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 Rv2976c/ung:

update plot	correlation	link to info on gene
Rv1975/-	(cc=0.4787)	info on Rv1975/-
Rv1414/-	(cc=0.4786)	info on Rv1414/-
Rv1855c/-	(cc=0.4523)	info on Rv1855c/-
Rv2800/-	(cc=0.4519)	info on Rv2800/-
Rv2228c/-	(cc=0.4413)	info on Rv2228c/-
Rv2840c/-	(cc=0.4371)	info on Rv2840c/-
Rv1060/-	(cc=0.4334)	info on Rv1060/-
Rv2704/-	(cc=0.4081)	info on Rv2704/-
Rv2302/-	(cc=0.4013)	info on Rv2302/-
Rv3306c/amiB1	(cc=0.3972)	info on Rv3306c/amiB1

Correlation of Rv2976c/ung with Rv1975/-

Normalized LFCs for Rv2976c/ung:
(description and provenance of datasets)

	Rv2976c/ung	Rv1975/-
Fe_supp_jason_reseq	-0.213	-0.128
low_pH_jason_reseq	-0.149	-0.473
NO_jason_reseq	-0.173	0.517
B6_jason_reseq	-0.437	0.133
MHCII_jason_reseq	0.633	0.415
Isoniazid02	-0.06	0.096
Rifampicin4	0.417	0.089
Ethambutol3	1.3	1.943
Meropenem3	0.117	0.381
Vancomycin16	0.31	0.257
Rv2680_day32	-1.669	0.284
H37Rv_KO_MarP	-0.47	0.117
hypoxia_3wks	1.603	0.279
hypoxia_6wks	0.48	0.363
glycerol	1.442	1.173
cholesterol	-0.415	0.434
AJ	-0.309	-0.366
Bibs02	0.898	0.417
Bibs02c	0.735	-0.32
BL6	-1.761	-0.777
BL6a	0.867	-0.601
BXD01	1.158	-0.199
BXD010	0.33	0.253
BXD011	-0.4	-0.238
BXD03	1.626	-0.294
BXD04	0.236	-0.148
BXD05	0.391	0.103
BXD06	0.408	0.049
BXD07	0.944	0.132
BXD08	0.0	0.211
BXD09	0.88	-0.091
CAST	0.594	-0.397
CCcont	-0.601	-0.387
DS01	2.034	0.375
DS02	1.793	-0.312
DS04	0.468	-0.16
DS0c	1.383	0.321
GP01	0.912	0.376
GP02	1.42	0.865
GP0c	0.622	0.257
NOD	1.764	0.932
NZO	-1.618	-0.475
PWK	0.269	-0.101
H37Rv_KO_CtpC	-1.935	-0.02
H37Rv_KO_CtpD	-1.889	-0.384
H37Rv_KO_Rv1272	-1.144	-0.542
H37Rv_KO_SugABC	1.012	-0.488
H37Rv_KO_MbtN	0.141	-0.137
Trans05	-0.144	0.064
macrophage_unactivated	1.401	0.492
IL1	0.273	0.495
Rapamycin	1.089	0.829
Tcell	1.724	-0.189
GMCSF	1.352	0.602
IFNab	0.278	0.242
IFNg	-0.329	0.927
IFNg_GMCSF1	-0.386	1.059
Rv1432_day32	0.382	-0.035
Rv1565c_day32	0.0	-1.362
secA2_input	-1.246	0.142
delta_Rv3594	-1.455	-0.652
delta_Rv3717	-0.629	-0.482
delta_Rv3811	-1.938	-0.623
delta_Rv0954	-1.606	-0.39
PonA1	-1.07	-0.559
EccD1_KO	2.312	0.483
EspI_KO	0.456	1.027
PE35_KO	0.957	0.907
PPE68_KO	0.432	0.976
glycerol2	-0.957	-0.597
lignocerate	-1.889	-0.597
oleate	0.469	0.027
phosphatidylcholine	-1.119	-0.436
acetate	-1.378	-1.092
glucAc	-2.208	-0.891
Rv0950ko	-0.519	0.775
Rv1096ko	-1.354	0.452
Rv3684ko	1.172	0.956
delta_otsA_trehalose	-0.096	-0.873