From 6c7725002d85dc673d307f7e58208fe3c4edb775 Mon Sep 17 00:00:00 2001 From: Harriet Dashnow Date: Fri, 11 Oct 2024 10:38:50 -0600 Subject: [PATCH] Add recent publications --- _cite/.cache/cache.db | Bin 69632 -> 73728 bytes _data/citations.yaml | 149 +++++++++++++++++++++++++++++++++++++++--- _data/sources.yaml | 20 +++++- 3 files changed, 158 insertions(+), 11 deletions(-) diff --git a/_cite/.cache/cache.db b/_cite/.cache/cache.db index 4a5e0c9fe546761a485f6a71111fc2da1a20d79d..3e82f7d9ad16f3a9b78ac91a696ff1df0392622b 100644 GIT binary patch delta 3935 zcmZu!Yj7LY71nBHTb3oQ?Zod#ZU_u%i)6{qJRQr9V`ImT8;fR|kl5GKjkWP=*IBKc z*bLYW4k4hla;`$4$pi{51QMt{J45=QEmccf(ieqJNg!$I<41=wB^d@9rbF6uSC-@f zJmbCk?w)(@x!?Kj(b3EkmYJ6=@v59klgU&(hc|v+B zDy*dk3zzF+;ksILyqtc=-QE>1b8wlz<}Tl*d<4cU?tgyq5RoNA^piMusAjav-ECvJ#Dy z#cL?8D>uih={7prjk}`)e?6&swqPgI1r77 zt(7d$?18KmIgkyD@E$x(#lnAukA&;Od-}?@Ukh_j6y90ngXzNc@DLi{;dI*y!lrUt zr^)e#W3PRq!)@y=wrlqH3zEWuzGlE- zquX|`D)D-}b)%}gzGZEFOM}~6-`Ib|-A=u`?kMzn+@5-Ov$wgSp#dg+naM_&Y-;i{ z%Ql#FofHJFfVy_IF(uW^`6|HiE%dj$O1Mq5aJPrXZx&dCrl z?r!EbfK7|FVNKH-m|DMRQ^u`>=~iwnxN70n&?DfcXz(_AWp`O_v&S-G<>>jNU*ekR z<9k-oA04XT8jVlW4_9yv@M!~AZ{Yv!so=acylW%pfv1b^dC|c(u3LO*rPaEVO}Od8 zP`}`^IX^L#J6|#hA2_c$|4!}0)lR`9tP)CveCMB>uR34S+lEhbbYR%3U%~I#r|o| z6ZsFdq`~EcHr$*6{W*J@(%{mK)j5qBFgNdMNQ3Q{`YzPhr_m)-@OEz+y!mYP&pa7` z-|no-fMtJsz?}lgv(fo$_hwi(IJXVgeu{J2Hhfht+5e1Vk?y4bl`P#!e=JLP(qEIM z`}u9Z%hG-JvD2SVH!R80o%B~{=?0Lc8^98}lm4nK-2k$51IW^y^jBu-29TvY>95Gr z4IoQ*(qEpX8$g!sq`#*;OE#h3GYu^?)2d#T-g}&;Yzpk)bxC>BatRM3`xC;w&&v5+x zHE#Nqb6r)bJ>VLA@+R!%yPU$7nVb`i^yaY&>O9P@nV|pkTmfhK+PPfU$q^g3vovW$ z1LlSZ*fJK~h1YGID~HR!Fq^}@Wzk>!mdjl1fQWOr8I$9~{F+=3|0*}LFeh{T?3M;P z_;43EVl1)!FBxMB>+=u)i-Rg~`j}w>%o!HO2o^BvA0Nvz^N06&DV;TJfKbE67*ho6 z*Jh8I`J;Dv=zULj!%mE6$LL8N+__)_5VEj8xCsc&%bFn1W6j^#t7yx>Z?w5a8OrAPq)LCOsC9( zl?S#Z!}?E7=a{(``pTL0%mTz~SQujp)6&P^46y*6_YeGVU>hAVVFhrT_dV1 zyO-;^UpvZ~>znAAqs%2!ygs{Y*Wlleg4{J_AOWMsc&?D`b!O* z8WjYpxKX$lF$+AGr&Uj`oL;&j5zEm;O(Kby&mSUaK!RRKj)u_y35ugCA?uJ2Ns2t` zQV9;C5dv*a7^`DwucD$+A`@tv&;(XRENhWOEDsuikfKHsyA!Kp&Yffe^+HobIi{hB39gk!z645bLBiFHYQkGG>8}%q^5a=!5OhyzH zhtLkxPsSu{?BVcX$RPT1R9qn&IkR_806m>zAS4kL4&Dc!7=b=|@Tm@q*W>a~-=ozP zElnd0Q;Dd1cDik;cpn`2taz6+U+hM(Z#;HGSfi1~OuS|0jCj*4vf>ptlf9xW%A*J) z4MTdvNG0P0YbbyN`xf)f;fyif}bZ5Zh?#uTRg z&tK%NZ($9Lz>hghZaWv!#C=*1*qXfxV zR>l>$-4XiS4;;5eaClq-t?gBz4nna&UXRCvx`+&NjGzHk*+&AJzU>)5XDi;xemkm@ zs9isIw#nQffU@LC)agcjP&MHul34zDbcE@PT}vV51X36wSPg*YETCY>u8n6LE0z;_j7(YpgP$>@-o>icM!2^p24i7wROSA~C#8=Wu zUme_EFsss6LuIJE_P1=Vwq|Ds>wBFtt2|!2*X8lL93C}GB?E`Mz0IpL_?A#5pxNbF zZCm4VtZs4I)~s`T-41t)(%@SR3kr=XzC~2A+OxLB<#pOT@3c8qu5-7!+dav?h0tDT zAbktqhQbt+Z$4E>K2bUBj+IF3de@mr=zR0wK%stu?+wZf9PKSFwiZ{b%d5%t)e7N4 zo+s%+czZ?(NuP!0nYvE;3{RO!IaT_!kt!jdl^=a2nJSiMT3v0n6)u!J-jcqIum3+^ z`jU>yk6mwVwXc!XzZs~hv8$`xO#8YvdyB2r-Rz_v3 zJ$5tG$ku8PXp1%X*>9OF<|4P8U(8+Qa=1O(R^G_;v5DGYK9rD;|AewSR^#s>5BJM02bUT1CwCEJPSNnKM~}>zZ!~Q@1Ryuv$?1k7ln zR5i7%qzp}DqKP7S_O2FWpvyBrIxJXL3ew<;Wknzr&E-6URGL*Z!F}DGvMV>vAPHxGz6gT9GHg z;r^Vw^+zpnAeoI>G046&);VU5(;>~rnQ>@8Q=JiqIkR6*kAo2$N{c~OXztb27?>kJ z(55*2IQdjc9JU{OXpBMXE`FyW29s0WrRB*nGH3=$^)X03erLBX?xpA?6LXR;;)Y>) z)3Bgh`z0&ec(8U*w(+YSyJQ=;jqHB5je7^HWE&AYWn=AW*~UQBDcguZwlNTGe#%Bf zvW*C28xhDhB9LtiM3>7p2BLP^Mg+2r2xJ=r(FWPZK(wSmwlNT0BHI{MaCK zcnSJ_MK8NUTSsnHe@=M){>G%9WD`epsA!s25h_4zCZKgeI&6HHqL(tUh7b4S2Wt&W zENp%FJs>-c5R6x12}((nh*4spaeObJHm%absW-6(r-L>4>EdND3%xf#C8-{j4vzg< zg)}%zticZ*YcLCoM!p7mRPqy^6n-ppzmNi}A5X*EBYVW{#VB#GSPOK*;m6g0>Zvfm z?jf85b_)w}@!|C`3)hGK0O*9D8Wt7EK~W(_q(D)ae1j%aShO!qc?j+#)2un6awZHZ zYbg&HAXfPORVuz8r$wd3F`xqNh)V>omm@}rk46~K34l4cmIGF#L6tLx zHRvFsDDlysIZy_uZjcElMCM`laSGMg9jWO*l8D>yc!TJkJ^#{dnV+~8q8%2?YUoYe< G0rMYv=T9X7 diff --git a/_data/citations.yaml b/_data/citations.yaml index 93acb30..484adf1 100644 --- a/_data/citations.yaml +++ b/_data/citations.yaml @@ -210,15 +210,8 @@ date: '2024-03-07' link: https://doi.org/gtnd8b orcid: 0000-0001-8433-6270 - plugin: sources.py - file: sources.yaml - image: https://www.medrxiv.org/content/medrxiv/early/2024/03/07/2024.03.05.24303792/F5.large.jpg - buttons: - - type: paper - link: https://www.medrxiv.org/content/10.1101/2024.03.05.24303792v1.full-text - tags: - - STRs - - long reads + plugin: orcid.py + file: orcid.yaml - id: doi:10.1038/s41587-023-02057-3 title: Characterization and visualization of tandem repeats at genome scale authors: @@ -517,6 +510,69 @@ plugin: sources.py file: sources.yaml image: https://journals.plos.org/plosone/article/figure/image?size=large&id=10.1371/journal.pone.0044974.g001 +- id: doi:10.1101/gr.279273.124 + title: High-coverage nanopore sequencing of samples from the 1000 Genomes Project + to build a comprehensive catalog of human genetic variation + authors: + - Jonas A Gustafson + - Sophia B Gibson + - Nikhita Damaraju + - Miranda PG Zalusky + - Kendra Hoekzema + - David Twesigomwe + - Lei Yang + - Anthony A Snead + - Phillip A Richmond + - Wouter De Coster + - Nathan D Olson + - Andrea Guarracino + - Qiuhui Li + - Angela L Miller + - Joy Goffena + - Zachery B Anderson + - Sophie HR Storz + - Sydney A Ward + - Maisha Sinha + - Claudia Gonzaga-Jauregui + - Wayne E Clarke + - Anna O Basile + - Andre Corvelo + - Catherine E Reeves + - Adrienne Helland + - Rajeeva Lochan Musunuri + - Mahler Revsine + - Karynne E Patterson + - Cate Paschal + - Christina Zakarian + - Sara Goodwin + - Tanner D Jensen + - Esther Robb + - W. Richard McCombie + - Fritz J Sedlazeck + - Justin M Zook + - Stephen B Montgomery + - Erik Garrison + - Mikhail Kolmogorov + - Michael C Schatz + - Richard N McLaughlin + - Harriet Dashnow + - Michael C Zody + - Matthew Loose + - Miten Jain + - Evan E Eichler + - Danny E. Miller + publisher: Genome Research + date: '2024-10-02' + link: https://doi.org/g7np5q + image: https://www.medrxiv.org/content/medrxiv/early/2024/03/07/2024.03.05.24303792/F5.large.jpg + buttons: + - type: paper + link: https://genome.cshlp.org/content/early/2024/10/02/gr.279273.124.abstract + tags: + - STRs + - long reads + plugin: sources.py + file: sources.yaml - id: doi:10.35542/osf.io/pys86 title: 'Spotted with AuDHD: Seeing Yourself in a Mentor Who Sees You.' authors: @@ -535,3 +591,78 @@ - Neurodiversity plugin: sources.py file: sources.yaml +- id: doi:10.1101/2024.10.04.615514 + title: Defining a tandem repeat catalog and variation clusters for genome-wide analyses + and population databases + authors: + - Ben Weisburd + - Egor Dolzhenko + - Mark F. Bennett + - Matt C. Danzi + - Adam English + - Laurel Hiatt + - Hope Tanudisastro + - Nehir Edibe Kurtas + - Helyaneh Ziaei Jam + - Harrison Brand + - Fritz J. Sedlazeck + - Melissa Gymrek + - Harriet Dashnow + - Michael A. Eberle + - Heidi L. Rehm + publisher: Cold Spring Harbor Laboratory + date: '2024-10-05' + link: https://doi.org/g75bj9 + image: https://www.biorxiv.org/content/biorxiv/early/2024/10/05/2024.10.04.615514/F2.large.jpg + buttons: + - type: paper + link: https://www.biorxiv.org/content/10.1101/2024.10.04.615514v1 + tags: + - long reads + - short reads + plugin: sources.py + file: sources.yaml +- id: doi:10.1101/2024.10.02.616333 + title: 'The Platinum Pedigree: A long-read benchmark for genetic variants' + authors: + - Zev Kronenberg + - Cillian Nolan + - Tom Mokveld + - William J Rowell + - Sangjin Lee + - Egor Dolzhenko + - Pi-Chuan Chang + - James Matthew Holt + - Christopher T Saunders + - Nathanael D. Olson + - Sean McGee + - Andrea Guarracino + - Nidhi Koundinya + - William T Harvey + - W. Scott Watkins + - Katherine M Munson + - Kendra Hoekzema + - Khi Pin Chua + - Cairbre Fanslow + - Christine Lambert + - Harriet Dashnow + - Erik Garrison + - Josh Smith + - Peter Lansdorp + - Justin M Zook + - Andrew Carroll + - Lynn B. Jorde + - Deborah W Neklason + - Aaron Quinlan + - Evan Eichler + - Michael A Eberle + publisher: Cold Spring Harbor Laboratory + date: '2024-10-03' + link: https://doi.org/g75b3z + image: https://www.biorxiv.org/content/biorxiv/early/2024/10/03/2024.10.02.616333/F1.large.jpg + tags: + - genome annotation + - STRs + - VNTRs + plugin: sources.py + file: sources.yaml diff --git a/_data/sources.yaml b/_data/sources.yaml index 2751213..f4410a7 100644 --- a/_data/sources.yaml +++ b/_data/sources.yaml @@ -81,11 +81,11 @@ - short reads - review -- id: doi:10.1101/2024.03.05.24303792 +- id: doi:10.1101/gr.279273.124 image: https://www.medrxiv.org/content/medrxiv/early/2024/03/07/2024.03.05.24303792/F5.large.jpg buttons: - type: paper - link: https://www.medrxiv.org/content/10.1101/2024.03.05.24303792v1.full-text + link: https://genome.cshlp.org/content/early/2024/10/02/gr.279273.124.abstract tags: - STRs - long reads @@ -148,3 +148,19 @@ - STRs - VNTRs - mutation rates + +- id: doi:10.1101/2024.10.04.615514 + image: https://www.biorxiv.org/content/biorxiv/early/2024/10/05/2024.10.04.615514/F2.large.jpg + buttons: + - type: paper + link: https://www.biorxiv.org/content/10.1101/2024.10.04.615514v1 + tags: + - long reads + - short reads + +- id: doi:10.1101/2024.10.02.616333 + image: https://www.biorxiv.org/content/biorxiv/early/2024/10/03/2024.10.02.616333/F1.large.jpg + tags: + - genome annotation + - STRs + - VNTRs