Computer Science and Engineering Department Open Access Policy Deposits

eScholarship stats: History by Item for March through June, 2026

Item	Title	Total requests	2026-06	2026-05	2026-04	2026-03
8q63m69f	Sharing and community curation of mass spectrometry data with Global Natural Products Social Molecular Networking	429	104	129	114	82
86x0713x	Fine-tuned protein language model identifies antigen-specific B cell receptors from immune repertoires	365	85	95	92	93
6tx1g53v	Integrative analysis of multimodal mass spectrometry data in MZmine 3	364	108	131	75	50
7xh2w6pw	Feature-based molecular networking in the GNPS analysis environment	354	73	103	86	92
7gs1w3pb	A chromosome conformation capture ordered sequence of the barley genome	348	92	112	89	55
08s0n0j5	Babesia duncani multi-omics identifies virulence factors and drug targets	334	94	97	89	54
23p905b3	DeepSAT: Learning Molecular Structures from Nuclear Magnetic Resonance Data	325	55	151	61	58
8606f22r	On the Correctness of Metadata-Based SBOM Generation: A Differential Analysis Approach	306	91	65	84	66
1sj3d7f5	<i>Babesia hegotelforum</i> sp. nov., a zoonotic <i>Babesia</i> species previously referred to as <i>Babesia sp</i>. <i>MO1</i>.	299	34	110	82	73
7wn084zt	A view of the pan‐genome of domesticated Cowpea (Vigna unguiculata [L.] Walp.)	298	94	110	61	33
4gb5t10z	Probabilistic Path Prioritization for Hybrid Fuzzing	286	67	93	69	57
1dr6q4x6	Validating genome-wide CRISPR-Cas9 function improves screening in the oleaginous yeast Yarrowia lipolytica	282	64	99	66	53
2hn3z2rg	Prediction of DNA Methylation With Long-Range State-Space Models	276	42	103	72	59
6hg3w5rc	DNS Exfiltration Guided by Generative Adversarial Networks	266	51	78	86	51
02z063sp	A Mid‐Density Single‐Nucleotide Polymorphism Panel for Molecular Applications in Cowpea (Vigna unguiculata (L.) Walp)	264	48	72	83	61
9d4967pm	Drug target prediction through deep learning functional representation of gene signatures	259	89	74	55	41
7b4425nr	Matrix Profile II: Exploiting a Novel Algorithm and GPUs to Break the One Hundred Million Barrier for Time Series Motifs and Joins	256	71	60	65	60
93k4j92j	On the prediction of non-CG DNA methylation using machine learning	250	56	114	54	26
0080h493	Leveraging off higher plant phylogenetic insights for antiplasmodial drug discovery	242	31	68	84	59
69w275j2	How to build better memory training games	233	32	134	37	30
8gb8n34b	Babesia BdFE1 esterase is required for the anti-parasitic activity of the ACE inhibitor fosinopril	231	41	50	69	71
5nq8r43t	Towards optimal selection of ultra-deep sequencing reads for de novo genome assembly	228	31	80	64	53
739415xm	Higher order divergence-free and curl-free interpolation on MAC grids	222	44	67	55	56
4dv456qx	Author Correction: A universal language for finding mass spectrometry data patterns	209	66	57	46	40
6qg0w6sw	SHICEDO: single-cell Hi-C data enhancement with reduced over-smoothing	209	37	73	48	51
31m0z7qf	Mustache: multi-scale detection of chromatin loops from Hi-C and Micro-C maps using scale-space representation	208	49	81	47	31
70z8g918	The Benefits and Challenges of Implementing Motivational Features to Boost Cognitive Training Outcome	206	43	60	52	51
79t6410z	Enhancing untargeted metabolomics using metadata-based source annotation	206	37	75	47	47
3tv4530n	A mini-review of single-cell Hi-C embedding methods	203	46	49	52	56
0tt974fv	GNPS Dashboard: Collaborative Analysis of Mass Spectrometry Data in the Web Browser	202	62	49	42	49
1jn5p5sf	Comprehensive assessment of 11 de novo HiFi assemblers on complex eukaryotic genomes and metagenomes	201	39	63	60	39
6nh112gz	NPClassifier: A Deep Neural Network-Based Structural Classification Tool for Natural Products	201	45	65	39	52
11z974mj	Ion identity molecular networking for mass spectrometry-based metabolomics in the GNPS environment	197	51	48	44	54
6xg1852d	High-Level Language Tools for Reconfigurable Computing	191	33	60	50	48
0282t6n7	H-PoP and H-PoPG: heuristic partitioning algorithms for single individual haplotyping of polyploids	189	23	63	55	48
3rk8854c	Open access repository-scale propagated nearest neighbor suspect spectral library for untargeted metabolomics	189	21	67	51	50
0rn2j1x1	ModiFinder: Tandem Mass Spectral Alignment Enables Structural Modification Site Localization	188	37	54	62	35
4b35w89t	Evaluation of Data-Dependent MS/MS Acquisition Parameters for Non-Targeted Metabolomics and Molecular Networking of Environmental Samples: Focus on the Q Exactive Platform	185	46	56	42	41
8xc8s9df	Exploiting a novel algorithm and GPUs to break the ten quadrillion pairwise comparisons barrier for time series motifs and joins	184	37	61	46	40
9tp855xw	Reverse metabolomics for the discovery of chemical structures from humans	181	40	47	47	47
9b5681n9	Recent Advances in Securing Networked Systems	179	25	55	45	54
0n5635cx	Predicting Antibody–Antigen Interactions with Structure-Aware LLMs: Insights from SARS-CoV‑2 Variants	178	43	35	54	46
2gd202bj	ProLuCID: An improved SEQUEST-like algorithm with enhanced sensitivity and specificity	178	38	71	31	38
23n9c3q0	A model checking-based security analysis framework for IoT systems	177	25	58	38	56
38z520bz	Comprehensive benchmarking and ensemble approaches for metagenomic classifiers	177	37	45	48	47
4bq907gr	Network Topology Evaluation and Transitive Alignments for Molecular Networking	176	32	50	56	38
0722h3xn	An association analysis between psychophysical characteristics and genome-wide gene expression changes in human adaptation to the extreme climate at the Antarctic Dome Argus	175	32	55	45	43
0m48f2xh	Proton Pump Inhibitor Usage and the Risk of Myocardial Infarction in the General Population	173	43	49	46	35
28x5h3tn	A universal language for finding mass spectrometry data patterns	172	30	52	41	49
46n9208p	Finding the optimal design of a passive microfluidic mixer	171	23	69	43	36

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