Alonosphere March 2023

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Proceedings of the National Academy of Sciences of the United States of America

Competing constraints shape the nonequilibrium limits of cellular decision-making.

2023-03-02

PubMed:36862689; DOI:10.1073/pnas.2211203120

Nicholas C Lammers1, Avi I Flamholz2, Hernan G Garcia1

Affiliations
  1. Biophysics Graduate Group, University of California, Berkeley, CA 904720
  2. Division of Biology and Biological Engineering, California Institute of Technology, Pasadena, CA 91125
Gene regulation, cells’ beating heart,
Predictive models, yet far apart,
Thermodynamics once paved the way,
For bacterial systems, their say,
Eukaryotic realm, a new chart.

Energy flows within the dance,
Equilibrium’s grip, we enhance,
Simple kinetic models explore,
Transmitting information, they implore,
Cellular decisions, a kinetic glance.

Energy input, gains profound,
Genes transmit faster, they astound,
Low interference, a powerful force,
Pushing sensitivity, a resource,
High interference, specificity’s rebound.

Equilibrium falters, interference’s crest,
Energy dissipation stands the test,
In large systems, its place is clear,
Noncognate interference, it does steer,
Cellular intricacies, a story to invest.

human-physiology

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Communications biology

Protection against Omicron BA.1/BA.2 severe disease 0-7 months after BNT162b2 booster.

2023-03-23

PubMed:36959496; DOI:10.1038/s42003-023-04669-6

Ofra Amir1, Yair Goldberg2, Micha Mandel3, Yinon M Bar-On4, Omri Bodenheimer5, Laurence Freedman6, Sharon Alroy-Preis5, Nachman Ash5, Amit Huppert6, Ron Milo4

AI-generated cartoon-styled profile picture of Ron Milo

Affiliations
  1. Technion – Israel Institute of Technology, Haifa, Israel
  2. Technion – Israel Institute of Technology, Haifa, Israel.
  3. The Hebrew University of Jerusalem, Jerusalem, Israel
  4. Department of Plant and Environmental Sciences, Weizmann Institute of Science, Rehovot, Israel
  5. Israel Ministry of Health, Jerusalem, Israel
  6. The Bio-statistical and Bio-mathematical Unit, The Gertner Institute for Epidemiology & Health Policy Research, Sheba Medical Center, Ramat Gan, Israel
bioRxiv

A large-scale retrospective study in metastatic breast cancer patients using circulating tumor DNA and machine learning to predict treatment outcome and progression-free survival

2023-03-03

DOI:10.1101/2023.03.03.530936

E. J. Beddowes, M. Ortega-Duran, S. Karapanagiotis, A. Martin, M. Gao, R. Masina, R. Woitek, J. Tanner, F. Tippin, J. Kane, J. Lay, A. Brouwer, S.-J. Sammut, S.-F. Chin, D. Gale, D. Tsui, S. J. Dawson, N. Rosenfeld, M. Callari, O. M. Rueda, C. Caldas

Affiliations
  1. Guys Hospital, London, UK
bioRxiv

Genome-wide screen identifies host loci that modulate M. tuberculosis fitness in immunodivergent mice

2023-03-06

DOI:10.1101/2023.03.05.528534

R. K. Meade, J. E. Long, A. Jinich, K. Y. Rhee, D. G. Ashbrook, R. W. Williams, C. M. Sassetti, C. M. Smith

AI-generated cartoon-styled profile picture of Adrian Jinich

Affiliations
  1. Duke University
Multiple sclerosis and related disorders

The consequences of switching from Gilenya® to generics for fingolimod.

2023-03-31

PubMed:37099833; DOI:10.1016/j.msard.2023.104692

Leslie Menendez1, Michael Osherov1, Zeev Nitsan2, Marwan Alkrenawi1, Anna Gelfand2, Nurit Hovel1, Shmuel Appel2, Ron Milo3

AI-generated cartoon-styled profile picture of Ron Milo

Affiliations
  1. Department of Neurology, Barzilai University Medical Center, Ashkelon, Israel
  2. Department of Neurology, Barzilai University Medical Center, Ashkelon, Israel; Faculty of Health Sciences, Ben-Gurion University of the Negev, Beer-Sheva, Israel
  3. Department of Neurology, Barzilai University Medical Center, Ashkelon, Israel; Faculty of Health Sciences, Ben-Gurion University of the Negev, Beer-Sheva, Israel.
Current biology : CB

Sex-dependent control of pheromones on social organization within groups of wild house mice.

2023-03-13

PubMed:36917976; DOI:10.1016/j.cub.2023.02.039

Noga Zilkha1, Silvia Gabriela Chuartzman1, Yizhak Sofer1, Yefim Pen1, Meghan Cum1, Avi Mayo2, Uri Alon2, Tali Kimchi3

AI-generated cartoon-styled profile picture of Uri Alon

Affiliations
  1. Department of Brain Sciences, Weizmann Institute of Science, 7610001 Rehovot, Israel
  2. Department of Molecular Cell Biology, Weizmann Institute of Science, 7610001 Rehovot, Israel
  3. Department of Brain Sciences, Weizmann Institute of Science, 7610001 Rehovot, Israel.
In mammalian societies, they find,
Dominance hierarchy’s structure aligned.
Pheromones hold sway,
In wild mice at play,
Social roles, complex and intertwined.

Behavioral phenotyping takes the lead,
Revealing insights of mice’s breed.
Male-typical, female-typical traits,
Rankings and personalities, their mates.

VNO-mediated signals at core,
Genetic disabling, effects galore.
Males interact more, friendships ignite,
Females’ interactions, take a slight.

Personality traits in mice now blurred,
Blending genders, interactions incurred.
Despite hierarchies firm and profound,
Rank-associated traits can’t be found.

Sex-specific neural circuits, we perceive,
Nature’s design, how roles they achieve.
Unraveling mysteries, an ongoing quest,
Sexual dimorphism stands the test.

In the realm of mice’s dynamic show,
Pheromones and behaviors let us know,
Understanding the social ties that bind,
In nature’s dance, they all unwind.

Experimental cell research

Microscopy-based phenotypic monitoring of MDA-MB-231 spheroids allows the evaluation of phenotype-directed therapy.

2023-03-06

PubMed:36889574; DOI:10.1016/j.yexcr.2023.113527

Loay Mahmoud1, Antony Cougnoux1, Christina Bekiari1, Paloma Araceli Ruiz de Castroviejo Teba1, Anissa El Marrahi1, Guilhem Panneau1, Louise Gsell1, Jean Hausser2

Affiliations
  1. Department of Cell and Molecular Biology, Karolinska Institutet, Biomedicum, and Science for Life Laboratory, Solna, Sweden
  2. Department of Cell and Molecular Biology, Karolinska Institutet, Biomedicum, and Science for Life Laboratory, Solna, Sweden.

plants

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Science (New York, N.Y.)

Brassinosteroid gene regulatory networks at cellular resolution in the Arabidopsis root.

2023-03-30

PubMed:36996230; DOI:10.1126/science.adf4721

Trevor M Nolan1, Nemanja Vukašinović2, Che-Wei Hsu1, Jingyuan Zhang1, Isabelle Vanhoutte2, Rachel Shahan1, Isaiah W Taylor1, Laura Greenstreet3, Matthieu Heitz3, Anton Afanassiev3, Ping Wang4, Pablo Szekely1, Aiden Brosnan1, Yanhai Yin4, Geoffrey Schiebinger3, Uwe Ohler5, Eugenia Russinova2, Philip N Benfey1

Affiliations
  1. Department of Biology, Duke University, Durham, NC, USA
  2. Department of Plant Biotechnology and Bioinformatics, Ghent University, Ghent, Belgium
  3. Department of Mathematics, University of British Columbia, Vancouver, BC, Canada
  4. Department of Genetics, Development, and Cell Biology, Iowa State University, Ames, IA, USA
  5. Department of Biology, Humboldt Universitat zu Berlin, Berlin, Germany

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