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 Rv2042c/-:

update plot	correlation	link to info on gene
Rv2270/lppN	(cc=0.5706)	info on Rv2270/lppN
Rv1975/-	(cc=0.5413)	info on Rv1975/-
Rv2296/-	(cc=0.5277)	info on Rv2296/-
Rv1064c/lpqV	(cc=0.5272)	info on Rv1064c/lpqV
Rv2087/-	(cc=0.515)	info on Rv2087/-
Rv2089c/pepE	(cc=0.5119)	info on Rv2089c/pepE
Rv3017c/esxQ	(cc=0.5001)	info on Rv3017c/esxQ
Rv3189/-	(cc=0.4847)	info on Rv3189/-
Rv0053/rpsF	(cc=0.4828)	info on Rv0053/rpsF
Rv2273/-	(cc=0.4597)	info on Rv2273/-

Correlation of Rv2042c/- with Rv1975/-

Normalized LFCs for Rv2042c/-:
(description and provenance of datasets)

	Rv2042c/-	Rv1975/-
Fe_supp_jason_reseq	0.688	-0.128
low_pH_jason_reseq	0.137	-0.473
NO_jason_reseq	-0.055	0.517
B6_jason_reseq	-0.072	0.133
MHCII_jason_reseq	0.315	0.415
Isoniazid02	0.02	0.096
Rifampicin4	0.384	0.089
Ethambutol3	2.783	1.943
Meropenem3	0.063	0.381
Vancomycin16	0.313	0.257
Rv2680_day32	0.0	0.284
H37Rv_KO_MarP	0.272	0.117
hypoxia_3wks	0.064	0.279
hypoxia_6wks	-0.351	0.363
glycerol	0.942	1.173
cholesterol	0.589	0.434
AJ	1.044	-0.366
Bibs02	1.056	0.417
Bibs02c	0.831	-0.32
BL6	0.211	-0.777
BL6a	-0.053	-0.601
BXD01	-0.283	-0.199
BXD010	-0.629	0.253
BXD011	-0.626	-0.238
BXD03	-1.535	-0.294
BXD04	0.078	-0.148
BXD05	1.035	0.103
BXD06	-0.269	0.049
BXD07	-0.112	0.132
BXD08	0.391	0.211
BXD09	-0.018	-0.091
CAST	0.362	-0.397
CCcont	-0.898	-0.387
DS01	0.178	0.375
DS02	-0.147	-0.312
DS04	-0.391	-0.16
DS0c	0.528	0.321
GP01	-0.053	0.376
GP02	0.277	0.865
GP0c	-0.22	0.257
NOD	0.661	0.932
NZO	0.485	-0.475
PWK	0.374	-0.101
H37Rv_KO_CtpC	0.361	-0.02
H37Rv_KO_CtpD	0.806	-0.384
H37Rv_KO_Rv1272	0.018	-0.542
H37Rv_KO_SugABC	-1.488	-0.488
H37Rv_KO_MbtN	0.283	-0.137
Trans05	0.161	0.064
macrophage_unactivated	1.348	0.492
IL1	0.353	0.495
Rapamycin	0.703	0.829
Tcell	0.534	-0.189
GMCSF	0.771	0.602
IFNab	0.29	0.242
IFNg	0.834	0.927
IFNg_GMCSF1	1.225	1.059
Rv1432_day32	-0.703	-0.035
Rv1565c_day32	0.531	-1.362
secA2_input	-0.163	0.142
delta_Rv3594	1.234	-0.652
delta_Rv3717	1.377	-0.482
delta_Rv3811	1.382	-0.623
delta_Rv0954	-0.074	-0.39
PonA1	0.447	-0.559
EccD1_KO	1.154	0.483
EspI_KO	2.116	1.027
PE35_KO	1.896	0.907
PPE68_KO	2.56	0.976
glycerol2	0.073	-0.597
lignocerate	-0.829	-0.597
oleate	0.36	0.027
phosphatidylcholine	-0.409	-0.436
acetate	-1.24	-1.092
glucAc	-1.571	-0.891
Rv0950ko	1.339	0.775
Rv1096ko	0.0	0.452
Rv3684ko	0.318	0.956
delta_otsA_trehalose	-1.136	-0.873