Joint Genome Institute

eScholarship stats: History by Item for April through July, 2026

Item	Title	Total requests	2026-07	2026-06	2026-05	2026-04
1h3515gn	BBMap: A Fast, Accurate, Splice-Aware Aligner	1,359	281	383	310	385
28w1d3zs	A Korarchael Genome Reveals Insights into the Evolution of the Archaea	1,188	898	79	111	100
57f5059w	Dynamic root exudate chemistry and microbial substrate preferences drive patterns in rhizosphere microbial community assembly	1,165	276	317	298	274
7vn8q02v	Persistence and plasticity in bacterial gene regulation	752	173	181	216	182
96n6w63s	Identification of mobile genetic elements with geNomad	745	130	214	209	192
5fw223fd	Microbial secondary metabolites: advancements to accelerate discovery towards application	684	153	172	190	169
6x297461	A global metagenomic map of urban microbiomes and antimicrobial resistance	609	142	171	168	128
4zh090xt	Uncovering Earth’s virome	593	109	142	183	159
8pw2x188	Ancient gene linkages support ctenophores as sister to other animals	581	57	83	328	113
61w6w086	Introduction to Computational Metagenomics	543	101	125	165	152
5wk090j4	A genomic perspective on fungal diversity and evolution	541	97	84	197	163
12v5v27c	A call for caution in the biological interpretation of viral auxiliary metabolic genes	537	108	175	125	129
6rg9n14p	A unified catalog of 204,938 reference genomes from the human gut microbiome	516	102	169	145	100
2hg7004n	Systematic assessment of long-read RNA-seq methods for transcript identification and quantification	484	109	95	167	113
5gw9r34k	The genome sequence of segmental allotetraploid peanut Arachis hypogaea	467	87	125	138	117
8rk2x6pj	A chromosome-based draft sequence of the hexaploid bread wheat (Triticum aestivum) genome	467	99	110	138	120
0cf9v4c4	Increased enhancer–promoter interactions during developmental enhancer activation in mammals	451	93	118	176	64
1r25188f	Fungal Transcriptomics	437	106	56	89	186
4p25j4tm	Transcriptomics reveal a mechanism of niche defense: two beneficial root endophytes deploy an antimicrobial GH18‐CBM5 chitinase to protect their hosts	437	97	126	122	92
3k8311t2	Mapping genome-wide transcription-factor binding sites using DAP-seq	432	73	106	151	102
5xr3w8d5	Analysis of 1,000+ Type-Strain Genomes Substantially Improves Taxonomic Classification of Alphaproteobacteria	427	56	102	144	125
2nt21413	CRAGE enables rapid activation of biosynthetic gene clusters in undomesticated bacteria	421	88	91	141	101
81w457th	XA21-mediated resistance to Xanthomonas oryzae pv. oryzae is dose dependent	412	62	118	139	93
44v0c3r5	Sequence and comparative analysis of the chicken genome provide unique perspectives on vertebrate evolution	409	131	59	117	102
41r662pm	Virus diversity and activity is driven by snowmelt and host dynamics in a high-altitude watershed soil ecosystem	404	84	100	114	106
43x013sh	Annotation of the Corymbia terpene synthase gene family shows broad conservation but dynamic evolution of physical clusters relative to Eucalyptus	399	6	28	336	29
4sr1g8sv	Dynamic enhancer landscapes in human craniofacial development	393	56	90	129	118
8dh7k2k4	The complex polyploid genome architecture of sugarcane	379	59	91	143	86
4391h0zc	Characterisation and comparative analysis of mitochondrial genomes of false, yellow, black and blushing morels provide insights on their structure and evolution	373	79	88	133	73
3jj5v0t8	comparative transcriptomics between Synechococcus PCC 7942 and Synechocystis PCC 6803 provide insights into mechanisms of adaptation to stress.	370	49	72	140	109
7c96t04w	Mutant phenotypes for thousands of bacterial genes of unknown function	370	90	88	94	98
3z44x6vv	Enhancer redundancy provides phenotypic robustness in mammalian development	357	55	84	119	99
5c25c8j1	Characterization of Mammalian In Vivo Enhancers Using Mouse Transgenesis and CRISPR Genome Editing	352	67	77	126	82
0h38397x	High fat intake sustains sorbitol intolerance after antibiotic-mediated Clostridia depletion from the gut microbiota	351	81	97	103	70
8d88b106	Recruitment, rewiring and deep conservation in flowering plant gene regulation	351	106	80	73	92
8700382s	Unraveling the functional dark matter through global metagenomics	349	54	68	114	113
3g2101xs	A predicted CRISPR-mediated symbiosis between uncultivated archaea	348	55	93	113	87
03b2f02f	Viromics approaches for the study of viral diversity and ecology in microbiomes	347	102	68	103	74
431676dj	Cell-free synthetic biology for natural product biosynthesis and discovery	345	70	58	83	134
13w6f19k	Vertical and horizontal gene transfer shaped plant colonization and biomass degradation in the fungal genus Armillaria	344	63	101	84	96
513738cv	Secreted Effector Proteins of Poplar Leaf Spot and Stem Canker Pathogen Sphaerulina musiva Manipulate Plant Immunity and Contribute to Virulence in Diverse Ways.	342	66	95	98	83
5pg6w486	Analysis of 1,000 Type-Strain Genomes Improves Taxonomic Classification of Bacteroidetes	339	42	86	124	87
01j548f4	Perspectives on ENCODE	338	130	52	86	70
28k88901	Transcription Factor 4 loss-of-function is associated with deficits in progenitor proliferation and cortical neuron content	338	65	75	111	87
75w5v2gm	An expanded registry of candidate cis-regulatory elements	338	86	86	82	84
7hc8b5xx	IMG/M v.5.0: an integrated data management and comparative analysis system for microbial genomes and microbiomes	338	83	92	101	62
2jx454ms	Neurospora intermedia from a traditional fermented food enables waste-to-food conversion	331	75	89	84	83
2n00z5zq	Genomic mechanisms of climate adaptation in polyploid bioenergy switchgrass	327	48	90	99	90
0126f84t	Structure, function and diversity of the healthy human microbiome	325	77	90	95	63
8xg3g0x6	IMG/PR: a database of plasmids from genomes and metagenomes with rich annotations and metadata	325	70	87	102	66

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