Scientific progress as increasing verisimilitude

According to the foundationalist picture, shared by many rationalists and positivist empiricists, science makes cognitive progress by accumulating justified truths. Fallibilists, who point out that complete certainty cannot be achieved in empirical science, can still argue that even successions of false theories may progress toward the truth. This proposal was supported by Karl Popper with his notion of truthlikeness or verisimilitude. Popper’s own technical definition failed, but the idea that scientific progress means increasing truthlikeness can be expressed by defining degrees of truthlikeness in terms of similarities between states of affairs. This paper defends the verisimilitude approach against Alexander Bird who argues that the “semantic” definition (in terms of truth or truthlikeness alone) is not sufficient to define progress, but the “epistemic” definition referring to justification and knowledge is more adequate. Here Bird ignores the crucial distinction between real progress and estimated progress, explicated by the difference between absolute (and usually unknown) degrees of truthlikeness and their evidence-relative expected values. Further, it is argued that Bird’s idea of returning to the cumulative model of growth requires an implausible trick of transforming past false theories into true ones.     

Natural variation at Strubbelig Receptor Kinase 3 drives immune-triggered incompatibilities between Arabidopsis thaliana accessions

Accumulation of genetic incompatibilities within species can lead to reproductive isolation and, potentially, speciation. In this study, we show that allelic variation at SRF3 (Strubbelig Receptor Family 3), encoding a receptor-like kinase, conditions the occurrence of incompatibility between Arabidopsis thaliana accessions. The geographical distribution of SRF3 alleles reveals that allelic forms causing epistatic incompatibility with a Landsberg erecta allele at the RPP1 resistance locus are present in A. thaliana accessions in central Asia. Incompatible SRF3 alleles condition for an enhanced early immune response to pathogens as compared to the resistance-dampening effect of compatible SRF3 forms in isogenic backgrounds. Variation in disease susceptibility suggests a basis for the molecular patterns of a recent selective sweep detected at the SRF3 locus in central Asian populations.     

Abduction, tomography, and other inverse problems

Charles S. Peirce introduced in the late 19^th century the notion of abduction as inference from effects to causes, or from observational data to explanatory theories. Abductive reasoning has become a major theme in contemporary logic, philosophy of science, and artificial intelligence. This paper argues that the new growing branch of applied mathematics called inverse problems deals successfully with various kinds of abductive inference within a variety of scientific disciplines. The fundamental theorem about the inverse reconstruction of plane functions from their line integrals was proved by Johann Radon already in 1917. The practical applications of Radon’s theorem and its generalizations include computerized tomography which became a routine imaging technique of diagnostic medicine in the 1970s.     

Representation and Truthlikeness

Woosuk Park’s paper “Misrepresentation in Context” is a useful plea for a theory of representation with promising interaction between cognitive science, philosophy of science, and aesthetics. In this paper, I argue that such a unified account is provided by Charles S. Peirce’s semiotics. This theory puts Park’s criticism of Nelson Goodman and Jerry Fodor in context. Some of Park’s pertinent remarks on the problem of misrepresentation can be illuminated by the account of truthlikeness and idealization developed by philosophers of science.     

Mutant chromatin remodeling protein SMARCAL1 causes Schimke immuno-osseous dysplasia.

Schimke immuno-osseous dysplasia (SIOD, MIM 242900) is an autosomal-recessive pleiotropic disorder with the diagnostic features of spondyloepiphyseal dysplasia, renal dysfunction and T-cell immunodeficiency. Using genome-wide linkage mapping and a positional candidate approach, we determined that mutations in SMARCAL1 (SWI/SNF2-related, matrix-associated, actin-dependent regulator of chromatin, subfamily a-like 1), are responsible for SIOD. Through analysis of data from persons with SIOD in 26 unrelated families, we observed that affected individuals from 13 of 23 families with severe disease had two alleles with nonsense, frameshift or splicing mutations, whereas affected individuals from 3 of 3 families with milder disease had a missense mutation on each allele. These observations indicate that some missense mutations allow retention of partial SMARCAL1 function and thus cause milder disease.