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 Rv0530/-:

update plot	correlation	link to info on gene
Rv1057/-	(cc=0.5674)	info on Rv1057/-
Rv0536/galE3	(cc=0.5137)	info on Rv0536/galE3
Rv2402/-	(cc=0.5029)	info on Rv2402/-
Rv0493c/-	(cc=0.496)	info on Rv0493c/-
Rv0113/gmhA	(cc=0.4933)	info on Rv0113/gmhA
Rv2748c/ftsK	(cc=0.4922)	info on Rv2748c/ftsK
Rv3294c/-	(cc=0.4876)	info on Rv3294c/-
Rv3786c/-	(cc=0.4871)	info on Rv3786c/-
Rv0134/ephF	(cc=0.4818)	info on Rv0134/ephF
Rv0442c/PPE10	(cc=0.4707)	info on Rv0442c/PPE10

Correlation of Rv0530/- with Rv0134/ephF

Normalized LFCs for Rv0530/-:
(description and provenance of datasets)

	Rv0530/-	Rv0134/ephF
Fe_supp_jason_reseq	-0.276	-0.568
low_pH_jason_reseq	-0.321	-0.688
NO_jason_reseq	0.236	0.391
B6_jason_reseq	0.625	0.413
MHCII_jason_reseq	0.96	0.941
Isoniazid02	0.292	-0.345
Rifampicin4	-0.222	0.0
Ethambutol3	0.582	-0.461
Meropenem3	0.265	0.271
Vancomycin16	-0.838	-0.273
Rv2680_day32	-0.954	-0.09
H37Rv_KO_MarP	0.12	0.213
hypoxia_3wks	-0.57	-0.478
hypoxia_6wks	-0.23	-0.106
glycerol	-0.044	0.168
cholesterol	-0.614	-0.859
AJ	0.309	0.077
Bibs02	0.351	-0.449
Bibs02c	0.333	0.759
BL6	-0.4	0.587
BL6a	0.042	0.639
BXD01	-0.154	-0.265
BXD010	-0.646	-0.255
BXD011	-0.259	0.421
BXD03	-0.672	0.226
BXD04	0.031	-0.24
BXD05	-0.544	0.463
BXD06	-0.618	0.175
BXD07	-0.137	-0.048
BXD08	-0.277	0.152
BXD09	-0.568	0.292
CAST	0.864	0.792
CCcont	-0.12	-0.331
DS01	1.025	0.229
DS02	-0.154	0.249
DS04	0.309	1.152
DS0c	0.787	0.445
GP01	0.37	0.371
GP02	1.026	1.127
GP0c	0.212	0.279
NOD	0.029	0.404
NZO	0.026	0.345
PWK	0.742	0.566
H37Rv_KO_CtpC	-0.435	-0.114
H37Rv_KO_CtpD	0.327	-0.348
H37Rv_KO_Rv1272	-1.102	-0.224
H37Rv_KO_SugABC	0.252	0.588
H37Rv_KO_MbtN	0.125	0.961
Trans05	-0.813	-0.302
macrophage_unactivated	-0.331	0.069
IL1	0.208	0.018
Rapamycin	0.675	-0.034
Tcell	-0.469	0.072
GMCSF	0.364	1.098
IFNab	-0.46	-0.121
IFNg	-0.059	0.596
IFNg_GMCSF1	1.345	1.037
Rv1432_day32	0.849	0.224
Rv1565c_day32	-0.518	0.188
secA2_input	0.333	0.297
delta_Rv3594	-0.393	-0.197
delta_Rv3717	0.345	0.127
delta_Rv3811	-0.256	-0.132
delta_Rv0954	0.224	-0.098
PonA1	0.391	0.698
EccD1_KO	-0.444	0.421
EspI_KO	-0.536	-0.351
PE35_KO	-0.099	-0.621
PPE68_KO	-0.55	-0.682
glycerol2	0.015	0.265
lignocerate	0.961	0.952
oleate	-0.472	-0.6
phosphatidylcholine	0.353	0.326
acetate	0.251	0.51
glucAc	0.367	0.706
Rv0950ko	0.244	0.986
Rv1096ko	0.29	1.692
Rv3684ko	0.39	1.657
delta_otsA_trehalose	0.888	-0.613