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 Rv1130/prpD

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

	Rv2044c/-	Rv1130/prpD
Fe_supp_jason_reseq	-0.147	-0.554
low_pH_jason_reseq	-0.069	-2.367
NO_jason_reseq	0.129	0.042
B6_jason_reseq	-1.201	-2.148
MHCII_jason_reseq	-0.938	-1.471
Isoniazid02	-0.017	0.147
Rifampicin4	0.477	-0.219
Ethambutol3	-0.261	0.181
Meropenem3	0.559	0.732
Vancomycin16	0.414	0.138
Rv2680_day32	0.368	-1.446
H37Rv_KO_MarP	0.507	-0.302
hypoxia_3wks	0.805	-0.686
hypoxia_6wks	0.507	0.259
glycerol	-1.391	-0.671
cholesterol	-1.771	-3.292
AJ	-1.025	-1.852
Bibs02	-2.035	-3.513
Bibs02c	-0.812	-3.471
BL6	0.394	0.876
BL6a	0.11	-1.171
BXD01	0.561	0.075
BXD010	1.129	0.237
BXD011	0.631	0.272
BXD03	0.448	-0.17
BXD04	0.018	-0.06
BXD05	0.805	-0.207
BXD06	0.569	0.106
BXD07	0.932	0.2
BXD08	0.44	0.646
BXD09	0.734	-0.051
CAST	0.48	-1.562
CCcont	0.6	0.873
DS01	0.051	-3.537
DS02	-1.188	-3.608
DS04	-1.448	-1.452
DS0c	0.251	-2.596
GP01	-0.551	-1.529
GP02	0.431	-0.583
GP0c	-0.17	-0.096
NOD	2.28	-0.054
NZO	-0.029	-1.982
PWK	-0.911	-2.011
H37Rv_KO_CtpC	1.245	-0.798
H37Rv_KO_CtpD	1.427	-0.381
H37Rv_KO_Rv1272	0.208	0.62
H37Rv_KO_SugABC	0.547	-0.024
H37Rv_KO_MbtN	0.52	-0.413
Trans05	0.168	0.241
macrophage_unactivated	0.688	-0.997
IL1	-0.172	-3.625
Rapamycin	0.531	-3.228
Tcell	0.124	-2.209
GMCSF	0.589	0.739
IFNab	0.641	1.608
IFNg	0.553	-0.139
IFNg_GMCSF1	-0.141	1.012
Rv1432_day32	3.684	-0.19
Rv1565c_day32	0.25	-0.261
secA2_input	-1.127	-1.005
delta_Rv3594	0.881	0.347
delta_Rv3717	0.253	0.428
delta_Rv3811	0.62	0.47
delta_Rv0954	0.895	0.884
PonA1	-0.33	0.152
EccD1_KO	-0.789	1.145
EspI_KO	-0.177	0.359
PE35_KO	0.158	0.971
PPE68_KO	0.438	0.921
glycerol2	0.513	-0.363
lignocerate	0.256	-0.514
oleate	0.586	-1.27
phosphatidylcholine	0.382	-0.717
acetate	-0.407	1.232
glucAc	0.217	1.099
Rv0950ko	0.531	0.476
Rv1096ko	0.739	0.265
Rv3684ko	-0.121	-0.203
delta_otsA_trehalose	0.901	0.846