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values | paper_id stringlengths 10 26 | doi stringlengths 15 34 ⌀ | version int64 1 6 | title stringlengths 22 201 | authors listlengths 1 43 | license stringclasses 2
values | source_url stringlengths 35 60 | published timestamp[s]date 2021-03-03 00:00:00 2026-07-16 00:00:00 | blocks listlengths 19 529 |
|---|---|---|---|---|---|---|---|---|---|
arxiv | 2607.07763 | null | 1 | Unlocking Temporal Generalization in Hamiltonian Video Dynamics Models | [
"Eli Laird",
"Corey Clark"
] | CC-BY-4.0 | https://arxiv.org/html/2607.07763v1 | 2026-07-08T00:00:00 | [
{
"type": "heading",
"level": 1,
"text": "1 Introduction"
},
{
"type": "para",
"text": "Most world model architectures predict physical dynamics on a discrete time grid with a fixed step size at training time. The dominant paradigm in world modeling is a discrete-time transition z t + 1 = f ... |
arxiv | 2607.07508 | null | 1 | Single-Rollout Asynchronous Optimization for Agentic Reinforcement Learning | [
"Zhenyu Hou",
"Yujiang Li",
"Jie Tang",
"Yuxiao Dong"
] | CC-BY-4.0 | https://arxiv.org/html/2607.07508v1 | 2026-07-08T00:00:00 | [
{
"type": "heading",
"level": 1,
"text": "1 Introduction"
},
{
"type": "para",
"text": "Large Language Model (LLM) development is shifting from supervised pre-training toward post-training reinforcement learning (RL). Recent work in Reinforcement Learning has demonstrated that scaling RL com... |
arxiv | 2607.07478 | null | 1 | FourierQK: Spectral Preprocessing of Query-Key Projections Improves Transformer Attention | [
"Athanasios Zeris"
] | CC-BY-4.0 | https://arxiv.org/html/2607.07478v1 | 2026-07-08T00:00:00 | [
{
"type": "heading",
"level": 1,
"text": "1 Introduction"
},
{
"type": "para",
"text": "Standard transformer attention computes pairwise scores as dot products of learned query and key projections:"
},
{
"type": "para",
"text": "This computes similarity in the embedding space lea... |
arxiv | 2607.07471 | null | 1 | Where to Intervene? Benchmarking Fairness-Aware Learning on Differentially Private Synthetic Tabular Data | [
"Vinícius Gabriel Angelozzi",
"Héber H. Arcolezi"
] | CC-BY-4.0 | https://arxiv.org/html/2607.07471v1 | 2026-07-08T00:00:00 | [
{
"type": "heading",
"level": 1,
"text": "1. Introduction"
},
{
"type": "para",
"text": "Synthetic tabular data generation is increasingly adopted by the research community ( Hu2024 ; jordon2022synthetic ; liu2024tabular ) , regulators ( fsa ; cnil ) , and industry ( tumult_labs ; ydata ) as... |
arxiv | 2607.07435 | null | 1 | RLVP: Penalize the Path, Reward the Outcome | [
"Bojie Li",
"Noah Shi"
] | CC-BY-4.0 | https://arxiv.org/html/2607.07435v1 | 2026-07-08T00:00:00 | [
{
"type": "para",
"text": "Code: https://github.com/19PINE-AI/rlvp Website: https://01.me/research/rlvp"
},
{
"type": "heading",
"level": 1,
"text": "1 Introduction"
},
{
"type": "para",
"text": "Consider an agent that acts on behalf of a person in the real world: it calls a bank... |
biorxiv | 10.64898/2026.06.03.729926 | 10.64898/2026.06.03.729926 | 1 | An interpretable machine learning framework for dog breed inference and ancestry decomposition | [
"Bian, Y.",
"Bierman, R.",
"Snyder-Mackler, N.",
"Promislow, D.",
"Karlsson, E.",
"Dog Aging Project Consortium,",
"Akey, J. M."
] | CC-BY-4.0 | https://www.biorxiv.org/content/10.64898/2026.06.03.729926v1 | 2026-06-04T00:00:00 | [
{
"type": "heading",
"level": 1,
"text": "Introduction"
},
{
"type": "para",
"text": "Domestic dogs ( Canis familiaris ) are among the most genetically and phenotypically diverse mammalian species, owing to domestication, intense artificial selection, and repeated population bottlenecks 1 , ... |
biorxiv | 10.64898/2026.06.03.729880 | 10.64898/2026.06.03.729880 | 2 | Theta phase and theta-gamma coupling organise the spoken language network | [
"Akkad, H.",
"Bush, D.",
"Seymour, R.",
"Twomey, T.",
"Pelke, S.",
"Ondobaka, S.",
"Bestmann, S.",
"Crinion, J."
] | CC-BY-4.0 | https://www.biorxiv.org/content/10.64898/2026.06.03.729880v2 | 2026-06-04T00:00:00 | [
{
"type": "heading",
"level": 1,
"text": "Introduction"
},
{
"type": "para",
"text": "Language production is a fundamental aspect of human behaviour, and its disruption is one of the most common 1 , 2 and feared outcomes following brain injury and disease 3 , 4 . Despite this, the neurophysi... |
biorxiv | 10.64898/2026.06.03.729761 | 10.64898/2026.06.03.729761 | 1 | Viral reservoir status in small mammals emerges as a predictable life-history trait after correcting for surveillance bias | [
"Simons, D.",
"Rivero, R.",
"Rickard, G.",
"Martinez-Checa, A.",
"Gordon, H.",
"Redding, D. W.",
"Seifert, S. N."
] | CC-BY-4.0 | https://www.biorxiv.org/content/10.64898/2026.06.03.729761v1 | 2026-06-04T00:00:00 | [
{
"type": "heading",
"level": 1,
"text": "Introduction"
},
{
"type": "para",
"text": "Zoonotic spillover is structured by the distribution of reservoir hosts, transmission dynamics within these populations (hazard), opportunities for transmission to susceptible humans (risk), and societal fa... |
biorxiv | 10.64898/2026.06.03.729751 | 10.64898/2026.06.03.729751 | 2 | Niche-specific contribution of the branched-chain amino acid biosynthesis protein IlvD in Streptococcus pneumoniae infection | [
"Kumar, S.",
"Green, A. E.",
"Lorenz, L. J.",
"Newbold, K.",
"Ball, G.",
"Khlebutina, E.",
"Lo, S.",
"Neill, D. R."
] | CC-BY-4.0 | https://www.biorxiv.org/content/10.64898/2026.06.03.729751v2 | 2026-06-03T00:00:00 | [
{
"type": "heading",
"level": 1,
"text": "Introduction"
},
{
"type": "para",
"text": "Streptococcus pneumoniae (the pneumococcus) resides primarily as a commensal in the human nasopharynx. Most pneumococcal lineages, however, retain pathogenic potential that results predominantly from factor... |
biorxiv | 10.64898/2026.06.03.729735 | 10.64898/2026.06.03.729735 | 1 | Language Modeling Materializes a World Model of Protein Biology | [
"Candido, S.",
"Hayes, T.",
"Derry, A.",
"Rao, R.",
"Lin, Z.",
"Verkuil, R.",
"Wu, B. Z.",
"Lee, J. S.",
"Bruguera, E. S.",
"Keval, J. A.",
"Kopylov, M.",
"Pak, J. E.",
"Wu, W.",
"Thomas, N.",
"Mataraso, S.",
"Hsu, A.",
"Trotman-Grant, A. C.",
"Fatras, K.",
"dos Santos Costa, A."... | CC-BY-4.0 | https://www.biorxiv.org/content/10.64898/2026.06.03.729735v1 | 2026-06-04T00:00:00 | [
{
"type": "heading",
"level": 1,
"text": "Introduction"
},
{
"type": "para",
"text": "The sequences, structures, and functions of proteins have co-evolved over billions of years. Protein language models are trained on the outputs of evolution, and generations of ESM models have demonstrated ... |
biorxiv | 10.64898/2026.06.01.729472 | 10.64898/2026.06.01.729472 | 1 | D-alanine aminotransferase (Dat) promotes Staphylococcus aureus colonization fitness on human nasal respiratory epithelium | [
"Boyd, A. I.",
"Quintanilla, K. A.",
"Fernandez Escapa, I.",
"Lewis, M. A.",
"Kafer, L. A.",
"Zeng, X.-L.",
"Blutt, S.",
"Ibberson, C. B.",
"Lemon, K. P."
] | CC-BY-4.0 | https://www.biorxiv.org/content/10.64898/2026.06.01.729472v1 | 2026-06-04T00:00:00 | [
{
"type": "heading",
"level": 1,
"text": "INTRODUCTION"
},
{
"type": "para",
"text": "Staphylococcus aureus is the second leading cause of death due to bacterial infection globally, just behind Mycobacterium tuberculosis [ 1 ]. Human nasal colonization is a primary source for infection by S.... |
biorxiv | 10.64898/2026.06.01.729359 | 10.64898/2026.06.01.729359 | 1 | Distinct Auditory Thalamocortical Pathologies Underlie Emerging Neurophysiological Dysfunction in a Cln3 Mouse Model of Batten Disease | [
"Ding, Y.",
"Feng, J.",
"Prifti, V.",
"Rico, G. A.",
"Solorano, A. G.",
"Chang, H. E.",
"Spallina, S. A.",
"freedman, e.",
"Foxe, J. J.",
"Wang, K. H."
] | CC-BY-4.0 | https://www.biorxiv.org/content/10.64898/2026.06.01.729359v1 | 2026-06-04T00:00:00 | [
{
"type": "heading",
"level": 1,
"text": "Introduction"
},
{
"type": "para",
"text": "Lysosomal Storage Disorders (LSDs) are inherited neurodegenerative diseases in which impaired lysosomal function leads to progressive accumulation of undegraded substrates and widespread neuronal dysfunctio... |
biorxiv | 10.64898/2026.06.01.729354 | 10.64898/2026.06.01.729354 | 1 | When clades collide: Genomic admixture in blacklegged ticks (Ixodes scapularis) from the Great Plains | [
"Herzog, K. S.",
"Pella, Z.",
"Smith, H.",
"McCormick, D.",
"Nuss, L.",
"Brinkworth, A.",
"Chaudhari, S.",
"Duncan, K.",
"Sundstrom, K.",
"Stein, S.",
"Black, H.",
"Pietri, J. E.",
"Smith, R. C.",
"Hamik, J.",
"Cortinas, R.",
"Fauver, J. R."
] | CC-BY-4.0 | https://www.biorxiv.org/content/10.64898/2026.06.01.729354v1 | 2026-06-04T00:00:00 | [
{
"type": "heading",
"level": 1,
"text": "Introduction"
},
{
"type": "para",
"text": "Ixodes scapularis (blacklegged tick, deer tick) is an important vector of multiple pathogens relevant to human health, including Anaplasma phagocytophilum, Babesia microti, Ehrlichia eauclairensis , Powassa... |
biorxiv | 10.64898/2026.06.01.729306 | 10.64898/2026.06.01.729306 | 2 | Profiling the CFTR Variant Selectivity and Off-Target Interactions of VX-121 | [
"Jhangiani, A. R.",
"Olson, J. A.",
"Tedman, A.",
"Foye, C.",
"Jackson, J. J.",
"Winters, A. G.",
"White, J. A.",
"Perfetti, M.",
"Abell, G. M.",
"Cameron, C. D.",
"Arifova, L.",
"Corman, B.",
"Robinson, J. P.",
"Kuntz, C. P.",
"Ledwitch, K.",
"Meiler, J.",
"Oliver, K. E.",
"Plate,... | CC-BY-4.0 | https://www.biorxiv.org/content/10.64898/2026.06.01.729306v2 | 2026-06-04T00:00:00 | [
{
"type": "heading",
"level": 1,
"text": "Introduction"
},
{
"type": "para",
"text": "Cystic fibrosis (CF) is an autosomal recessive disorder caused by loss-of-function variants in the CF transmembrane conductance regulator gene ( CFTR ), which encodes a chloride ion channel. This channel ma... |
biorxiv | 10.64898/2026.06.01.729295 | 10.64898/2026.06.01.729295 | 1 | Single-cell characterization of tumor immune landscapes in colorectal cancer humanized mice | [
"Bootsma, S.",
"Saris, J.",
"Li Yim, A. Y.",
"Lenos, K. J.",
"Vieira Braga, F. A.",
"Grootjans, J.",
"Vermeulen, L."
] | CC-BY-4.0 | https://www.biorxiv.org/content/10.64898/2026.06.01.729295v1 | 2026-06-04T00:00:00 | [
{
"type": "heading",
"level": 1,
"text": "INTRODUCTION"
},
{
"type": "para",
"text": "Colorectal cancer (CRC) is a heterogeneous disease, with substantial inter-patient variability in molecular tumor characteristics and therapeutic responses. Cancer immunotherapy with immune checkpoint block... |
biorxiv | 10.64898/2026.06.01.729285 | 10.64898/2026.06.01.729285 | 1 | 340 dipteran genomes reveal the origin of Muller elements and sex chromosomes in Diptera | [
"Gries, J.",
"Ebdon, S.",
"Bliznina, A.",
"Collins, J.",
"Hodson, C. N.",
"Mathers, T. C.",
"Maulana, A.",
"McCarthy, S.",
"Paulini, M.",
"Absolon, D. E.",
"Krasheninnikova, K.",
"Darwin Tree of Life Consortium,",
"Lawniczak, M.",
"Durbin, R.",
"Jaron, K. S."
] | CC-BY-4.0 | https://www.biorxiv.org/content/10.64898/2026.06.01.729285v1 | 2026-06-04T00:00:00 | [
{
"type": "heading",
"level": 1,
"text": "Introduction"
},
{
"type": "para",
"text": "The insect order Diptera, known as the true flies, consists of more than 152,000 species in 157 families with a last common ancestor estimated to have lived 240 million years ago (Mya, 1 , 2 ) . Our underst... |
biorxiv | 10.64898/2026.06.01.729276 | 10.64898/2026.06.01.729276 | 1 | Extended maturation of the HD10.6 immortalised human dorsal root ganglion cell line enables modelling of nociceptive responses and neural injury | [
"Dhillon, K.",
"Ali Awadelkareem, M.",
"Perez Sanchez, J.",
"Baskozos, G.",
"Bennett, D. L."
] | CC-BY-4.0 | https://www.biorxiv.org/content/10.64898/2026.06.01.729276v1 | 2026-06-04T00:00:00 | [
{
"type": "heading",
"level": 1,
"text": "Introduction"
},
{
"type": "para",
"text": "Chronic pain affects at least one in five of the population, and prevalence is predicted to increase with the aging population, diabetes epidemic and increased cancer survival ( Breivik et al., 2006 ; Basko... |
biorxiv | 10.64898/2026.06.01.729252 | 10.64898/2026.06.01.729252 | 1 | Differences in microbial community structure and soil nutrients between healthy and diseased soils of Zingiber officinale | [
"Ma, S.",
"Fang, F.",
"Li, J.",
"Zhang, T.",
"Wang, T."
] | CC-BY-4.0 | https://www.biorxiv.org/content/10.64898/2026.06.01.729252v1 | 2026-06-04T00:00:00 | [
{
"type": "heading",
"level": 1,
"text": "Introduction"
},
{
"type": "para",
"text": "Zingiber officinale is an economically important crop in China, widely used for culinary, medicinal, and cosmetic purposes due to its high gingerol content, rich flavor, and medicinal properties ( Goyal et ... |
biorxiv | 10.64898/2026.06.01.729244 | 10.64898/2026.06.01.729244 | 1 | Probiotic wheat sprouts: A novel functional food developed through Lacticaseibacillus casei inoculation with improved bioactivity and probiotic survival | [
"Barkousaraei, H. H.",
"Vazifeh, M. M.",
"Yaghoubi-Avini, M.",
"Shambayati, G."
] | CC-BY-4.0 | https://www.biorxiv.org/content/10.64898/2026.06.01.729244v1 | 2026-06-04T00:00:00 | [
{
"type": "heading",
"level": 1,
"text": "Introduction"
},
{
"type": "para",
"text": "The idea that food can act as medicine was first proposed by Hippocrates, who once said: “Let food be thy medicine and medicine be thy food.” ( Soccol et al., 2010 ) A healthy diet is defined as a diet that... |
biorxiv | 10.64898/2026.06.01.729238 | 10.64898/2026.06.01.729238 | 1 | Genetic and epigenetic diversity of Salmonella enterica isolates from Kazakhstan from clinical and veterinary sources | [
"Yessimseit, D. T.",
"Rysbekova, A. K.",
"Zhumadilova, Z. B.",
"Abdeliyev, B. Z.",
"Kassenova, A. K.",
"Tukhanova, N. B.",
"Abdrakhmanova, A. K.",
"Mereke, A.",
"Agzam, S. D.",
"Nurpeisova, A. S.",
"Nissanova, R.",
"Maksatova, A. M.",
"Reva, O. N.",
"Abdirassilova, A. A."
] | CC-BY-4.0 | https://www.biorxiv.org/content/10.64898/2026.06.01.729238v1 | 2026-06-04T00:00:00 | [
{
"type": "heading",
"level": 1,
"text": "Introduction"
},
{
"type": "para",
"text": "According to Worldwide Health Organization (WHO), foodborne infections caused by bacteria of the genus Salmonella remain a major public health concern worldwide because of their broad host range, high trans... |
biorxiv | 10.64898/2026.06.01.729229 | 10.64898/2026.06.01.729229 | 1 | Serial dependence in duration perception reveals reliability-weighted updating of the prior | [
"Otsuka, T.",
"van Rijn, H.",
"Kruijne, W.",
"de Jong, J."
] | CC-BY-4.0 | https://www.biorxiv.org/content/10.64898/2026.06.01.729229v1 | 2026-06-04T00:00:00 | [
{
"type": "heading",
"level": 1,
"text": "Introduction"
},
{
"type": "para",
"text": "Bayesian theories of perception formalize perceptual inference as the integration of prior beliefs (“priors”) and sensory input (“likelihood”) to form posterior estimates. This integration is assumed to be ... |
biorxiv | 10.64898/2026.06.01.729208 | 10.64898/2026.06.01.729208 | 1 | One Circuit, Many Flow Fields: Mechanistic Models of Single-Trial Neural Dynamics | [
"Kaminitz, S.",
"Levin, M.",
"Pereira-Obilinovic, U.",
"Darshan, R."
] | CC-BY-4.0 | https://www.biorxiv.org/content/10.64898/2026.06.01.729208v1 | 2026-06-04T00:00:00 | [
{
"type": "heading",
"level": 1,
"text": "Introduction"
},
{
"type": "para",
"text": "Neural circuits are often described as dynamical systems: population activity evolves through a flow field whose geometry reflects the computation being performed [ 3 , 17 , 41 , 24 , 8 , 39 , 51 , 28 , 46 ... |
biorxiv | 10.64898/2026.06.01.729206 | 10.64898/2026.06.01.729206 | 1 | A simple method of estimating rabies outbreak sizes from phylogenies | [
"Durrant, R.",
"Cobbold, C.",
"Ferguson, E.",
"Brunker, K.",
"Bautista, C.",
"Hampson, K.",
"Dushoff, J."
] | CC-BY-4.0 | https://www.biorxiv.org/content/10.64898/2026.06.01.729206v1 | 2026-06-04T00:00:00 | [
{
"type": "heading",
"level": 1,
"text": "Introduction"
},
{
"type": "para",
"text": "In the early stages of responding to a disease outbreak it is often difficult to grasp the scale of the problem. Estimates of the outbreak size are key for planning and prioritization, and for evaluating th... |
biorxiv | 10.64898/2026.06.01.729181 | 10.64898/2026.06.01.729181 | 1 | Longitudinal versus Cross-sectional effects of Age on MEG Power Spectra Parameters: Implications for Normative Models and Brain Ageing | [
"Crespo Garcia, M.",
"Apsvalka, D.",
"Demetriou, I.",
"Attaheri, A.",
"Emery, T.",
"Aller, M.",
"Henson, R."
] | CC-BY-4.0 | https://www.biorxiv.org/content/10.64898/2026.06.01.729181v1 | 2026-06-04T00:00:00 | [
{
"type": "heading",
"level": 1,
"text": "Introduction"
},
{
"type": "para",
"text": "Healthy ageing affects functional activity in the brain – as measured by MEG, for example – possibly prior to detectable effects on brain structure. The recent availability of relatively large cohorts with ... |
biorxiv | 10.64898/2026.06.01.729118 | 10.64898/2026.06.01.729118 | 1 | Learning residue-level context for modeling protein-protein interactions | [
"Zhang, Z.",
"Yang, Z.",
"Liu, A.",
"Yu, K.-H.",
"Zhao, J.",
"Yang, Y.",
"Neale, B.",
"Chen, S."
] | CC-BY-4.0 | https://www.biorxiv.org/content/10.64898/2026.06.01.729118v1 | 2026-06-04T00:00:00 | [
{
"type": "heading",
"level": 1,
"text": "Introduction"
},
{
"type": "para",
"text": "Protein language models (PLMs) have achieved remarkable success in modeling protein sequence-function relationships. Trained on millions of natural proteins, these models learn representations (“embeddings”... |
biorxiv | 10.64898/2026.06.01.729001 | 10.64898/2026.06.01.729001 | 1 | Hitchhiking Microplastics Through Mosquitoes as Unseen Vehicles of Terrestrial and Aerial Transfer: Experimental Evidence | [
"Moemenbellah-Fard, M. D.",
"Boroomand, M.",
"Saeedi, S.",
"Derakhshan, Z.",
"Feilizadeh, M.",
"Shouhanian, H.",
"Souri Pilangorgi, S.",
"Nouri-Khorasani, S."
] | CC-BY-4.0 | https://www.biorxiv.org/content/10.64898/2026.06.01.729001v1 | 2026-06-04T00:00:00 | [
{
"type": "heading",
"level": 1,
"text": "Introduction"
},
{
"type": "para",
"text": "Plastic pollution has become one of the most pervasive environmental challenges of the modern era, increasingly recognized for its persistence and capacity to impact both aquatic and terrestrial ecosystems.... |
biorxiv | 10.64898/2026.06.01.728891 | 10.64898/2026.06.01.728891 | 1 | Genomic Characterization of the Endangered Medicinal Polypore Agarikon (Laricifomes officinalis syn. Fomitopsis officinalis) | [
"Bennett, P. I.",
"Bair, Z. J.",
"Bradshaw, A. J.",
"Stamets, P."
] | CC-BY-4.0 | https://www.biorxiv.org/content/10.64898/2026.06.01.728891v1 | 2026-06-04T00:00:00 | [
{
"type": "heading",
"level": 1,
"text": "INTRODUCTION"
},
{
"type": "para",
"text": "The polypore known colloquially as agarikon, eburiko, and “quinine conk” ( Laricifomes officinalis (Vill.) Kot. & Pouzar syn. Fomitopsis officinalis (Vill.) Bondartsev & Singer) is a flagship species of old... |
biorxiv | 10.64898/2026.06.01.728862 | 10.64898/2026.06.01.728862 | 1 | Measurement Equivalence of On-Scalp OPM-MEG and Cryogenic MEG for Auditory and Somatosensory Cortical Mapping Across Development | [
"Gaetz, W.",
"O'Neill, G. C.",
"Birnbaum, C.",
"Cheung, T.",
"Robets, T. P. L.",
"Hughes, K. J.",
"Knappe, S.",
"Alem, O."
] | CC-BY-4.0 | https://www.biorxiv.org/content/10.64898/2026.06.01.728862v1 | 2026-06-04T00:00:00 | [
{
"type": "heading",
"level": 1,
"text": "Introduction"
},
{
"type": "para",
"text": "Magnetoencephalography (MEG) measures neuronal currents with millisecond precision, but it remains unclear whether systems based on fundamentally different sensor physics recover equivalent cortical generat... |
biorxiv | 10.64898/2026.06.01.728460 | 10.64898/2026.06.01.728460 | 1 | The degree of subgenome expression bias in B. napus changes between cultivars, tissues and across time | [
"Woolfenden, H. C.",
"Wells, R.",
"Morris, R. J."
] | CC-BY-4.0 | https://www.biorxiv.org/content/10.64898/2026.06.01.728460v1 | 2026-06-04T00:00:00 | [
{
"type": "heading",
"level": 1,
"text": "Introduction"
},
{
"type": "para",
"text": "Polyploidy is common across the tree of life, arising from whole genome duplication and/or hybridisation events ( Morris et al ., 2024 ). Whole genome duplication gives rise to autopolyploidy, i.e. multiple... |
biorxiv | 10.64898/2026.06.01.728459 | 10.64898/2026.06.01.728459 | 1 | Acute Sprint Exercise Transcriptome in Human Adipose Tissue: Associations with Growth Hormone | [
"Esbjornsson, M.",
"Rundqvist, H. C.",
"Norman, B.",
"Osterlund, T.",
"Bulow, J.",
"Jansson, E."
] | CC-BY-4.0 | https://www.biorxiv.org/content/10.64898/2026.06.01.728459v1 | 2026-06-04T00:00:00 | [
{
"type": "heading",
"level": 1,
"text": "INTRODUCTION"
},
{
"type": "para",
"text": "Sprint interval training (SIT) has been shown to reduce body fat mass or waist circumference ( 1 , 2 ), despite the low energy expenditure during a SIT session ( 3 , 4 ). This may be explained by an increas... |
biorxiv | 10.64898/2026.05.31.729127 | 10.64898/2026.05.31.729127 | 5 | Where the tree of life is empirically resolved, and where it is not: an open atlas of species-level phylogenies and their archival uncertainty | [
"Richter, F."
] | CC-BY-4.0 | https://www.biorxiv.org/content/10.64898/2026.05.31.729127v5 | 2026-06-04T00:00:00 | [
{
"type": "heading",
"level": 1,
"text": "Introduction"
},
{
"type": "para",
"text": "Phylogenetic trees are the organizing principle of comparative biology. From estimating diversification rates 1 to prioritizing species for conservation 2 , from reconstructing ancestral traits 3 to underst... |
biorxiv | 10.64898/2026.05.30.728980 | 10.64898/2026.05.30.728980 | 2 | Hierarchical classification of immune cell transcriptomes at population-scale | [
"Beltz, C.",
"Qiu, Z.",
"Sadowski, L.",
"Kraske, J. A.",
"Aggarwal, A.",
"Quintanal-Villalonga, A.",
"Manoj, P.",
"Littbarski, A.",
"Bajaj, S.",
"Meskauskaite, B.",
"Umeda, S.",
"Mazutis, L.",
"Rose, S. A.",
"Chan, J. M.",
"Nawy, T.",
"Nainys, J.",
"Chaligne, R.",
"de Stanchina, E.... | CC-BY-4.0 | https://www.biorxiv.org/content/10.64898/2026.05.30.728980v2 | 2026-06-04T00:00:00 | [
{
"type": "heading",
"level": 1,
"text": "Introduction"
},
{
"type": "para",
"text": "Developing robust (semi-)supervised machine learning (ML) models requires strict adherence to the steps of training, validation, and external testing 1 . Central to this process is the statistical independe... |
biorxiv | 10.64898/2026.05.30.728923 | 10.64898/2026.05.30.728923 | 1 | Validation of optogenetic approach to investigate fatigable weakness using a zebrafish model of congenital myasthenic syndrome | [
"Lau, J. M. G.",
"Gaudreau, S. F.",
"Lochmüller, H. K.",
"Bui, T. V.",
"Palacek, K. K.",
"Spendiff, S."
] | CC-BY-4.0 | https://www.biorxiv.org/content/10.64898/2026.05.30.728923v1 | 2026-06-04T00:00:00 | [
{
"type": "heading",
"level": 1,
"text": "Introduction"
},
{
"type": "para",
"text": "Congenital myasthenic syndromes (CMS) are a diverse group of rare inherited neuromuscular disorders. CMS onset typically presents at birth or early childhood but can also appear in adolescence ( 1 – 3 ). Th... |
biorxiv | 10.64898/2026.05.29.728636 | 10.64898/2026.05.29.728636 | 1 | Estimating spatially adjusted temperature-dependent time-varying reproduction numbers for vector-borne diseases | [
"Ponce, L. J.",
"Choo, E. L. W.",
"Mailepessov, D.",
"Bansal, S.",
"Tan, K. B.",
"Parag, K. V.",
"Lim, J. T."
] | CC-BY-4.0 | https://www.biorxiv.org/content/10.64898/2026.05.29.728636v1 | 2026-06-04T00:00:00 | [
{
"type": "heading",
"level": 1,
"text": "Background"
},
{
"type": "para",
"text": "Accurate estimation of infectious disease transmissibility is particularly critical for vector-borne diseases (VBDs), where transmission is strongly shaped by vector ecology and environmental conditions. Inte... |
biorxiv | 10.64898/2026.05.29.728626 | 10.64898/2026.05.29.728626 | 2 | Rewiring V-type and K-type enzyme allostery through subunit interface mutations | [
"Maschietto, F.",
"Enny, O.",
"Chaudhuri, A.",
"Batista, V. S.",
"Loria, J. P."
] | CC-BY-4.0 | https://www.biorxiv.org/content/10.64898/2026.05.29.728626v2 | 2026-06-02T00:00:00 | [
{
"type": "para",
"text": "A llostery provides a general mechanism by which ligand binding at one site modulates protein function at a distant site.( 1 , 2 ) In enzymes, allosteric ligands can alter the maximal catalytic rate (V-type allostery), the apparent substrate affinity (K-type allostery), or both.( ... |
biorxiv | 10.64898/2026.05.28.728371 | 10.64898/2026.05.28.728371 | 2 | C4 photosynthetic pathway fluxes in transgenic rice plants | [
"Baccolini, C.",
"Arrivault, S.",
"Danila, F. R.",
"Ermakova, M. R.",
"Yalamanchili, K.",
"Ishihara, H.",
"Feil, R.",
"Langdale, J.",
"von Caemmerer, S.",
"Furbank, R. T.",
"Stitt, M. T.",
"Lunn, J. E."
] | CC-BY-4.0 | https://www.biorxiv.org/content/10.64898/2026.05.28.728371v2 | 2026-06-01T00:00:00 | [
{
"type": "heading",
"level": 1,
"text": "INTRODUCTION"
},
{
"type": "para",
"text": "Photosynthesis is the process by which almost all carbon (C) enters the biosphere, including all food and feed production in agriculture. There is a pressing need to increase agricultural yield to keep pace... |
biorxiv | 10.64898/2026.05.15.724728 | 10.64898/2026.05.15.724728 | 2 | Studying Effects of PDA Media Strengths on the Growth of Colletotrichum sublineola Using MPLEx-Based Integrative Proteomics and Metabolomics Analyses | [
"Dawar, P.",
"Farago, D.",
"Zemaitis, K. J.",
"Thomas, A.",
"Lalli, P. M.",
"Clendinen, C. S.",
"Paurus, V. L.",
"Law, T. F.",
"Bredeweg, E. L.",
"Fulcher, J. M.",
"Dangl, J. L.",
"Liu, Q.",
"Pasa-Tolic, L."
] | CC-BY-4.0 | https://www.biorxiv.org/content/10.64898/2026.05.15.724728v2 | 2026-05-17T00:00:00 | [
{
"type": "heading",
"level": 1,
"text": "Introduction"
},
{
"type": "para",
"text": "Colletotrichum sublineola ( Cs ) is a hemibiotrophic fungal pathogen that causes sorghum anthracnose, one of the most devastating diseases of sorghum worldwide. The genus Colletotrichum can infect multiple ... |
biorxiv | 10.64898/2026.03.18.712737 | 10.64898/2026.03.18.712737 | 2 | Rapid turnover of sex-determining architecture in invasive mussels | [
"Weber, A. A.-T.",
"Uthanumallian, K.",
"Kocot, K. M.",
"Giulio, M.",
"Signorini, S. G.",
"Senut, M.-C.",
"Chen, Z.",
"Sigwart, J.",
"Passamaneck, Y."
] | CC-BY-4.0 | https://www.biorxiv.org/content/10.64898/2026.03.18.712737v2 | 2026-03-20T00:00:00 | [
{
"type": "heading",
"level": 1,
"text": "Introduction"
},
{
"type": "para",
"text": "Biological invasions are among the most consequential global environmental changes of the Anthropocene, reshaping ecosystems, altering food webs, and imposing substantial economic costs. Among freshwater in... |
biorxiv | 10.64898/2026.03.12.711044 | 10.64898/2026.03.12.711044 | 3 | Programming Biomolecular Interactions with All-Atom Generative Model | [
"Kong, X.",
"Chen, J.",
"Zhang, Z.",
"Li, G.",
"Zhu, Q.",
"Wei, L.",
"Li, M.",
"Shi, Y.",
"Dai, W.",
"Zhang, Z.",
"Tan, W.",
"Jiao, R.",
"Wang, X.",
"Zheng, J.",
"Yu, Z.",
"Wu, Q.",
"Guo, Z.",
"Zhang, L.",
"Li, W.",
"Huang, Q.",
"Zhu, T.",
"Wang, X.",
"Huang, W.",
"She,... | CC-BY-4.0 | https://www.biorxiv.org/content/10.64898/2026.03.12.711044v3 | 2026-03-15T00:00:00 | [
{
"type": "heading",
"level": 1,
"text": "Introduction"
},
{
"type": "para",
"text": "Biomolecular interactions underlie cellular function and constitute a fundamental basis of life. Throughout human history, diverse classes of molecules, including small organic molecules, proteins, and nucl... |
biorxiv | 10.64898/2026.03.09.710580 | 10.64898/2026.03.09.710580 | 4 | STAR Suite: Transcriptomics processing in a single binary through AI-assisted development | [
"Hung, L.-H.",
"Baker, D.",
"Flynn, B.",
"Huangfu, D.",
"Luo, R.",
"Robson, P.",
"Zhou, T.",
"Yeung, K. Y."
] | CC-BY-4.0 | https://www.biorxiv.org/content/10.64898/2026.03.09.710580v4 | 2026-03-10T00:00:00 | [
{
"type": "heading",
"level": 1,
"text": "Introduction"
},
{
"type": "para",
"text": "The bioinformatics field has responded to the diversification of transcriptomics—from bulk RNA sequencing (RNA-seq) to single-cell chemistries 1 , perturbation readouts 2 , 3 , probe-based fixed-RNA profili... |
biorxiv | 10.64898/2026.01.13.699236 | 10.64898/2026.01.13.699236 | 2 | Predictive coding narrows the gap between convolutional networks and human brain function in misspelled-word reading | [
"You, J.",
"Salmelin, R.",
"van Vliet, M."
] | CC-BY-4.0 | https://www.biorxiv.org/content/10.64898/2026.01.13.699236v2 | 2026-01-14T00:00:00 | [
{
"type": "heading",
"level": 1,
"text": "Introduction"
},
{
"type": "para",
"text": "Humans exhibit remarkable flexibility in visual word recognition. Even when some letters in a word are substituted or transposed, readers can usually comprehend them with ease [ 1 – 3 ]. However, such pertu... |
biorxiv | 10.64898/2025.12.18.695332 | 10.64898/2025.12.18.695332 | 4 | SWARM resolves nanopore signal interference between RNA modification types and reveals splicing-shaped pseudouridylation | [
"Prodic, S.",
"Cleynen, A.",
"Mahmud, S.",
"Srivastava, A.",
"Ravindran, A.",
"Kanchi, M.",
"Sethi, A. J.",
"Corovic, M.",
"Jain, R.",
"Santos-Rodriguez, G.",
"Vieira, G.",
"Preiss, T.",
"Weatheritt, R. J.",
"Hayashi, R.",
"Martinez, N. M.",
"Burgio, G.",
"Shirokikh, N. E.",
"Eyras... | CC-BY-4.0 | https://www.biorxiv.org/content/10.64898/2025.12.18.695332v4 | 2025-12-20T00:00:00 | [
{
"type": "heading",
"level": 1,
"text": "Introduction"
},
{
"type": "para",
"text": "Recent years have seen a remarkable expansion in our understanding of RNA 1 – 3 . In addition to the four canonical ribonucleotides, which make up the main backbone of RNA, there are over 170 epitranscripto... |
biorxiv | 10.1101/2025.10.21.683636 | 10.1101/2025.10.21.683636 | 3 | TMEM55B regulates lysosomal acidification and ER-lysosome calcium signaling to promote lipolysis | [
"Mukae, N.",
"Maki, H.",
"Shirane, M."
] | CC-BY-4.0 | https://www.biorxiv.org/content/10.1101/2025.10.21.683636v3 | 2025-10-21T00:00:00 | [
{
"type": "heading",
"level": 1,
"text": "Introduction"
},
{
"type": "para",
"text": "Membrane contact sites (MCSs) between the endoplasmic reticulum (ER) and late endosomes/lysosomes (LE/Ly) are established through specific tethering complexes rather than random membrane encounters. ORP1L a... |
biorxiv | 10.1101/2025.10.10.681143 | 10.1101/2025.10.10.681143 | 3 | Hidden-state inference aligns attention and neural representational geometry during flexible behaviour | [
"Kerren, C.",
"Theves, S.",
"Johansson, M.",
"Gardenfors, P.",
"Doeller, C. F."
] | CC-BY-4.0 | https://www.biorxiv.org/content/10.1101/2025.10.10.681143v3 | 2025-10-10T00:00:00 | [
{
"type": "heading",
"level": 1,
"text": "Introduction"
},
{
"type": "para",
"text": "Human beings inhabit environments rich in diverse streams of information, yet the limited capacity of the cognitive system makes it impossible to process all inputs simultaneously. As a result, individuals ... |
biorxiv | 10.1101/2025.04.22.649929 | 10.1101/2025.04.22.649929 | 6 | Hippocampal ripples initiate cortical dimensionality expansion for memory retrieval | [
"Kerren, C.",
"Michelmann, S.",
"Doeller, C. F."
] | CC-BY-4.0 | https://www.biorxiv.org/content/10.1101/2025.04.22.649929v6 | 2025-04-27T00:00:00 | [
{
"type": "heading",
"level": 1,
"text": "Introduction"
},
{
"type": "para",
"text": "Episodic memory allows us to store detailed records of past experiences and consciously reconstruct those experiences at later points in time 1 . Like any computational system though, the human brain operat... |
biorxiv | 10.64898/2026.06.03.729793 | 10.64898/2026.06.03.729793 | 1 | CTCF regulates wild-type and recombinant AAV gene expression by shaping viral chromatin | [
"Larsen, C. I. S.",
"Abrahams, R. R.",
"Guertler, R.",
"Wilion, E. M.",
"Erata, E.",
"Sykes, Z. H.",
"Stoica, L.",
"Thirumoorthy, G.",
"Sinha, D.",
"Rai, R.",
"Hofer, E. K.",
"Hart, E.",
"Fuller, M. S.",
"Gamm, D. M.",
"Majumder, K."
] | CC-BY-4.0 | https://www.biorxiv.org/content/10.64898/2026.06.03.729793v1 | 2026-06-03T00:00:00 | [
{
"type": "heading",
"level": 1,
"text": "INTRODUCTION"
},
{
"type": "para",
"text": "Wild type Adeno-Associated Virus Type 2 (wtAAV2) is a small single-stranded DNA (ssDNA) virus of the family Parvoviridae that is utilized in gene therapy to deliver therapeutic transgenes as recombinant AAV... |
biorxiv | 10.64898/2026.06.03.729754 | 10.64898/2026.06.03.729754 | 1 | Genomic insights into Candidatus Argioplasma dusa, a bacterial symbiont of the wasp spider Argiope bruennichi | [
"Busch, L. M.",
"Sheffer, M. M.",
"Dombrowski, N.",
"Krehenwinkel, H.",
"Prost, S.",
"Spang, A.",
"Uhl, G.",
"Urich, T.",
"Hoff, K.",
"Bengtsson, M. M."
] | CC-BY-4.0 | https://www.biorxiv.org/content/10.64898/2026.06.03.729754v1 | 2026-06-03T00:00:00 | [
{
"type": "heading",
"level": 1,
"text": "Introduction"
},
{
"type": "para",
"text": "Host-adapted bacteria influence the biology of their hosts in many ways, as reproductive parasites, commensals or mutualists ( Kaltenpoth et al ., 2025 ). Approximately one third of all sequenced bacterial ... |
biorxiv | 10.64898/2026.06.03.729743 | 10.64898/2026.06.03.729743 | 1 | Comparative Secretome Analysis and Enzyme Cocktail Optimization of Six Fungal Species Under Solid-State and Submerged Fermentation for Lignocellulosic Saccharification of Flax Shives | [
"Kaugarenia, N.",
"Deracinois, B.",
"Haguet, Q.",
"Heyte, S.",
"Froidevaux, R.",
"Phalip, V.",
"Heuson, E."
] | CC-BY-4.0 | https://www.biorxiv.org/content/10.64898/2026.06.03.729743v1 | 2026-06-03T00:00:00 | [
{
"type": "heading",
"level": 1,
"text": "Introduction"
},
{
"type": "para",
"text": "Saccharification, defined as the hydrolysis of carbohydrate-containing polymeric materials into monomeric carbohydrates or units with low degrees of polymerization ( Moron et al ., 2025 ), represents a crit... |
biorxiv | 10.64898/2026.06.03.728855 | 10.64898/2026.06.03.728855 | 1 | Characterizing Sequence-Function Relationships in Chimeric DcuS/EnvZ Histidine Kinases at Scale | [
"Lippert, L. B.",
"Hinton, S. R.",
"Holston, A. S.",
"Romanowicz, K. J.",
"Plesa, C."
] | CC-BY-4.0 | https://www.biorxiv.org/content/10.64898/2026.06.03.728855v1 | 2026-06-03T00:00:00 | [
{
"type": "heading",
"level": 1,
"text": "Introduction"
},
{
"type": "para",
"text": "Biosensors are foundational tools in synthetic biology, enabling environmental sensing, 1 dynamic pathway regulation, 2 theragnostics, 3 metabolic flux analysis, 4 and high-throughput screening applications... |
biorxiv | 10.64898/2026.06.03.728378 | 10.64898/2026.06.03.728378 | 1 | Persistent Staphylococcus aureus in human musculoskeletal tissues despite targeted antibiotic therapy | [
"Morin, B.",
"Tripathi, V.",
"Woischnig, A.-K.",
"Erdmann, J.",
"Iizuka, A.",
"Baumhoer, D.",
"Rentsch, K.",
"Sauteur, L.",
"Bartoszek, E.",
"Keller, P. M.",
"Jantarug, K.",
"Rivera-Fuentes, P.",
"Hamelin, B.",
"Hosch, S.",
"Mertz, K.",
"Morgenstern, M.",
"Clauss, M.",
"Bumann, D."... | CC-BY-4.0 | https://www.biorxiv.org/content/10.64898/2026.06.03.728378v1 | 2026-06-03T00:00:00 | [
{
"type": "heading",
"level": 1,
"text": "Main"
},
{
"type": "para",
"text": "Staphylococcus aureus (S. aureus) remains a leading cause of infection-related morbidity and mortality. 1 – 3 It can infect most human tissues including bone and joints, causing osteomyelitis, septic arthritis, fra... |
biorxiv | 10.64898/2026.06.02.729691 | 10.64898/2026.06.02.729691 | 1 | Biosensor monitoring of naphthenic acids remediation in mesocosms and constructed wetlands: a head-to-head comparison with orbitrap mass spectrometry. | [
"Bookout, T.",
"Vander Meulen, I.",
"Balabera, A.-L.",
"Degenhardt, D.",
"Headley, J. V.",
"Lewenza, S."
] | CC-BY-4.0 | https://www.biorxiv.org/content/10.64898/2026.06.02.729691v1 | 2026-06-03T00:00:00 | [
{
"type": "heading",
"level": 1,
"text": "Introduction"
},
{
"type": "para",
"text": "Oil sands surface mining in northern Alberta generates very large volumes of oil sands process-affected water (OSPW), a complex industrial wastewater containing inorganic clays and suspended solids, residua... |
biorxiv | 10.64898/2026.06.02.729646 | 10.64898/2026.06.02.729646 | 1 | Site-specialization of human oral Porphyromonas species | [
"Torres-Morales, J.",
"Dewhirst, F.",
"Kauffman, K. M.",
"Mark Welch, J.",
"Borisy, G."
] | CC-BY-4.0 | https://www.biorxiv.org/content/10.64898/2026.06.02.729646v1 | 2026-06-03T00:00:00 | [
{
"type": "heading",
"level": 1,
"text": "Introduction"
},
{
"type": "para",
"text": "The human oral microbiome is spatially organized across anatomical and physico-chemically distinct habitats–teeth, tongue, gingival sulcus, and mucosal surfaces–each imposing selective pressures that contri... |
biorxiv | 10.64898/2026.06.02.729632 | 10.64898/2026.06.02.729632 | 1 | The ASD Risk Gene D5Ertd579e Regulates Synaptic Plasticity and Selective Autism-Related Behaviors | [
"Stankovic, I.",
"Lituma, P. J.",
"Onur, E. M.",
"Nguyen, M.",
"Rasool, D.",
"Colak, D."
] | CC-BY-4.0 | https://www.biorxiv.org/content/10.64898/2026.06.02.729632v1 | 2026-06-03T00:00:00 | [
{
"type": "heading",
"level": 1,
"text": "Introduction"
},
{
"type": "para",
"text": "Autism spectrum disorder (ASD) is a heterogeneous neurodevelopmental condition characterized by alterations in social communication, restricted or repetitive behaviors, and atypical sensory processing. Affe... |
biorxiv | 10.64898/2026.06.02.729623 | 10.64898/2026.06.02.729623 | 2 | Short-Term Developmental Trajectories of Dorsal-Ventral Pathways and Their Relationships with First-Grade Learning | [
"Ren, X.",
"Booth, J. R.",
"Amorosino, G.",
"Pestilli, F.",
"Vinci-Booher, S."
] | CC-BY-4.0 | https://www.biorxiv.org/content/10.64898/2026.06.02.729623v2 | 2026-06-03T00:00:00 | [
{
"type": "heading",
"level": 1,
"text": "Introduction"
},
{
"type": "para",
"text": "The first year of formal schooling is a critical year when children learn basic reading and math skills that set the foundation for learning in later years ( Ehri, 2005 ; Geary, 2011 ). Individual differenc... |
biorxiv | 10.64898/2026.06.02.729570 | 10.64898/2026.06.02.729570 | 1 | Dual-Chassis Strategy for Bridging Adaptive Evolution and Rational Design for Synthetic Biology | [
"Kurnia, K.",
"Gifford, I.",
"Santala, V.",
"Barrick, J. E.",
"Santala, S."
] | CC-BY-4.0 | https://www.biorxiv.org/content/10.64898/2026.06.02.729570v1 | 2026-06-03T00:00:00 | [
{
"type": "heading",
"level": 1,
"text": "INTRODUCTION"
},
{
"type": "para",
"text": "In synthetic biology, genome streamlining followed by refactoring of natural pathways offers powerful strategies for developing more controllable cellular platforms, both for fundamental research and biotec... |
biorxiv | 10.64898/2026.06.02.729543 | 10.64898/2026.06.02.729543 | 2 | Constraining pesticide resistance using evolution-informed selection regimes | [
"Li, L. Q.",
"Madgwick, P.",
"Kanitz, R.",
"Flemming, A.",
"King, K.",
"Woollard, A."
] | CC-BY-4.0 | https://www.biorxiv.org/content/10.64898/2026.06.02.729543v2 | 2026-06-03T00:00:00 | [
{
"type": "heading",
"level": 1,
"text": "Introduction"
},
{
"type": "para",
"text": "The evolution of pesticide resistance in pest populations, particularly insects, threatens global food security and the control of vector-borne diseases. Resistance has been documented in over 600 species 1... |
biorxiv | 10.64898/2026.06.02.729485 | 10.64898/2026.06.02.729485 | 1 | Pseudomonas aeruginosa CRISPR-Cas primes a minimal proline-codon toxin to abort anti-CRISPR phages | [
"Wang, R.",
"Liu, C.",
"Li, P.",
"Xu, J.",
"Liang, G.",
"Wu, Y.",
"Jiang, X.",
"Zhao, R.",
"Pinilla-Redondo, R.",
"Le, S.",
"luan, g.",
"Li, M."
] | CC-BY-4.0 | https://www.biorxiv.org/content/10.64898/2026.06.02.729485v1 | 2026-06-03T00:00:00 | [
{
"type": "heading",
"level": 1,
"text": "INTRODUCTION"
},
{
"type": "para",
"text": "Pseudomonas aeruginosa is a Gram-negative opportunistic pathogen that frequently causes fatal infections in immunocompromised patients, including those suffering from cystic fibrosis, extensive burns, malig... |
biorxiv | 10.64898/2026.06.02.729441 | 10.64898/2026.06.02.729441 | 1 | Spontaneous and stimulus-driven arousal produce distinct acetylcholine dynamics across sensory and prefrontal cortex | [
"Chambers, A. R.",
"Kimchi, E. Y.",
"Watanabe, Y.",
"Chakoma, T.",
"Polley, D. B."
] | CC-BY-4.0 | https://www.biorxiv.org/content/10.64898/2026.06.02.729441v1 | 2026-06-03T00:00:00 | [
{
"type": "heading",
"level": 1,
"text": "Introduction"
},
{
"type": "para",
"text": "Neural recordings from awake, behaving animals have revealed that cortical responses are dominated by widespread, low-dimensional signals associated with brain and behavioral state 8 , 9 . Recent studies su... |
biorxiv | 10.64898/2026.06.01.729471 | 10.64898/2026.06.01.729471 | 1 | Breeding pig transport drives the dispersal of swine influenza A virus across Europe | [
"Meester, M.",
"Vrancken, B.",
"Gambaro, F.",
"Dellicour, S."
] | CC-BY-4.0 | https://www.biorxiv.org/content/10.64898/2026.06.01.729471v1 | 2026-06-03T00:00:00 | [
{
"type": "heading",
"level": 1,
"text": "Introduction"
},
{
"type": "para",
"text": "Influenza A viruses (IAVs) are the most frequent cause of global pandemics in human history ( 1 , 2 ). They are major respiratory pathogens in humans and many other animal species ( 3 ). IAVs transmissible ... |
biorxiv | 10.64898/2026.06.01.729427 | 10.64898/2026.06.01.729427 | 1 | Spatiotemporal Decoding of Explore-Exploit Decisions in the Human Brain | [
"Yadav, R.",
"Romero, J. D.",
"Stephen, J. M.",
"Houck, J. M.",
"Cavanagh, J. F.",
"Costa, V. D.",
"Hogeveen, J."
] | CC-BY-4.0 | https://www.biorxiv.org/content/10.64898/2026.06.01.729427v1 | 2026-06-03T00:00:00 | [
{
"type": "heading",
"level": 1,
"text": "INTRODUCTION"
},
{
"type": "para",
"text": "Adaptive decision-making requires an optimal balance between exploiting familiar rewards and exploring novel opportunities. Managing these explore-exploit tradeoffs requires the brain to compute and weigh t... |
biorxiv | 10.64898/2026.06.01.729349 | 10.64898/2026.06.01.729349 | 1 | Independent evolutionary trajectories of genomic repeats and non-repeat genome features in Actinomycetota | [
"Gobattini, C.",
"Ammisetty, U. K.",
"Konkala, B. R.",
"Ajay, A."
] | CC-BY-4.0 | https://www.biorxiv.org/content/10.64898/2026.06.01.729349v1 | 2026-06-03T00:00:00 | [
{
"type": "heading",
"level": 1,
"text": "Introduction"
},
{
"type": "para",
"text": "Genomic repeats are ubiquitous across the tree of life and exert far–reaching influences on genome architecture, including elevated local mutation rates (Byzmek et al., 2001; Chen et al, 2009 ; Lenz et al.,... |
biorxiv | 10.64898/2026.06.01.729022 | 10.64898/2026.06.01.729022 | 1 | A Real-Time Automated Deep Learning Workflow for Non-invasive High-Magnification Imaging of C. elegans | [
"Safaeian, P.",
"Mahbub, T. B.",
"Tahrin, R.",
"Tanha, M.",
"Pellegrino, M.",
"Sohrabi, S."
] | CC-BY-4.0 | https://www.biorxiv.org/content/10.64898/2026.06.01.729022v1 | 2026-06-04T00:00:00 | [
{
"type": "heading",
"level": 1,
"text": "Introduction"
},
{
"type": "para",
"text": "C. elegans is a widely used model organism for studying development, metabolism, neurobiology, reproduction, and aging [ 1 ]. This model is especially useful for aging research because of its short lifespan... |
biorxiv | 10.64898/2026.06.03.729796 | 10.64898/2026.06.03.729796 | 1 | Discovery of ARQ-501 as a potent PafA inhibitor that elevates KatG levels to potentiate isoniazid in mycobacteria | [
"Li, C.",
"Huang, B.",
"Xiong, H.",
"Yan, Q.",
"Liu, Y.",
"Fang, C.",
"Luo, Y.",
"Xu, P.",
"Luo, T.",
"Sun, Q."
] | CC-BY-4.0 | https://www.biorxiv.org/content/10.64898/2026.06.03.729796v1 | 2026-06-03T00:00:00 | [
{
"type": "heading",
"level": 1,
"text": "Introduction"
},
{
"type": "para",
"text": "Tuberculosis (TB) remains the world’s leading infectious cause of death, with drug resistance posing a critical threat to global health. 1 Isoniazid (INH) is a cornerstone of first-line TB therapy, but resi... |
biorxiv | 10.64898/2026.06.02.729712 | 10.64898/2026.06.02.729712 | 1 | Data-Efficient Exploration of Enzyme Function Using Family-Specific Machine Learning | [
"Ahmed, F. H.",
"Bender, A.",
"Wijesinghe, A.",
"Zhu, A.",
"Zhang, L.",
"Gebbie, L.",
"Marsh, A.",
"Ishitate, C.",
"Holdsworth, W.",
"Jones, C.",
"Warden, A. C.",
"Power, H.",
"Ong, C. S.",
"Steinberg, D. M.",
"Speight, R. E."
] | CC-BY-4.0 | https://www.biorxiv.org/content/10.64898/2026.06.02.729712v1 | 2026-06-03T00:00:00 | [
{
"type": "heading",
"level": 1,
"text": "Introduction"
},
{
"type": "para",
"text": "Machine learning (ML) and artificial intelligence (AI) are increasingly shaping modern protein engineering workflows by enabling computational prioritisation of enzyme sequences for experimental testing. Th... |
biorxiv | 10.64898/2026.06.01.729317 | 10.64898/2026.06.01.729317 | 1 | The hypercubic Mk model in reduced state space for the coupled, reversible coevolution of multiple binary characters | [
"Johnston, I.",
"Diaz-Uriarte, R.",
"Boyko, J."
] | CC-BY-4.0 | https://www.biorxiv.org/content/10.64898/2026.06.01.729317v1 | 2026-06-03T00:00:00 | [
{
"type": "heading",
"level": 1,
"text": "Introduction"
},
{
"type": "para",
"text": "Many important processes in biology and disease involve systems acquiring (and losing) features over time. Learning about the dynamics by which these systems evolve can inform our basic scientific understan... |
biorxiv | 10.64898/2026.06.01.729302 | 10.64898/2026.06.01.729302 | 1 | Evolution of supernumerary chromosomes in wheat blast fungal pathogens | [
"Cruppe, G.",
"Bika, R.",
"Lin, G.",
"Calderon, L.",
"Montano, J. A. C.",
"Suetler, T.",
"Stack, J.",
"Koo, D.-H.",
"Asuke, S.",
"Tosa, Y.",
"Farman, M.",
"Cook, D.",
"Valent, B.",
"Liu, S."
] | CC-BY-4.0 | https://www.biorxiv.org/content/10.64898/2026.06.01.729302v1 | 2026-06-03T00:00:00 | [
{
"type": "heading",
"level": 1,
"text": "Introduction"
},
{
"type": "para",
"text": "The Ascomycetous fungus Pyricularia oryzae (synonymous with Magnaporthe oryzae ) is the causal agent of blast diseases affecting over 50 grass species, although the fungus occurs as host genus-adapted linea... |
biorxiv | 10.64898/2026.06.01.729294 | 10.64898/2026.06.01.729294 | 1 | Genetic Information Processing Complexity as a Determinant of Virus Diversity | [
"Pietrokovski, S.",
"Shaul, Y."
] | CC-BY-4.0 | https://www.biorxiv.org/content/10.64898/2026.06.01.729294v1 | 2026-06-03T00:00:00 | [
{
"type": "heading",
"level": 1,
"text": "Introduction"
},
{
"type": "para",
"text": "Viruses are classified into taxonomic realms by their fundamental replication strategies (e.g., RNA vs. DNA genomes, reverse transcription). Further sub-classifications into kingdoms, phyla, and orders, is ... |
biorxiv | 10.64898/2026.06.01.729223 | 10.64898/2026.06.01.729223 | 1 | Development and validation of a genome-informed multiplex PCR for specific detection of typhoidal Salmonella serovars | [
"Jacob, J. J.",
"Thilagan, P.",
"Sathya Narayanan, P.",
"Santhosh, K.",
"Subbulakshmi, R.",
"Velmurugan, A.",
"Teekaraman, M. P.",
"Ponnusamy, N.",
"Neeravi, A. R.",
"John, J.",
"Walia, K.",
"Veeraraghavan, B."
] | CC-BY-4.0 | https://www.biorxiv.org/content/10.64898/2026.06.01.729223v1 | 2026-06-03T00:00:00 | [
{
"type": "heading",
"level": 1,
"text": "Introduction"
},
{
"type": "para",
"text": "Enteric fever, primarily caused by Salmonella enterica serovars Typhi, S . Paratyphi A and, to a lesser extent, by serovars S . Paratyphi B, and C, continues to pose a substantial public health challenge, p... |
biorxiv | 10.64898/2026.06.01.729203 | 10.64898/2026.06.01.729203 | 1 | Cytolethal distending toxin promotes epithelial-to-mesenchymal transition by modulating AKT-Dependent β-catenin Ser552 phosphorylation | [
"JIA, R.",
"Azzi-Martin, L.",
"Saraiva, M.",
"Sifre, E.",
"Varon, C.",
"Dubus, P.",
"Menard, A."
] | CC-BY-4.0 | https://www.biorxiv.org/content/10.64898/2026.06.01.729203v1 | 2026-06-03T00:00:00 | [
{
"type": "heading",
"level": 1,
"text": "Introduction"
},
{
"type": "para",
"text": "Certain bacteria that produce colibactin and cytolethal distending toxin (CDT) are associated with several cancers, particularly colorectal cancer (CRC). By damaging host DNA, these toxins induce genomic in... |
biorxiv | 10.64898/2026.06.01.729202 | 10.64898/2026.06.01.729202 | 1 | Cellular nucleic acid-binding protein (CNBP) dependent cytokine programming shapes host defense against Plasmodium infection | [
"Rashid, R.",
"de Souza Silva, L.",
"Banday, S.",
"Caffrey, D. R.",
"Kurt-Jones, E.",
"Fitzgerald, K. A.",
"Golenbock, D. T."
] | CC-BY-4.0 | https://www.biorxiv.org/content/10.64898/2026.06.01.729202v1 | 2026-06-03T00:00:00 | [
{
"type": "heading",
"level": 1,
"text": "Introduction"
},
{
"type": "para",
"text": "Plasmodium spp ., the causative agents of malaria, remain a major global health threat, responsible for over 610, 000 deaths in 2024 alone. Young children in sub-Saharan Africa carry the heaviest burden [ 1... |
biorxiv | 10.64898/2026.06.01.729200 | 10.64898/2026.06.01.729200 | 1 | Optimized MALDI-TOF mass spectrometry enables reliable identification of freshwater snails from schistosomiasis-endemic areas in Mauritania | [
"Nekatt, L. M.",
"Almeras, L.",
"Moukah, O. M.",
"Diarra, A. Z.",
"Ould Mohamed Salem Boukhary, A.",
"Ranque, S."
] | CC-BY-4.0 | https://www.biorxiv.org/content/10.64898/2026.06.01.729200v1 | 2026-06-03T00:00:00 | [
{
"type": "heading",
"level": 1,
"text": "Introduction"
},
{
"type": "para",
"text": "Accurate identification of freshwater snail species and associated pathogens is essential for designing effective schistosomiasis control program ( Gryseels et al ., 2006 ; Abe et al ., 2018 ). For decades,... |
biorxiv | 10.64898/2026.06.01.729197 | 10.64898/2026.06.01.729197 | 1 | ATG7 function promotes pancreatic cancer progression independently of autophagy | [
"Larat, C.",
"Lopez Garcia de Lomana, A.",
"Hjaltalin, V.",
"Ogmundsdottir, M. H."
] | CC-BY-4.0 | https://www.biorxiv.org/content/10.64898/2026.06.01.729197v1 | 2026-06-03T00:00:00 | [
{
"type": "heading",
"level": 1,
"text": "INTRODUCTION"
},
{
"type": "para",
"text": "Macro autophagy, hereafter referred to as autophagy, is a cellular degradation process that recycles damaged organelles and other intracellular components to maintain cellular homeostasis [ 1 ], [ 2 ]. Auto... |
biorxiv | 10.64898/2026.06.01.729196 | 10.64898/2026.06.01.729196 | 1 | From eye anatomy to navigation: a biologically accurate model of bees polarisation vision | [
"Kolyfetis, G.",
"Gkanias, E.",
"Aliyam Veetil Zynudheen, A. A.",
"Jie, V. W.",
"Galizia, C. G.",
"Baird, E.",
"Webb, B.",
"Foster, J."
] | CC-BY-4.0 | https://www.biorxiv.org/content/10.64898/2026.06.01.729196v1 | 2026-06-03T00:00:00 | [
{
"type": "heading",
"level": 1,
"text": "Introduction"
},
{
"type": "para",
"text": "The ability to direct behaviour and navigate in a changing visual environment is crucial for the survival and fitness of many insect species. The sun serves as one reliable navigational cue and many insect ... |
biorxiv | 10.64898/2026.06.01.729194 | 10.64898/2026.06.01.729194 | 1 | Loss of tissue specificity and recurrent pan-cancer activation define a conserved oncogenic microRNA class | [
"Poptsova, M.",
"Ismailov, A.",
"Belogurov, A.",
"Evpak, A."
] | CC-BY-4.0 | https://www.biorxiv.org/content/10.64898/2026.06.01.729194v1 | 2026-06-03T00:00:00 | [
{
"type": "heading",
"level": 1,
"text": "Introduction"
},
{
"type": "para",
"text": "MicroRNAs (miRNAs) are small non-coding RNAs that act as key post-transcriptional regulators of gene expression and play essential roles in the maintenance of cellular identity, differentiation, and tissue ... |
biorxiv | 10.64898/2026.06.01.729192 | 10.64898/2026.06.01.729192 | 1 | Reachability-Preserving Minimum Edge Cut Problem and Applications in Biology | [
"Xie, J.",
"Duan, Q."
] | CC-BY-4.0 | https://www.biorxiv.org/content/10.64898/2026.06.01.729192v1 | 2026-06-03T00:00:00 | [
{
"type": "heading",
"level": 1,
"text": "Introduction"
},
{
"type": "para",
"text": "Minimum cut is one of the central problems in graph algorithms. Given two terminals, a classical cut problem asks for a minimum-cost set of edges whose deletion separates them, and the standard max-flow/min... |
biorxiv | 10.64898/2026.06.01.729190 | 10.64898/2026.06.01.729190 | 1 | Phosphorylation-dependent regulation of Hsp70 chaperones stimulates client recruitment | [
"Chen, Y.",
"Wang, Y.-Y.",
"Yew, Y.-L.",
"Chang, Y.-T.",
"Liu, T.-Y.",
"Teng, S.-C."
] | CC-BY-4.0 | https://www.biorxiv.org/content/10.64898/2026.06.01.729190v1 | 2026-06-03T00:00:00 | [
{
"type": "heading",
"level": 1,
"text": "Introduction"
},
{
"type": "para",
"text": "Protein homeostasis is essential for cellular function and survival. Under environmental stress conditions, including DNA damage, oxidative stress, and heat shock, the cellular protein-folding environment b... |
biorxiv | 10.64898/2026.06.01.729188 | 10.64898/2026.06.01.729188 | 1 | Distance Mapping and Variable-Specific Geometry of Goal-Relevant Frames in the Retrosplenial Cortex | [
"Chen, Y.",
"Wei, X.",
"Tang, L.",
"Xu, H."
] | CC0-1.0 | https://www.biorxiv.org/content/10.64898/2026.06.01.729188v1 | 2026-06-03T00:00:00 | [
{
"type": "heading",
"level": 1,
"text": "Introduction"
},
{
"type": "para",
"text": "Effective navigation relies on the continuous updating and maintenance of an accurate representation of the individual’s position relative to the goal. This process requires the integration of spatial varia... |
biorxiv | 10.64898/2026.06.01.729178 | 10.64898/2026.06.01.729178 | 1 | Generating E. coli 0.5 controlled by a half-sized genome | [
"Mukai, T.",
"Ohishi, A.",
"Hagiuda, E.",
"Shimamoto, K.",
"Yoshida, K.",
"Su'etsugu, M."
] | CC-BY-4.0 | https://www.biorxiv.org/content/10.64898/2026.06.01.729178v1 | 2026-06-03T00:00:00 | [
{
"type": "heading",
"level": 1,
"text": "Introduction"
},
{
"type": "para",
"text": "In the era of generative biology, synthetic genomes will be designed by genome-generative AI ( 1 – 5 ) and transformed into physical genomes via genome printing. However, there is a chicken and egg situatio... |
biorxiv | 10.64898/2026.06.01.729164 | 10.64898/2026.06.01.729164 | 1 | ROTS 2.0: A reproducibility-driven framework for robust statistical modeling across diverse high-throughput omics study designs | [
"Suomi, T.",
"Kettunen, J.",
"Pusa, T.",
"Elo, L. L."
] | CC-BY-4.0 | https://www.biorxiv.org/content/10.64898/2026.06.01.729164v1 | 2026-06-03T00:00:00 | [
{
"type": "heading",
"level": 1,
"text": "Introduction"
},
{
"type": "para",
"text": "Differential expression analysis is a fundamental tool in omics research, enabling for instance the identification of potential biomarkers, disease mechanisms, and regulatory pathways by comparing molecular... |
biorxiv | 10.64898/2026.06.01.728777 | 10.64898/2026.06.01.728777 | 1 | Divergent evolution of the PRPS enzymes across the tree of life | [
"Karki, B. R.",
"Meller, J.",
"Cunningham, J. T."
] | CC-BY-4.0 | https://www.biorxiv.org/content/10.64898/2026.06.01.728777v1 | 2026-06-03T00:00:00 | [
{
"type": "heading",
"level": 1,
"text": "INTRODUCTION"
},
{
"type": "para",
"text": "The phosphoribosyl pyrophosphate synthetase enzyme (PRPS) is the emanation point for multiple biochemical pathways that are universally conserved and predate the last universal common ancestor (LUCA) 1 – 3 ... |
biorxiv | 10.64898/2026.06.01.726307 | 10.64898/2026.06.01.726307 | 1 | A red-emitting, genetically encoded indicator for two-photon voltage recording in vivo | [
"Yang, S.",
"McDonald, A. J.",
"Lu, X.",
"Villette, V.",
"Hakam, N.",
"Galdamez, M.",
"Torne-Srivastava, T.",
"Foran, G.",
"Dong, X.",
"Shorey, M.",
"Bavili, N.",
"Lai, S.",
"Liu, Z.",
"Liu, H.",
"Maslianitsyna, T.",
"Fournel, R.",
"Ronzitti, E.",
"Zhu, J.",
"Natan, R. G.",
"Br... | CC-BY-4.0 | https://www.biorxiv.org/content/10.64898/2026.06.01.726307v1 | 2026-06-03T00:00:00 | [
{
"type": "heading",
"level": 1,
"text": "Introduction"
},
{
"type": "para",
"text": "Genetically encoded voltage indicators (GEVIs) are transforming neuroscience by enabling minimally invasive, cell-type-specific optical recordings of membrane-potential dynamics with high temporal fidelity ... |
biorxiv | 10.64898/2026.06.01.725017 | 10.64898/2026.06.01.725017 | 1 | Single-nucleoid imaging in whole cells defines the dynamics of the mtDNA life cycle | [
"Wolf, D. M.",
"Mjeku, E.",
"Segawa, M.",
"Casey, A. M.",
"Belaadi, N.",
"Franklin, R.",
"Murphy, M. P.",
"Prudent, J.",
"Jones, N. S.",
"Chinnery, P. F."
] | CC-BY-4.0 | https://www.biorxiv.org/content/10.64898/2026.06.01.725017v1 | 2026-06-03T00:00:00 | [
{
"type": "heading",
"level": 1,
"text": "Main"
},
{
"type": "para",
"text": "Mitochondria are essential for producing adenosine triphosphate (ATP) through oxidative phosphorylation (OXPHOS) 1 , 2 . Maintaining a functional respiratory chain requires the coordination of the cell’s dual genom... |
biorxiv | 10.64898/2026.05.31.729167 | 10.64898/2026.05.31.729167 | 1 | Integrative genomics reveals shared and stress-specific adaptive pathways underlying acidic soil-associated metal toxicity in rice | [
"Jaiswal, S.",
"Kumari, A.",
"Singh, B. K.",
"Kumar, K.",
"Kumar, S.",
"Kumar, S.",
"Kaur, S.",
"Prakash, N. R.",
"Baiswar, P.",
"Bharati, A.",
"Talukdar, M.",
"Behera, S."
] | CC-BY-4.0 | https://www.biorxiv.org/content/10.64898/2026.05.31.729167v1 | 2026-06-03T00:00:00 | [
{
"type": "heading",
"level": 1,
"text": "Introduction"
},
{
"type": "para",
"text": "Rice ( Oryza sativa L.) is a staple food for the majority of the global population, contributing over 20% of daily caloric intake worldwide ( Chu & Yu, 2020 ). Its production must increase by approximately ... |
biorxiv | 10.64898/2026.05.31.729150 | 10.64898/2026.05.31.729150 | 2 | Molecular mechanisms underlying the prepupal-instar-forming metamorphosis in black soldier fly (Hermetia illucens) | [
"Zhang, L.",
"Shimoda, M.",
"Minakuchi, C."
] | CC-BY-4.0 | https://www.biorxiv.org/content/10.64898/2026.05.31.729150v2 | 2026-06-03T00:00:00 | [
{
"type": "heading",
"level": 1,
"text": "Introduction"
},
{
"type": "para",
"text": "Insects are the most diverse group of animals, representing over half of all described species on Earth ( Belles, 2020 ). The evolutionary success of insects is closely linked to the key innovations of wing... |
biorxiv | 10.64898/2026.05.31.729134 | 10.64898/2026.05.31.729134 | 1 | Modelling habitat suitability for multiple priority weed species to predict invasion hotspots for strategic management in complex landscapes | [
"Pike, K. N.",
"Yang, W.-H.",
"Gooden, B.",
"O'Loughlin, L.",
"Milner, R.",
"Howland, B.",
"Taylor, S.",
"Froese, J."
] | CC-BY-4.0 | https://www.biorxiv.org/content/10.64898/2026.05.31.729134v1 | 2026-06-03T00:00:00 | [
{
"type": "heading",
"level": 1,
"text": "Introduction"
},
{
"type": "para",
"text": "Invasive alien plants (hereafter referred to as ‘weeds’) are a major threat to biodiversity, ecosystem health and agricultural productivity worldwide ( Vilà et al. 2011 ; Pyšek et al. 2012 ; IPBES 2019 , 20... |
biorxiv | 10.64898/2026.05.31.729124 | 10.64898/2026.05.31.729124 | 2 | Bracket Coding: The Optimal Balance Between Temporal Integration and Segregation in Early Visual Processing | [
"Samiei, T.",
"Ahmed, H. F.",
"Zagha, E.",
"Nozari, E."
] | CC-BY-4.0 | https://www.biorxiv.org/content/10.64898/2026.05.31.729124v2 | 2026-06-03T00:00:00 | [
{
"type": "heading",
"level": 1,
"text": "Introduction"
},
{
"type": "para",
"text": "Understanding how the brain encodes information in patterns of neural activity is one of the central questions of neuroscience. Across sensory, motor, and cognitive systems, neurons transform external input... |
biorxiv | 10.64898/2026.05.31.729085 | 10.64898/2026.05.31.729085 | 1 | The structural basis for LRRK2's activation and autoinhibition | [
"Villagran Suarez, A.",
"Hatch, K. S.",
"Bodrug, T.",
"Gai, W.",
"Surridge, K. J.",
"Moussikhina, E.",
"Nguyen, K. H.",
"Sanz-Murillo, M.",
"Callahan, R.",
"Xiong, E.",
"Ramos, D.",
"Zhu, L.",
"Dederer, V.",
"Mathea, S.",
"Iwasa, J. H.",
"Knapp, S.",
"Shokat, K.",
"Reck-Peterson, S... | CC-BY-4.0 | https://www.biorxiv.org/content/10.64898/2026.05.31.729085v1 | 2026-06-03T00:00:00 | [
{
"type": "heading",
"level": 1,
"text": "INTRODUCTION"
},
{
"type": "para",
"text": "Mutations in Leucine Rich Repeat Kinase 2 (LRRK2) are one of the main causes of familial Parkinson’s Disease (PD) 1 . LRRK2 phosphorylates a subset of Rab GTPases associated with membrane vesicles, includin... |
biorxiv | 10.64898/2026.05.31.729078 | 10.64898/2026.05.31.729078 | 1 | Revisiting resonance-excitation collision-induced dissociation for data-independent acquisition | [
"Hsu, C.",
"Heil, L. R.",
"Wen, B.",
"McAlister, G. C.",
"Merrihew, G. E. E.",
"Remes, P.",
"Plubell, D. L.",
"Melani, R. D.",
"Zabrouskov, V.",
"MacCoss, M. J."
] | CC-BY-4.0 | https://www.biorxiv.org/content/10.64898/2026.05.31.729078v1 | 2026-06-03T00:00:00 | [
{
"type": "heading",
"level": 1,
"text": "Introduction"
},
{
"type": "para",
"text": "Tandem mass spectrometry (MS/MS) has been the foundation of bottom-up proteomics for over three decades. 1 Early peptide sequencing was performed on tandem-in-space instruments, initially four-sector magnet... |
biorxiv | 10.64898/2026.05.31.729061 | 10.64898/2026.05.31.729061 | 1 | OLT1177 (Dapansutrile) inhibits Gasdermin D-dependent IL-1β Release and Pyroptotic Cell Death in Bone Marrow-derived Macrophages | [
"Pankratz, K. A.",
"Raza, M.",
"Ypil, J.",
"Banks, M.",
"Marchetti, C.",
"Azam, T.",
"Dinarello, C. A.",
"Atif, S. M."
] | CC-BY-4.0 | https://www.biorxiv.org/content/10.64898/2026.05.31.729061v1 | 2026-06-03T00:00:00 | [
{
"type": "heading",
"level": 1,
"text": "Introduction"
},
{
"type": "para",
"text": "Several inflammatory conditions are mediated, in part, by interleukin-1β (IL-1β); for example, gout flares 1 , neurodegenerative diseases 2 , 3 , 4 and cancer 5 . There are two different genes termed IL-1, ... |
biorxiv | 10.64898/2026.05.31.729049 | 10.64898/2026.05.31.729049 | 1 | Horizontal gene transfer by plasmids relaxes the evolutionary constraints of its own tradeoff | [
"Kosterlitz, O.",
"Duan, E. S.",
"Abhyankar, M.",
"Kerr, B.",
"Top, E. M."
] | CC-BY-4.0 | https://www.biorxiv.org/content/10.64898/2026.05.31.729049v1 | 2026-06-03T00:00:00 | [
{
"type": "heading",
"level": 1,
"text": "Introduction"
},
{
"type": "para",
"text": "The rapid spread of adaptive traits such as antibiotic resistance across bacterial communities is driven largely by plasmids 1 , 2 . These mobile genetic elements spread via two modes of transmission: verti... |
biorxiv | 10.64898/2026.05.31.729026 | 10.64898/2026.05.31.729026 | 1 | Hypothalamic MCH neurons links tau pathology to sleep disruption | [
"Pang, K.",
"Guo, S.",
"Yang, R.",
"Kumar, A.",
"Morse, W.",
"Xu, L.",
"Liu, Q.",
"Jiang, D.",
"Zhong, P."
] | CC-BY-4.0 | https://www.biorxiv.org/content/10.64898/2026.05.31.729026v1 | 2026-06-03T00:00:00 | [
{
"type": "heading",
"level": 1,
"text": "INTRODUCTION"
},
{
"type": "para",
"text": "Sleep disturbances are among the earliest and most prevalent non-cognitive symptoms of Alzheimer’s disease (AD) ( 1 , 2 ), affecting up to two-thirds of patients and substantially contributing to disease bu... |
biorxiv | 10.64898/2026.05.31.728726 | 10.64898/2026.05.31.728726 | 1 | A high-throughput method to computationally develop candidate adverse outcome pathways in humans: a proof of concept with insecticides and Parkinson Disease | [
"Rollin, D.",
"Shen, C.",
"Groh, K. J.",
"Kosnik, M."
] | CC-BY-4.0 | https://www.biorxiv.org/content/10.64898/2026.05.31.728726v1 | 2026-06-03T00:00:00 | [
{
"type": "heading",
"level": 1,
"text": "Introduction"
},
{
"type": "para",
"text": "It is estimated that there are over 350,000 chemicals registered for use globally ( Wang et al. 2020 ), and the majority of these chemicals have not been adequately tested for their potential human health e... |
biorxiv | 10.64898/2026.05.31.728029 | 10.64898/2026.05.31.728029 | 1 | Deficiency of CD239 increases susceptibility to chronic kidney disease | [
"Kikkawa, Y.",
"Iwanami, J.",
"Hamada, K.",
"Yamada, Y.",
"Sasaki, T.",
"Tanaka, M.",
"Kanagawa, M."
] | CC-BY-4.0 | https://www.biorxiv.org/content/10.64898/2026.05.31.728029v1 | 2026-06-03T00:00:00 | [
{
"type": "heading",
"level": 1,
"text": "INTRODUCTION"
},
{
"type": "para",
"text": "The kidneys play a crucial role in homeostasis by regulating water and electrolyte balance, vitamin metabolism, and hormone production ( 1 ). Homeostatic functions are mostly accomplished by the nephron epi... |
biorxiv | 10.64898/2026.05.31.727710 | 10.64898/2026.05.31.727710 | 1 | TabularQual: A spreadsheet-based format for annotating and curating logical models in SBML-qual | [
"Li, L. X.",
"Bleker, C.",
"Soliman, S.",
"Calzone, L.",
"Hiroi, N.",
"Helikar, T.",
"Konig, M.",
"Ladeira, L.",
"Monteiro, P. T.",
"Noel, V.",
"Pastva, S.",
"Salazar, A.",
"Safranek, D.",
"Thieffry, D.",
"Tsirvouli, E.",
"Niarakis, A.",
"Gennari, J."
] | CC-BY-4.0 | https://www.biorxiv.org/content/10.64898/2026.05.31.727710v1 | 2026-06-03T00:00:00 | [
{
"type": "heading",
"level": 1,
"text": "Introduction"
},
{
"type": "para",
"text": "Computational models are essential for formalizing biological mechanisms, simulating diverse system dynamics, and generating testable hypotheses. Among these, logical models are widely used to describe qual... |
biorxiv | 10.64898/2026.05.30.729005 | 10.64898/2026.05.30.729005 | 1 | Conformational flexibility of soybean lipoxygenase is coupled to crystal solvent content in serial crystallography | [
"Wolff, A. M.",
"Paley, D. W.",
"Young, I. D.",
"Deary, A.",
"Ganapati, V.",
"Hirschman, J.",
"Horani, A.",
"Lemons, R.",
"Lisova, S.",
"McAnelly, R. L.",
"Moreland, D.",
"Mous, S. T. M.",
"Ohler, A.",
"Rodriguez, J. M.",
"Russi, S.",
"Sierra, R. G.",
"Tchon, D. M.",
"Zaragoza, J. ... | CC0-1.0 | https://www.biorxiv.org/content/10.64898/2026.05.30.729005v1 | 2026-06-03T00:00:00 | [
{
"type": "heading",
"level": 1,
"text": "Introduction"
},
{
"type": "para",
"text": "The role of solvent content in determining the behavior of protein crystals has been known for essentially as long as the field of macromolecular crystallography has existed. In order to collect the first e... |
biorxiv | 10.64898/2026.05.30.728982 | 10.64898/2026.05.30.728982 | 1 | Benzothiazole Derivatives as Dual Modulators of PGE2 and GABAergic Signaling in Skeletal Muscle | [
"Aziz, M. N.",
"Awad, K.",
"Huang, J.",
"Wang, Z.",
"Varanasi, V.",
"Brotto, M.",
"Lovely, C. J."
] | CC-BY-4.0 | https://www.biorxiv.org/content/10.64898/2026.05.30.728982v1 | 2026-06-03T00:00:00 | [
{
"type": "heading",
"level": 1,
"text": "INTRODUCTION"
},
{
"type": "para",
"text": "Gamma-Aminobutyric acid (GABA) is an amino acid neurotransmitter synthesized by glutamic acid decarboxylase enzyme via the decarboxylation of glutamate. Since 1958, GABA has been classified as a significant... |
biorxiv | 10.64898/2026.05.30.728961 | 10.64898/2026.05.30.728961 | 1 | Slow Oscillations Gate Interictal Spikes Across the Human Thalamocortical-Epileptogenic Network | [
"Alipour, M.",
"Drongelen, W. v.",
"Nordli, D. R.",
"Voss, J.",
"Lee, K.",
"Satzer, D."
] | CC-BY-4.0 | https://www.biorxiv.org/content/10.64898/2026.05.30.728961v1 | 2026-06-03T00:00:00 | [
{
"type": "heading",
"level": 1,
"text": "Introduction"
},
{
"type": "para",
"text": "The link between sleep and epilepsy has been recognized for over a century, yet the exploration of the mechanistic basis of this relationship remains incomplete 1 , 2 . One of the most consistent clinical o... |
biorxiv | 10.64898/2026.05.30.728955 | 10.64898/2026.05.30.728955 | 1 | LFCT: A Benchmark Dataset for Low-Frame-Rate Cell Tracking in Long-Term Live-Cell Microscopy | [
"Gachloo, M.",
"Biswas, T.",
"Lu, X.",
"Greene, C. M.",
"Hargett, C. K.",
"Simancik, K. R.",
"Birtwistle, M. R.",
"Iuricich, F."
] | CC-BY-4.0 | https://www.biorxiv.org/content/10.64898/2026.05.30.728955v1 | 2026-06-03T00:00:00 | [
{
"type": "heading",
"level": 1,
"text": "Background and summary"
},
{
"type": "para",
"text": "Automated tracking of individual cells in time-lapse microscopy is a fundamental step for quantitative cell biology, supporting the analysis of proliferation, lineage, migration, cell-cycle dynami... |
biorxiv | 10.64898/2026.05.30.728926 | 10.64898/2026.05.30.728926 | 1 | Probabilistic dietary exposure modeling and health risk assessment of heavy metals via the fodder-cattle-human continuum in Bangladesh | [
"Iqbal, S. M.",
"Hasan, M. R.",
"Rafiq, K.",
"Zaman, A. B.",
"Sumi, F. S.",
"Islam, M. S.",
"Hossain, M. T.",
"Rahman, A. K. M. A."
] | CC-BY-4.0 | https://www.biorxiv.org/content/10.64898/2026.05.30.728926v1 | 2026-06-03T00:00:00 | [
{
"type": "heading",
"level": 1,
"text": "Introduction"
},
{
"type": "para",
"text": "Heavy metals (HMs) are conventionally defined as metallic elements with a specific gravity exceeding 5 g/cm³ or atomic weights ranging from 63.546 to 200.590 g/mol. Even at trace concentrations these elemen... |
biorxiv | 10.64898/2026.05.28.728440 | 10.64898/2026.05.28.728440 | 1 | In vivo analysis of UNC-23 reveals residues critical for BAG2 domain function | [
"Sledz, M.",
"Ponath Sukumaran, R.",
"Szczepanska, A.",
"Turek, M."
] | CC-BY-4.0 | https://www.biorxiv.org/content/10.64898/2026.05.28.728440v1 | 2026-05-28T00:00:00 | [
{
"type": "heading",
"level": 1,
"text": "Introduction"
},
{
"type": "para",
"text": "The maintenance of muscle integrity requires coordinated regulation of cytoskeletal organization, cell–matrix attachment, and protein homeostasis 1 , 2 . In Caenorhabditis elegans , body wall muscle cells a... |
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