Manuscripts and Publications

# equal contribution  ·  * mentored student  ·  see also Google Scholar and ORCID

All topics
Human brain
Methods & software
Fear & extinction
Neural circuits
Review

Preprints and Submitted Manuscripts

No matching publications.
2.
Multiscale spatial transcriptomics resolves the cellular and molecular architecture of the human amygdala
Totty MS#, Bach S#, Valentine M, Tippani M, Maguire S, Miller R, Rosario I, Kleinman J, Maynard K, Hyde T, Page S, Hicks S, Martinowich K

bioRxiv 2026

Human brain
1.
Orchestrating Spatial Transcriptomics Analysis with Bioconductor
Crowell HL#, Dong Y#, Billato I, Cai P, Emons M, Gunz S, Guo B, Li M, Mahmoud A, Manukyan A, Pagès H, Panwar P, Rao S, Sargeant C, Shepherd Kern L, Ramos M, Sun J, Totty MS, Carey V, Chen Y, Collado-Torres L, Ghazanfar S, Hansen KD, Martinowich K, Maynard KR, Patrick E, Righelli D, Risso D, Ritchie ME, Tiberi S, Waldron L, Gottardo R, Robinson MD#, Hicks SC#, Weber LM#

bioRxiv 2025 DOI: 10.1101/2025.11.20.688607

Under revision at Nature Methods.
Methods & software
No matching items

Publications

No matching publications.
21.
Transcriptional response to chronic long-access fentanyl self-administration in rat habenula and amygdala
Magnard R, Gonzalez-Padilla D, Yalcinbas E, Chaloux-Pinette E, Eagles N, Totty MS, Janak P, Collado-Torres L, Maynard K

Addiction Biology 2026 DOI: 10.1111/adb.70179

Neural circuits
20.
Cortistatin neurons in the prelimbic cortex regulate seizure susceptibility in female mice via BDNF–TrkB signaling
Salisbury A, Figueroa L, Martinowich K#, Totty MS#

Neurobiology of Disease 2026 DOI: 10.1016/j.nbd.2026.107498

Neural circuits
19.
Spatio-molecular gene expression reflects dorsal anterior cingulate cortex structure and function in the human brain
Shah K, Totty MS, Bach SV, Valentine M, Chandra A, Divecha HR, Miller R, Kwon SH, Ramnauth A, Tippani M, Tyagi S, Kleinman JE, Collado-Torres L, Han S, Hyde TM, Page SC, Maynard KR, Hicks SC, Martinowich K

Cell Reports 2026 DOI: 10.1016/j.celrep.2026.117500

Human brain
18.
SpotSweeper-py: spatially-aware quality control metrics for spatial omics data in the Python ecosystem
Chen X, Totty MS, Hicks SC

F1000Research 2026 DOI: 10.12688/f1000research.175162.1

Methods & software
17.
A dorsal hippocampus–prodynorphinergic dorsolateral septum-to-lateral hypothalamus circuit mediates contextual gating of feeding
Goode TD, Bernstein M, Totty MS, Alipio JB, Vicidomini C, Pathak D, Besnard A, Chizari D, Sachdev N, Kritzer M, Chung A, Duan X, Macosko E, Hicks SC, Zweifel L, Sahay A

Neuron 2026 DOI: 10.1016/j.neuron.2026.01.025

Neural circuits
16.
Hippocampal-prelimbic coupling during context-dependent extinction retrieval in rats
Mourão F, Totty MS, Tuna T, and Maren S

Hippocampus 2026 DOI: 10.1002/hipo.70058

Fear & extinction
15.
Functional synaptic connectivity of engrafted spinal cord neurons with locomotor circuitry in the injured spinal cord
Tucker A, Eisdorfer JT, Thackray JK, Vo K, Thomas H, Tandon A, Moses J, Singletary B, Gillespie T, Smith A, Pauken A, Nadella S, Pitonak M, Letchuman S, Jang J, Totty MS, Jalufka FL, Aceves M, Adler AF, Maren S, Blackmon H, McCreedy DA, Abraira V, Dulin J

Nature Communications 2025 DOI: 10.1038/s41467-025-65395-7

Neural circuits
14.
Patterns of neural activity in prelimbic cortex neurons correlate with attentional behavior in the rodent continuous performance test
Miranda-Barrientos J, Adiraju S*, Rehg J, Totty MS, Hallock H, Li Y, Carr G, and Martinowich K

Translational Psychiatry 2025 DOI: 10.1038/s41398-025-03707-7

Neural circuits
13.
Transcriptomic diversity of amygdalar subdivisions across humans and nonhuman primates
Totty MS#, Cervera-Juanes R#, Bach SV#, Ben Ameur L, Valentine MR, Simons E, Romac MD, Trinh H, Henderson K, Del Rosario I, et al.

Science Advances 2025 DOI: 10.1126/sciadv.adw1029

Human brain
12.
Associative coding of aversive events in thalamic nucleus reuniens in rodents and humans
Tuna T#, Totty MS#, Badarnee M#, Mourão F, Peters S, Milad M, and Maren S

Communications Biology 2025 DOI: 10.1038/s42003-025-08580-0

Fear & extinction
11.
SpotSweeper: spatially-aware quality control for spatial transcriptomics
Totty MS, Hicks S, and Guo B

Nature Methods 2025 DOI: 10.1038/s41592-025-02713-3

Methods & software
10.
Integrating aversive memories in the basolateral amygdala
Liu J, Totty MS, Bayer H, Maren S

Biological Psychiatry 2025 DOI: 10.1016/j.biopsych.2025.03.019

Fear & extinction
9.
Thalamic nucleus reuniens coordinates prefrontal-hippocampal synchrony to suppress extinguished fear
Totty MS, Tuna T, Ramanathan K, Jin J, Peters S*, and Maren S

Nature Communications 2023 DOI: 10.1038/s41467-023-42315-1

Fear & extinction
8.
Neural oscillations in aversively motivated behavior
Totty MS and Maren S

Frontiers in Behavioral Neuroscience 2022 DOI: 10.3389/fnbeh.2022.936036

Fear & extinction
Review
7.
Sex differences in the immediate extinction deficit and renewal of extinguished fear in rats
Binette AN#, Totty MS#, Maren S

PLOS One 2022 DOI: 10.1371/journal.pone.0264797

Fear & extinction
6.
Convergent coding of recent and remote fear memory in the basolateral amygdala
Liu J#, Totty MS#, Melissari L, Bayer H, Maren S

Biological Psychiatry 2022 DOI: 10.1016/j.biopsych.2021.12.018

Fear & extinction
5.
Behavioral and brain mechanisms mediating conditioned flight behavior in rats
Totty MS, Warren N, Huddleston I*, Ramanathan K, Ressler R, Oleksiak C, Maren S

Scientific Reports 2021 DOI: 10.1038/s41598-021-87559-3

Fear & extinction
4.
Locus coeruleus norepinephrine drives stress-induced increases in basolateral amygdala firing and impairs extinction learning
Giustino TF, Ramanathan KR, Totty MS, Miles OM, and Maren S

Journal of Neuroscience 2020 DOI: 10.1523/JNEUROSCI.1092-19.2019

Fear & extinction
3.
Event boundaries do not cause the immediate extinction deficit after Pavlovian fear conditioning in rats
Totty MS, Payne M, Maren S

Scientific Reports 2019 DOI: 10.1038/s41598-019-46010-4

Fear & extinction
2.
Sleep-dependent oscillatory synchronization: a role in fear memory consolidation
Totty MS, Chesney LA, Geist PA, Datta S

Frontiers in Neural Circuits 2017 DOI: 10.3389/fncir.2017.00049

Fear & extinction
Review
1.
Muscle activation and inertial motion data for non-invasive classification of activities of daily living
Totty MS and Wade E

IEEE Transactions on Biomedical Engineering 2017 DOI: 10.1109/TBME.2017.2738440

Methods & software
No matching items