade-Feldman,
Michael Gatzen,
Siranush Sarkizova,
Marc A. Schwartz,
Emily M. Blaum,
...
Allyson Day,
Maura Costello,
Tera Bowers,
Stacey Gabriel,
E. Banks,
A. Philippakis,
Genevieve M. Boland,
P. Blainey,
N. Hacohen
|
6 |
2023 |
6
π
|
