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 Rv2044c/-:

update plot	correlation	link to info on gene
Rv1522c/mmpL12	(cc=0.5196)	info on Rv1522c/mmpL12
Rv1990A/-	(cc=0.4923)	info on Rv1990A/-
Rv0028/-	(cc=0.4763)	info on Rv0028/-
Rv1928c/-	(cc=0.4641)	info on Rv1928c/-
Rv1875/-	(cc=0.4638)	info on Rv1875/-
Rv0939/-	(cc=0.4583)	info on Rv0939/-
Rv0476/-	(cc=0.4479)	info on Rv0476/-
Rv0973c/accA2	(cc=0.447)	info on Rv0973c/accA2
Rv0916c/PE7	(cc=0.442)	info on Rv0916c/PE7
Rv1130/prpD	(cc=0.4411)	info on Rv1130/prpD

Correlation of Rv2044c/- with Rv0916c/PE7

Normalized LFCs for Rv2044c/-:
(description and provenance of datasets)

	Rv2044c/-	Rv0916c/PE7
Fe_supp_jason_reseq	-0.147	-0.388
low_pH_jason_reseq	-0.069	-0.231
NO_jason_reseq	0.129	0.357
B6_jason_reseq	-1.201	-1.096
MHCII_jason_reseq	-0.938	-1.966
Isoniazid02	-0.017	-0.023
Rifampicin4	0.477	0.747
Ethambutol3	-0.261	1.126
Meropenem3	0.559	0.147
Vancomycin16	0.414	0.626
Rv2680_day32	0.368	0.0
H37Rv_KO_MarP	0.507	0.181
hypoxia_3wks	0.805	0.55
hypoxia_6wks	0.507	-0.99
glycerol	-1.391	-2.782
cholesterol	-1.771	-2.164
AJ	-1.025	-0.709
Bibs02	-2.035	-2.731
Bibs02c	-0.812	-1.958
BL6	0.394	0.435
BL6a	0.11	-1.24
BXD01	0.561	-0.45
BXD010	1.129	0.404
BXD011	0.631	0.904
BXD03	0.448	1.019
BXD04	0.018	-1.349
BXD05	0.805	-0.493
BXD06	0.569	0.019
BXD07	0.932	-0.628
BXD08	0.44	-0.433
BXD09	0.734	-0.702
CAST	0.48	-0.445
CCcont	0.6	-0.114
DS01	0.051	-0.375
DS02	-1.188	-1.812
DS04	-1.448	-1.321
DS0c	0.251	0.27
GP01	-0.551	-1.077
GP02	0.431	0.34
GP0c	-0.17	-1.314
NOD	2.28	-0.171
NZO	-0.029	0.968
PWK	-0.911	0.597
H37Rv_KO_CtpC	1.245	1.304
H37Rv_KO_CtpD	1.427	-0.412
H37Rv_KO_Rv1272	0.208	0.041
H37Rv_KO_SugABC	0.547	1.18
H37Rv_KO_MbtN	0.52	1.584
Trans05	0.168	1.003
macrophage_unactivated	0.688	0.085
IL1	-0.172	-0.08
Rapamycin	0.531	1.037
Tcell	0.124	0.583
GMCSF	0.589	1.22
IFNab	0.641	0.082
IFNg	0.553	1.181
IFNg_GMCSF1	-0.141	0.924
Rv1432_day32	3.684	0.0
Rv1565c_day32	0.25	0.818
secA2_input	-1.127	-0.938
delta_Rv3594	0.881	0.895
delta_Rv3717	0.253	0.405
delta_Rv3811	0.62	0.7
delta_Rv0954	0.895	1.473
PonA1	-0.33	-0.118
EccD1_KO	-0.789	1.125
EspI_KO	-0.177	3.434
PE35_KO	0.158	1.114
PPE68_KO	0.438	2.857
glycerol2	0.513	-0.031
lignocerate	0.256	0.105
oleate	0.586	-0.537
phosphatidylcholine	0.382	-0.063
acetate	-0.407	0.178
glucAc	0.217	0.213
Rv0950ko	0.531	0.193
Rv1096ko	0.739	-0.16
Rv3684ko	-0.121	-0.085
delta_otsA_trehalose	0.901	1.489