LegumeIP V3: From Models to Crops - An Integrative Gene Discovery Platform for Translational Genomics in Legumes

Details

Name	Nodule Development 3
Description	Publicly available RNA-seq dataset from UCDAVIS was collected from a time-course of rhizobial infection events within the first 48 hours post-inoculation (hpi).
Contact	UCDAVIS (drcook@ucdavis.edu)
Xref	PRJNA269201
Reference	Larrainzar E et al . 2015;
Conditions	36
Species	Medicago truncatula
Metadata export	.CSV .JSON

Analysis

Mapped Genomes	MtrunA17r5.0 MtV4.0
Expression Analysis	Expression Profile / Differential Expression / Co-expression

Conditions

Name	Genotype	Stage	Tissue	Treatment	Time	Samples	Xref	Download alignments
A17-0.5h	A17	5 day old seedlings	root	root innoculated with Sinorhizobium medicae	0.5h	A17-0.5h_1 A17-0.5h_2 A17-0.5h_3 A17-0.5h_4	SRR1726469 SRR1726505 SRR1726541 SRR1726577	.bam .bai .csi .bam .bai .csi .bam .bai .csi .bam .bai .csi
A17-0h	A17	5 day old seedlings	root	root innoculated with Sinorhizobium medicae	0h	A17-0h_1 A17-0h_2 A17-0h_3 A17-0h_4	SRR1726470 SRR1726506 SRR1726542 SRR1726578	.bam .bai .csi .bam .bai .csi .bam .bai .csi .bam .bai .csi
A17-12h	A17	5 day old seedlings	root	root innoculated with Sinorhizobium medicae	12h	A17-12h_1 A17-12h_2 A17-12h_3 A17-12h_4	SRR1726472 SRR1726508 SRR1726544 SRR1726580	.bam .bai .csi .bam .bai .csi .bam .bai .csi .bam .bai .csi
A17-1h	A17	5 day old seedlings	root	root innoculated with Sinorhizobium medicae	1h	A17-1h_1 A17-1h_2 A17-1h_3 A17-1h_4	SRR1726471 SRR1726507 SRR1726543 SRR1726579	.bam .bai .csi .bam .bai .csi .bam .bai .csi .bam .bai .csi
A17-24h	A17	5 day old seedlings	root	root innoculated with Sinorhizobium medicae	24h	A17-24h_1 A17-24h_2 A17-24h_3 A17-24h_4	SRR1726473 SRR1726509 SRR1726545 SRR1726581	.bam .bai .csi .bam .bai .csi .bam .bai .csi .bam .bai .csi
A17-36h	A17	5 day old seedlings	root	root innoculated with Sinorhizobium medicae	36h	A17-36h_1 A17-36h_2 A17-36h_3 A17-36h_4	SRR1726475 SRR1726511 SRR1726547 SRR1726583	.bam .bai .csi .bam .bai .csi .bam .bai .csi .bam .bai .csi
A17-3h	A17	5 day old seedlings	root	root innoculated with Sinorhizobium medicae	3h	A17-3h_1 A17-3h_2 A17-3h_3 A17-3h_4	SRR1726474 SRR1726510 SRR1726546 SRR1726582	.bam .bai .csi .bam .bai .csi .bam .bai .csi .bam .bai .csi
A17-48h	A17	5 day old seedlings	root	root innoculated with Sinorhizobium medicae	48h	A17-48h_1 A17-48h_2 A17-48h_3 A17-48h_4	SRR1726476 SRR1726512 SRR1726548 SRR1726584	.bam .bai .csi .bam .bai .csi .bam .bai .csi .bam .bai .csi
A17-6h	A17	5 day old seedlings	root	root innoculated with Sinorhizobium medicae	6h	A17-6h_1 A17-6h_2 A17-6h_3 A17-6h_4	SRR1726477 SRR1726513 SRR1726549 SRR1726585	.bam .bai .csi .bam .bai .csi .bam .bai .csi .bam .bai .csi
LYK3-0.5h	LYK3	5 day old seedlings	root	root innoculated with Sinorhizobium medicae	0.5h	LYK3-0.5h_1 LYK3-0.5h_2 LYK3-0.5h_3 LYK3-0.5h_4	SRR1726478 SRR1726514 SRR1726550 SRR1726586	.bam .bai .csi .bam .bai .csi .bam .bai .csi .bam .bai .csi
LYK3-0h	LYK3	5 day old seedlings	root	root innoculated with Sinorhizobium medicae	0h	LYK3-0h_1 LYK3-0h_2 LYK3-0h_3 LYK3-0h_4	SRR1726479 SRR1726515 SRR1726551 SRR1726587	.bam .bai .csi .bam .bai .csi .bam .bai .csi .bam .bai .csi
LYK3-12h	LYK3	5 day old seedlings	root	root innoculated with Sinorhizobium medicae	12h	LYK3-12h_1 LYK3-12h_2 LYK3-12h_3 LYK3-12h_4	SRR1726481 SRR1726517 SRR1726553 SRR1726589	.bam .bai .csi .bam .bai .csi .bam .bai .csi .bam .bai .csi
LYK3-1h	LYK3	5 day old seedlings	root	root innoculated with Sinorhizobium medicae	1h	LYK3-1h_1 LYK3-1h_2 LYK3-1h_3 LYK3-1h_4	SRR1726480 SRR1726516 SRR1726552 SRR1726588	.bam .bai .csi .bam .bai .csi .bam .bai .csi .bam .bai .csi
LYK3-24h	LYK3	5 day old seedlings	root	root innoculated with Sinorhizobium medicae	24h	LYK3-24h_1 LYK3-24h_2 LYK3-24h_3 LYK3-24h_4	SRR1726482 SRR1726518 SRR1726554 SRR1726590	.bam .bai .csi .bam .bai .csi .bam .bai .csi .bam .bai .csi
LYK3-36h	LYK3	5 day old seedlings	root	root innoculated with Sinorhizobium medicae	36h	LYK3-36h_1 LYK3-36h_2 LYK3-36h_3 LYK3-36h_4	SRR1726484 SRR1726520 SRR1726556 SRR1726592	.bam .bai .csi .bam .bai .csi .bam .bai .csi .bam .bai .csi
LYK3-3h	LYK3	5 day old seedlings	root	root innoculated with Sinorhizobium medicae	3h	LYK3-3h_1 LYK3-3h_2 LYK3-3h_3 LYK3-3h_4	SRR1726483 SRR1726519 SRR1726555 SRR1726591	.bam .bai .csi .bam .bai .csi .bam .bai .csi .bam .bai .csi
LYK3-48h	LYK3	5 day old seedlings	root	root innoculated with Sinorhizobium medicae	48h	LYK3-48h_1 LYK3-48h_2 LYK3-48h_3 LYK3-48h_4	SRR1726485 SRR1726521 SRR1726557 SRR1726593	.bam .bai .csi .bam .bai .csi .bam .bai .csi .bam .bai .csi
LYK3-6h	LYK3	5 day old seedlings	root	root innoculated with Sinorhizobium medicae	6h	LYK3-6h_1 LYK3-6h_2 LYK3-6h_3 LYK3-6h_4	SRR1726486 SRR1726522 SRR1726558 SRR1726594	.bam .bai .csi .bam .bai .csi .bam .bai .csi .bam .bai .csi
NFP-0.5h	NFP	5 day old seedlings	root	root innoculated with Sinorhizobium medicae	0.5h	NFP-0.5h_1 NFP-0.5h_2 NFP-0.5h_3 NFP-0.5h_4	SRR1726487 SRR1726523 SRR1726559 SRR1726595	.bam .bai .csi .bam .bai .csi .bam .bai .csi .bam .bai .csi
NFP-0h	NFP	5 day old seedlings	root	root innoculated with Sinorhizobium medicae	0h	NFP-0h_1 NFP-0h_2 NFP-0h_3 NFP-0h_4	SRR1726488 SRR1726524 SRR1726560 SRR1726596	.bam .bai .csi .bam .bai .csi .bam .bai .csi .bam .bai .csi
NFP-12h	NFP	5 day old seedlings	root	root innoculated with Sinorhizobium medicae	12h	NFP-12h_1 NFP-12h_2 NFP-12h_3 NFP-12h_4	SRR1726490 SRR1726526 SRR1726562 SRR1726598	.bam .bai .csi .bam .bai .csi .bam .bai .csi .bam .bai .csi
NFP-1h	NFP	5 day old seedlings	root	root innoculated with Sinorhizobium medicae	1h	NFP-1h_1 NFP-1h_2 NFP-1h_3 NFP-1h_4	SRR1726489 SRR1726525 SRR1726561 SRR1726597	.bam .bai .csi .bam .bai .csi .bam .bai .csi .bam .bai .csi
NFP-24h	NFP	5 day old seedlings	root	root innoculated with Sinorhizobium medicae	24h	NFP-24h_1 NFP-24h_2 NFP-24h_3 NFP-24h_4	SRR1726491 SRR1726527 SRR1726563 SRR1726599	.bam .bai .csi .bam .bai .csi .bam .bai .csi .bam .bai .csi
NFP-36h	NFP	5 day old seedlings	root	root innoculated with Sinorhizobium medicae	36h	NFP-36h_1 NFP-36h_2 NFP-36h_3 NFP-36h_4	SRR1726493 SRR1726529 SRR1726565 SRR1726601	.bam .bai .csi .bam .bai .csi .bam .bai .csi .bam .bai .csi
NFP-3h	NFP	5 day old seedlings	root	root innoculated with Sinorhizobium medicae	3h	NFP-3h_1 NFP-3h_2 NFP-3h_3 NFP-3h_4	SRR1726492 SRR1726528 SRR1726564 SRR1726600	.bam .bai .csi .bam .bai .csi .bam .bai .csi .bam .bai .csi
NFP-48h	NFP	5 day old seedlings	root	root innoculated with Sinorhizobium medicae	48h	NFP-48h_1 NFP-48h_2 NFP-48h_3 NFP-48h_4	SRR1726494 SRR1726530 SRR1726566 SRR1726602	.bam .bai .csi .bam .bai .csi .bam .bai .csi .bam .bai .csi
NFP-6h	NFP	5 day old seedlings	root	root innoculated with Sinorhizobium medicae	6h	NFP-6h_1 NFP-6h_2 NFP-6h_3 NFP-6h_4	SRR1726495 SRR1726531 SRR1726567 SRR1726603	.bam .bai .csi .bam .bai .csi .bam .bai .csi .bam .bai .csi
SKL-0.5h	SKL	5 day old seedlings	root	root innoculated with Sinorhizobium medicae	0.5h	SKL-0.5h_1 SKL-0.5h_2 SKL-0.5h_3 SKL-0.5h_4	SRR1726496 SRR1726532 SRR1726568 SRR1726604	.bam .bai .csi .bam .bai .csi .bam .bai .csi .bam .bai .csi
SKL-0h	SKL	5 day old seedlings	root	root innoculated with Sinorhizobium medicae	0h	SKL-0h_1 SKL-0h_2 SKL-0h_3 SKL-0h_4	SRR1726497 SRR1726533 SRR1726569 SRR1726605	.bam .bai .csi .bam .bai .csi .bam .bai .csi .bam .bai .csi
SKL-12h	SKL	5 day old seedlings	root	root innoculated with Sinorhizobium medicae	12h	SKL-12h_1 SKL-12h_2 SKL-12h_3 SKL-12h_4	SRR1726499 SRR1726535 SRR1726571 SRR1726607	.bam .bai .csi .bam .bai .csi .bam .bai .csi .bam .bai .csi
SKL-1h	SKL	5 day old seedlings	root	root innoculated with Sinorhizobium medicae	1h	SKL-1h_1 SKL-1h_2 SKL-1h_3 SKL-1h_4	SRR1726498 SRR1726534 SRR1726570 SRR1726606	.bam .bai .csi .bam .bai .csi .bam .bai .csi .bam .bai .csi
SKL-24h	SKL	5 day old seedlings	root	root innoculated with Sinorhizobium medicae	24h	SKL-24h_1 SKL-24h_2 SKL-24h_3 SKL-24h_4	SRR1726500 SRR1726536 SRR1726572 SRR1726608	.bam .bai .csi .bam .bai .csi .bam .bai .csi .bam .bai .csi
SKL-36h	SKL	5 day old seedlings	root	root innoculated with Sinorhizobium medicae	36h	SKL-36h_1 SKL-36h_2 SKL-36h_3 SKL-36h_4	SRR1726502 SRR1726538 SRR1726574 SRR1726610	.bam .bai .csi .bam .bai .csi .bam .bai .csi .bam .bai .csi
SKL-3h	SKL	5 day old seedlings	root	root innoculated with Sinorhizobium medicae	3h	SKL-3h_1 SKL-3h_2 SKL-3h_3 SKL-3h_4	SRR1726501 SRR1726537 SRR1726573 SRR1726609	.bam .bai .csi .bam .bai .csi .bam .bai .csi .bam .bai .csi
SKL-48h	SKL	5 day old seedlings	root	root innoculated with Sinorhizobium medicae	48h	SKL-48h_1 SKL-48h_2 SKL-48h_3 SKL-48h_4	SRR1726503 SRR1726539 SRR1726575 SRR1726611	.bam .bai .csi .bam .bai .csi .bam .bai .csi .bam .bai .csi
SKL-6h	SKL	5 day old seedlings	root	root innoculated with Sinorhizobium medicae	6h	SKL-6h_1 SKL-6h_2 SKL-6h_3 SKL-6h_4	SRR1726504 SRR1726540 SRR1726576 SRR1726612	.bam .bai .csi .bam .bai .csi .bam .bai .csi .bam .bai .csi