Joint Genome Institute

eScholarship stats: Breakdown by Item for September through December, 2024

Item	Title	Total requests	Download	View-only	%Dnld
1h3515gn	BBMap: A Fast, Accurate, Splice-Aware Aligner	617	82	535	13.3%
22k9d6k9	Phytozome Comparative Plant Genomics Portal	459	9	450	2.0%
57f5059w	Dynamic root exudate chemistry and microbial substrate preferences drive patterns in rhizosphere microbial community assembly	337	100	237	29.7%
1zx113n5	CTCF-dependent insulation of Hoxb13 and the heterochronic control of tail length.	129	1	128	0.8%
8rk2x6pj	A chromosome-based draft sequence of the hexaploid bread wheat (Triticum aestivum) genome	128	115	13	89.8%
7n8428f3	Genome resources for three modern cotton lines guide future breeding efforts.	127	3	124	2.4%
4zh090xt	Uncovering Earth’s virome	124	61	63	49.2%
0r48g3rc	Cultivation of novel Atribacterota from oil well provides new insight into their diversity, ecology, and evolution in anoxic, carbon-rich environments	116	11	105	9.5%
7kt417cw	Novel heavy metal resistance gene clusters are present in the genome of Cupriavidus neocaledonicus STM 6070, a new species of Mimosa pudica microsymbiont isolated from heavy-metal-rich mining site soil	113	0	113	0.0%
4p25j4tm	Transcriptomics reveal a mechanism of niche defense: two beneficial root endophytes deploy an antimicrobial GH18‐CBM5 chitinase to protect their hosts	111	51	60	45.9%
3x71c44w	The network makeup artist (NORMA-2.0): distinguishing annotated groups in a network using innovative layout strategies.	107	2	105	1.9%
8cw2z936	UniProt-Related Documents (UniReD): assisting wet lab biologists in their quest on finding novel counterparts in a protein network.	107	2	105	1.9%
2ms9t9qn	The sequence and analysis of duplication rich human chromosome 16	102	11	91	10.8%
6nn6p8db	Spatial co-transcriptomics reveals discrete stages of the arbuscular mycorrhizal symbiosis	98	88	10	89.8%
0kf9t6gn	Giant viruses with an expanded complement of translation system components	96	80	16	83.3%
3z44x6vv	Enhancer redundancy provides phenotypic robustness in mammalian development	96	24	72	25.0%
2310v0bv	Vision, challenges and opportunities for a Plant Cell Atlas	93	19	74	20.4%
3dc7454j	The Physcomitrella genome reveals evolutionary insights into the conquest of land by plants	93	2	91	2.2%
5gz6v5q3	Global overview and major challenges of host prediction methods for uncultivated phages	92	19	73	20.7%
6p94q2rz	A roadmap for the functional annotation of protein families: a community perspective	92	19	73	20.7%
8xb4w8w1	Diversity in the soil virosphere: to infinity and beyond?	91	15	76	16.5%
0wp465kn	MetaBAT 2: an adaptive binning algorithm for robust and efficient genome reconstruction from metagenome assemblies	90	24	66	26.7%
2x09q87j	Author Correction: Perspectives on ENCODE	90	8	82	8.9%
44v0c3r5	Sequence and comparative analysis of the chicken genome provide unique perspectives on vertebrate evolution.	90	22	68	24.4%
8690m3jt	Population genomics provides insights into the genetic basis of adaptive evolution in the mushroom-forming fungus Lentinula edodes	90	23	67	25.6%
0nm5z1jj	Capturing the genetic makeup of the active microbiome in situ	89	8	81	9.0%
2fs841cf	Genome-Based Taxonomic Classification of Bacteroidetes	88	6	82	6.8%
4dz8c79z	First Plant Cell Atlas symposium report	88	12	76	13.6%
63h612dp	Sodalis ligni Strain 159R Isolated from an Anaerobic Lignin-Degrading Consortium	88	8	80	9.1%
1r25188f	Fungal Transcriptomics	87	78	9	89.7%
9xj0x028	The mole genome reveals regulatory rearrangements associated with adaptive intersexuality	87	14	73	16.1%
9bd3z559	The Transcription Factor Roc1 Is a Key Regulator of Cellulose Degradation in the Wood-Decaying Mushroom Schizophyllum commune	86	12	74	14.0%
8f0519r0	Numerous cultivated and uncultivated viruses encode ribosomal proteins	85	2	83	2.4%
1xv1b6pf	RIViT-seq enables systematic identification of regulons of transcriptional machineries	83	3	80	3.6%
2zk8j1fx	Genome-wide fetalization of enhancer architecture in heart disease	83	2	81	2.4%
3p95q4c6	Associations of Early COVID-19 Cases in San Francisco with Domestic and International Travel	83	1	82	1.2%
8n88s2kz	CrY2H-seq: a massively multiplexed assay for deep-coverage interactome mapping	83	5	78	6.0%
0rj32607	Genome sequence of Frateuria aurantia type strain (Kondô 67T), a xanthomonade isolated from Lilium auratium Lindl.	82	14	68	17.1%
36g6n553	A fungal transcription factor essential for starch degradation affects integration of carbon and nitrogen metabolism	82	5	77	6.1%
5663x783	Microbes and Climate Change: a Research Prospectus for the Future	82	59	23	72.0%
01j3r0p6	Virus-associated organosulfur metabolism in human and environmental systems	81	10	71	12.3%
0mb8h3r4	Designing and Engineering Methylorubrum extorquens AM1 for Itaconic Acid Production	81	4	77	4.9%
3k8311t2	Mapping genome-wide transcription-factor binding sites using DAP-seq	81	2	79	2.5%
57h497xp	Thousands of small, novel genes predicted in global phage genomes	81	6	75	7.4%
51b830z6	Phytozome: A Comparative Platform for Green Plant Genomics	80	10	70	12.5%
8j463183	JGI Plant Genomics Gene Annotation Pipeline	80	1	79	1.3%
08z8r4ff	101 Dothideomycetes genomes: A test case for predicting lifestyles and emergence of pathogens	79	5	74	6.3%
9cg336t7	Topologically Associating Domain Boundaries are Commonly Required for Normal Genome Function	79	8	71	10.1%
6ck6m0x4	Deletion of a non-canonical regulatory sequence causes loss of Scn1a expression and epileptic phenotypes in mice	78	1	77	1.3%
9px708q1	Reactivation of a developmentally silenced embryonic globin gene	78	8	70	10.3%

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