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Omics Data

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Project

Bioproject Description Publication GVCF File Library Num.
PRJNA273270 Northern Red Oak transcriptome sequencing from a variety of adult tissues and abiotic stress-exposed seedlings Soltani et al., 2020
683
Library Title Platform Total Base VCF File
SRR1778916 RNA-Seq of Quercus rubra: none treatment adult plant with catkin, SM1, NRO M-1 ILLUMINA 1785568294 bp
SRR1778917 RNA-Seq of Quercus rubra: none treatment adult plant with emerging leaf/bud, SM1, NRO M-2 ILLUMINA 1580083188 bp
SRR1778918 RNA-Seq of Quercus rubra: mechanical wounding treatment adult plant with damaged leaves-late growth, SM1, NRO M-30 ILLUMINA 2666603818 bp
SRR1778919 RNA-Seq of Quercus rubra: none treatment adult plant with undamaged leaves-late growth, SM1, NRO M-31 ILLUMINA 2710251170 bp
SRR1778920 RNA-Seq of Quercus rubra: mechanical wounding treatment adult plant with damaged twigs-late growth, SM1, NRO M-32 ILLUMINA 2273718060 bp
SRR1778921 RNA-Seq of Quercus rubra: none treatment adult plant with undamaged twigs-late growth, SM1, NRO M-33 ILLUMINA 3920601234 bp
SRR1778922 RNA-Seq of Quercus rubra: none treatment adult plant with developing acorns, SM1, NRO M-34 ILLUMINA 4270857316 bp
SRR1778923 RNA-Seq of Quercus rubra: none treatment adult plant with immature twig, SM1, NRO M-3 ILLUMINA 1623102522 bp
SRR1778924 RNA-Seq of Quercus rubra: none treatment adult plant with dormant twigs, SM1, NRO M-4 ILLUMINA 2423179678 bp
SRR1778925 RNA-Seq of Quercus rubra: none treatment adult plant with catkin, SM2, NRO D-1 ILLUMINA 3356350998 bp
SRR1778926 RNA-Seq of Quercus rubra: none treatment adult plant with emerging leaf/bud, SM2, NRO D-2 ILLUMINA 1646674306 bp
SRR1778927 RNA-Seq of Quercus rubra: none treatment adult plant with immature twig, SM2, NRO D-3 ILLUMINA 3180426370 bp
SRR1778928 RNA-Seq of Quercus rubra: none treatment adult plant with undamaged leaves-late growth, SM2, NRO D-36 ILLUMINA 975013398 bp
SRR1778929 RNA-Seq of Quercus rubra: mechanical wounding treatment adult plant with damaged twigs-late growth, SM2, NRO D-37 ILLUMINA 2396197124 bp
SRR1778930 RNA-Seq of Quercus rubra: none treatment adult plant with undamaged twigs-late growth, SM2, NRO D-38 ILLUMINA 1708881620 bp
SRR1778931 RNA-Seq of Quercus rubra: none treatment adult plant with developing acorns, SM2, NRO D-39 ILLUMINA 3491922692 bp
SRR1778932 RNA-Seq of Quercus rubra: none treatment adult plant with dormant twigs, SM2, NRO D-4 ILLUMINA 2300207936 bp
SRR1778933 RNA-Seq of Quercus rubra: control chamber ozone 10ppb treatment 1 year plant with leaf, offspring of NRO SM1 & SM2 (6 pooled seedlings), sample A LS454 139583352 bp
SRR1778934 RNA-Seq of Quercus rubra: pooled samples from 125 ppb ozone exposure for 7\, 14\, and 28 days treatment 1 year plant with leaf, offspring of NRO SM1 & SM2 (6 pooled seedlings), sample B LS454 155961285 bp
SRR1778935 RNA-Seq of Quercus rubra: pooled samples from 225 ppb ozone exposure for 7\, 14\, and 28 days treatment 1 year plant with leaf, offspring of NRO SM1 & SM2 (6 pooled seedlings), sample C LS454 141714016 bp
SRR1778936 RNA-Seq of Quercus rubra: pooled samples from 300 ppb ozone exposure for 7\, 14\, and 28 days treatment 1 year plant with leaf, offspring of NRO SM1 & SM2 (6 pooled seedlings), sample D LS454 135955675 bp
SRR1778937 RNA-Seq of Quercus rubra: Rep 10 - ozone (10ppb) 14 days treatment seedling plant with leaf, offspring of NRO SM1 & SM2 (6 pooled seedlings), RO10_CO-14 ILLUMINA 471920884 bp
SRR1778938 RNA-Seq of Quercus rubra: Rep 10 - ozone (10ppb) 28 days treatment seedling plant with leaf, offspring of NRO SM1 & SM2 (6 pooled seedlings), RO10_CO-28 ILLUMINA 491571848 bp
SRR1778939 RNA-Seq of Quercus rubra: Rep 10 - ozone (10ppb) 7 hours treatment seedling plant with leaf, offspring of NRO SM1 & SM2 (6 pooled seedlings), RO10_CO-7 ILLUMINA 471793018 bp
SRR1778940 RNA-Seq of Quercus rubra: Rep 11 - ozone (80ppb) 14 days treatment seedling plant with leaf, offspring of NRO SM1 & SM2 (6 pooled seedlings), RO11-80-14 ILLUMINA 586339138 bp
SRR1778941 RNA-Seq of Quercus rubra: Rep 11 - ozone (80ppb) 28 days treatment seedling plant with leaf, offspring of NRO SM1 & SM2 (6 pooled seedlings), RO11-80-28 ILLUMINA 473973406 bp
SRR1778942 RNA-Seq of Quercus rubra: Rep 11 - ozone (80ppb) 7 hours treatment seedling plant with leaf, offspring of NRO SM1 & SM2 (6 pooled seedlings), RO11-80-7 ILLUMINA 380717076 bp
SRR1778943 RNA-Seq of Quercus rubra: Rep 12 - ozone (80ppb) 14 days treatment seedling plant with leaf, offspring of NRO SM1 & SM2 (6 pooled seedlings), RO12-80-14 ILLUMINA 574908362 bp
SRR1778944 RNA-Seq of Quercus rubra: Rep 12 - ozone (80ppb) 28 days treatment seedling plant with leaf, offspring of NRO SM1 & SM2 (6 pooled seedlings), RO12-80-28 ILLUMINA 580559312 bp
SRR1778945 RNA-Seq of Quercus rubra: Rep 12 - ozone (80ppb) 7 hours treatment seedling plant with leaf, offspring of NRO SM1 & SM2 (6 pooled seedlings), RO12-80-7 ILLUMINA 474762822 bp
SRR1778946 RNA-Seq of Quercus rubra: Rep 13 - ozone (125ppb) 14 days treatment seedling plant with leaf, offspring of NRO SM1 & SM2 (6 pooled seedlings), RO13-125-14 ILLUMINA 425409374 bp
SRR1778947 RNA-Seq of Quercus rubra: Rep 13 - ozone (125ppb) 28 days treatment seedling plant with leaf, offspring of NRO SM1 & SM2 (6 pooled seedlings), RO13-125-28 ILLUMINA 438277986 bp
SRR1778948 RNA-Seq of Quercus rubra: Rep 13 - ozone (125ppb) 7 hours treatment seedling plant with leaf, offspring of NRO SM1 & SM2 (6 pooled seedlings), RO13-125-7 ILLUMINA 459782502 bp
SRR1778949 RNA-Seq of Quercus rubra: Rep 14 - ozone (125ppb) 28 days treatment seedling plant with leaf, offspring of NRO SM1 & SM2 (6 pooled seedlings), RO14-125-28 ILLUMINA 631595016 bp
SRR1778950 RNA-Seq of Quercus rubra: Rep 14 - ozone (125ppb) 7 hours treatment seedling plant with leaf, offspring of NRO SM1 & SM2 (6 pooled seedlings), RO14-125-7 ILLUMINA 4.32E+08 bp
SRR1778951 RNA-Seq of Quercus rubra: Rep 15 - ozone (225ppb) 14 days treatment seedling plant with leaf, offspring of NRO SM1 & SM2 (6 pooled seedlings), RO15-225-14 ILLUMINA 386878682 bp
SRR1778952 RNA-Seq of Quercus rubra: Rep 15 - ozone (225ppb) 28 days treatment seedling plant with leaf, offspring of NRO SM1 & SM2 (6 pooled seedlings), RO15-225-28 ILLUMINA 533795706 bp
SRR1778953 RNA-Seq of Quercus rubra: Rep 15 - ozone (225ppb) 7 hours treatment seedling plant with leaf, offspring of NRO SM1 & SM2 (6 pooled seedlings), RO15-225-7 ILLUMINA 411813562 bp
SRR1778954 RNA-Seq of Quercus rubra: Rep 16 - ozone (225ppb) 14 days treatment seedling plant with leaf, offspring of NRO SM1 & SM2 (6 pooled seedlings), RO16-225-14 ILLUMINA 382007048 bp
SRR1778955 RNA-Seq of Quercus rubra: Rep 16 - ozone (225ppb) 28 days treatment seedling plant with leaf, offspring of NRO SM1 & SM2 (6 pooled seedlings), RO16-225-28 ILLUMINA 416160602 bp
SRR1778956 RNA-Seq of Quercus rubra: Rep 16 - ozone (225ppb) 7 hours treatment seedling plant with leaf, offspring of NRO SM1 & SM2 (6 pooled seedlings), RO16-225-7 ILLUMINA 608656300 bp
SRR1778957 RNA-Seq of Quercus rubra: Rep 1 - ozone (10ppb) 14 days treatment seedling plant with leaf, offspring of NRO SM1 & SM2 (6 pooled seedlings), RO1-CO-14 ILLUMINA 556225180 bp
SRR1778958 RNA-Seq of Quercus rubra: Rep 1 - ozone (10ppb) 28 days treatment seedling plant with leaf, offspring of NRO SM1 & SM2 (6 pooled seedlings), RO1-CO28 ILLUMINA 476235402 bp
SRR1778959 RNA-Seq of Quercus rubra: Rep 1 - ozone (10ppb) 7 hours treatment seedling plant with leaf, offspring of NRO SM1 & SM2 (6 pooled seedlings), RO1-CO7 ILLUMINA 489202186 bp
SRR1778960 RNA-Seq of Quercus rubra: Rep 2 - ozone (10ppb) 14 days treatment seedling plant with leaf, offspring of NRO SM1 & SM2 (6 pooled seedlings), RO2-CO14 ILLUMINA 458167714 bp
SRR1778961 RNA-Seq of Quercus rubra: Rep 2 - ozone (10ppb) 28 days treatment seedling plant with leaf, offspring of NRO SM1 & SM2 (6 pooled seedlings), RO2-CO28 ILLUMINA 664586060 bp
SRR1778962 RNA-Seq of Quercus rubra: Rep 2 - ozone (10ppb) 7 hours treatment seedling plant with leaf, offspring of NRO SM1 & SM2 (6 pooled seedlings), RO2-CO7 ILLUMINA 489479330 bp
SRR1778963 RNA-Seq of Quercus rubra: Rep 3 - ozone (80ppb) 14 days treatment seedling plant with leaf, offspring of NRO SM1 & SM2 (6 pooled seedlings), RO3-80-14 ILLUMINA 482851306 bp
SRR1778964 RNA-Seq of Quercus rubra: Rep 3 - ozone (80ppb) 28 days treatment seedling plant with leaf, offspring of NRO SM1 & SM2 (6 pooled seedlings), RO3-80-28 ILLUMINA 509198974 bp
SRR1778965 RNA-Seq of Quercus rubra: Rep 3 - ozone (80ppb) 7 hours treatment seedling plant with leaf, offspring of NRO SM1 & SM2 (6 pooled seedlings), RO3-80-7 ILLUMINA 368350636 bp
SRR1778966 RNA-Seq of Quercus rubra: Rep 4 - ozone (80ppb) 14 days treatment seedling plant with leaf, offspring of NRO SM1 & SM2 (6 pooled seedlings), RO4-80-14 ILLUMINA 613763870 bp
SRR1778967 RNA-Seq of Quercus rubra: Rep 4 - ozone (80ppb) 28 days treatment seedling plant with leaf, offspring of NRO SM1 & SM2 (6 pooled seedlings), RO4-80-28 ILLUMINA 378486794 bp
SRR1778968 RNA-Seq of Quercus rubra: Rep 4 - ozone (80ppb) 7 hours treatment seedling plant with leaf, offspring of NRO SM1 & SM2 (6 pooled seedlings), RO4-80-7 ILLUMINA 381412360 bp
SRR1778969 RNA-Seq of Quercus rubra: Rep 5 - ozone (125ppb) 14 days treatment seedling plant with leaf, offspring of NRO SM1 & SM2 (6 pooled seedlings), RO5-125-14 ILLUMINA 550933184 bp
SRR1778970 RNA-Seq of Quercus rubra: Rep 5 - ozone (125ppb) 28 days treatment seedling plant with leaf, offspring of NRO SM1 & SM2 (6 pooled seedlings), RO5-125-28 ILLUMINA 570785744 bp
SRR1778971 RNA-Seq of Quercus rubra: Rep 5 - ozone (125ppb) 7 hours treatment seedling plant with leaf, offspring of NRO SM1 & SM2 (6 pooled seedlings), RO5-125-7 ILLUMINA 673004814 bp
SRR1778972 RNA-Seq of Quercus rubra: Rep 6 - ozone (125ppb) 14 days treatment seedling plant with leaf, offspring of NRO SM1 & SM2 (6 pooled seedlings), RO6-125-14 ILLUMINA 462417188 bp
SRR1778973 RNA-Seq of Quercus rubra: Rep 6 - ozone (125ppb) 28 days treatment seedling plant with leaf, offspring of NRO SM1 & SM2 (6 pooled seedlings), RO6-125-28 ILLUMINA 447165986 bp
SRR1778974 RNA-Seq of Quercus rubra: Rep 6 - ozone (125ppb) 7 hours treatment seedling plant with leaf, offspring of NRO SM1 & SM2 (6 pooled seedlings), RO6-125-7 ILLUMINA 695965952 bp
SRR1778975 RNA-Seq of Quercus rubra: Rep 7 - ozone (225ppb) 14 days treatment seedling plant with leaf, offspring of NRO SM1 & SM2 (6 pooled seedlings), RO7-225-14 ILLUMINA 588568410 bp
SRR1778976 RNA-Seq of Quercus rubra: Rep 7 - ozone (225ppb) 28 days treatment seedling plant with leaf, offspring of NRO SM1 & SM2 (6 pooled seedlings), RO7-225-28 ILLUMINA 402197150 bp
SRR1778977 RNA-Seq of Quercus rubra: Rep 7 - ozone (225ppb) 7 hours treatment seedling plant with leaf, offspring of NRO SM1 & SM2 (6 pooled seedlings), RO7-225-7 ILLUMINA 423624300 bp
SRR1778978 RNA-Seq of Quercus rubra: Rep 8 - ozone (225ppb) 14 days treatment seedling plant with leaf, offspring of NRO SM1 & SM2 (6 pooled seedlings), RO8-225-14 ILLUMINA 402443590 bp
SRR1778979 RNA-Seq of Quercus rubra: Rep 8 - ozone (225ppb) 28 days treatment seedling plant with leaf, offspring of NRO SM1 & SM2 (6 pooled seedlings), RO8-225-28 ILLUMINA 407206750 bp
SRR1778980 RNA-Seq of Quercus rubra: Rep 8 - ozone (225ppb) 7 hours treatment seedling plant with leaf, offspring of NRO SM1 & SM2 (6 pooled seedlings), RO8-225-7 ILLUMINA 410333710 bp
SRR1778981 RNA-Seq of Quercus rubra: Rep 9 - ozone (10ppb) 14 days treatment seedling plant with leaf, offspring of NRO SM1 & SM2 (6 pooled seedlings), RO9-CO-14 ILLUMINA 452818552 bp
SRR1778982 RNA-Seq of Quercus rubra: Rep 9 - ozone (10ppb) 28 days treatment seedling plant with leaf, offspring of NRO SM1 & SM2 (6 pooled seedlings), RO9-CO-28 ILLUMINA 524912958 bp
SRR1778983 RNA-Seq of Quercus rubra: Rep 9 - ozone (10ppb) 7 hours treatment seedling plant with leaf, offspring of NRO SM1 & SM2 (6 pooled seedlings), RO9-CO-7 ILLUMINA 607515404 bp
SRR1778984 RNA-Seq of Quercus rubra: none treatment adult plant with catkin, SM1, NRO M-1 ILLUMINA 130966768 bp
SRR1778985 RNA-Seq of Quercus rubra: none treatment adult plant with emerging leaf/bud, SM1, NRO M-2 ILLUMINA 97682283 bp
SRR1778986 RNA-Seq of Quercus rubra: mechanical wounding treatment adult plant with damaged leaves-late growth, SM1, NRO M-30 ILLUMINA 200364017 bp
SRR1778987 RNA-Seq of Quercus rubra: none treatment adult plant with undamaged leaves-late growth, SM1, NRO M-31 ILLUMINA 167117841 bp
SRR1778988 RNA-Seq of Quercus rubra: mechanical wounding treatment adult plant with damaged twigs-late growth, SM1, NRO M-32 ILLUMINA 111527035 bp
SRR1778989 RNA-Seq of Quercus rubra: none treatment adult plant with undamaged twigs-late growth, SM1, NRO M-33 ILLUMINA 275587195 bp
SRR1778990 RNA-Seq of Quercus rubra: none treatment adult plant with developing acorns, SM1, NRO M-34 ILLUMINA 261547918 bp
SRR1778991 RNA-Seq of Quercus rubra: none treatment adult plant with immature twig, SM1, NRO M-3 ILLUMINA 88451530 bp
SRR1778992 RNA-Seq of Quercus rubra: none treatment adult plant with dormant twigs, SM1, NRO M-4 ILLUMINA 150009358 bp
SRR1778993 RNA-Seq of Quercus rubra: none treatment adult plant with catkin, SM2, NRO D-1 ILLUMINA 239306421 bp
SRR1778994 RNA-Seq of Quercus rubra: none treatment adult plant with emerging leaf/bud, SM2, NRO D-2 ILLUMINA 97170091 bp
SRR1778995 RNA-Seq of Quercus rubra: none treatment adult plant with undamaged leaves-late growth, SM2, NRO D-36 ILLUMINA 67335954 bp
SRR1778996 RNA-Seq of Quercus rubra: mechanical wounding treatment adult plant with damaged twigs-late growth, SM2, NRO D-37 ILLUMINA 149740370 bp
SRR1778997 RNA-Seq of Quercus rubra: none treatment adult plant with undamaged twigs-late growth, SM2, NRO D-38 ILLUMINA 128352559 bp
SRR1778998 RNA-Seq of Quercus rubra: none treatment adult plant with developing acorns, SM2, NRO D-39 ILLUMINA 221393115 bp
SRR1778999 RNA-Seq of Quercus rubra: none treatment adult plant with dormant twigs, SM2, NRO D-4 ILLUMINA 134102510 bp
PRJNA490752 explores how organisms depend on each other for survival, using the example of insect-induced plant galls. It reveals the complex manipulation of the oak genome by cynipid wasps to form galls, suggesting common mechanisms across different species. O. Martinson et al., 2021
684
Library Title Platform Total Base VCF File
SRR7853485 RNA-Seq of Quercus rubra: leaf from USA:Rochester\, NY, Quercus rubra leaf 3 ILLUMINA 1934745434 bp
SRR7853487 RNA-Seq of Quercus rubra: leaf from USA:Rochester\, NY, Quercus rubra leaf 1 ILLUMINA 13587208661 bp
SRR7853488 RNA-Seq of Quercus rubra: Inner capsule of Dryocosmus quercuspalustris gall from USA:Rochester\, NY, Dryocosmus quercuspalustris Inner Gall 3 ILLUMINA 2069538036 bp
SRR7853490 RNA-Seq of Quercus rubra: Inner capsule of Dryocosmus quercuspalustris gall from USA:Rochester\, NY, Dryocosmus quercuspalustris Inner Gall 1 ILLUMINA 10093803889 bp
SRR7853492 RNA-Seq of Quercus rubra: Outer capsule of Dryocosmus quercuspalustris gall from USA:Rochester\, NY, Dryocosmus quercuspalustris Outer Gall 2 ILLUMINA 2007422820 bp
SRR7853486 RNA-Seq of Quercus rubra: leaf from USA:Rochester\, NY, Quercus rubra leaf 2 ILLUMINA 1700819479 bp
SRR7853489 RNA-Seq of Quercus rubra: Inner capsule of Dryocosmus quercuspalustris gall from USA:Rochester\, NY, Dryocosmus quercuspalustris Inner Gall 2 ILLUMINA 1917430414 bp
SRR7853491 RNA-Seq of Quercus rubra: Outer capsule of Dryocosmus quercuspalustris gall from USA:Rochester\, NY, Dryocosmus quercuspalustris Outer Gall 3 ILLUMINA 2192640090 bp
SRR7853493 RNA-Seq of Quercus rubra: Outer capsule of Dryocosmus quercuspalustris gall from USA:Rochester\, NY, Dryocosmus quercuspalustris Outer Gall 1 ILLUMINA 13171666039 bp
PRJNA630305 This project tracks the leaf and cambial tissue gene expression from tree species found in both the SERC and Harvard Forest NEON sites throughout the growing season across multiple years. Ugur Uzay et al., 2024
685
Library Title Platform Total Base VCF File
SRR11731565 RNA-Seq of Quercus rubra: Adult stage plant with leaf from USA: Harvard Forest\, MA, H71Qr37 ILLUMINA 3266881980 bp
PRJNA896247 A haplotype-resolved reference genome of Quercus alba sheds light on the evolutionary history of oaks Lu et al., 2023
686
Library Title Platform Total Base VCF File
SRR22133655 RNA-Seq of Quercus rubra: leaf from USA: the University of Notre Dame Environmental Research Center, NG45 ILLUMINA 6555910800 bp

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