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 Rv0572c/-:

update plot	correlation	link to info on gene
Rv0443/-	(cc=0.5626)	info on Rv0443/-
Rv3742c/-	(cc=0.5123)	info on Rv3742c/-
Rv2777c/-	(cc=0.5088)	info on Rv2777c/-
Rv2689c/-	(cc=0.5066)	info on Rv2689c/-
Rv3555c/-	(cc=0.4841)	info on Rv3555c/-
Rv1087/PE_PGRS21	(cc=0.4734)	info on Rv1087/PE_PGRS21
Rv3738c/PPE66	(cc=0.4718)	info on Rv3738c/PPE66
Rv1604/impA	(cc=0.4639)	info on Rv1604/impA
Rv3287c/rsbW	(cc=0.4552)	info on Rv3287c/rsbW
Rv2892c/PPE45	(cc=0.4528)	info on Rv2892c/PPE45

Correlation of Rv0572c/- with Rv0443/-

Normalized LFCs for Rv0572c/-:
(description and provenance of datasets)

	Rv0572c/-	Rv0443/-
Fe_supp_jason_reseq	-0.704	-1.07
low_pH_jason_reseq	-0.642	-0.992
NO_jason_reseq	-0.113	0.16
B6_jason_reseq	-0.323	-0.502
MHCII_jason_reseq	-0.164	0.258
Isoniazid02	-0.442	-0.627
Rifampicin4	0.195	0.227
Ethambutol3	0.112	-0.689
Meropenem3	-0.071	-0.012
Vancomycin16	0.082	-0.172
Rv2680_day32	-0.024	-0.776
H37Rv_KO_MarP	-0.349	0.395
hypoxia_3wks	0.02	-0.295
hypoxia_6wks	0.52	-0.144
glycerol	0.786	0.553
cholesterol	0.303	0.29
AJ	-0.501	0.158
Bibs02	1.257	0.087
Bibs02c	0.668	0.562
BL6	0.552	0.1
BL6a	0.402	0.175
BXD01	-0.145	0.004
BXD010	0.242	0.329
BXD011	0.82	-0.44
BXD03	0.888	0.317
BXD04	0.015	0.387
BXD05	0.184	-0.138
BXD06	0.319	-0.28
BXD07	0.434	-0.296
BXD08	0.233	-0.211
BXD09	0.017	-0.376
CAST	0.047	0.402
CCcont	0.799	0.14
DS01	-0.284	0.007
DS02	-0.08	0.402
DS04	0.055	0.526
DS0c	-0.036	0.135
GP01	0.362	0.036
GP02	2.156	1.148
GP0c	0.117	0.277
NOD	0.063	1.097
NZO	0.032	0.22
PWK	0.047	0.372
H37Rv_KO_CtpC	1.011	0.201
H37Rv_KO_CtpD	0.638	-0.256
H37Rv_KO_Rv1272	0.674	-0.224
H37Rv_KO_SugABC	0.184	-0.028
H37Rv_KO_MbtN	-0.143	-0.392
Trans05	0.783	-0.004
macrophage_unactivated	0.338	-0.417
IL1	-0.255	-0.16
Rapamycin	-0.071	-0.623
Tcell	-0.046	-0.248
GMCSF	-0.074	0.639
IFNab	-0.348	-0.417
IFNg	-0.216	0.425
IFNg_GMCSF1	-0.27	-0.101
Rv1432_day32	-0.229	0.24
Rv1565c_day32	0.662	0.401
secA2_input	0.008	0.567
delta_Rv3594	-0.184	-0.037
delta_Rv3717	-0.034	0.0
delta_Rv3811	0.039	-0.132
delta_Rv0954	-0.421	-0.109
PonA1	-0.517	0.139
EccD1_KO	-0.056	0.145
EspI_KO	0.482	-0.248
PE35_KO	-0.23	-0.405
PPE68_KO	-0.237	-0.541
glycerol2	0.902	0.335
lignocerate	1.179	0.71
oleate	0.103	0.293
phosphatidylcholine	0.852	0.371
acetate	0.071	0.336
glucAc	0.395	0.532
Rv0950ko	0.063	0.157
Rv1096ko	0.763	0.507
Rv3684ko	0.331	-0.662
delta_otsA_trehalose	2.429	2.564