SELECTED
PUBLICATIONS
Mitchell
S
,
Smith
JA
,
Marioni
JC
.
A
unified
framework
for
integrative
analysis
of
single
-
cell
multi
-
omics
data
.
Nature
Biotechnology
, 42(3):415–428, 2024.
Garcia
P
,
Mitchell
S
,
Chen
L
,
Teichmann
SA
,
Marioni
JC
.
scGPT
:
a
generative
pre
-
trained
transformer
for
single
-
cell
biology
.
Nature
Genetics
, 56(1):32–44, 2024.
Mitchell
S
,
Marioni
JC
.
Bayesian
inference
of
cell
-
type
-
specific
regulatory
networks
from
single
-
cell
chromatin
accessibility
data
.
Cell
, 186(8):1721–1736.
e
20, 2023.
Mitchell
S
,
Corces
MR
,
Greenleaf
WJ
,
Marioni
JC
.
MultiVI
:
joint
probabilistic
modeling
of
single
-
cell
multi
-
omics
data
.
Nature
Methods
, 19(12):1523–1532, 2022.
Kumasaka
N
,
Mitchell
S
,
Rostom
R
,
et
al
.
Mapping
cell
types
across
human
tissues
with
integrated
single
-
cell
references
.
Nature
, 603(7902):562–570, 2022.
Mitchell
S
,
McCarthy
DJ
,
Marioni
JC
.
Assessment
and
optimisation
of
normalisation
methods
for
single
-
cell
RNA
-
sequencing
data
.
Bioinformatics
, 37(19):3302–3310, 2021.
GRA NTS
&
AWA RDS
UKRI
Future
Leaders
Fellowship
· £975,000 (2024–2029)
—
Foundation
models
for
developmental
genomics
Chan
Zuckerberg
Initiative
Seed
Network
Grant
·
$
250,000 (2023–2025)
—
Multi
-
modal
single
-
cell
atlas
of
human
gastrulation
EMBO
Postdoctoral
Fellowship
· €180,000 (2021–2023)
Wellcome
Trust
PhD
Studentship
·
Full
funding
including
stipend
(2016–2020)
ImaNInBio
Award
for
Best
Computational
PhD
Thesis
·
European
bioinformatics
community
award
(2020)
TEACHING
&
MENTORING
2024
Lecturer
·
Single
-
cell
genomics
module
,
EMBL
-
EBI
Advanced
Course
2022 — 2024
Mentor
·
Wellcome
Genome
Campus
PhD
Summer
School
(3
cohorts
)
2021
Guest
Lecturer
·
Machine
Learning
in
Biology
,
University
of
Cambridge
Part
III
Systems
Biology
2018 — 2020
Supervisor
·
Computational
Biology
practicals
,
MRC
LMB
Graduate
Programme
SOFTWA RE
&
INFRA STRUCTURE
Languages
:
Python
,
R
,
Julia
,
Bash
,
C
++
ML
/
DL
frameworks
:
PyTorch
,
JAX
,
TensorFlow
,
scvi
-
tools
,
Hugging
Face
Bioinformatics
:
Scanpy
,
Seurat
,
Cell
Ranger
,
STAR
,
Salmon
,
bedtools
Infrastructure
:
SLURM
,
Docker
,
Nextflow
,
AWS
,
Git
,
CI
/
CD
Key
packages
authored
:
MultiVI
,
scGPT
,
scRegNet
,
gaultier
(36
k
total
GitHub
stars
)
PROFESSIONA L
SERVICE
REFERENCES
Built
visualisation
tools
adopted
by
the
Allen
Institute
for
Brain
Science
•
Reviewer
:
Nature
Biotechnology
,
Nature
Methods
,
Cell
Genomics
,
Genome
Biology
,
PLOS
Computational
Biology
•
Program
Committee
:
ISMB
2023,
RECOMB
2024,
GLBIO
2023
•
Organising
Committee
:
Cambridge
Computational
Biology
Symposium
(2022–2024)
•
Member
:
International
Society
for
Computational
Biology
(
ISCB
),
RNA
Society
•
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