TnSeqCorr

• These are correlations of TnSeq responses across 82 experimental conditions.
• LFCs (log2-fold-changes) were computed for each gene in each condition relative to a relevant control condition (e.g. H37Rv grown on 7H9).
• The LFCs were normalized by dividing by the standard deviation for each condition. (so roughly, |LFC|>2 are the outliers, i.e. tails of the distribution)
• Note that essential genes often have LFCs around 0.
• Data for some genes is not available if they have less than 3 TA sites, or the dynamic range of LFCs is less than 2.0 across all conditions. (This is the case for many essential genes.)
• 'leverage' on each plot is a statistical score that indicates how much the regression is influenced by a few outlier points; the traditional threshold is indicated on the plots (3p/n, which is about 0.07 for this dataset), but in practice, cases with leverage > ~0.2 seem to be the least reliable (most misleading) correlation coefficients.

Top 10 genes with highest correlation to Rv1634/-:

update plot	correlation	link to info on gene
Rv0492c/-	(cc=0.5131)	info on Rv0492c/-
Rv2031c/hspX	(cc=0.4971)	info on Rv2031c/hspX
Rv2265/-	(cc=0.4764)	info on Rv2265/-
Rv2693c/-	(cc=0.4685)	info on Rv2693c/-
Rv1140/-	(cc=0.455)	info on Rv1140/-
Rv3433c/-	(cc=0.4428)	info on Rv3433c/-
Rv0344c/lpqJ	(cc=0.44)	info on Rv0344c/lpqJ
Rv2030c/-	(cc=0.4282)	info on Rv2030c/-
Rv2340c/PE_PGRS39	(cc=0.4236)	info on Rv2340c/PE_PGRS39
Rv1745c/idi	(cc=0.415)	info on Rv1745c/idi

Correlation of Rv1634/- with Rv1745c/idi

Normalized LFCs for Rv1634/-:
(description and provenance of datasets)

	Rv1634/-	Rv1745c/idi
Fe_supp_jason_reseq	0.385	-0.376
low_pH_jason_reseq	-0.761	1.482
NO_jason_reseq	0.391	0.877
B6_jason_reseq	-0.282	0.504
MHCII_jason_reseq	0.184	0.631
Isoniazid02	1.455	0.706
Rifampicin4	0.133	1.346
Ethambutol3	1.115	-0.392
Meropenem3	0.253	-0.437
Vancomycin16	0.215	0.218
Rv2680_day32	1.267	2.457
H37Rv_KO_MarP	-0.034	0.223
hypoxia_3wks	-2.129	-1.168
hypoxia_6wks	-1.796	-0.687
glycerol	0.856	3.28
cholesterol	0.866	2.024
AJ	-0.027	0.855
Bibs02	-0.114	2.649
Bibs02c	0.711	3.154
BL6	0.005	0.312
BL6a	0.376	2.593
BXD01	-0.081	2.047
BXD010	-0.458	1.381
BXD011	-0.415	2.476
BXD03	-0.021	0.499
BXD04	0.099	1.728
BXD05	-0.079	1.129
BXD06	-0.323	1.567
BXD07	0.016	1.494
BXD08	-0.046	1.295
BXD09	-0.193	1.412
CAST	-0.514	-0.295
CCcont	-0.457	1.14
DS01	0.493	2.774
DS02	1.267	2.467
DS04	0.476	2.402
DS0c	0.952	1.857
GP01	0.313	2.131
GP02	0.04	1.668
GP0c	0.357	2.297
NOD	0.075	-0.288
NZO	-0.257	-0.548
PWK	-0.304	-0.755
H37Rv_KO_CtpC	0.83	0.126
H37Rv_KO_CtpD	0.37	0.666
H37Rv_KO_Rv1272	0.626	2.229
H37Rv_KO_SugABC	0.873	2.086
H37Rv_KO_MbtN	0.205	1.909
Trans05	0.7	1.568
macrophage_unactivated	0.489	1.042
IL1	-0.475	0.237
Rapamycin	-0.451	0.0
Tcell	-0.818	0.508
GMCSF	0.494	1.04
IFNab	-0.342	-0.529
IFNg	-0.267	-0.468
IFNg_GMCSF1	-0.019	0.0
Rv1432_day32	0.086	0.473
Rv1565c_day32	1.668	1.164
secA2_input	-0.487	0.466
delta_Rv3594	0.057	1.635
delta_Rv3717	0.424	1.345
delta_Rv3811	-0.144	1.248
delta_Rv0954	-0.287	-0.892
PonA1	0.255	0.994
EccD1_KO	0.076	0.849
EspI_KO	-0.051	0.197
PE35_KO	-0.613	-0.254
PPE68_KO	-0.637	-0.426
glycerol2	-0.332	-2.221
lignocerate	0.142	-1.386
oleate	0.625	-1.613
phosphatidylcholine	0.253	-1.882
acetate	-0.512	-0.229
glucAc	-0.368	-0.823
Rv0950ko	0.461	0.22
Rv1096ko	0.03	0.82
Rv3684ko	-0.262	-0.318
delta_otsA_trehalose	-1.008	0.232