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As a possible implementation of data storage using DNA, multiple strands of DNA are stored in a liquid container so that, in the future, they can be read by an array of DNA readers in parallel. These readers will sample the strands with replacement to produce a random number of noisy reads for each strand. An essential component of such a data storage system is how to reconstruct data out of these unsorted, repetitive, and noisy reads. It is known that if a single read can be modeled by a substitution channel $W$, then the overall capacity can be expressed by the "Poisson-ization" of $W$. In this paper, we lay down a rateless code along each strand to encode its index; we then lay down a capacity-achieving block code at the same position across all strands to protect data. That weaves a low-complexity coding scheme that achieves DNA's capacity., Comment: 18 pages, 5 figures

We construct quantum codes that support transversal $CCZ$ gates over qudits of arbitrary prime power dimension $q$ (including $q=2$) such that the code dimension and distance grow linearly in the block length. The only previously known construction with such linear dimension and distance required a growing alphabet size $q$ (Krishna & Tillich, 2019). Our codes imply protocols for magic state distillation with overhead exponent $\gamma=\log(n/k)/\log(d)\rightarrow 0$ as the block length $n\rightarrow\infty$, where $k$ and $d$ denote the code dimension and distance respectively. It was previously an open question to obtain such a protocol with a contant alphabet size $q$. We construct our codes by combining two modular components, namely, (i) a transformation from classical codes satisfying certain properties to quantum codes supporting transversal $CCZ$ gates, and (ii) a concatenation scheme for reducing the alphabet size of codes supporting transversal $CCZ$ gates. For this scheme we introduce a quantum analogue of multiplication-friendly codes, which provide a way to express multiplication over a field in terms of a subfield. We obtain our asymptotically good construction by instantiating (i) with algebraic-geometric codes, and applying a constant number of iterations of (ii). We also give an alternative construction with nearly asymptotically good parameters ($k,d=n/2^{O(\log^*n)}$) by instantiating (i) with Reed-Solomon codes and then performing a superconstant number of iterations of (ii).

We present a systematic moment expansion for solving the semiclassical Boltzmann equations for electroweak baryogenesis. The expansion is developed in powers of adiabatic coordinate velocity, and it is used for computing the CP-violating seed asymmetry at the front of the phase transition wall, that sources the eventual baryon asymmetry of the universe (BAU). We implement the method in a benchmark model, with a CP-violating mass arising from a dimension-5 operator coupling the fermion to a singlet scalar field. We find that the higher moment calculations yield a BAU that can significantly differ from the commonly used two-moment approximation. We discuss in detail the underlying approximations in the moment method and propose a new truncation scheme for the expansion, that appears to give more numerically robust results than the previous schemes., Comment: 24 pages, 8 figures

In order to communicate a message over a noisy channel, a sender (Alice) uses an error-correcting code to encode her message $x$ into a codeword. The receiver (Bob) decodes it correctly whenever there is at most a small constant fraction of adversarial error in the transmitted codeword. This work investigates the setting where Bob is computationally bounded. Specifically, Bob receives the message as a stream and must process it and write $x$ in order to a write-only tape while using low (say polylogarithmic) space. We show three basic results about this setting, which are informally as follows: (1) There is a stream decodable code of near-quadratic length. (2) There is no stream decodable code of sub-quadratic length. (3) If Bob need only compute a private linear function of the input bits, instead of writing them all to the output tape, there is a stream decodable code of near-linear length.

To ensure differential privacy, one can reveal an integer fuzzily in two ways: (a) add some Laplace noise to the integer, or (b) encode the integer as a binary string and add iid BSC noise. The former is simple and natural while the latter is flexible and affordable, especially when one wants to reveal a sparse vector of integers. In this paper, we propose an implementation of (b) that achieves the capacity of the BSC with positive error exponents. Our implementation adds error-correcting functionality to Gray codes by mimicking how software updates back up the files that are getting updated ("coded Gray code"). In contrast, the old implementation of (b) interpolates between codewords of a black-box error-correcting code ("Grayed code")., Comment: 10 pages, 3 figures

The problem of efficiently coloring $3$-colorable graphs with few colors has received much attention on both the algorithmic and inapproximability fronts. We consider exponential time approximations, in which given a parameter $r$, we aim to develop an $r$-approximation algorithm with the best possible runtime, providing a tradeoff between runtime and approximation ratio. In this vein, an algorithm to $O(n^\varepsilon)$-color a 3-colorable graphs in time $2^{\Theta(n^{1-2\varepsilon}\log(n))}$ is given in (Atserias and Dalmau, SODA 2022.) We build on tools developed in (Bansal et al., Algorithmic, 2019) to obtain an algorithm to color $3$-colorable graphs with $O(r)$ colors in $\exp\left(\tilde{O}\left(\frac {n\log^{11/2}r} {r^3}\right)\right)$ time, asymptotically improving upon the bound given by Atserias and Dalmau.

We study the biological evolution of low-latency natural neural networks for short-term survival, and its parallels in the development of low latency high-performance Central Processing Unit in computer design and architecture. The necessity of accurate high-quality display of motion picture led to the special processing units known as the GPU, just as how special visual cortex regions of animals produced such low-latency computational capacity. The human brain, especially considered as nothing but a scaled-up version of a primate brain evolved in response to genomic bottleneck, producing a brain that is trainable and prunable by society, and as a further extension, invents language, writing and storage of narratives displaced in time and space. We conclude that this modern digital invention of social media and the archived collective common corpus has further evolved from just simple CPU-based low-latency fast retrieval to high-throughput parallel processing of data using GPUs to train Attention based Deep Learning Neural Networks producing Generative AI with aspects like toxicity, bias, memorization, hallucination, with intriguing close parallels in humans and their society. We show how this paves the way for constructive approaches to eliminating such drawbacks from human society and its proxy and collective large-scale mirror, the Generative AI of the LLMs.

Successive cancellation list (SCL) decoders of polar codes excel in practical performance but pose challenges for theoretical analysis. Existing works either limit their scope to erasure channels or address general channels without taking advantage of soft information. In this paper, we propose the "successive cancellation sampling" (SCS) decoder. SCS hires iid "agents" to sample codewords using posterior probabilities. This makes it fully parallel and amenable for some theoretical analysis. As an example, when comparing SCS with $a$ agents to any list decoder with list size $\ell$, we can prove that the error probability of the former is at most $\ell/ae$ more than that of the latter. In this paper, we also describe how to adjust the "temperature" of agents. Warmer agents are less likely to sample the same codewords and hence can further reduce error probability., Comment: 6 pages, 4 figures, ISIT 2024

Group testing (GT) is the art of identifying binary signals and the marketplace for exchanging new ideas for related fields such as unique-element counting, compressed sensing, traitor tracing, and geno-typing. A GT scheme can be nonadaptive or adaptive; the latter is preferred when latency is ess of an issue. To construct adaptive GT schemes, a popular strategy is to spend the majority of tests in the first few rounds to gain as much information as possible, and uses later rounds to refine details. In this paper, we propose a transparent strategy called "isolate and then identify" (I@I). In the first few rounds, I@I divides the population into teams until every team contains at most one sick person. Then, in the last round, I@I identifies the sick person in each team. Performance-wise, I@I is the first GT scheme that achieves the optimal coefficient $1/$capacity$(Z)$ for the $k \log_2 (n/k)$ term in the number of tests when $Z$ is a generic channel corrupting the test outcomes. I@I follows a modular methodology whereby the isolating part and the identification part can be optimized separately., Comment: 6 pages, 1 figure, ISIT 2024

We modify Cheraghchi-Nakos [CN20] and Price-Scarlett's [PS20] fast binary splitting approach to nonadaptive group testing. We show that, to identify a uniformly random subset of $k$ infected persons among a population of $n$, it takes only $\ln(2 - 4\varepsilon) ^{-2} k \ln n$ tests and decoding complexity $O(\varepsilon^{-2} k \ln n)$, for any small $\varepsilon > 0$, with vanishing error probability. In works prior to ours, only two types of group testing schemes exist. Those that use $\ln(2)^{-2} k \ln n$ or fewer tests require linear-in-$n$ complexity, sometimes even polynomial in $n$; those that enjoy sub-$n$ complexity employ $O(k \ln n)$ tests, where the big-$O$ scalar is implicit, presumably greater than $\ln(2)^{-2}$. We almost achieve the best of both worlds, namely, the almost-$\ln(2)^{-2}$ scalar and the sub-$n$ decoding complexity. How much further one can reduce the scalar $\ln(2)^{-2}$ remains an open problem., Comment: 6 pages, 3 figures, ISIT 2023

Polar codes that approach capacity at a near-optimal speed, namely with scaling exponents close to $2$, have been shown possible for $q$-ary erasure channels (Pfister and Urbanke), the BEC (Fazeli, Hassani, Mondelli, and Vardy), all BMS channels (Guruswami, Riazanov, and Ye), and all DMCs (Wang and Duursma). There is, nevertheless, a subtlety separating the last two papers from the first two, namely the usage of multiple dynamic kernels in the polarization process, which leads to increased complexity and fewer opportunities to hardware-accelerate. This paper clarifies this subtlety, providing a trade-off between the number of kernels in the construction and the scaling exponent. We show that the number of kernels can be bounded by $O(\ell^{3/\mu-1})$ where $\mu$ is the targeted scaling exponent and $\ell$ is the kernel size. In particular, if one settles for scaling exponent approaching $3$, a single kernel suffices, and to approach the optimal scaling exponent of $2$, about $O(\sqrt{\ell})$ kernels suffice., Comment: 6 pages, 2 figures, ISIT 2023

Formulating mitigation strategies is one of the main aspect in the dynamical study of extreme events. Apart from the effective control, easy implementation of the devised tool should also be given importance. In this work, we analyze the mitigation of extreme events in a coupled FitzHugh-Nagumo (FHN) neuron model utilizing an easily implementable constant bias analogous to a constant DC stimulant. We report the route through which the extreme events gets mitigated in $Two$, $Three$ and $N-$coupled FHN systems. In all the three cases, extreme events in the observable $\bar{x}$ gets suppressed. We confirm our results with the probability distribution function of peaks, $d_{max}$ plot and probability plots. Here $d_{max}$ is a measure of number of standard deviations that crosses the average amplitude corresponding to $\bar{x}_{max}$. Interestingly, we found that constant bias suppresses the extreme events without changing the collective frequency of the system., Comment: 19 pages, 25 figures

Biomedical data is growing exponentially, and managing it is increasingly challenging. While Findable, Accessible, Interoperable and Reusable (FAIR) data principles provide guidance, their adoption has proven difficult, especially in larger enterprises like pharmaceutical companies. In this manuscript, we describe how we leverage an Ontology-Based Data Management (OBDM) strategy for digital transformation in Novo Nordisk Research & Early Development. Here, we include both our technical blueprint and our approach for organizational change management. We further discuss how such an OBDM ecosystem plays a pivotal role in the organizations digital aspirations for data federation and discovery fuelled by artificial intelligence. Our aim for this paper is to share the lessons learned in order to foster dialogue with parties navigating similar waters while collectively advancing the efforts in the fields of data management, semantics and data driven drug discovery., Comment: 14 pages, 2 figures

We consider the task of certifying that a random $d$-dimensional subspace $X$ in $\mathbb{R}^n$ is well-spread - every vector $x \in X$ satisfies $c\sqrt{n} \|x\|_2 \leq \|x\|_1 \leq \sqrt{n}\|x\|_2$. In a seminal work, Barak et. al. showed a polynomial-time certification algorithm when $d \leq O(\sqrt{n})$. On the other hand, when $d \gg \sqrt{n}$, the certification task is information-theoretically possible but there is evidence that it is computationally hard [MW21,Cd22], a phenomenon known as the information-computation gap. In this paper, we give subexponential-time certification algorithms in the $d \gg \sqrt{n}$ regime. Our algorithm runs in time $\exp(\widetilde{O}(n^{\varepsilon}))$ when $d \leq \widetilde{O}(n^{(1+\varepsilon)/2})$, establishing a smooth trade-off between runtime and the dimension. Our techniques naturally extend to the related planted problem, where the task is to recover a sparse vector planted in a random subspace. Our algorithm achieves the same runtime and dimension trade-off for this task., Comment: 32 pages, 2 Figures

In the field of remote sensing, the scarcity of stereo-matched and particularly lack of accurate ground truth data often hinders the training of deep neural networks. The use of synthetically generated images as an alternative, alleviates this problem but suffers from the problem of domain generalization. Unifying the capabilities of image-to-image translation and stereo-matching presents an effective solution to address the issue of domain generalization. Current methods involve combining two networks, an unpaired image-to-image translation network and a stereo-matching network, while jointly optimizing them. We propose an edge-aware GAN-based network that effectively tackles both tasks simultaneously. We obtain edge maps of input images from the Sobel operator and use it as an additional input to the encoder in the generator to enforce geometric consistency during translation. We additionally include a warping loss calculated from the translated images to maintain the stereo consistency. We demonstrate that our model produces qualitatively and quantitatively superior results than existing models, and its applicability extends to diverse domains, including autonomous driving., Comment: Accepted to IEEE Conference on Computer Vision and Pattern Recognition Workshop (CVPRW) EarthVision

The Parameterized Inapproximability Hypothesis (PIH), which is an analog of the PCP theorem in parameterized complexity, asserts that, there is a constant $\varepsilon> 0$ such that for any computable function $f:\mathbb{N}\to\mathbb{N}$, no $f(k)\cdot n^{O(1)}$-time algorithm can, on input a $k$-variable CSP instance with domain size $n$, find an assignment satisfying $1-\varepsilon$ fraction of the constraints. A recent work by Guruswami, Lin, Ren, Sun, and Wu (STOC'24) established PIH under the Exponential Time Hypothesis (ETH). In this work, we improve the quantitative aspects of PIH and prove (under ETH) that approximating sparse parameterized CSPs within a constant factor requires $n^{k^{1-o(1)}}$ time. This immediately implies that, assuming ETH, finding a $(k/2)$-clique in an $n$-vertex graph with a $k$-clique requires $n^{k^{1-o(1)}}$ time. We also prove almost optimal time lower bounds for approximating $k$-ExactCover and Max $k$-Coverage. Our proof follows the blueprint of the previous work to identify a "vector-structured" ETH-hard CSP whose satisfiability can be checked via an appropriate form of "parallel" PCP. Using further ideas in the reduction, we guarantee additional structures for constraints in the CSP. We then leverage this to design a parallel PCP of almost linear size based on Reed-Muller codes and derandomized low degree testing.

We prove that a binary linear code of block length $n$ that is locally correctable with $3$ queries against a fraction $\delta > 0$ of adversarial errors must have dimension at most $O_{\delta}(\log^2 n \cdot \log \log n)$. This is almost tight in view of quadratic Reed-Muller codes being a $3$-query locally correctable code (LCC) with dimension $\Theta(\log^2 n)$. Our result improves, for the binary field case, the $O_{\delta}(\log^8 n)$ bound obtained in the recent breakthrough of (Kothari and Manohar, 2023) (arXiv:2311.00558) (and the more recent improvement to $O_{\delta}(\log^4 n)$ for binary linear codes announced in (Yankovitz, 2024)). Previous bounds for $3$-query linear LCCs proceed by constructing a $2$-query locally decodable code (LDC) from the $3$-query linear LCC/LDC and applying the strong bounds known for the former. Our approach is more direct and proceeds by bounding the covering radius of the dual code, borrowing inspiration from (Iceland and Samorodnitsky, 2018) (arXiv:1802.01184). That is, we show that if $x \mapsto (v_1 \cdot x, v_2 \cdot x, \ldots, v_n \cdot x)$ is an arbitrary encoding map $\mathbb{F}_2^k \to \mathbb{F}_2^n$ for the $3$-query LCC, then all vectors in $\mathbb{F}_2^k$ can be written as a $\widetilde{O}_{\delta}(\log n)$-sparse linear combination of the $v_i$'s, which immediately implies $k \le \widetilde{O}_{\delta}((\log n)^2)$. The proof of this fact proceeds by iteratively reducing the size of any arbitrary linear combination of at least $\widetilde{\Omega}_{\delta}(\log n)$ of the $v_i$'s. We achieve this using the recent breakthrough result of (Alon, Buci\'c, Sauermann, Zakharov, and Zamir, 2023) (arXiv:2309.04460) on the existence of rainbow cycles in properly edge-colored graphs, applied to graphs capturing the linear dependencies underlying the local correction property., Comment: 17 pages; 1 figure

In recent years the framework of learning from label proportions (LLP) has been gaining importance in machine learning. In this setting, the training examples are aggregated into subsets or bags and only the average label per bag is available for learning an example-level predictor. This generalizes traditional PAC learning which is the special case of unit-sized bags. The computational learning aspects of LLP were studied in recent works (Saket, NeurIPS'21; Saket, NeurIPS'22) which showed algorithms and hardness for learning halfspaces in the LLP setting. In this work we focus on the intractability of LLP learning Boolean functions. Our first result shows that given a collection of bags of size at most $2$ which are consistent with an OR function, it is NP-hard to find a CNF of constantly many clauses which satisfies any constant-fraction of the bags. This is in contrast with the work of (Saket, NeurIPS'21) which gave a $(2/5)$-approximation for learning ORs using a halfspace. Thus, our result provides a separation between constant clause CNFs and halfspaces as hypotheses for LLP learning ORs. Next, we prove the hardness of satisfying more than $1/2 + o(1)$ fraction of such bags using a $t$-DNF (i.e. DNF where each term has $\leq t$ literals) for any constant $t$. In usual PAC learning such a hardness was known (Khot-Saket, FOCS'08) only for learning noisy ORs. We also study the learnability of parities and show that it is NP-hard to satisfy more than $(q/2^{q-1} + o(1))$-fraction of $q$-sized bags which are consistent with a parity using a parity, while a random parity based algorithm achieves a $(1/2^{q-2})$-approximation., Comment: 17 pages. Conference version of this paper appeared in FSTTCS 2023

We study the problem of robust multivariate polynomial regression: let $p\colon\mathbb{R}^n\to\mathbb{R}$ be an unknown $n$-variate polynomial of degree at most $d$ in each variable. We are given as input a set of random samples $(\mathbf{x}_i,y_i) \in [-1,1]^n \times \mathbb{R}$ that are noisy versions of $(\mathbf{x}_i,p(\mathbf{x}_i))$. More precisely, each $\mathbf{x}_i$ is sampled independently from some distribution $\chi$ on $[-1,1]^n$, and for each $i$ independently, $y_i$ is arbitrary (i.e., an outlier) with probability at most $\rho < 1/2$, and otherwise satisfies $|y_i-p(\mathbf{x}_i)|\leq\sigma$. The goal is to output a polynomial $\hat{p}$, of degree at most $d$ in each variable, within an $\ell_\infty$-distance of at most $O(\sigma)$ from $p$. Kane, Karmalkar, and Price [FOCS'17] solved this problem for $n=1$. We generalize their results to the $n$-variate setting, showing an algorithm that achieves a sample complexity of $O_n(d^n\log d)$, where the hidden constant depends on $n$, if $\chi$ is the $n$-dimensional Chebyshev distribution. The sample complexity is $O_n(d^{2n}\log d)$, if the samples are drawn from the uniform distribution instead. The approximation error is guaranteed to be at most $O(\sigma)$, and the run-time depends on $\log(1/\sigma)$. In the setting where each $\mathbf{x}_i$ and $y_i$ are known up to $N$ bits of precision, the run-time's dependence on $N$ is linear. We also show that our sample complexities are optimal in terms of $d^n$. Furthermore, we show that it is possible to have the run-time be independent of $1/\sigma$, at the cost of a higher sample complexity.

Electronic liquid crystal (ELC) phases are spontaneous symmetry breaking states believed to arise from strong electron correlation in quantum materials such as cuprates and iron pnictides. Here, we report a direct observation of ELC phases in a Dirac nodal line (DNL) semimetal GdSbxTe2-x. Electronic nanostructures consisting of incommensurate smectic charge modulation and intense local nematic order are visualized by using spectroscopic imaging - scanning tunneling microscopy. As topological materials with symmetry protected Dirac or Weyl fermions are mostly weakly correlated, the discovery of such ELC phases are anomalous and raise questions on the origin of their emergence. Specifically, we demonstrate how chemical substitution generates these symmetry breaking phases before the system undergoes a charge density wave - orthorhombic structural transition. We further show how dopants can induce nematicity via quasiparticle scattering interference. Our results highlight the importance of impurities in realizing ELC phases and present a new material platform for exploring the interplay among quenched disorder, topology and electron correlation.

We provide a birds eye view of the rapid developments in AI and Deep Learning that has led to the path-breaking emergence of AI in Large Language Models. The aim of this study is to place all these developments in a pragmatic broader historical social perspective without any exaggerations while at the same time without any pessimism that created the AI winter in the 1970s to 1990s. We also at the same time point out toxicity, bias, memorization, sycophancy, logical inconsistencies, hallucinations that exist just as a warning to the overly optimistic. We note here that just as this emergence of AI seems to occur at a threshold point in the number of neural connections or weights, it has also been observed that human brain and especially the cortex region is nothing special or extraordinary but simply a case of scaled-up version of the primate brain and that even the human intelligence seems like an emergent phenomena of scale.

Recent studies on reservoir computing essentially involve a high dimensional dynamical system as the reservoir, which transforms and stores the input as a higher dimensional state, for temporal and nontemporal data processing. We demonstrate here a method to predict temporal and nontemporal tasks by constructing virtual nodes as constituting a reservoir in reservoir computing using a nonlinear map, namely the logistic map, and a simple finite trigonometric series. We predict three nonlinear systems, namely Lorenz, Rossler, and Hindmarsh-Rose, for temporal tasks and a seventh order polynomial for nontemporal tasks with great accuracy. Also, the prediction is made in the presence of noise and found to closely agree with the target. Remarkably, the logistic map performs well and predicts close to the actual or target values. The low values of the root mean square error confirm the accuracy of this method in terms of efficiency. Our approach removes the necessity of continuous dynamical systems for constructing the reservoir in reservoir computing. Moreover, the accurate prediction for the three different nonlinear systems suggests that this method can be considered a general one and can be applied to predict many systems. Finally, we show that the method also accurately anticipates the time series of the all the three variable of Rossler system for the future (self prediction)., Comment: Accepted for publication in Physical Review E