(““)
- Bartol, Thomas M.; Ordyan, Mariam; et el. (2024) A spatial
model of autophosphorylation of Ca²⁺/calmodulin-dependent protein kinase
II in a glutamatergic spine reveals dynamics of kinase activation in the
first several seconds after a complex synaptic stimulus; 10.1101/2024.02.02.578696
- Chen, Peiwei; Pan, Katherine C.; et el. (2024) Escalation
of genome defense capacity enables control of an expanding meiotic
driver; PMCID PMC11195268; 10.1101/2024.06.12.598716
- Chen, Alex B.; Duque, Marc; et el. (2024) Norepinephrine
changes behavioral state via astroglial purinergic signaling; PMCID
PMC11142163; 10.1101/2024.05.23.595576
- Rosenthal, Isabelle A.; Bashford, Luke; et el. (2024) Visual
context affects the perceived timing of tactile sensations elicited
through intra-cortical microstimulation; PMCID PMC11118490; 10.1101/2024.05.13.593529
- Desingu Rajan, Ayyappa Raja; Huang, Yuanyun; et el. (2024) Generation
of a zebrafish neurofibromatosis model via inducible knockout of
nf2; 10.1101/2024.04.23.590787
- Gornet, James A. and Thomson, Matt (2024) Automated
construction of cognitive maps with predictive coding; bioRxiv;
2023.09.18.558369; 10.1101/2023.09.18.558369
- Rich, Joseph M.; Moses, Lambda; et el. (2024) The
impact of package selection and versioning on single-cell RNA-seq
analysis; PMCID PMC11014608; 10.1101/2024.04.04.588111
- Booeshaghi, A. Sina; Galvez-Merchán, Ángel; et el. (2024) Algorithms
for a Commons Cell Atlas; 10.1101/2024.03.23.586413
- Flynn, Michael James; Mayfield, Acacia M.; et el. (2024) Synthetic
dosage-compensating miRNA circuits allow precision gene therapy for Rett
syndrome; bioRxiv; 2024.03.13.584179; PMCID PMC10980028; 10.1101/2024.03.13.584179
- Du, Rongrong; Flynn, Michael J.; et el. (2024) miRNA
circuit modules for precise, tunable control of gene expression;
bioRxiv; 2024.03.12.583048; PMCID PMC10979901; 10.1101/2024.03.12.583048
- Kubinski, Hannah C.; Despres, Hannah W.; et el. (2024) Variant
mutation in SARS-CoV-2 nucleocapsid enhances viral infection via altered
genomic encapsidation; bioRxiv; 53; PMCID PMC10979914; 10.1101/2024.03.08.584120
- Israel, Uriah; Marks, Markus; et el. (2024) A
Foundation Model for Cell Segmentation; bioRvix; 2023.11.17.567630;
PMCID PMC10690226; 10.1101/2023.11.17.567630
- Wang, Eric; Cohen, Alexander A.; et el. (2024) Designed
mosaic nanoparticles enhance cross-reactive immune responses in
mice; PMCID PMC10925254; 10.1101/2024.02.28.582544
- Cohen, Alexander A.; Keeffe, Jennifer R.; et el. (2024) Mosaic
sarbecovirus vaccination elicits cross-reactive responses in
pre-immunized animals; PMCID PMC10871317; 10.1101/2024.02.08.576722
- Flamholz, Avi I.; Goyal, Akshit; et el. (2024) The
proteome is a terminal electron acceptor; PMCID PMC10862836; 10.1101/2024.01.31.578293
- Huang, Yu Xi; Mahler, Simon; et el. (2024) A compact
and cost-effective laser-powered speckle visibility spectroscopy (SVS)
device for measuring cerebral blood flow; PMCID PMC10862935; 10.48550/arxiv.2401.16592
- Subramanian, Arjuna M. and Thomson, Matt (2023) Unexplored
regions of the protein sequence-structure map revealed at scale by a
library of foldtuned language models; PMCID PMC10769378; 10.1101/2023.12.22.573145
- Polonsky, Michal; Gerhardt, Louisa M. S.; et el. (2023) Spatial
transcriptomics defines injury-specific microenvironments in the adult
mouse kidney and novel cellular interactions in regeneration and
disease; bioRxiv; 10.1101/2023.11.22.568217
- Martinez, Zachary A; Murray, Richard M.; et el. (2023) TRILL:
Orchestrating Modular Deep-Learning Workflows for Democratized, Scalable
Protein Analysis and Engineering; bioRxiv; 2023.10.24.563881; PMCID
PMC10659302; 10.1101/2023.10.24.563881
- Zhang, Shu; Xie, Na; et el. (2023) The
Interferon-inducible NAMPT acts as a protein phosphoribosylase to
restrict viral infection; PMCID PMC10614811; 10.1101/2023.10.12.562112
- Wang, Renée Z.; Lonergan, Zachery R.; et el. (2023) Widespread
detoxifying NO reductases impart a distinct isotopic fingerprint on N₂O
under anoxia; PMCID PMC10592819; 10.1101/2023.10.13.562248
- Cohen, Alexander A.; van Doremalen, Neeltje; et el. (2023) Mosaic
RBD nanoparticles protect against multiple sarbecovirus challenges in
animal models; PMCID PMC8978945; 10.1101/2022.03.25.485875
- Prakash, Sharan J.; Van Auken, Kimberly M.; et el. (2023) Semantic
Representation of Neural Circuit Knowledge in Caenorhabditis
elegans; PMCID PMC10168330; 10.1101/2023.04.28.538760
- Tran, Martin; Askary, Amjad; et el. (2023) Lineage
motifs: developmental modules for control of cell type proportions;
PMCID PMC10274800; 10.1101/2023.06.06.543925
- Wolin, Erica; Guo, Jimmy K.; et el. (2023) SPIDR:
a highly multiplexed method for mapping RNA-protein interactions
uncovers a potential mechanism for selective translational suppression
upon cellular stress; PMCID PMC10274648; 10.1101/2023.06.05.543769
- Srivastava, Vasudha; Hu, Jennifer L.; et el. (2023) Configurational
entropy is an intrinsic driver of tissue structural heterogeneity;
PMCID PMC10327153; 10.1101/2023.07.01.546933
- Hitz, Benjamin C.; Lee, Jin-Wook; et el. (2023) The
ENCODE Uniform Analysis Pipelines; 10.1101/2023.04.04.535623
- Jiang, Jialong; Chen, Sisi; et el. (2023) D-SPIN
constructs gene regulatory network models from multiplexed scRNA-seq
data revealing organizing principles of cellular perturbation
response; PMCID PMC10153191; 10.1101/2023.04.19.537364
- Gorin, Gennady; Vastola, John J.; et el. (2023) Studying
stochastic systems biology of the cell with single-cell genomics
data; PMCID PMC10245677; 10.1101/2023.05.17.541250
- Weatherbee, Bailey A. T.; Gantner, Carlos W.; et el. (2023) Transgene
directed induction of a stem cell-derived human embryo model; 10.1101/2023.06.15.545082
- Hahn, Joshua; Monavarfeshani, Aboozar; et el. (2023) Evolution
of neuronal cell classes and types in the vertebrate retina; PMCID
PMC10104162; 10.1101/2023.04.07.536039
- Mao, Runze; Wackelin, Daniel J.; et el. (2023) Enantio-
and Diastereoenriched Enzymatic Synthesis of 1,2,3-Polysubstituted
Cyclopropanes from (Z/E)-Trisubstituted Enol Acetates; PMCID
PMC10120758; 10.21203/rs.3.rs-2802333/v1
- Huang, Biao; Zeng, Zipeng; et el. (2023) Modeling
kidney development, disease, and plasticity with clonal expandable
nephron progenitor cells and nephron organoids; 10.1101/2023.05.25.542343
- Xiong, Lingyun; Liu, Jing; et el. (2023) Direct
androgen receptor regulation of sexually dimorphic gene expression in
the mammalian kidney; PMCID PMC10187285; 10.1101/2023.05.06.539585
- Kapasiawala, Manisha and Murray, Richard M. (2023) Probing
metabolism in an E. coli-based cell-free system reveals a trade-off
between transcription and translation; 10.1101/2023.03.22.533877
- Dutka, Przemysław; Liu, Yuxi; et el. (2023) Structure
and Function of the Dot/Icm T4SS; 10.1101/2023.03.22.533729
- Bjånes, David A.; Bashford, Luke; et el. (2023) Multi-channel
intra-cortical micro-stimulation yields quick reaction times and evokes
natural somatosensations in a human participant; 10.1101/2022.08.08.22278389
- Athavale, Soumitra V.; Gao, Shilong; et el. (2023) Enzymatic
Nitrogen Insertion into Unactivated C–H Bonds; 10.26434/chemrxiv-2022-w8sg3
- Fornace, Mark E.; Huang, Jining; et el. (2023) NUPACK:
Analysis and Design of Nucleic Acid Structures, Devices, and
Systems; 10.26434/chemrxiv-2022-xv98l
- Calvó-Tusell, Carla; Liu, Zhen; et el. (2023) Reversing
the enantioselectivity of enzymatic carbene N–H insertion through
mechanism-guided protein engineering; 10.26434/chemrxiv-2022-f02xh
- Jiménez Otero, Fernanda; Newman, Dianne K.; et el. (2023) Electrochemical
disruption of extracellular electron transfer inhibits Pseudomonas
aeruginosa cell survival within biofilms and is synergistic with
antibiotic treatment; 10.1101/2022.09.15.508205
- Venkei, Zsolt G.; Gainetdinov, Ildar; et el. (2023) Drosophila
Males Use 5′-to-3′ Phased Biogenesis to Make Stellate-silencing piRNAs
that Lack Homology to Maternally Deposited piRNA Guides; 10.1101/2022.09.12.507655
- Olina, Anna; Agapov, Aleksei; et el. (2023) Bacterial
Argonaute proteins aid cell division in the presence of topoisomerase
inhibitors in Escherichia coli; 10.1101/2022.09.13.507849
- Santorelli, Marco; Bhamidipati, Pranav S.; et el. (2023) Control
of spatio-temporal patterning via cell density in a multicellular
synthetic gene circuit; 10.1101/2022.10.04.510900
- Kreida, Stefan; Narita, Akihiro; et el. (2023) Cryo-EM
structure of the Agrobacterium tumefaciens type IV secretion
system-associated T-pilus reveals stoichiometric protein-phospholipid
assembly; 10.1101/2022.09.25.509369
- Schulte, Samuel J.; Huang, Jining; et el. (2023) HCR
Lateral Flow Assays for Amplified Instrument-Free At-Home SARS-CoV-2
Testing; 10.1101/2022.09.18.508442
- Pandey, Ayush; Rodriguez, Makena L.; et el. (2023) Characterization
of Integrase and Excisionase Activity in Cell-free Protein Expression
System Using a Modeling and Analysis Pipeline; 10.1101/2022.10.05.511053
- Gristick, Harry B.; Hartweger, Harald; et el. (2023) CD4-binding
site immunogens elicit heterologous anti-HIV-1 neutralizing antibodies
in transgenic and wildtype animals; 10.1101/2022.09.08.507086
- Lisitskaya, Lidiya; Kropocheva, Ekaterina; et el. (2023) Bacterial
Argonaute nucleases reveal different modes of DNA targeting in vitro and
in vivo; 10.1101/2022.09.09.507302
- Brugman, Katherine I.; Susoy, Vladislav; et el. (2023) PEZO-1
and TRP-4 mechanosensors are involved in mating behavior in
Caenorhabditis elegans; 10.1101/2022.08.31.506045
- Boltje, Daan B.; Hoogenboom, Jacob P.; et el. (2023) A
cryogenic, coincident fluorescence, electron and ion beam
microscope; 10.1101/2022.09.02.506334
- Aflalo, Tyson; Chivukula, Srinivas; et el. (2023) Cognition
through internal models: Mirror neurons as one manifestation of a
broader mechanism; 10.1101/2022.09.06.506071
- Rosenthal, Isabelle A.; Bashford, Luke; et el. (2023) S1
represents multisensory contexts and somatotopic locations within and
outside the bounds of the cortical homunculus; 10.1101/2022.08.29.505313
- Kaplan, Mohammed; Shepherd, Doulin C.; et el. (2023) Structural
remodeling of Coxiella burnetii during its biphasic developmental cycle
revealed by cryo-electron tomography; 10.1101/2022.08.23.505044
- Braet, Sean M.; Buckley, Theresa S. C.; et el. (2023) Timeline
of changes in spike conformational dynamics in emergent SARS-CoV-2
variants reveal progressive stabilization of trimer stalk and enhanced
NTD dynamics; 10.1101/2022.08.26.505369
- Shimojo, Kensuke; Shimojo, Eiko; et el. (2023) Preservation
of Conditioned Behavior Based on UV Light Sensitivity in Dissected Tail
Halves of Planarians- a Proof by DNN; 10.1101/2022.10.30.514395
- Chen, Peiwei and Aravin, Alexei A. (2023) Genetic
control of a sex-specific piRNA program; 10.1101/2022.10.25.513766
- Sullivan, Delaney K. and Pachter, Lior (2023) Flexible
parsing and preprocessing of technical sequences with splitcode;
PMCID PMC10055216; 10.1101/2023.03.20.533521
- Booeshaghi, A. Sina; Chen, Xi; et el. (2023) A
machine-readable specification for genomics assays; 10.1101/2023.03.17.533215
- Fry, Michelle Y.; Navarro, Paula P.; et el. (2023) In
situ architecture of Opa1-dependent mitochondrial cristae
remodeling; 10.1101/2023.01.16.524176
- Bernardi, Yanel E.; Sanchez-Vasquez, Estefania; et el. (2023) Extracellular
vesicle-localized miR-203 mediates neural crest-placode communication
required for trigeminal ganglia formation; 10.1101/2023.03.14.532527
- Booeshaghi, A. Sina; Min, Kyung Hoi (Joseph); et el. (2023) Quantifying
orthogonal barcodes for sequence census assays; 10.1101/2022.10.09.511501
- Stevens, Taylor Anthony; Pinton Tomaleri, Giovani; et el. (2023) A
nanobody-based strategy for rapid and scalable purification of native
human protein complexes; 10.1101/2023.03.09.531980
- Yang, Jie-Yoon; O’Connell, Thomas F.; et el. (2023) Restructuring
of olfactory representations in the fly brain around odor relationships
in natural sources; 10.1101/2023.02.15.528627
- Danelius, Emma; Porter, Nicholas J.; et el. (2023) MicroED
structure of a protoglobin reactive carbene intermediate; 10.1101/2022.10.18.512604
- Gorin, Gennady; Yoshida, Shawn; et el. (2023) Transient
and delay chemical master equations; 10.1101/2022.10.17.512599
- Afik, Eldad; Liu, Toni J. B.; et el. (2023) Dynamical
states of self-organized waves in a giant single-celled organism feeding
on light; 10.1101/2023.02.22.529174
- Hills, Rory A.; Tan, Tiong Kit; et el. (2023) Multiviral
Quartet Nanocages Elicit Broad Anti-Coronavirus Responses for Proactive
Vaccinology; PMCID PMC9980174; 10.1101/2023.02.24.529520
- Wang, Grace Z.; Warren, Elizabeth A.; et el. (2023) Staphylococcal
secreted cytotoxins are competition sensing signals for Pseudomonas
aeruginosa; 10.1101/2023.01.29.526047
- Tan, Chieh-Hsiang; Cheng, Kai-Wen; et el. (2023) LINKIN-associated
proteins necessary for tissue integrity during collective cell
migration; 10.1101/2023.02.08.527750
- Santos, Inês B.; Wainman, Alan; et el. (2023) Mob4
is essential for spermatogenesis in Drosophila melanogaster; 10.1101/2023.02.05.527206
- Choe, Mangyu; Einav, Tal; et el. (2023) Data-driven
model of glycolysis identifies the role of allostery in maintaining ATP
homeostasis; 10.1101/2022.12.28.522046
- Guna, Alina; Page, Katharine R.; et el. (2023) A
dual sgRNA library design to probe genetic modifiers using genome-wide
CRISPRi screens; PMCID PMC9882262; 10.1101/2023.01.22.525086
- Haloi, Nandan; Huang, Shan; et el. (2023) Interactive
computational and experimental approaches improve the sensitivity of
periplasmic binding protein-based nicotine biosensors for measurements
in biofluids; 10.1101/2023.01.16.524298
- Gorin, Gennady and Pachter, Lior (2023) The
telegraph process is not a subordinator; 10.1101/2023.01.17.524309
- Dam, Kim-Marie A.; Fan, Chengcheng; et el. (2023) Structural
characterization of HIV-1 Env heterotrimers bound to one or two CD4
receptors reveals intermediate Env conformations; 10.1101/2023.01.27.525985
- De Jonghe, Joachim; Kaminski, Tomasz S.; et el. (2023) spinDrop:
a droplet microfluidic platform to maximise single-cell sequencing
information content; 10.1101/2023.01.12.523500
- Chen, Xinhong; Wolfe, Damien A.; et el. (2023) Functional
gene delivery to and across brain vasculature of systemic AAVs with
endothelial-specific tropism in rodents and broad tropism in
primates; 10.1101/2023.01.12.523844
- Carilli, Maria; Gorin, Gennady; et el. (2023) Mechanistic
modeling with a variational autoencoder for multimodal single-cell RNA
sequencing data; 10.1101/2023.01.13.523995
- Ding, Xiaozhe; Chen, Xinhong; et el. (2023) Fast,
accurate ranking of engineered proteins by receptor binding propensity
using structural modeling; 10.1101/2023.01.11.523680
- Kahan, Anat; Coughlin, Gerard M.; et el. (2023) Dysregulated
mammalian estrus cycle rescued by timed activation of VIP neurons in the
circadian pacemaker and late afternoon light exposure; 10.1101/2023.01.14.524075
- Shay, Timothy F.; Sullivan, Erin E.; et el. (2023) Primate-conserved
Carbonic Anhydrase IV and murine-restricted Ly6c1 are new targets for
crossing the blood-brain barrier; 10.1101/2023.01.12.523632
- Yamoune, Amel; Zdarska, Marketa; et el. (2023) Cytokinins
regulate spatially-specific ethylene production to control root growth
in Arabidopsis; 10.1101/2023.01.07.522790
- Dylla, Kristina V.; O’Connell, Thomas F.; et el. (2023) Early
life experience with natural odors modifies olfactory behavior through
an associative process; 10.1101/2023.01.08.523155
- Bhat, Prashant; Chow, Amy; et el. (2023) 3D
genome organization around nuclear speckles drives mRNA splicing
efficiency; 10.1101/2023.01.04.522632
- Fenelon, Kelli D.; Gao, Fan; et el. (2023) Cell-specific
occupancy dynamics between the pioneer-like factor Opa/ZIC and
Ocelliles/OTX regulate early head development in embryos; 10.1101/2022.12.15.519123
- Hoffmann, Magnus A. G.; Yang, Zhi; et el. (2023) ESCRT
recruitment to mRNA-encoded SARS-CoV-2 spike induces virus-like
particles and enhanced antibody responses; PMCID PMC9810232; 10.1101/2022.12.26.521940
- Palmer, Emily H.; Omoto, Jaison J.; et el. (2023) The
role of a population of descending neurons in the optomotor response in
flying Drosophila; 10.1101/2022.12.05.519224
- Sockell, Alexandra; Wong, Wing; et el. (2023) A
microwell platform for high-throughput longitudinal phenotyping and
selective retrieval of organoids; 10.1101/2022.11.01.514733
- Marken, John P. and Murray, Richard M. (2023) Addressable
and adaptable intercellular communication via DNA messaging; 10.1101/2022.11.17.516988
- Hjorleifsson, Kristján Eldjárn; Sullivan, Delaney K.; et el. (2023)
Accurate
quantification of single-nucleus and single-cell RNA-seq
transcripts; 10.1101/2022.12.02.518832
- Spolski, Rosanne; Li, Peng; et el. (2023) Distinct
super-enhancer elements differentially control Il2ra gene expression in
a cell-type specific fashion; 10.1101/2022.11.18.516445
- Hjorleifsson, Kristján Eldjárn; Pachter, Lior; et el. (2023) Annotation-agnostic
discovery of associations between novel gene isoforms and
phenotypes; 10.1101/2022.12.02.518787
- Pleiner, Tino; Hazu, Masami; et el. (2023) A
selectivity filter in the EMC limits protein mislocalization to the
ER; 10.1101/2022.11.29.518402
- Murali, Ranjani; Yu, Hang; et el. (2023) Physiological
adaptation of sulfate reducing bacteria in syntrophic partnership with
anaerobic methanotrophic archaea; 10.1101/2022.11.23.517749
- Griggs, Whitney S.; Norman, Sumner L.; et el. (2023) Decoding
Motor Plans Using a Closed-Loop Ultrasonic Brain-Machine Interface;
10.1101/2022.11.10.515371
- Findlay, Andrew R.; Paing, May M.; et el. (2023) DNAJB6
Isoform Specific Knockdown: Therapeutic Potential for LGMDD1; 10.1101/2022.11.17.516920
- Akella, Prithvi; Ahmadi, Mohamadreza; et el. (2023) Barrier-Based
Test Synthesis for Safety-Critical Systems Subject to Timed Reach-Avoid
Specifications
- Ji, Jenny; Winnett, Alexander Viloria; et el. (2023) Index
Cases First Identified by Nasal-Swab Rapid COVID-19 Tests Had More
Transmission to Household Contacts Than Cases Identified by Other Test
Types; 10.1101/2023.03.09.23286855
- Wandelt, Sarah K.; Bjånes, David A.; et el. (2023) Online
internal speech decoding from single neurons in a human participant;
10.1101/2022.11.02.22281775
- Guna, Alina; Stevens, Taylor A.; et el. (2023) MTCH2
is a mitochondrial outer membrane protein insertase; 10.1101/2022.09.15.508165
- Trautmann, Eric M.; Hesse, Janis K.; et el. (2023) Large-scale
brain-wide neural recording in nonhuman primates; 10.1101/2023.02.01.526664
- Badithela, Apurva; Graebener, Josefine B.; et el. (2022) Synthesizing
Reactive Test Environments for Autonomous Systems: Testing Reach-Avoid
Specifications with Multi-Commodity Flows; 10.48550/arXiv.2210.10304
- Han, SooJean; Effros, Michelle; et el. (2022) OUTformation:
Distributed Data-Gathering with Feedback under Unknown Environment and
Communication Delay Constraints; 10.48550/arXiv.2208.06395
- Badithela, Apurva; Wongpiromsarn, Tichakorn; et el. (2022) Evaluation
Metrics for Object Detection for Autonomous Systems; 10.48550/arXiv.2210.10298
- Guan, Charles; Aflalo, Tyson; et el. (2022) Compositional
coding of individual finger movements in human posterior parietal cortex
and motor cortex enables ten-finger decoding; 10.1101/2022.12.07.22283227
- Zhang, Juner; Maggiolo, Ailiena O.; et el. (2022) Chemodivergent
C(sp³)–H and C(sp²)–H Cyanomethylation Using Engineered Carbene
Transferases; 10.26434/chemrxiv-2022-z6pkw
- Shin, Boyoung; Zhou, Wen; et el. (2022) Runx
factors launch T cell and innate lymphoid programs via direct and gene
network-based mechanisms; 10.1101/2022.11.18.517146
- Lee, Peter H.; Anaya, Michael; et el. (2022) An
extracellular vesicle targeting ligand that binds to Arc proteins and
facilitates Arc transport in vivo; 10.1101/2022.09.06.506798
- Granados, Alejandro A.; Kanrar, Nivedita; et el. (2022) Combinatorial
expression motifs in signaling pathways; 10.1101/2022.08.21.504714
- Santorelli, Marco; Bhamidipati, Pranav; et el. (2022) Cell
density controls signal propagation waves in a multicellular synthetic
gene circuit; 10.48550/arXiv.2107.08116
- Raghavan, Guruprasad and Thomson, Matt (2022) Engineering
flexible machine learning systems by traversing functionally invariant
paths in weight space; 10.48550/arXiv.2205.00334
- Wang, Zitong Jerry and Thomson, Matt (2022) Signaling
receptor localization maximizes cellular information acquisition in
spatially-structured, natural environments; 10.48550/arXiv.2107.00806
- Ninova, Maria; Lomenick, Brett; et el. (2022) Pervasive
SUMOylation of heterochromatin and piRNA pathway proteins; 10.1101/2022.08.15.504007
- Nichols, Aaron L.; Blumenfeld, Zack; et el. (2022) Selective
Serotonin Reuptake Inhibitors Within Cells: Temporal Resolution in
Cytoplasm, Endoplasmic Reticulum, and Membrane; 10.1101/2022.08.09.502705
- Flamholz, Avi I.; Saccomano, Samuel; et el. (2022) Optical
O₂ sensors also respond to redox active molecules commonly secreted by
bacteria; 10.1101/2022.08.08.503264
- Laso-Pérez, Rafael; Wu, Fabai; et el. (2022) Evolutionary
Diversification of Methanotrophic Ca. Methanophagales (ANME-1) and Their
Expansive Virome; 10.1101/2022.07.04.498658
- Amadei, Gianluca; Handford, Charlotte E.; et el. (2022) Stem
cell-derived mouse embryos develop within an extra-embryonic yolk sac to
form anterior brain regions and a beating heart; 10.1101/2022.08.01.502375
- Lau, Kasey Y. C.; Rubinstein, Hernan; et el. (2022) Mouse-embryo
model derived exclusively from embryonic stem cells undergo neurulation
and heart development; 10.1101/2022.08.01.502371
- Yang, Zhi; Dam, Kim-Marie A.; et el. (2022) Antibody
recognition of CD4-induced open HIV-1 Env trimers; 10.1101/2022.07.27.501785
- Miguel, Amanda; Zietek, Matylda; et el. (2022) Modulation
of bacterial cell size and growth rate via activation of a cell envelope
stress response; 10.1101/2022.07.26.501648
- Truong, Lisa; Chen, Yen-Wei; et el. (2022) Single-nucleus
resolution mapping of the adult C. elegans and its application to
elucidate inter- and trans-generational response to alcohol; 10.1101/2022.07.21.500524
- Ohdera, Aki H.; Darymple, Justin; et el. (2022) Symbiosis-driven
development in an early branching metazoan; 10.1101/2022.07.21.500558
- Boktor, Joseph C.; Sharon, Gil; et el. (2022) Integrated
multi-cohort analysis of the Parkinson’s disease gut metagenome; 10.1101/2022.07.20.500694
- Winnett, Alexander Viloria; Akana, Reid; et el. (2022) Extreme
differences in SARS-CoV-2 viral loads among respiratory specimen types
during presumed pre-infectious and infectious periods; 10.1101/2022.07.13.22277113
- Winnett, Alexander Viloria; Akana, Reid; et el. (2022) Why
Daily SARS-CoV-2 Nasal Rapid Antigen Testing Poorly Detects Infected and
Infectious Individuals; 10.1101/2022.07.13.22277513
- Chen, Zibo; Linton, James M.; et el. (2022) A
synthetic protein-level neural network in mammalian cells; 10.1101/2022.07.10.499405
- Salahshoor, Hossein; Yao, Yuxing; et el. (2022) Geometric
effects in gas vesicle buckling under ultrasound; 10.1101/2022.06.27.497663
- Hueschen, Christina L.; Dunn, Alexander R.; et el. (2022) Wildebeest
Herds on Rolling Hills: Flocking on Arbitrary Curved Surfaces; 10.1101/2022.06.22.497052
- Abdel-Haq, Reem; Schlachetzki, Johannes C. M.; et el. (2022) A
prebiotic diet modulates microglial states and motor deficits in
α-synuclein overexpressing mice; 10.1101/2022.06.27.497828
- Siepe, Dirk H.; Henneberg, Lukas T.; et el. (2022) Identification
of orphan ligand-receptor relationships using a cell-based CRISPRa
enrichment screening platform; 10.1101/2022.06.22.497261
- Poceviciute, Roberta; Bogatyrev, Said R.; et el. (2022) Quantitative
whole-tissue 3D imaging reveals bacteria in close association with mouse
jejunum mucosa; 10.1101/2022.06.17.496478
- Gorin, Gennady; Carilli, Maria; et el. (2022) Spectral
neural approximations for models of transcriptional dynamics; 10.1101/2022.06.16.496448
- Dutka, Przemysław; Metskas, Lauren Ann; et el. (2022) Structure
of Anabaena flos-aquae gas vesicles revealed by cryo-ET; 10.1101/2022.06.21.496981
- Fan, Chengcheng; Cohen, Alexander A.; et el. (2022) Neutralizing
monoclonal antibodies elicited by mosaic RBD nanoparticles bind
conserved sarbecovirus epitopes; 10.1101/2022.06.28.497989
- Hueschen, Christina L.; Segev Zarko, Li-av; et el. (2022) Emergent
Actin Flows Explain Diverse Parasite Gliding Modes; 10.1101/2022.06.08.495399
- Gorin, Gennady and Pachter, Lior (2022) Monod:
mechanistic analysis of single-cell RNA sequencing count data; 10.1101/2022.06.11.495771
- Booeshaghi, A. Sina and Pachter, Lior (2022) Pseudoalignment
facilitates assignment of error-prone Ultima Genomics reads; 10.1101/2022.06.04.494845
- Hu, Rongfeng K.; Chen, Patrick B.; et el. (2022) Improved
Version of ChETA Promotes Aggression in the Medial Amygdala; 10.1101/2022.06.05.493862
- Gálvez-Merchán, Ángel; Min, Kyung Hoi (Joseph); et el. (2022) Metadata
retrieval from sequence databases with ffq; 10.1101/2022.05.18.492548
- Wang, Megan; Sanfiorenzo, Charles; et el. (2022) A
universal system for streamlined genome integrations with
CRISPR-associated transposases; 10.1101/2022.05.30.494051
- Luebbert, Laura and Pachter, Lior (2022) Efficient
querying of genomic reference databases with gget; 10.1101/2022.05.17.492392
- Zhang, Bao; He, Peng; et el. (2022) A
human embryonic limb cell atlas resolved in space and time; 10.1101/2022.04.27.489800
- Tang, Weiyi; Jacobs-Li, Jessica; et el. (2022) Single-cell
profiling coupled with lineage analysis reveals distinct sacral neural
crest contributions to the developing enteric nervous system; 10.1101/2022.05.09.491197
- Booeshaghi, A. Sina; Hallgrímsdóttir, Ingileif B.; et el. (2022) Depth
normalization for single-cell genomics count data; 10.1101/2022.05.06.490859
- Pool, Allan-Hermann; Poldsam, Helen; et el. (2022) Enhanced
recovery of single-cell RNA-sequencing reads for missing gene expression
data; 10.1101/2022.04.26.489449
- Nair, Aditya; Karigo, Tomomi; et el. (2022) An
approximate line attractor in the hypothalamus that encodes an
aggressive internal state; 10.1101/2022.04.19.488776
- Esyunina, Daria; Okhtienko, Anastasiia; et el. (2022) Specific
targeting of plasmids with Argonaute enables genome editing; 10.1101/2022.04.14.488398
- Suresh, Pooja; Galstyan, Vahe; et el. (2022) Modeling
and mechanical perturbations reveal how spatially regulated anchorage
gives rise to spatially distinct mechanics across the mammalian
spindle; 10.1101/2022.04.08.487649
- Pandey, Ayush; Incer, Inigo; et el. (2022) From
Specification to Implementation: Assume-Guarantee Contracts for
Synthetic Biology; 10.1101/2022.04.08.487709
- Li, Ya-tang and Meister, Markus (2022) Functional
Cell Types in the Mouse Superior Colliculus; 10.1101/2022.04.01.486789
- Dam, Kim-Marie A.; Barnes, Christopher O.; et el. (2022) HIV-1
CD4-binding site germline antibody-Env structures inform vaccine
design; 10.1101/2022.03.25.485873
- Wang, Sheng; Garcia-Ojalvo, Jordi; et el. (2022) Periodic
spatial patterning with a single morphogen; 10.1101/2022.03.21.484932
- Braun, A. L.; Fabian, D. K.; et el. (2022) Virgin
Birth: A genetic basis for facultative parthenogenesis; 10.1101/2022.03.13.484157
- Chure, Griffin; Banks, Rachel A.; et el. (2022) Anthroponumbers.org:
A Quantitative Database Of Human Impacts on Planet Earth; 10.1101/2022.03.04.483053
- Winnett, Alexander Viloria; Porter, Michael K.; et el. (2022) Morning
SARS-CoV-2 testing yields better detection of infection due to higher
viral loads in saliva and nasal swabs upon waking; 10.1101/2022.03.02.22271724
- Lamanna, Francesco; Hervas-Sotomayor, Francisca; et el. (2022) Reconstructing
the ancestral vertebrate brain using a lamprey neural cell type
atlas; 10.1101/2022.02.28.482278
- Whitehead, Samuel C.; Leone, Sofia; et el. (2022) Neuromuscular
embodiment of feedback control elements in Drosophila flight; 10.1101/2022.02.22.481344
- Daş, Ersin and Murray, Richard M. (2022) Robust
Safe Control Synthesis with Disturbance Observer-Based Control Barrier
Functions; 10.48550/arXiv.2201.05758
- Beery, Sara; Cole, Elijah; et el. (2022) Species
Distribution Modeling for Machine Learning Practitioners: A Review;
10.48550/arXiv.2107.10400
- Badithela, Apurva and Murray, Richard M. (2022) Synthesis
of Static Test Environments for Observing Sequence-like Behaviors in
Autonomous Systems; 10.48550/arXiv.2108.05911
- Ahmadi, Mohamadreza; Rosolia, Ugo; et el. (2022) Risk-Averse
Decision Making Under Uncertainty; 10.48550/arXiv.2109.04082
- Sun, Jennifer J.; Ryou, Serim; et el. (2022) Self-Supervised
Keypoint Discovery in Behavioral Videos; 10.48550/arXiv.2112.05121
- Morton, James T.; Jin, Dong-Min; et el. (2022) Multi-omic
analysis along the gut-brain axis points to a functional architecture of
autism; 10.1101/2022.02.25.482050
- Zhao, Wei and Jensen, Grant J. (2022) In
situ architecture of human kinetochore-microtubule interface visualized
by cryo-electron tomography; 10.1101/2022.02.17.480955
- Gorin, Gennady; Fang, Meichen; et el. (2022) RNA
velocity unraveled; 10.1101/2022.02.12.480214
- Luo, Yicheng; He, Peng; et el. (2022) Maternally
inherited siRNAs initiate piRNA cluster formation; 10.1101/2022.02.08.479612
- Metskas, Lauren Ann; Ortega, Davi; et el. (2022) Rubisco
forms a lattice inside alpha-carboxysomes; 10.1101/2022.01.24.477598
- Chuapoco, Miguel R.; Flytzanis, Nicholas C.; et el. (2022) Intravenous
gene transfer throughout the brain of infant Old World primates using
AAV; 10.1101/2022.01.08.475342
- Henrickson, Amy; Gorbet, Gary E.; et el. (2022) Multi-Wavelength
Analytical Ultracentrifugation of Biopolymer Mixtures and
Interactions; 10.1101/2021.12.29.474408
- Magkiriadou, S.; Habel, A.; et el. (2022) Polyphosphate
affects cytoplasmic and chromosomal dynamics in nitrogen-starved
Pseudomonas aeruginosa; 10.1101/2021.12.23.473106
- Inglis, Alison J.; Guna, Alina; et el. (2022) Coupled
protein quality control during nonsense mediated mRNA decay; 10.1101/2021.12.22.473893
- Meister, Markus (2021) Curved
Micro-Electrode Arrays; 10.48550/arXiv.2107.13532
- Mageswaran, Shrawan Kumar; Grotjahn, Danielle Ann; et el. (2021) Nanoscale
details of mitochondrial fission revealed by cryo-electron
tomography; 10.1101/2021.12.13.472487
- Liang, Xuan; Weberling, Antonia; et el. (2021) E-cadherin
mediated Apical Membrane Initiation Site localisation; 10.1101/2021.11.30.470571
- Wilbert, Steven A. and Newman, Dianne K. (2021) The
contrasting roles of nitric oxide drive microbial community organization
as a function of oxygen presence; 10.1101/2021.12.09.472001
- Gao, Fan and Pachter, Lior (2021) Efficient
pre-processing of Single-cell ATAC-seq data; 10.1101/2021.12.08.471788
- Huang, Shan; Wang, Kaihang; et el. (2021) Genome
manipulation by guide-directed Argonaute cleavage; 10.1101/2021.11.17.469050
- Banks, Rachel A.; Galstyan, Vahe; et el. (2021) Motor
processivity and speed determine structure and dynamics of
microtubule-motor assemblies; 10.1101/2021.10.22.465381
- Reilly, Douglas K.; Schwarz, Erich M.; et el. (2021) Transcriptomic
profiling of sex-specific olfactory neurons reveals subset-specific
receptor expression in C. elegans; 10.1101/2021.10.26.465928
- Mondragón-Palomino, Octavio; Poceviciute, Roberta; et el. (2021) 3D
imaging for the quantification of spatial patterns in microbiota of the
intestinal mucosa; 10.1101/2021.10.07.463215
- Guan, Charles; Aflalo, Tyson; et el. (2021) Preserved
motor representations after paralysis; 10.1101/2021.10.07.463105
- Perry, Elena K.; Siozios, Stefanos; et el. (2021) Structure
of an ant-myrmecophile-microbe community; 10.1101/2021.10.04.462948
- Clamons, Samuel E. and Murray, Richard M. (2021) How
to model DNA replication in stochastic models of synthetic gene circuits
(and why); 10.1101/2021.09.26.461880
- Zhang, Tony; Rosenberg, Matthew; et el. (2021) Endotaxis:
A Universal Algorithm for Mapping, Goal-Learning, and Navigation; 10.1101/2021.09.24.461751
- Xu, Shuhui; Li, Kai; et el. (2021) Ratiometric
RNA labeling allows dynamic multiplexed analysis of gene circuits in
single cells; 10.1101/2021.09.23.461487
- Hu, Chelsea Y. and Murray, Richard M. (2021) Layered
Feedback Control Overcomes Performance Trade-off in Synthetic
Biomolecular Networks; 10.1101/2021.09.12.459953
- Gugel, Zhannetta V.; Maurais, Elizabeth; et el. (2021) Chronic
exposure to odors at naturally occurring concentrations triggers limited
plasticity in early stages of Drosophila olfactory processing; 10.1101/2021.09.03.458834
- Zhou, Wen; Gao, Fan; et el. (2021) Single-cell
perturbation dissects transcription factor control of progression speed
and trajectory choice in early T-cell development; 10.1101/2021.09.03.458944
- Kaplan, Mohammed; Oikonomou, Catherine M.; et el. (2021) A
novel widespread bacterial structure related to the flagellar type III
secretion system; 10.1101/2021.09.03.458937
- Gorin, Gennady; Vastola, John J.; et el. (2021) Interpretable
and tractable models of transcriptional noise for the rational design of
single-molecule quantification experiments; 10.1101/2021.09.06.459173
- Thompson, W. H.; Esteban, O.; et el. (2021) Intracranial
electrical stimulation alters meso-scale network integration as a
function of network topology; 10.1101/2021.01.16.426941
- Chari, Tara; Banerjee, Joeyta; et el. (2021) The
Specious Art of Single-Cell Genomics; 10.1101/2021.08.25.457696
- Banerjee, Navonil; Shih, Pei-Yin; et el. (2021) Distinct
neural circuits establish the same chemosensory behavior in C.
elegans; 10.1101/2021.08.17.456617
- Le, Steven Q.; Kan, Shih-hsin; et el. (2021) Recombinant
NAGLU-IGF2 prevents physical and neurological disease and improves
survival in Sanfilippo B syndrome; 10.1101/2021.08.06.455469
- Speth, Daan R.; Yu, Feiqiao B.; et el. (2021) Microbial
community of recently discovered Auka vent field sheds light on vent
biogeography and evolutionary history of thermophily; 10.1101/2021.08.02.454472
- Gorin, Gennady and Pachter, Lior (2021) Length
Biases in Single-Cell RNA Sequencing of pre-mRNA; 10.1101/2021.07.30.454514
- Zhang, Haifeng; Shang, Renjie; et el. (2021) Evolution
of a chordate-specific mechanism for myoblast fusion; 10.1101/2021.07.24.453587
- Luongo, Francisco J.; Liu, Lu; et el. (2021) Mice
and primates use distinct strategies for visual segmentation; 10.1101/2021.07.04.451059
- Liu, Wenpeng; Polaczek, Piotr; et el. (2021) FANCD2
and RAD51 recombinase directly inhibit DNA2 nuclease at stalled
replication forks and FANCD2 acts as a novel RAD51 mediator in strand
exchange to promote genome stability; 10.1101/2021.07.08.450798
- da Veiga Beltrame, Eduardo; Arnaboldi, Valerio; et el. (2021) Single
cell tools for WormBase; 10.1101/2021.07.04.451030
- Keleş, Ümit; Kliemann, Dorit; et el. (2021) Atypical
gaze patterns in autism are heterogeneous across subjects but reliable
within individuals; 10.1101/2021.07.01.450793
- Chen, Xiaoqiao; Chen, Sisi; et el. (2021) Active
feature selection discovers minimal gene sets for classifying cell types
and disease states with single-cell mRNA-seq data; 10.1101/2021.06.15.448478
- Andreev, Andrey; Vasnarungruengkul, Pavee; et el. (2021) Open-Source
Thermometer, Temperature Controller, and Light Meter for Use in Animal
Facilities and During Experiments; 10.1101/2021.05.18.444705
- Brückner, Adrian; Badroos, Jean M.; et el. (2021) Evolutionary
assembly of cooperating cell types in an animal chemical defense
system; 10.1101/2021.05.13.444042
- Graebener, Josefine B.; Phan-Minh, Tung; et el. (2021) Failure-Tolerant
Contract-Based Design of an Automated Valet Parking System using a
Directive-Response Architecture; 10.48550/arXiv.2103.12919
- Sun, Jennifer J.; Karigo, Tomomi; et el. (2021) The
Multi-Agent Behavior Dataset: Mouse Dyadic Social Interactions; 10.48550/arXiv.2104.02710
- McManus, John B.; Bernhards, Casey B.; et el. (2021) A
Method for Cost-Effective and Rapid Characterization of Genetic
Parts; 10.1101/2021.04.30.440836
- Galton, Riley; Fejes-Tóth, Katalin; et el. (2021) A
somatic piRNA pathway regulates epithelial-to-mesenchymal transition of
chick neural crest cells; 10.1101/2021.04.30.442165
- Takei, Yodai; Zheng, Shiwei; et el. (2021) Integrated
spatial genomics in tissues reveals invariant and cell type dependent
nuclear architecture; 10.1101/2021.04.26.441547
- Rozowsky, Joel; Drenkow, Jorg; et el. (2021) Multi-tissue
integrative analysis of personal epigenomes; 10.1101/2021.04.26.441442
- Kajikawa, Koichiro; Hulse, Brad K.; et el. (2021) Inhibition
is the hallmark of CA3 intracellular dynamics around awake ripples;
10.1101/2021.04.20.440699
- She, Liang; Benna, Marcus K.; et el. (2021) The
neural code for face memory; 10.1101/2021.03.12.435023
- Chongtham, Anjalika; Isas, J. Mario; et el. (2021) Sonicated
fibrils of huntingtin exon-1 preferentially seed neurons and produce
toxic assemblies; 10.1101/2021.04.16.440200
- Dahlstrom, Kurt M. and Newman, Dianne K. (2021) Paraburkholderia
edwinii protects Aspergillus sp. from phenazines by acting as a toxin
sponge; 10.1101/2021.03.28.437412
- Yoo, Bryan B.; Griffiths, Jessica A; et el. (2021) Neuronal
Activation of the Gastrointestinal Tract Shapes the Gut Environment in
Mice; 10.1101/2021.04.12.439539
- Sierra, Noemie; Olsman, Noah; et el. (2021) A
novel approach to comparative RNA-Seq does not support a conserved set
of genes underlying animal regeneration; 10.1101/2021.03.22.434850
- Muecksch, Frauke; Weisblum, Yiska; et el. (2021) Development
of potency, breadth and resilience to viral escape mutations in
SARS-CoV-2 neutralizing antibodies; PMCID PMC7987023; 10.1101/2021.03.07.434227
- Chure, Griffin; Banks, Rachel A.; et el. (2021) The
Anthropocene by the Numbers: A Quantitative Snapshot of Humanity’s
Influence on the Planet; 10.48550/arXiv.2101.09620
- Weissbourd, Brandon; Momose, Tsuyoshi; et el. (2021) Functional
modules within a distributed neural network control feeding in a model
medusa; 10.1101/2021.02.22.432372
- Qu, Zijie; Jiang, Jialong; et el. (2021) Programming
Boundary Deformation Patterns in Active Networks; 10.48550/arXiv.2101.08464
- Booeshaghi, A. Sina and Pachter, Lior (2021) Benchmarking
of lightweight-mapping based single-cell RNA-seq pre-processing; 10.1101/2021.01.25.428188
- Gorin, Gennady and Pachter, Lior (2021) Direct
simulation of a stochastically driven multi-step birth-death
process; 10.1101/2021.01.20.427480
- Chen, Yuxiao; Rosolia, Ugo; et el. (2021) Reactive
motion planning with probabilistic safety guarantees; 10.48550/arXiv.2011.03590
- Cai, Karena X.; Phan-Minh, Tung; et el. (2021) Rules
of the Road: Towards Safety and Liveness Guarantees for Autonomous
Vehicles; 10.48550/arXiv.2011.14148
- Keleş, Ümit; Lin, Chujun; et el. (2021) Efficient
prediction of trait judgments from faces using deep neural networks;
10.31234/osf.io/t7hw4
- Irizarry, Jihyun; McGehee, James; et el. (2021) High
levels of Dorsal transcription factor downregulate, not promote, snail
expression by regulating enhancer action; 10.1101/2021.01.11.426256
- Qiao, Mu and Meister, Markus (2021) Factorized
linear discriminant analysis and its application in computational
biology; 10.48550/arXiv.2010.02171
- Walton, Sophie J.; Clamons, Samuel E.; et el. (2020) Analysis
of Circuits for Dosage Control in Microbial Populations; 10.1101/2020.12.18.423556
- Winnett, Alexander; Cooper, Matthew M.; et el. (2020) SARS-CoV-2
Viral Load in Saliva Rises Gradually and to Moderate Levels in Some
Humans; PMCID PMC7743094; 10.1101/2020.12.09.20239467
- Pandey, Ayush and Murray, Richard M. (2020) A
two-state ribosome and protein model can robustly capture the chemical
reaction dynamics of gene expression; 10.1101/2020.11.25.399287
- Zocchi, Dhruv; Ye, Emily S.; et el. (2020) Stimulus-selective
lateral signaling between olfactory afferents enables parallel encoding
of distinct CO₂ dynamics; 10.1101/2020.12.03.410571
- Tsypin, Lev M. and Newman, Dianne K. (2020) Bidirectional
redox cycling of phenazine-1-carboxylic acid by Citrobacter
portucalensis MBL drives increased nitrate reduction; 10.1101/2020.11.23.395335
- Markaki, Yolanda; Chong, Johnny Gan; et el. (2020) Xist-seeded
nucleation sites form local concentration gradients of silencing
proteins to inactivate the X-chromosome; 10.1101/2020.11.22.393546
- Arango-Gonzalez, Blanca; Sen, Merve; et el. (2020) Inhibition
of VCP preserves retinal structure and function in autosomal dominant
retinal degeneration; 10.1101/2020.11.17.384669
- Flynn, Michael J.; Snitser, Olga; et el. (2020) A
simple direct RT-LAMP SARS-CoV-2 saliva diagnostic; 10.1101/2020.11.19.20234948
- Barlow, Ida L.; Mackay, Eirinn; et el. (2020) A
genetic screen identifies dreammist as a regulator of sleep; 10.1101/2020.11.18.388736
- Merk, Liana N.; Shur, Andrey S.; et el. (2020) Engineering
Logical Inflammation Sensing Circuit for Modulating Gut Conditions;
10.1101/2020.11.10.377085
- Piacentino, Michael L.; Hutchins, Erica J.; et el. (2020) Temporal
changes in plasma membrane lipid content induce endocytosis to regulate
developmental epithelial-to-mesenchymal transition; 10.1101/2020.10.18.344523
- Yamamoto, Masahiro and Shimojo, Shinsuke (2020) The
Brain Knows enough to take into account Light and Shadow; 10.1101/2020.10.19.344838
- Hutchins, Erica J.; Gandhi, Shashank; et el. (2020) RNA-binding
protein Elavl1/HuR is required for maintenance of cranial neural crest
specification; 10.1101/2020.10.14.338715
- Yatsenko, Dimitri; Moreaux, Laurent C.; et el. (2020) Signal
separability in integrated neurophotonics; 10.1101/2020.09.27.315556
- Gorin, Gennady and Pachter, Lior (2020) Intrinsic
and extrinsic noise are distinguishable in a synthesis – export –
degradation model of mRNA production; 10.1101/2020.09.25.312868
- Barnes, Christopher O.; Jette, Claudia A.; et el. (2020) Structural
classification of neutralizing antibodies against the SARS-CoV-2 spike
receptor-binding domain suggests vaccine and therapeutic strategies;
10.1101/2020.08.30.273920
- Le, Henry H.; Wrobel, Chester J.; et el. (2020) Modular
metabolite assembly in C. elegans lysosome-related organelles; 10.1101/2020.08.22.262956
- Booeshaghi, A. Sina; Tan, Fayth; et el. (2020) Markedly
heterogeneous COVID-19 testing plans among US colleges and
universities; 10.1101/2020.08.09.20171223
- Hutchins, Erica J.; Piacentino, Michael L.; et el. (2020) P-bodies
are sites of rapid RNA decay during the neural crest
epithelial-mesenchymal transition; 10.1101/2020.07.31.231860
- Dobreva, Tatyana; Brown, David; et el. (2020) Enabling
out-of-clinic human immunity studies via single-cell profiling of
capillary blood; 10.1101/2020.07.25.210468
- Flytzanis, Nicholas C.; Goeden, Nick; et el. (2020) Broad
gene expression throughout the mouse and marmoset brain after
intravenous delivery of engineered AAV capsids; 10.1101/2020.06.16.152975
- Shehata, Mohammad; Cheng, Miao; et el. (2020) Team
flow is a unique brain state associated with enhanced information
integration and neural synchrony; 10.1101/2020.06.17.157990
- McCaffrey, Erin F.; Donato, Michele; et el. (2020) Multiplexed
imaging of human tuberculosis granulomas uncovers immunoregulatory
features conserved across tissue and blood; 10.1101/2020.06.08.140426
- Ding, Fangyuan and Elowitz, Michael B. (2020) Quantitative
single-cell splicing analysis reveals an ‘economy of scale’ filter for
gene expression; 10.1101/457432
- Gao, Xiaojing J.; Chong, Lucy S.; et el. (2020) Engineering
multiple levels of specificity in an RNA viral vector
- Cohen, Bruce N.; Nichols, Aaron L.; et el. (2020) Successful
Cessation Programs that Reduce Comorbidity May Explain Surprisingly Low
Smoking Rates Among Hospitalized COVID-19 Patients; 10.32388/WURFH0
- Liu, Yang; Perona, Pietro; et el. (2020) PanDA:
Panoptic Data Augmentation; 10.48550/arXiv.1911.12317
- Jue, Erik and Ismagilov, Rustem F. (2020) Commercial
stocks of SARS-CoV-2 RNA may report low concentration values, leading to
artificially increased apparent sensitivity of diagnostic assays; 10.1101/2020.04.28.20077602
- Gorasia, Dhana G.; Chreifi, Georges; et el. (2020) In
situ structure and organisation of the type IX secretion system; 10.1101/2020.05.13.094771
- Hesse, Janis K. and Tsao, Doris Y. (2020) Representation
of conscious percept without report in the macaque face patch
network; 10.1101/2020.04.22.047522
- Jaffari, Matiar; Aflalo, Tyson; et el. (2020) Neural
correlates of cognitive motor signals in primary somatosensory
cortex; 10.1101/2020.04.20.041269
- Booeshaghi, A. Sina and Pachter, Lior (2020) Decrease
in ACE2 mRNA expression in aged mouse lung; 10.1101/2020.04.02.021451
- Liao, Hsin-I; Kashino, Makio; et el. (2020) Transient
Pupil Constriction Reflects and Affects Facial Attractiveness; 10.1101/2020.04.02.021436
- Chen, Yuxiao; Dathathri, Sumanth; et el. (2020) Counter-example
Guided Learning of Bounds on Environment Behavior; 10.48550/arXiv.2001.07233
- Ren, Xinying and Murray, Richard M. (2020) Layered
Feedback Control Improves Robust Functionality across Heterogeneous Cell
Populations; 10.1101/2020.03.24.006528
- Weaver, Sara J.; Sazinsky, Matthew H.; et el. (2020) CryoEM
structure of the Vibrio cholerae Type IV competence pilus secretin
PilQ; 10.1101/2020.03.03.975896
- Khazaei, Tahmineh; Williams, Rory L.; et el. (2020) Metabolic
multi-stability and hysteresis in a model aerobe-anaerobe microbiome
community; 10.1101/2020.02.28.968941
- Goldberg, Nathaniel; Knight, Anders M.; et el. (2020) Nitrene
Transfer Catalyzed by a Non-Heme Iron Enzyme and Enhanced by Non-Native
Small-Molecule Cofactors; 10.26434/chemrxiv.10062044.v1
- Pandey, Ayush and Murray, Richard M. (2020) Model
Reduction Tools For Phenomenological Modeling of Input-Controlled
Biological Circuits; 10.1101/2020.02.15.950840
- Marken, John P.; Xiao, Fangzhou; et el. (2020) A
geometric and structural approach to the analysis and design of
biological circuit dynamics: a theory tailored for synthetic
biology; 10.1101/2020.02.18.953620
- Farahani, Samira S.; Raman, Vasumathi; et el. (2020) Robust
Model Predictive Control for Signal Temporal Logic Synthesis
- Guo, Shaobin; Hori, Yutaka; et el. (2020) Systematic
Design and Implementation of a Novel Synthetic Fold-Change Detector
Biocircuit In Vivo
- Borden, Philip M.; Shivange, Amol V.; et el. (2020) A
fast genetically encoded fluorescent sensor for faithful in vivo
acetylcholine detection in mice, fish, worms and flies; 10.1101/2020.02.07.939504
- Meng, Xianglin; Baetica, Ania A.; et el. (2020) Finding
stationary solutions to the chemical master equation by gluing state
spaces at one or two states recursively
- Han, Duo; Mo, Yilin; et el. (2020) Synthesis
of Distributed Longitudinal Control Protocols for a Platoon of
Autonomous Vehicles
- Yeung, Enoch; Kim, Jongmin; et el. (2020) Global
Dynamical Structure Reconstruction from Reconstructed Dynamical
Structure Subnetworks: Applications to Biochemical Reaction
Networks
- Hsiao, Victoria; Cheng, Aileen; et el. (2020) Design
and application of stationary phase combinatorial promoters
- Sen, Shaunak and Murray, Richard M. (2020) Quantitative
Performance Bounds in Biomolecular Circuits due to Temperature
Uncertainty
- Swaminathan, Anandh; Gomez, Marcella M.; et el. (2020) Stochastic
Gene Expression in Single Gene Oscillator Variants
- Dathathri, Sumanth; Livingston, Scott C.; et el. (2020) Identifying
and exploiting tolerance to unexpected jumps in synthesized strategies
for GR(1) specifications
- Singhal, Vipul and Murray, Richard M. (2020) Cell-Free
Extract Data Variability Reduction in the Presence of Structural
Non-Identifiability
- McCardell, Reed D.; Pandey, Ayush; et el. (2020) Control
of density and composition in an engineered two-member bacterial
community; 10.1101/632174
- Filippidis, Ioannis and Murray, Richard M. (2020) Hiding
variables when decomposing specifications into GR(1) contracts
- Arichega, Nikos; Dathathri, Sumanth; et el. (2020) Fast
Automatic Verification of Large-Scale Systems with Lookup
Tables
- Mayalu, Michaëlle N. and Murray, Richard M. (2020) Theoretical
Design of Paradoxical Signaling-Based Synthetic Population Control
Circuit in E. coli; 10.1101/2020.01.27.921734
- Mohlin, Sofie; Persson, Camilla U.; et el. (2020) Cancer-associated
HIF-2α impacts trunk neural crest stemness; 10.1101/2020.01.22.915199
- Bogatyrev, Said R. and Ismagilov, Rustem F. (2020) Quantitative
microbiome profiling in lumenal and tissue samples with broad coverage
and dynamic range via a single-step 16S rRNA gene DNA copy
quantification and amplicon barcoding; 10.1101/2020.01.22.914705
- Murrow, Lyndsay M.; Weber, Robert J.; et el. (2020) Changes
in epithelial proportions and transcriptional state underlie major
premenopausal breast cancer risks; 10.1101/430611
- Einav, Tal; Yazdi, Shahrzad; et el. (2020) Harnessing
Avidity: Quantifying Entropic and Energetic Effects of Linker Length and
Rigidity Required for Multivalent Binding of Antibodies to HIV-1
Spikes; 10.1101/406454
- Quinn, Robert A.; Thron, Taren; et el. (2020) Chemical
Impacts of the Microbiome Across Scales Reveal Novel Conjugated Bile
Acids; 10.1101/654756
- Chen, Sisi; Park, Jong H.; et el. (2020) Designing
signaling environments to steer transcriptional diversity in neural
progenitor cell populations