From c5a094bb149d2e56fead345d5c1bfc07774bb256 Mon Sep 17 00:00:00 2001
From: Viktoria Petrova <vipet103@hhu.de>
Date: Thu, 30 Jan 2025 16:07:19 +0100
Subject: [PATCH] add de Vries study and qpcr protocol

---
 studies/Fawke-2019/isa.study.xlsx         | Bin 9046 -> 9046 bytes
 studies/deVries-2018/README.md            |   0
 studies/deVries-2018/isa.study.xlsx       | Bin 0 -> 8909 bytes
 studies/deVries-2018/protocols/.gitkeep   |   0
 studies/deVries-2018/protocols/qRT-PCR.md |   9 +++++++++
 studies/deVries-2018/resources/.gitkeep   |   0
 6 files changed, 9 insertions(+)
 create mode 100644 studies/deVries-2018/README.md
 create mode 100644 studies/deVries-2018/isa.study.xlsx
 create mode 100644 studies/deVries-2018/protocols/.gitkeep
 create mode 100644 studies/deVries-2018/protocols/qRT-PCR.md
 create mode 100644 studies/deVries-2018/resources/.gitkeep

diff --git a/studies/Fawke-2019/isa.study.xlsx b/studies/Fawke-2019/isa.study.xlsx
index 98f889102a53574a839857f092909761c31ae618..e6ca9b4d16b1f2550393d063d1ef0578ef79691f 100644
GIT binary patch
delta 620
zcmccScFm1Dz?+$ci-CcGgW={z?oLL=o0F$9Dl^{PypvH7#5v8R03`VY#RTJvQge#+
zk(6&1W>x?xF=5dLl8TDLn~Pb_vjDX^bDm-cYf=MpOa=F_fuxm$H?vCgG69*Br9k4l
zq&6{f+$^(;;+nD}VRDI#LcQN%1A#rCMJK-RoIFiQWa&zl73x}wfh>>G-sEP@x-o69
z>e>5`ZDws-q^=@gR(9-htwprVDx)8aua|@sPjWHjbSTtaqV?=a?p~hvo)0Ey9`st9
z;3rj(GVy-Ooh32R6&r6gxN_=!a67g1&Y6>97ne-2+Sl5(^Mv*kb@N+cJhod{>rH#!
zM=+KM9WUR)l+vWQcx_^ao4Zj2mtEAXy}H)S2Q{YzG&;FY)>x>n+qCx1Rc_hhWouN-
z*w%UVKUraCVafG+SKq5l^{-#mza)SCb8D-V*VVo*=99(;gYy~}Zu>d=mS*hgo_SBB
z<W#3kD1WK=W#aAnTIS<+woLNe1$Vrf>-;lqD<^(<eZw(0TYFBre!y<cwt$S=U#@Ug
z1{k$#?|;|J^6|o)tiRr=hjV_*Ik42JW!fK9{%luU6Q%EI*QvhQ!0%Az9>2WHGwna7
zM}I#0cXFbs&8Ph1iw|D7e{}zudPd}k`z_lIinw-p2OxPu-WW*!k+%SnrV0i?GDb;u
za<hUYkTqAq9Y{V^um+NfimpI1UC|Lpf>az+1gUtS2r@%a$qFoL1|%md*&^cghLSl@
INI=;Q080)7RR910

delta 620
zcmccScFm1Dz?+$ci-CcGgCT4qcPArb*yO2<%8X%~cQOisIH#EufFz%wm|%QSYEH2}
zlJd>M%nBeSCM?=OQc+QOb1}<#7NAyV&Qt7QO=>`nso)+qkhGHUW>$$_CLnXN6i9rR
z)Fwuburj+SS)+w2lS^b2>hlg62<-W;t#rRxST0nwRbi{>a-~qM6`}d-_BMDYMSr_A
zVgLHi3XD^O^R2BnKd!ZiozrFWgYor}uwtQpC835#Q65`oPd-~EX*c13VsO*bsDpDt
z9-L6x?Y+};$F>hyTN%5BVjlEP@!m0Wvh5;IjnW!^)?(%L0rT!;MH_s%@NPwY;-3R$
z4#xva{J9;}B#fe@+m@B9%w76m?^4TKdkh8UIPtM+l$gjJExDj{<Ir85j2YaiiW`jz
zf~(Z3zn(l97cuSWia91h_v?M^!}Rmdu2>lIb(O^g9Z{QyViH-ibFVnQ3|jg{Dg3jB
zVfz}-@`e3(KE9T=*!EKHM?}NpFsU!)S(ztSx7Z(NTon}k(5AZemA7Hb+-;%WyeFFH
zSjPM;&R6X?p7r9Z{?xMFx#<joKjx~uWjlZ7_mh{EdsS{)NS!~V!KZ%FYM$C=jhTM-
zujj3Q#eR5E^^^O3>CJijR@cw`%Y+<pzh%2Y5!Wv703=Vy8w1Hd@)khSRKWm9#wf{7
zZdQ;4vgRtd1Iecf)<9BG(G^IhD>?#6kcwl9AQcZ3L1ri_S%F2(faGK)TSUCxP%;M!
I2`IY(0OcC<6#xJL

diff --git a/studies/deVries-2018/README.md b/studies/deVries-2018/README.md
new file mode 100644
index 0000000..e69de29
diff --git a/studies/deVries-2018/isa.study.xlsx b/studies/deVries-2018/isa.study.xlsx
new file mode 100644
index 0000000000000000000000000000000000000000..6de32af5b347dc3a957b2e96777bf2358c65ad47
GIT binary patch
literal 8909
zcmai4by(Ex(x$tmySuwqT1vWGKw?3<8wm;NQo2DpC8fJlL6+{2?*7)-qrS)YobNn;
z?6uc#=YD2(=GmEN=3ZraXc#022nYm-75AsQv7mND9Y_d>BNzyXC*Y@g5_Y!EX12~o
z>K^uHP6n**Hm}MO6l^=$F@i4vQtK>oC<f{pQk^-qL%2m}5L52r%*3FR_iZ3IEc#+b
z^5Pdyn3DMpy)wE9l<Fd7zu?OVrM^|+#YUW)WU#?&yh>{;h^EX&(0uKH>r^Fy6~AgL
zyyTG=l*+P^6Ez_sD{B^ss=O(zTdvN^jd9J(oEPGVh@5cQwGzmj9%*SxsE4i+QK;Q9
z*u8Ex6n!ZMMTj+UYB*c%2)RgPAimzDuXi32M~Xn;=1N%nu@DkDNLbdAX$vx>)h*-s
zI8r=8&=nkN$@-W6NaP{5t)#DJ@lO~GG<L8OnY2*rU#>$3<PdW3((ZjJg|vaczf*i(
zt@n%%&GGDT0Q1^s?ZMM0XtV%c#=#=S7H~0I8?7%PdX5QA7Lf{nwePbMZ(t<5@c{Hk
zRU5TQ$gf!zKE_17dNg=Q>!=ete-%WrJCqB+`g*flWg^5BybGh}DpI;ir2MZ)K>QU6
zu=9T{IPg0oN3&N>Y(HgwMC&9|c5Vm!nLHE(1oAH#*6)&KaUF_X>?op#-cswgDYh~Q
z+4;@nc?-1MPur<&i9SZ=b_X6DhQ)}YL;~TX9KLN?4DF2wNA5<dUJ#=&mk?sZ4vmJ4
zwhui39ncw(;X<h3IqmaMQa8=-pHs;d4YWk-;K=mDdB$F4xzqs^-ZMpE4=N1-#Tmw?
zcS2p;qt1%U51nrY{5OM&>PAK9nrJ@Ub4>EQvemQOiQPBOA-B-I8>D~voFweE$Mj*^
z8?DW3M&<D>1I?M{J3wKE%y@QIU797PT9M-FkZzj`F~|UMYb-)uy#BF~I3+lM%1sB+
z^p10qj&Ix>;-^Rc={0DuN8Dfia@jux5Pt~#C(i~^S80CtY$MpSgnt)vvvagIv9q)O
z{!94jXsa%E49UZLq^e6@S6w-VSSN<p`g)hpLA7<yU&&hX+1y`h5XlfDWW#56m(C{l
z$?T0>@`oxtpN6l<VwA(!R;X+_#P;R}-CAID&*=eRqLFB+XQ$ov_=vf;NF05rV-<uM
z?1zt~<T%l!6{JG9PZfwJKL`v>4}2IgbfecYyQZF+hu%e2s;WVn9MvRGVOaJ1BmugB
zGYS-l*uItvqRx0T%tn|l_!3sy;3Zki%$k;buhU|W(@mx@T8SPC`diIqXYt!n29cvr
zVb@o<!)tNuMil!46ek4h+&5AqeMJNw$7{P}|J~7OKOFSkHBOdhX3l>eQ++5?pf5O~
z=zu+m{}0)}AROQQnV1ZU0`X$JIlRRVIH=)N62z|y<UX)P<`$ix?f<A*U_%i{uY6`(
zr(~oH;(4R5#Oq|-K52I^p>m44GqHPr*(y(3o36`Ms^(fF^8~<cK7$tGa<g%|-^{5%
ztA*a&#1&{*sN^ZPWap~`AiT8^wA#nAV}HJPwmsi4TwNrv+nQlJ`~kk=Tjaj=7WzI#
z>a&u)1#gulGw-VYnpWG8v#-WLzuvBImo~Ze1p?=u_G7e~ZXZv(GNbnSTN=(s#%9ky
z-n$Ym@f47?^!R{29sqe2;#+kd9PlH`4u$+cOUb3Fc!$@^i9SobU!I#E+J0Jig!b_n
z)6g_q1lG)bd_Wtm$<S^wDkPgdVYL9(>5Pc9ro&&qQ*iY($`rh;_qa2t56L|plgSSg
zXe=i=%e)bDGt@17do(XSHL|rC%j%}22jKB-{Zgd*4g)mzIW>_dIxN#;GxJ0{Gm}cM
znrVi`w&5hucC_t&*>71%;o-`-M%xTMRpZN5bbZs6!*bu!$y$4~!JYZO)`#Q0Dj1q1
z2w%!@SRM~RQeJmlyOLB@R+3S4KK+;^WZP<!k>c^tYa@?^imYKN$h%@o)~w!`AV!8j
zwrq-KTWu8-Cd<$~3cVP7T~Ybh+LM(*`kd6S3Fvg-EE&7wV8{a#s)Xf&m8GzfW9eUF
z@M!izLVpy8VpJ9Fr!?w@gvOCoOp1pR*A|F|hGR?uQokplP8#BWk!2#Q76&Dsb6t{$
zsLl)oi^~Z6C33$Gr$(jw42`z;x?NL46|h`Mia<TZUqouJjSi!V&`7QW$HW<zp&!Rg
zF$KjClvex6QKn4PF(qD88?6z$pVS|ZT3#kYRCGBnKS81nruxZpUQdFACyaPB`2-a?
z04rNMW*akxG;Ewo<_tk5y4$se+EcR9LTVe6+7l*En(_<*3jj4qh3N?sMhdwTivS3a
zjP^g12_hBCkrwr&{=H4yc5Do3@Hmz1nT$-d_;xI{Cv~1Q#hDBi0BbTA!;?CUl;Ccs
z>p|*&%OUQlAOMgi)jnO15lzPTf$o(fn~2CHc;*`IBzSf;?{JGJXzzH{a}T-<KA7CY
zKTCm=@iy$9!uVh&jQU!)XA0u838s=nR<%1JRAL|aF~VcGdOmikDr{#PR$g+jMsX;S
zY<5bY8~z7`#BlW$>{5GJ@%$W~ihu*0XEa5fMOm+dOM%7Y0C??{!3GtAV&TyvQ5=Ui
z@Wl~achWP956Ugb8ZY;i^NLGfXs}kzi4_kbX>MRy8^v943zXW^#N~ru?Ji&(wOIxm
z!U#TSq}dZ#Hb$R|`4#VHlN97l-3mnbJ-=vd5%F^~PiymFJ&1HF@DmW+^(@@K?hkC?
z>un)^IoA4U=|=d(R8QpYI=^3#B+{kMHoa{&^Kr&K8x*zgajP-F$mYJ`Lssiz<0SR|
zPS(fP_U3xN{-EZ1?qJ@**O;Bma8WKzI>ulT$>st2XMX!pT1`T!s6^o*AR5343;RdT
za<VjbG<&J$><F~AaQdFF_O(H_YtOKJ#<Z}{FsS_{4K~e{UeQ&*^h!I{hN7{+WIh?E
zls7r#Zcc9P|MGNS`WxQCyH`96U$JQhUHun)`q5rQ82B`m>`v#Gc$}<BFun+zv!_ua
zTF9D$NQez@)KB9*D0o+v3x_}SayTf?eNH<Yc;|jG62^gRS;Acy***8owAm&HM$H^5
zF*`4@agw3ttkAGlp&+)0R;;$j@=`GUazDZ0tG|o@P>HC|j&Pa!abe{J%Qo+*B8rGm
zl|}r{!qH589Y6@^)uC%?@F`#qKYzn1s;P-|jV&b?crLh*d+${^k5tNPARLq3s|J~@
z>BJfe`yy7ew;h1Tfq{-8V0;~?6VbuwsFDr2R{b1k-A;=@2+NurfiX=S1FQ;22(gRy
z+&8TEN-*Wq4W-7XV=Afcrj_HGvu-F9nyV^f_X?$*6t1alM8Zd=9SDes$e()M5ux+e
zbEAx%;F+X43;`7YIe|v%$YAy+L(&oo-@20^sB!}qMwh?i6X!CV`>qc)O}p8_2RG<@
z#0*?sCSN+6Zz>896wk1!tE}R<Hzdv6K_LS2jd+Qcz)k=a=@S<vi;_t5;qzrR?UO0B
z3%*qrtcZDPG2>ETfOD*<nMXt!!Mmry9rl6}S#KM<lQvbv=`3VC5SJD*lyv!wEnCr-
zCxMf>YWY=&i=thy0`X*(QMe3w36=dc44nADGemYhK$Dya6zjm(d2?JT)`b}9XSR)u
z9|-SO*6HJytFgwE9$=o%5{wCuUzC}ja9liJ*Xc#E#Z<QN%)m*j#$~{xqAA<t+CtZC
zER!!!pM@FwfSs9!^rD!4UY<LNZMHWl0*G4zAD$cyc)}#1ue|+b$H>*ZtGcjQ9~M!{
z>rFx^t+7r=-V!l`KI6*C0$1%NX_W@K{^-P3S<#oAN3Mzq1r@j>JeVz(w+<`&3S^Ni
zypN=cdTV0aI$54Lqs{MzNKS3cOqH#L?gtg!xnDOdHXtVLz^cv!#!g{y4V@&=V$^J;
zmtmV4*2Z`TqR*)557V;qsH<KpU~4qXi<MID)=#%EfS~v-77fJTMRxlrjA$JJ%#4Un
zU7q69;-o{3v^^Y;dD%V*z4nfpqjO>4j7UMsf34BlCmuxvuM~Uig&C(&&=24B7!`b*
zn&x@p<JVN)tWdoDMr@Mw`qM%!F>6tNl_ir1Z3ix@hx*`!`mUE!kIh6P-#2NOM&B{|
zQ*lNwBd6YEgdz+J$pV9GOPd|gQWKqR(n)6vMPnNow=0*Jji5fB8{jC;Jy0*{fSE|Q
zpt5#I>qRON?p3hH5&3Y}XxKw|@Ji46&F+^+K7@+CDHZ;rmVhhqPUpnWODaSV&%<1{
zr6&Z->sizH7r*d;Xa|A2vMW6szJYyiTYNKt4`-gvdZtz#=9uO;_sARb=aoqNByE5L
zR}tq75flEV@_?rFEReucE9>|XsGJ*#aj(k<Sn2b0I}3XWjauje!@k%Q+;zxT;zqqs
z_m^vKcUyT^ENB~F9trrHWym4o#K0d{pwOyNe$|pYVMw=S#_6*VE3;pTZZwX%*@86~
z7$hEU?d<e{j?27yni3(!jj;Ky&Cq1ckCVp-I^S;z=@$CY)!2`I3EOaXG+%Fa3$BzC
z_Q_Bwmxlf(CihS;8(`T?YPrx-!t^Xc?VWB+q$iI3=hg;dpKs3eRZ&ZAibg)?<FU8M
zyVW8e*ly)_n-Z#Sbw_ctTG<jHDt3^CKpA_;_XBy4){%HVrXOPcvK<`>)%+?xgPO^1
z38&E0?c3i@E;6V}F=gYHSfG}P8rf|vLL1u90whZPZb<@W3=Q{sNuvsKJGKkTOQwj+
zDQVEwSE=$cYFYZN`{!zo1>#8SiQQW@V%%0n4b;T$RE6g<#Ug>~N;_rZcK&$d8sd+b
z&x%1t!$YDIAk`edw$}DRtQ*+lvaH7#Q?D`ia&**Z^=i8xTy&l@$KDV<Gd*~k$#?0e
zk)Z@B)Oo^QnOlL6<a$v`7nr`cvK*wW?K9vK`L*XvHL+a!eQ^W6nQI64pn7oX>jK8H
z!j!-|-xcn2S<g-OD${n{BT6&<ZxK_CB4QEpWD%Jrv;mgVnMcoHxQ~{VWLFWqmB;wA
z)diokfzl_2_U`#FYQ~L+=ao!e8I=%F0+wxj$tFr&MiU<$-zgDaf4GoB%yWnYwyk@4
z#$(A-4-yc{A5xFC;p)cungon}m3RVoRvtw#uef|SLg!9&;g8Rkr1u#6T0KIe&cnta
zJ8#QY@^qVSebO%$cx^NY-!&fVL~oM6H9{wl>&EjHU$h?4PN-$E*=8OmkvhJlxWdm>
z2;xd(maOiiBG5ixC(UmwD<do6s_pa<Gaq^whN=**Q)Os!ap!Fag4A(jq&)q%WXXBt
z2Wy6g&!pmvCtax2(w}zg=D%wBNlXUs-i{ebuPl3B>A5753a8`VpXnZY9*WdPMJ;{u
z3aA}8ukrg;asO*)=4@$ZWA>|o`%#$VMtSHWzzuOX`Hu+&xWoG)_SfrQeZ;<wk{yT_
z`;jr=p!}uYNoJO<@sR5jFEF5Yf1HYH3fEMQTZS=A1si{EiWM5pxr-Ir6=aOB`2tq+
zTQ&NVte!7Ep#a$jsyX%4I^cw{14L?`@8NOZB`KLvcgc*BgcY$VE5ch{^XqUMLjIGl
zF_LRZ9(LnwJkKR$uu(D1Fm02$n1}af%5zu<mNAIPNy1pBIiVQ}^^$13@t>_CrLH1m
zMB<~z2C<UqNkl1%TFaD$+su?=#P)MjVh2pNOoU#|;!`t@<e!iRSIC6FY%jcPSF#wE
z&zoJzOS=nAKBDJ~!n8?dAB#yxIV$2t4G#)}XPHtIDR9{@{)nAZEy_zbqa@<g*w}8b
zD!XxYWzVq9U#@1&cCN*FpW0y9qP6!q=|&ae#77&blUrkWoF>2vKbS(eu;5v*t9c}F
z{~6UAr0{_4?Go(9dvxDgUu}$*z_Wn*2?TU)D)w~?uCQ6&b8X(6#_>i%q7S1bvILcB
zwDefLi^0qV>AFw3+?)>*w~FgDZV#?g>0nz^2%3CC_n&T*iR+K4VIZX-vnS12k9lGm
z5&@0yi6Q*Gzj3q4<vyb~ouA^I93Z@oeNfgyqIDKu?h3zi>m{S!Cd;_hCOMnYCw{NH
zyKl#b7D^dufCrbSmj&~@;k_P>Ga^2xW9UYNevcPxdxcB8$CS~2=R;Z*4_BuOyZPdK
z%@!3IB3{?`Gk*7X>d<yh&hJCeWkQ1;;4|^vbP$lIpZlX<H_M_xNn#^nL#RT38xVzD
zOr|LAa;dcHyd~xgMsufns@gybBb+1&{fQ(9$^IS3oUwj$8fZZOdZT+nTSOrGw4oV+
zWN-803-SEhLW~p1!b#*xai`3H`U!k#ZNdRA-VSZ53xABB^5*WX=asSCq!_t@p<k$>
z9qG@-LDVp9!_F`rpTlij4~a;gx$HJyX-jq1iK-W3sr5wgDKo2lFpCgRkv<?N*p?w3
zZm7W5mpMAaS2I6*qm7V0Oq$8yY$x$%qS@!&s5s65P4ae(P-vBK^$@M0e`iq=S6G1X
zMZtT~P)gHGSr){CgP1&YUs09p=EEn<OE!8-fhc+CG3&C!E_zU0E+V7b2*&9ryy%JF
z<~AjXNYdR)gD%i|vD33CdV5<^1%*>N0Xuq-FB5G_Yerb|daWj-EB!ecimbV#Xv7h}
zLJOP2db?U!hgrPI!8oQIaig{BKU+?iDwqW9DkZ4PxmN?vsV^i$NAq1oMCG(;e6piw
z2%;BVqF)bBc=a#4CB5$UwFRMI^xXIpkkhj}@8C+Bw8&Jat5#_<@u~9d52Ak2ZFv&6
zUDh+E`*qDXrFttDM;Om&7dt=U9I6oEl8o89i9YIrBaQl<#)z55sb8s8_{E7Ci<8cf
z{uj>7(j=WkHq8eXrD7Up?+q@>1k!$j9wAB=Z<ufQ#$<3)ij1}1UEHWy0-1^(kpglc
zIExcx%D_Mf1>+P)!7lA#jp$$wGblN_8f7<K&z==lBJ<phlhu4$1oB40kV$I}wBVHC
zXV&N7GM9f-%ZKX$Wm|l9N9`D2L|sgXb-sHold%8RWMaC~GGVE^bI=18jSiZ|uFHVV
z6lMjE0`UAUVSw$E*GdK}XF=1qaB~lZtxn;xnEv2YIZC`Yki?{WU3lO2%+(He!;_x1
z9CLWv*lfZP76H~^F7!Xc@;ptc8^*kwf*G+#x{-`4!XS}mnR@3W(WYdc>`2ip14F><
zlTao?jpY;=hhYLZgd;3#NMv%kJ*Anc6%iTI*;DMz#k?@<=r2Yd<D{7@BtuXXWQLoB
z?>Oq_&*Nx&+pcWel7??D6Qr-}B;(H7prxrVuXS4XLBFoFjy`7!Vnivyn{#X#=p{>6
zAC<6kQ_P%>h~9VqmfvNGwKj<x87;=s828pa#5+nuV{GvAW|MiB?<vFa3cPrfu7pxq
zaiONOtNshInACF37xi-4d?H8O+R?g9T3Q7yk$N_+?l7@S!B#v4sxR646tnLxa4%zZ
zXl11FzHX=!a?r7yX7AULRIGZ^G_PF9DSob!N3Azt`DjqDd(dds3@Q?a%Izm-ZvHy&
zb7he^y7}&6=c>2Ir-A-s#T9d{wl2J0k-evbQ8~8JJP{1@X{F{4U&)AK*>q{$ElnW^
zn2=&vrndX#lV|<X`TVn*$A0c8waTe-PsOqs`p<(IT8>t(;%yVmpVQ^?_oqRT8B@O8
z^*p8C$Ia|^gL`vr|K3%?3i%tlf=7zb-~xvFuddSB<CWQ8?PPv}fn6#)_M5{?CgvqI
zXjJAfe=A_PdQmDPPrU1%zijCZG{ID?!tJ3D92S<#T*1X)Uqy80=?z!oPM#>+Ft>gQ
zHoVr;XU}n()~(*HR;13SnoesM%Q4oPFg&e<TY5<r*GmfHHOFO+iJ>09+Vb%{E~a3X
zOE#6sfD4u?kvC3vJB0*j)n)m$K~^<p{L++?LCc+-+3Z*ZLw3YT&nq~I=cD%!Y<);Z
za4d7urBFWV0+Rh4ESGK;Yp8;I>9~AFxQrqG!uFscWWsjwDy-MOix_SY?i0jHJ1SVr
z<1XVB9aW$ik@~i#&a6+CP{@!)ep|^rs(?fPV4OIzO-!)r@BoZ6V<UeS9-}I;U^ZVT
zoS5TmxZxcKf|!W(glQ)Wj<<EglL6&ya3||Xp;#_1jGzNWWSgua;5?3RhsN_>#hwT5
zdFEyGxAg1~@`zE|Gt}t?E45CIw2L)*v#=M5!H91TFUmhQ(b|sd&Tca^2rK}lf+a{T
zA|PKN({{%<S1c7HyJ}H<9@L+^<?OLPUf7MMz$fg2<Z>o{OyjLwij*>N84$_76~{Y^
z51*GUxO(eFWFnqrGZehBi~i=dj%)mk?{rh2qYf-SO^GGbw@vQ%s|*jra*KmU3FrMr
zwInqKR~_l<7|n#GHRzH1deej%tC?;k(QnTUNIjkWcrMLnm``vgtoEg9K%YI++3v>M
z?p-ddmX6K)Lf~S|sK|#R-ja-nDCmZd2?pN#KDJ*pUP|HLX6CeCo>+?<nRBFjon8r^
zoX{i89KUkG+n7kc+>UGuQVMv%NyftR?zw#r>%QHn20!)ogBj+!JJ!pa)|#cC2lPK*
z!d}{$Dm&WQ|2ffJy<as72Gc~e;2Apx_#FQdGq$(?J{d`m6SD)cqXZw`;=DPCOe?2<
zBdW=fN93tp1tAME?HF`sR!>5S<%qk#89-YVv{7mS#G#L6G8Cu!tW~2?eO*T8$lRcm
zuoDN~*I}TiF5!ttK0|4R!4t+^^{2Ky<NFw%-P4cDAdi@Vq{3B?%rG!L3o$Y|TPTZT
z0-ZM4keFRu+5vjuit3s4&cm0*VQgETnQe|knfM7Fi62ibO2Jlc-$=HChwl9=JquL(
z8(AMa1r%(?QQv)3L7GB|#DFiBt`jF>TXKr>A9<JUlLK5}qm&2g-!w^VyVXGv$(BUn
zkr1MBP~EcG?1NL1=<FJHPM~E+4gXwJPnLl^@wr-Pg*p`{1NdSkaIW~VW%9Hmrn^xk
zid;66%9dFuukAAurJuNPCKfu1Nv9=ZMwr{i3iRrZ>EY_TY+y$r$)L(YU<k{_qRM^M
zLn7&%LIZ5?RNPpqm4QSzXUotPf~mv;&D^%<V>Mh`&&m2V|F+WVvHOLmFJP!`>)IZ%
zFeA<mul(`X_4>!X*>UWNydgMbYvA;Q`S*~S+Bus26*JW#Fk^)A=@cjSFf3jZ7CXNP
z<^vrgg$m57`8ONul-Z;fnvtb7;S}B+I$I&3nl&GOJ>ntCE6BY(O{X|X4n$E0mb|&q
z0gxxbVthM=S^$o2N80pqKV{oMgKT5nk;zBMw^;hikqPpR$?+sPvJ5WX@H9@bTJ%b`
zwJZdlmi5!@trmJ&@%*j%G~`cE2y9R!xcK81RgXF*iC;|+A}D72V_^%XNFoBPF<<SJ
z<JJxbS0`u_H828V18=t1$xDkFiwnx8FEhuZKc89)S<!3MFrrb9!6-GtzM0#!v#M~;
z=k$!Vc2Ce2T`agAmp(W;M<s4PgYaf<cVI%j5pr3lUm2?kX`0mJAB$3UVt7;ex$fWt
z*Gbk3G_8kuBE;3~r<XVH25%Nzx%?6C6en#1={9|Cu4)bAys?zbjnjgr+|!3AuUI4L
zG8M*hZ)%Lcik#T>#fyn7Z5wU=Q3sHOxup!i!Ego#1N}!G_&c!_8K+>^$&LahLU2?L
z#&Pjq;jm2BDy(ukyl7UWZ~#iSCgh1e-p{+Hb33eH^(o$6eT+ZfEXENCM4wCvFrP}m
zVxLC>M#0|Cw<%@NBgPVRB=9JY<3cSYpzpmsFAV%h7jR9BT^lvAA&cdXni5>(^5Q73
z+OQ_H96VO>ctJT0p;GcPsbENw3%D)Xe-A*>(}?RT*@%RD0v`(BLs^Xe(b+f;=!>q%
z<!3b?q_>aZ5F^)H7owWu(F!2k`zmHUGxN=XdhG(PjOLPemQfM&oav-siCLlgm1U#8
zmTJcgyGv)<?Te<89C{VzZaxaC&;Sz!GqxkPWunVTnc&e=;q<AzJFl>GIw;039~z`J
zs7RKa8)a%Du$T!t4nGNVEt)h8?SBq7lD~0bYT`2Sl;W&B#2}iu$RsyeXAbO+&5F@q
zRcOO`i<S^UJ&G+&lfENc!kk`qLzFvu0<SC&355;u-zjf!IR3W&0|EYfgMa4C?@aBF
z^*t?ygG2n2UHo^Ye=@f}Q4kR2zc7E%i~pap?*!+M^<7yz_$>WJcmCA$PwT!Do<G)i
zz{(H6e>U(>0`w;k{6_(>TCkoUu)m+$|7q`cp76)|uATwR2!i+dH`ef{=|57|pS<Bu
zGz5gkKd`@9#NQtK&y)P$yC8!70k+^DbN$~t{4W=JfxifNho5tbe>eZnNyTr)Ie&-!
zo?HCZ`@`}-Z;QV-Fv9y``LDa<Z|MIr`8%Ect6cwv{m}SlUH`3-?(eXFRrx>Bf0mfv
t=sBXlDg9Y+{)GRT6o11lNPZoapWM5$JnUb;H4O0mqZfQ4k4e9a{~wPUR5kzr

literal 0
HcmV?d00001

diff --git a/studies/deVries-2018/protocols/.gitkeep b/studies/deVries-2018/protocols/.gitkeep
new file mode 100644
index 0000000..e69de29
diff --git a/studies/deVries-2018/protocols/qRT-PCR.md b/studies/deVries-2018/protocols/qRT-PCR.md
new file mode 100644
index 0000000..d835a5a
--- /dev/null
+++ b/studies/deVries-2018/protocols/qRT-PCR.md
@@ -0,0 +1,9 @@
+## qRT-PCR
+
+qRT-PCR was performed using the miScript SYBR Green PCR (Qiagen, Hilden, Germany). miR482/2118 forward primers were designed based on the mature miR482/2118 sequences. miR482/2118 primer specificity was tested by creating a qRT-PCR product for each primer. These qRT-PCR products were purified, and each primer was tested with each qRT-PCR product to determine if and at what annealing temperatures the primers would bind to other miR482/2118 paralogues. For all miR482/2118 primers a binding-specific annealing temperature was determined (electronic supplementary material, table S1). The only exceptions were the primers for *Sl*miR482h and *Sp*miR482h, which annealed to miR482h as well as miR482 at all annealing temperatures. *Sa*miR482h was specific because of its slightly different mature miRNA sequence (electronic supplementary material, table S1). As a control, the expression of mature *Sl*miR156a/b/c, *Sl*miR166a/b, *Sl*miR168a/b and *Sl*miR172a/b was determined. miR390a was used as a reference due to its constant expression across treatments and time-points according to BestKeeper v.1 (Pfaffi et. al., 2004).
+
+Expression of NBS-LRRs in *S. lycopersicum* was determined using the SsoAdvanced Universal SYBR Green Supermix (electronic supplementary material, table S1; Bio-Rad, California, USA). As reference genes, we used *SAND* (de Vries et. al., 2015), *TIP41* (de Vries et. al., 2015) and *Translation Initiation Factor 3 subunit H* (*TIF3H*; (de Vries et. al., 2017)).
+
+Relative abundance and progression of *P. infestans* were measured using *Histone2a* (*PiH2a*). Expression of *PiH2a* at time-points 24 to 96 hpi was set relative to its expression at 24 hpi. The data were normalized with the plant reference genes (*SAND, TIP41* and *TIF3H*).
+
+Relative expression was calculated according to [36]. Data were tested for normality using a Shapiro–Wilk test (Shapiro SS, Wilk MB., 1965) and equal variance using R v. 3.2.1. Comparisons between infections and mock control were tested using either a two-sample t-test or a Welch two-sample t-test for normally distributed data or a Mann–Whitney U-test (Mann HB, Whitney DR., 1947) for non-normally distributed data.
\ No newline at end of file
diff --git a/studies/deVries-2018/resources/.gitkeep b/studies/deVries-2018/resources/.gitkeep
new file mode 100644
index 0000000..e69de29
-- 
GitLab